Citrus Sinensis ID: 005329

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------590-------600-------610-------620-------630-------640-------650-------660-------670-------680-------690-------700--
Protein Sequence
MLLQSTRHRVGRLFASSAIACTERRPLLLFQGTQLPVYVSTPEVNSQLKHLVKSGYLHDARKMFDTMTQRDEISWTTLISGYVKAMDSIEALALFSRVWVEPQMNMDPFILSLALKACALNVNVNYGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKIELGCRVFDEMPLRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMSTRDVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIRRDIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPHQKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKGVIKEPGWSRIKVKDQVSAFVSSDRRHSQGEDIYRMLDLLASRESDIDDLDSLVHDAED
Secondary Structure (PSIPRED)
cccccccccccccHHHHHHHHHcccccHHccccccccccccHHHHHHHHHHHHcccHHHHHHHHcccccccccHHHHHHHHHHcccccHHHHHHHHHHHHcccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccHHHHHHHHcccccccccHHHHHHHHHHHccccHHHHHHHHHHHHccccccccHHHHHHHHHHcccccHHHHHHHHHHHHHcccccccHHHHHHHHHHHcccHHHHHHHHccccccccccHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccHHHHHHHHccccccccccHHHHHHHHHcccccHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHccccHHHHHHHHccccccccEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHccccHHHHHHHHHHHHHHcccccccccHHHHHHHHHHccccHHHHHHHHHHccccccHHHHHHHHHHHHHHccHHHHHHHHHHHHHHccccccHHHHHHHHHHHccccHHHHHHHHHHHHccccccccEEEEEEccEEEEEEccccccccHHHHHHHHHHHHHHcccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccEHHHHHHHHHHHcccHHHHHHHHHHHHHHccccccccHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccHHHHHHHHHHcccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHcHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHcHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHccHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccEEEEEEccEEEEEEEcccccccHHHHHHHHHHHHHHccccccccEEEccccc
Coil and Loop (DISEMBL)
mllqstrhrvgrlfassaiacterrplllfqgtqlpvyvstpevnSQLKHLVKSGYLHDARKMFDTMTQRDEISWTTLISGYVKAMDSIEALALFSRvwvepqmnmdpFILSLALKACALNvnvnygeslhgytvktGFVNSVFVGSALLDMYTKLGkielgcrvfdemplrnvVSWTAIITGLVRAGHNKEGLIYFAEMWrskeqgdsYTFAIVLKASadsgalnfgREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMSTRDVISWTTIITSYVQMGEEENAFDAFVRMqesdvkpneyTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSkcgqltstSIVFHGMIRRDIISWSTIIggysqggyeEEAFEYLALMRregprpneFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEkvpmvglrpdsvTFMGVLTACSHAGLVDLGFHYFNLmsdkygfvpskehyGCMIDLLCRAGRLSDAENMienmphqkdDVVWSTLLRACMVqgdvncgrhTAEKILElhpscagthITLANIYAAKGRWREAAEVRKMMRskgvikepgwsrikvkDQVSAFVSsdrrhsqgEDIYRMLDLLAsresdiddldslvhdaed
Flexible Loop (DISEMBL)
mllqstrhrvgrlfassaiacterrPLLLFQGTQLPVYVSTPEVNSQLKHLVKSGYLHDARKMFDTMTQRDEISWTTLISGYVKAMDSIEALALFSRVWVEPQMNMDPFILSLALKACALNVNVNYGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKIELGCRVFDEMPLRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFErmstrdvisWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIRRDIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPHQKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMrskgvikepgwsrikvkdQVSAfvssdrrhsqgeDIYRMLDLLasresdiddldslvhdaed
Low Complexity Region (SEG)
MLLQSTRHRVGRLFASSAIACTERRPLLLFQGTQLPVYVSTPEVNSQLKHLVKSGYLHDARKMFDTMTQRDEISWTTLISGYVKAMDSIEALALFSRVWVEPQMNMDPFILSLALKACALNVNVNYGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKIELGCRVFDEMPLRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMSTRDVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIRRDIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPHQKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKGVIKEPGWSRIKVKDQVSAFVSSDRRHSQGEDIYRMLDLLASRESDIDDLDSLVHDAED
Disordered region (IsUnstruct)
*********VGRLFASSAIACTERRPLLLFQGTQLPVYVSTPEVNSQLKHLVKSGYLHDARKMFDTMTQRDEISWTTLISGYVKAMDSIEALALFSRVWVEPQMNMDPFILSLALKACALNVNVNYGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKIELGCRVFDEMPLRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMSTRDVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIRRDIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPHQKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKGVIKEPGWSRIKVKDQVSA*************IYRMLDL********************
Disordered Region (DISOPRED)
************LFASSAIACTERRPLLLFQGTQLPVYVSTPEVNSQLKHLVKSGYLHDARKMFDTMTQRDEISWTTLISGYVKAMDSIEALALFSRVWVEPQMNMDPFILSLALKACALNVNVNYGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKIELGCRVFDEMPLRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMSTRDVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIRRDIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPHQKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKGVIKEPGWSRIKVKDQVSAFVSSDRRHSQGEDIYRMLDLLASRESDIDDLDSLVHDAED
Disordered Region (DISEMBL)
********RVGRLFASSAIACTERRPLLLFQGTQLPVYVSTPEVNSQLKHLVKSGYLHDARKMFDTMTQRDEISWTTLISGYVKAMDSIEALALFSRVWVEPQMNMDPFILSLALKACALNVNVNYGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKIELGCRVFDEMPLRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMSTRDVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIRRDIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPHQKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKGVIKEPGWSRIKVKDQ**********HSQGEDIYRMLDLLASRESDIDDLDSLVHDAED
Disordered Region (DISPRO)
*LL*STRHRVGRLFASSAIACTERRPLLLFQGTQLPVYVSTPEVNSQLKHLVKSGYLHDARKMFDTMTQRDEISWTTLISGYVKAMDSIEALALFSRVWVEPQMNMDPFILSLALKACALNVNVNYGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKIELGCRVFDEMPLRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMSTRDVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIRRDIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPHQKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKGVIKEPGWSRIKVKDQVSAFVSSDRRHSQGEDIYRMLDLLASRESDIDDLDSLVHD***
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MLLQSTRHRVGRLFASSAIACTERRPLLLFQGTQLPVYVSTPEVNSQLKHLVKSGYLHDARKMFDTMTQRDEISWTTLISGYVKAMDSIEALALFSRVWVEPQMNMDPFILSLALKACALNVNVNYGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKIELGCRVFDEMPLRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMSTRDVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIRRDIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPHQKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKGVIKEPGWSRIKVKDQVSAFVSSDRRHSQGEDIYRMLDLLASRESDIDDLDSLVHDAED
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	702	2.2.26 [Sep-21-2011]
Q9STS9	706	Putative pentatricopeptid	yes	no	0.911	0.906	0.601	0.0
Q9SIT7	697	Pentatricopeptide repeat-	no	no	0.821	0.827	0.354	1e-124
Q9SVP7	1064	Pentatricopeptide repeat-	no	no	0.921	0.608	0.345	1e-120
Q9ZUW3	868	Pentatricopeptide repeat-	no	no	0.920	0.744	0.349	1e-120
Q9SN39	871	Pentatricopeptide repeat-	no	no	0.898	0.724	0.355	1e-119
Q9SVA5	834	Pentatricopeptide repeat-	no	no	0.927	0.780	0.342	1e-119
P93005	727	Pentatricopeptide repeat-	no	no	0.935	0.903	0.348	1e-117
Q9S7F4	825	Putative pentatricopeptid	no	no	0.950	0.808	0.338	1e-117
Q5G1T1	850	Pentatricopeptide repeat-	no	no	0.927	0.765	0.346	1e-115
O81767	823	Pentatricopeptide repeat-	no	no	0.905	0.772	0.337	1e-114

>sp|Q9STS9|PP268_ARATH Putative pentatricopeptide repeat-containing protein At3g47840 OS=Arabidopsis thaliana GN=PCMP-E43 PE=3 SV=1

 Score =  802 bits (2072), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 387/643 (60%), Positives = 485/643 (75%), Gaps = 3/643 (0%)

Query: 45  NSQLKHLVKSGYLHDARKMFDTMTQRDEISWTTLISGYVKAMDSIEALALFS--RVWVEP 102
           NS L+ L+ +G L  AR++FD M   D +SWT++I  YV A +S EAL LFS  RV V+ 
Sbjct: 44  NSHLRSLINAGNLRAARQVFDKMPHGDIVSWTSIIKRYVTANNSDEALILFSAMRV-VDH 102

Query: 103 QMNMDPFILSLALKACALNVNVNYGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKIELG 162
            ++ D  +LS+ LKAC  + N+ YGESLH Y VKT  ++SV+VGS+LLDMY ++GKI+  
Sbjct: 103 AVSPDTSVLSVVLKACGQSSNIAYGESLHAYAVKTSLLSSVYVGSSLLDMYKRVGKIDKS 162

Query: 163 CRVFDEMPLRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADS 222
           CRVF EMP RN V+WTAIITGLV AG  KEGL YF+EM RS+E  D+YTFAI LKA A  
Sbjct: 163 CRVFSEMPFRNAVTWTAIITGLVHAGRYKEGLTYFSEMSRSEELSDTYTFAIALKACAGL 222

Query: 223 GALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMSTRDVISWTTII 282
             + +G+ IHT ++ RGF     VANSLATMY++CG++   L LFE MS RDV+SWT++I
Sbjct: 223 RQVKYGKAIHTHVIVRGFVTTLCVANSLATMYTECGEMQDGLCLFENMSERDVVSWTSLI 282

Query: 283 TSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLV 342
            +Y ++G+E  A + F++M+ S V PNE TFA++ SA A+L+R+ WGEQLH +VL LGL 
Sbjct: 283 VAYKRIGQEVKAVETFIKMRNSQVPPNEQTFASMFSACASLSRLVWGEQLHCNVLSLGLN 342

Query: 343 DSLSVANSIMAMYSKCGQLTSTSIVFHGMIRRDIISWSTIIGGYSQGGYEEEAFEYLALM 402
           DSLSV+NS+M MYS CG L S S++F GM  RDIISWSTIIGGY Q G+ EE F+Y + M
Sbjct: 343 DSLSVSNSMMKMYSTCGNLVSASVLFQGMRCRDIISWSTIIGGYCQAGFGEEGFKYFSWM 402

Query: 403 RREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSI 462
           R+ G +P +FA AS+LSV GNMA++E G+Q+HA  +  GLE+ + ++S+LINMYSKCGSI
Sbjct: 403 RQSGTKPTDFALASLLSVSGNMAVIEGGRQVHALALCFGLEQNSTVRSSLINMYSKCGSI 462

Query: 463 KEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTAC 522
           KEAS IF ET+ DDIVS TAMINGYAEHG S+EAI LFEK   VG RPDSVTF+ VLTAC
Sbjct: 463 KEASMIFGETDRDDIVSLTAMINGYAEHGKSKEAIDLFEKSLKVGFRPDSVTFISVLTAC 522

Query: 523 SHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPHQKDDVV 582
           +H+G +DLGFHYFN+M + Y   P+KEHYGCM+DLLCRAGRLSDAE MI  M  +KDDVV
Sbjct: 523 THSGQLDLGFHYFNMMQETYNMRPAKEHYGCMVDLLCRAGRLSDAEKMINEMSWKKDDVV 582

Query: 583 WSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRS 642
           W+TLL AC  +GD+  GR  AE+ILEL P+CA   +TLANIY++ G   EAA VRK M++
Sbjct: 583 WTTLLIACKAKGDIERGRRAAERILELDPTCATALVTLANIYSSTGNLEEAANVRKNMKA 642

Query: 643 KGVIKEPGWSRIKVKDQVSAFVSSDRRHSQGEDIYRMLDLLAS 685
           KGVIKEPGWS IK+KD VSAFVS DR H Q EDIY +L+L  S
Sbjct: 643 KGVIKEPGWSSIKIKDCVSAFVSGDRFHPQSEDIYNILELAVS 685

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SIT7|PP151_ARATH Pentatricopeptide repeat-containing protein At2g13600 OS=Arabidopsis thaliana GN=PCMP-E76 PE=3 SV=1

 Score =  446 bits (1147), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 230/649 (35%), Positives = 368/649 (56%), Gaps = 72/649 (11%)

Query: 126 YGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKIELGCRVFDEMPLRNVVSWTAIITGLV 185
           Y   +H   +K+GF N +F+ + L+D Y+K G +E G +VFD+MP RN+ +W +++TGL 
Sbjct: 38  YVRYVHASVIKSGFSNEIFIQNRLIDAYSKCGSLEDGRQVFDKMPQRNIYTWNSVVTGLT 97

Query: 186 RAG-----------------------------HNK--EGLIYFAEMWRSKEQGDSYTFAI 214
           + G                             H++  E L YFA M +     + Y+FA 
Sbjct: 98  KLGFLDEADSLFRSMPERDQCTWNSMVSGFAQHDRCEEALCYFAMMHKEGFVLNEYSFAS 157

Query: 215 VLKASADSGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMSTRD 274
           VL A +    +N G ++H+++ K  F    ++ ++L  MYSKCG ++ + R+F+ M  R+
Sbjct: 158 VLSACSGLNDMNKGVQVHSLIAKSPFLSDVYIGSALVDMYSKCGNVNDAQRVFDEMGDRN 217

Query: 275 VISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHA 334
           V+SW ++IT + Q G    A D F  M ES V+P+E T A++ISA A+L+ I+ G+++H 
Sbjct: 218 VVSWNSLITCFEQNGPAVEALDVFQMMLESRVEPDEVTLASVISACASLSAIKVGQEVHG 277

Query: 335 HVLRLG-LVDSLSVANSIMAMYSKCGQLTSTSIVFHGM-IR------------------- 373
            V++   L + + ++N+ + MY+KC ++     +F  M IR                   
Sbjct: 278 RVVKNDKLRNDIILSNAFVDMYAKCSRIKEARFIFDSMPIRNVIAETSMISGYAMAASTK 337

Query: 374 -----------RDIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCG 422
                      R+++SW+ +I GY+Q G  EEA     L++RE   P  ++FA++L  C 
Sbjct: 338 AARLMFTKMAERNVVSWNALIAGYTQNGENEEALSLFCLLKRESVCPTHYSFANILKACA 397

Query: 423 NMAILEQGKQIHAHVMSIGL------ERTAMIKSALINMYSKCGSIKEASQIFYETESDD 476
           ++A L  G Q H HV+  G       E    + ++LI+MY KCG ++E   +F +    D
Sbjct: 398 DLAELHLGMQAHVHVLKHGFKFQSGEEDDIFVGNSLIDMYVKCGCVEEGYLVFRKMMERD 457

Query: 477 IVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFN 536
            VSW AMI G+A++GY  EA+ LF ++   G +PD +T +GVL+AC HAG V+ G HYF+
Sbjct: 458 CVSWNAMIIGFAQNGYGNEALELFREMLESGEKPDHITMIGVLSACGHAGFVEEGRHYFS 517

Query: 537 LMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPHQKDDVVWSTLLRACMVQGDV 596
            M+  +G  P ++HY CM+DLL RAG L +A++MIE MP Q D V+W +LL AC V  ++
Sbjct: 518 SMTRDFGVAPLRDHYTCMVDLLGRAGFLEEAKSMIEEMPMQPDSVIWGSLLAACKVHRNI 577

Query: 597 NCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKGVIKEPGWSRIKV 656
             G++ AEK+LE+ PS +G ++ L+N+YA  G+W +   VRK MR +GV K+PG S IK+
Sbjct: 578 TLGKYVAEKLLEVEPSNSGPYVLLSNMYAELGKWEDVMNVRKSMRKEGVTKQPGCSWIKI 637

Query: 657 KDQVSAFVSSDRRHSQGEDIYRMLDLLASR---ESDIDDLDSLVHDAED 702
           +     F+  D+ H + + I+ +LD+L +    E D  ++ SL  +  D
Sbjct: 638 QGHDHVFMVKDKSHPRKKQIHSLLDILIAEMRPEQDHTEIGSLSSEEMD 686

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SVP7|PP307_ARATH Pentatricopeptide repeat-containing protein At4g13650 OS=Arabidopsis thaliana GN=PCMP-H42 PE=2 SV=2

 Score =  434 bits (1116), Expect = e-120,   Method: Compositional matrix adjust.
 Identities = 226/655 (34%), Positives = 359/655 (54%), Gaps = 8/655 (1%)

Query: 55  GYLHDARKMFDTMTQRDEISWTTLISGYVKAMDSIEALALFSRVWVEPQMNMDPFILSLA 114
           G L  A  +F  M+QRD +++ TLI+G  +     +A+ LF R+ ++  +  D   L+  
Sbjct: 337 GNLISAEHIFSNMSQRDAVTYNTLINGLSQCGYGEKAMELFKRMHLDG-LEPDSNTLASL 395

Query: 115 LKACALNVNVNYGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKIELGCRVFDEMPLRNV 174
           + AC+ +  +  G+ LH YT K GF ++  +  ALL++Y K   IE     F E  + NV
Sbjct: 396 VVACSADGTLFRGQQLHAYTTKLGFASNNKIEGALLNLYAKCADIETALDYFLETEVENV 455

Query: 175 VSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSGALNFGREIHTI 234
           V W  ++         +     F +M   +   + YT+  +LK     G L  G +IH+ 
Sbjct: 456 VLWNVMLVAYGLLDDLRNSFRIFRQMQIEEIVPNQYTYPSILKTCIRLGDLELGEQIHSQ 515

Query: 235 MLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMSTRDVISWTTIITSYVQMGEEENA 294
           ++K  F + ++V + L  MY+K GKLD +  +  R + +DV+SWTT+I  Y Q   ++ A
Sbjct: 516 IIKTNFQLNAYVCSVLIDMYAKLGKLDTAWDILIRFAGKDVVSWTTMIAGYTQYNFDDKA 575

Query: 295 FDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAM 354
              F +M +  ++ +E      +SA A L  ++ G+Q+HA     G    L   N+++ +
Sbjct: 576 LTTFRQMLDRGIRSDEVGLTNAVSACAGLQALKEGQQIHAQACVSGFSSDLPFQNALVTL 635

Query: 355 YSKCGQLTSTSIVFHGMIRRDIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAF 414
           YS+CG++  + + F      D I+W+ ++ G+ Q G  EEA      M REG   N F F
Sbjct: 636 YSRCGKIEESYLAFEQTEAGDNIAWNALVSGFQQSGNNEEALRVFVRMNREGIDNNNFTF 695

Query: 415 ASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETES 474
            S +      A ++QGKQ+HA +   G +    + +ALI+MY+KCGSI +A + F E  +
Sbjct: 696 GSAVKAASETANMKQGKQVHAVITKTGYDSETEVCNALISMYAKCGSISDAEKQFLEVST 755

Query: 475 DDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHY 534
            + VSW A+IN Y++HG+  EA+  F+++    +RP+ VT +GVL+ACSH GLVD G  Y
Sbjct: 756 KNEVSWNAIINAYSKHGFGSEALDSFDQMIHSNVRPNHVTLVGVLSACSHIGLVDKGIAY 815

Query: 535 FNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPHQKDDVVWSTLLRACMVQG 594
           F  M+ +YG  P  EHY C++D+L RAG LS A+  I+ MP + D +VW TLL AC+V  
Sbjct: 816 FESMNSEYGLSPKPEHYVCVVDMLTRAGLLSRAKEFIQEMPIKPDALVWRTLLSACVVHK 875

Query: 595 DVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKGVIKEPGWSRI 654
           ++  G   A  +LEL P  + T++ L+N+YA   +W      R+ M+ KGV KEPG S I
Sbjct: 876 NMEIGEFAAHHLLELEPEDSATYVLLSNLYAVSKKWDARDLTRQKMKEKGVKKEPGQSWI 935

Query: 655 KVKDQVSAFVSSDRRHSQGEDIYRMLDLLASRESDI-------DDLDSLVHDAED 702
           +VK+ + +F   D+ H   ++I+     L  R S+I         L+ L H+ +D
Sbjct: 936 EVKNSIHSFYVGDQNHPLADEIHEYFQDLTKRASEIGYVQDCFSLLNELQHEQKD 990

Arabidopsis thaliana (taxid: 3702)

>sp|Q9ZUW3|PP172_ARATH Pentatricopeptide repeat-containing protein At2g27610 OS=Arabidopsis thaliana GN=PCMP-H60 PE=2 SV=1

 Score =  434 bits (1116), Expect = e-120,   Method: Compositional matrix adjust.
 Identities = 229/656 (34%), Positives = 377/656 (57%), Gaps = 10/656 (1%)

Query: 52  VKSGYLHDARKMFDTMTQRDEISWTTLISGYVKAMDSIEALALFSRVWVEPQMNMDPFIL 111
           +K     D RK+FD M +R+ ++WTTLISGY +   + E L LF R+  E     + F  
Sbjct: 139 MKGSNFKDGRKVFDEMKERNVVTWTTLISGYARNSMNDEVLTLFMRMQNEGTQP-NSFTF 197

Query: 112 SLALKACALNVNVNYGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKIELGCRVFDEMPL 171
           + AL   A       G  +H   VK G   ++ V ++L+++Y K G +     +FD+  +
Sbjct: 198 AAALGVLAEEGVGGRGLQVHTVVVKNGLDKTIPVSNSLINLYLKCGNVRKARILFDKTEV 257

Query: 172 RNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSGALNFGREI 231
           ++VV+W ++I+G    G + E L  F  M  +  +    +FA V+K  A+   L F  ++
Sbjct: 258 KSVVTWNSMISGYAANGLDLEALGMFYSMRLNYVRLSESSFASVIKLCANLKELRFTEQL 317

Query: 232 HTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMS-TRDVISWTTIITSYVQMGE 290
           H  ++K GF     +  +L   YSKC  +  +LRLF+ +    +V+SWT +I+ ++Q   
Sbjct: 318 HCSVVKYGFLFDQNIRTALMVAYSKCTAMLDALRLFKEIGCVGNVVSWTAMISGFLQNDG 377

Query: 291 EENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVANS 350
           +E A D F  M+   V+PNE+T++ I++A   ++      ++HA V++     S +V  +
Sbjct: 378 KEEAVDLFSEMKRKGVRPNEFTYSVILTALPVIS----PSEVHAQVVKTNYERSSTVGTA 433

Query: 351 IMAMYSKCGQLTSTSIVFHGMIRRDIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPN 410
           ++  Y K G++   + VF G+  +DI++WS ++ GY+Q G  E A +    + + G +PN
Sbjct: 434 LLDAYVKLGKVEEAAKVFSGIDDKDIVAWSAMLAGYAQTGETEAAIKMFGELTKGGIKPN 493

Query: 411 EFAFASVLSVCG-NMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIF 469
           EF F+S+L+VC    A + QGKQ H   +   L+ +  + SAL+ MY+K G+I+ A ++F
Sbjct: 494 EFTFSSILNVCAATNASMGQGKQFHGFAIKSRLDSSLCVSSALLTMYAKKGNIESAEEVF 553

Query: 470 YETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVD 529
                 D+VSW +MI+GYA+HG + +A+ +F+++    ++ D VTF+GV  AC+HAGLV+
Sbjct: 554 KRQREKDLVSWNSMISGYAQHGQAMKALDVFKEMKKRKVKMDGVTFIGVFAACTHAGLVE 613

Query: 530 LGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPHQKDDVVWSTLLRA 589
            G  YF++M       P+KEH  CM+DL  RAG+L  A  +IENMP+     +W T+L A
Sbjct: 614 EGEKYFDIMVRDCKIAPTKEHNSCMVDLYSRAGQLEKAMKVIENMPNPAGSTIWRTILAA 673

Query: 590 CMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKGVIKEP 649
           C V      GR  AEKI+ + P  +  ++ L+N+YA  G W+E A+VRK+M  + V KEP
Sbjct: 674 CRVHKKTELGRLAAEKIIAMKPEDSAAYVLLSNMYAESGDWQERAKVRKLMNERNVKKEP 733

Query: 650 GWSRIKVKDQVSAFVSSDRRHSQGEDIYRMLDLLASRESDI---DDLDSLVHDAED 702
           G+S I+VK++  +F++ DR H   + IY  L+ L++R  D+    D   ++ D +D
Sbjct: 734 GYSWIEVKNKTYSFLAGDRSHPLKDQIYMKLEDLSTRLKDLGYEPDTSYVLQDIDD 789

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SN39|PP320_ARATH Pentatricopeptide repeat-containing protein At4g18750, chloroplastic OS=Arabidopsis thaliana GN=PCMP-H45 PE=2 SV=1

 Score =  431 bits (1107), Expect = e-119,   Method: Compositional matrix adjust.
 Identities = 225/633 (35%), Positives = 357/633 (56%), Gaps = 2/633 (0%)

Query: 55  GYLHDARKMFDTMTQRDEISWTTLISGYVKAMDSIEALALFSRVWVEPQMNMDPFILSLA 114
           G L +A ++FD +     + W  L++   K+ D   ++ LF ++ +   + MD +  S  
Sbjct: 143 GDLKEASRVFDEVKIEKALFWNILMNELAKSGDFSGSIGLFKKM-MSSGVEMDSYTFSCV 201

Query: 115 LKACALNVNVNYGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKIELGCRVFDEMPLRNV 174
            K+ +   +V+ GE LHG+ +K+GF     VG++L+  Y K  +++   +VFDEM  R+V
Sbjct: 202 SKSFSSLRSVHGGEQLHGFILKSGFGERNSVGNSLVAFYLKNQRVDSARKVFDEMTERDV 261

Query: 175 VSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSGALNFGREIHTI 234
           +SW +II G V  G  ++GL  F +M  S  + D  T   V    ADS  ++ GR +H+I
Sbjct: 262 ISWNSIINGYVSNGLAEKGLSVFVQMLVSGIEIDLATIVSVFAGCADSRLISLGRAVHSI 321

Query: 235 MLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMSTRDVISWTTIITSYVQMGEEENA 294
            +K  F       N+L  MYSKCG LD +  +F  MS R V+S+T++I  Y + G    A
Sbjct: 322 GVKACFSREDRFCNTLLDMYSKCGDLDSAKAVFREMSDRSVVSYTSMIAGYAREGLAGEA 381

Query: 295 FDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAM 354
              F  M+E  + P+ YT  A+++  A    +  G+++H  +    L   + V+N++M M
Sbjct: 382 VKLFEEMEEEGISPDVYTVTAVLNCCARYRLLDEGKRVHEWIKENDLGFDIFVSNALMDM 441

Query: 355 YSKCGQLTSTSIVFHGMIRRDIISWSTIIGGYSQGGYEEEAFEYLALMRREGP-RPNEFA 413
           Y+KCG +    +VF  M  +DIISW+TIIGGYS+  Y  EA     L+  E    P+E  
Sbjct: 442 YAKCGSMQEAELVFSEMRVKDIISWNTIIGGYSKNCYANEALSLFNLLLEEKRFSPDERT 501

Query: 414 FASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETE 473
            A VL  C +++  ++G++IH ++M  G      + ++L++MY+KCG++  A  +F +  
Sbjct: 502 VACVLPACASLSAFDKGREIHGYIMRNGYFSDRHVANSLVDMYAKCGALLLAHMLFDDIA 561

Query: 474 SDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFH 533
           S D+VSWT MI GY  HG+ +EAI LF ++   G+  D ++F+ +L ACSH+GLVD G+ 
Sbjct: 562 SKDLVSWTVMIAGYGMHGFGKEAIALFNQMRQAGIEADEISFVSLLYACSHSGLVDEGWR 621

Query: 534 YFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPHQKDDVVWSTLLRACMVQ 593
           +FN+M  +    P+ EHY C++D+L R G L  A   IENMP   D  +W  LL  C + 
Sbjct: 622 FFNIMRHECKIEPTVEHYACIVDMLARTGDLIKAYRFIENMPIPPDATIWGALLCGCRIH 681

Query: 594 GDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKGVIKEPGWSR 653
            DV      AEK+ EL P   G ++ +ANIYA   +W +   +RK +  +G+ K PG S 
Sbjct: 682 HDVKLAEKVAEKVFELEPENTGYYVLMANIYAEAEKWEQVKRLRKRIGQRGLRKNPGCSW 741

Query: 654 IKVKDQVSAFVSSDRRHSQGEDIYRMLDLLASR 686
           I++K +V+ FV+ D  + + E+I   L  + +R
Sbjct: 742 IEIKGRVNIFVAGDSSNPETENIEAFLRKVRAR 774

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SVA5|PP357_ARATH Pentatricopeptide repeat-containing protein At4g39530 OS=Arabidopsis thaliana GN=PCMP-E52 PE=1 SV=1

 Score =  429 bits (1102), Expect = e-119,   Method: Compositional matrix adjust.
 Identities = 226/660 (34%), Positives = 378/660 (57%), Gaps = 9/660 (1%)

Query: 25  RPLLLFQGTQLPVYVSTPEVNSQLKHLVKSGYLHDARKMFDTMTQRDEISWTTLISGYVK 84
           +  L+  G    VYV T  ++  LK     G +  AR +FD + ++  ++WTT+ISG VK
Sbjct: 171 QSFLVKSGFDRDVYVGTLLIDFYLK----DGNIDYARLVFDALPEKSTVTWTTMISGCVK 226

Query: 85  AMDSIEALALFSRVWVEPQMNMDPFILSLALKACALNVNVNYGESLHGYTVKTGFVNSVF 144
              S  +L LF ++ +E  +  D +ILS  L AC++   +  G+ +H + ++ G      
Sbjct: 227 MGRSYVSLQLFYQL-MEDNVVPDGYILSTVLSACSILPFLEGGKQIHAHILRYGLEMDAS 285

Query: 145 VGSALLDMYTKLGKIELGCRVFDEMPLRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSK 204
           + + L+D Y K G++    ++F+ MP +N++SWT +++G  +   +KE +  F  M +  
Sbjct: 286 LMNVLIDSYVKCGRVIAAHKLFNGMPNKNIISWTTLLSGYKQNALHKEAMELFTSMSKFG 345

Query: 205 EQGDSYTFAIVLKASADSGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSL 264
            + D Y  + +L + A   AL FG ++H   +K      S+V NSL  MY+KC  L  + 
Sbjct: 346 LKPDMYACSSILTSCASLHALGFGTQVHAYTIKANLGNDSYVTNSLIDMYAKCDCLTDAR 405

Query: 265 RLFERMSTRDVISWTTIITSYVQMG---EEENAFDAFVRMQESDVKPNEYTFAAIISASA 321
           ++F+  +  DV+ +  +I  Y ++G   E   A + F  M+   ++P+  TF +++ ASA
Sbjct: 406 KVFDIFAAADVVLFNAMIEGYSRLGTQWELHEALNIFRDMRFRLIRPSLLTFVSLLRASA 465

Query: 322 NLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIRRDIISWST 381
           +L  +   +Q+H  + + GL   +   ++++ +YS C  L  + +VF  M  +D++ W++
Sbjct: 466 SLTSLGLSKQIHGLMFKYGLNLDIFAGSALIDVYSNCYCLKDSRLVFDEMKVKDLVIWNS 525

Query: 382 IIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIG 441
           +  GY Q    EEA      ++    RP+EF FA++++  GN+A ++ G++ H  ++  G
Sbjct: 526 MFAGYVQQSENEEALNLFLELQLSRERPDEFTFANMVTAAGNLASVQLGQEFHCQLLKRG 585

Query: 442 LERTAMIKSALINMYSKCGSIKEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFE 501
           LE    I +AL++MY+KCGS ++A + F    S D+V W ++I+ YA HG  ++A+ + E
Sbjct: 586 LECNPYITNALLDMYAKCGSPEDAHKAFDSAASRDVVCWNSVISSYANHGEGKKALQMLE 645

Query: 502 KVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRA 561
           K+   G+ P+ +TF+GVL+ACSHAGLV+ G   F LM  ++G  P  EHY CM+ LL RA
Sbjct: 646 KMMSEGIEPNYITFVGVLSACSHAGLVEDGLKQFELML-RFGIEPETEHYVCMVSLLGRA 704

Query: 562 GRLSDAENMIENMPHQKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLA 621
           GRL+ A  +IE MP +   +VW +LL  C   G+V    H AE  +   P  +G+   L+
Sbjct: 705 GRLNKARELIEKMPTKPAAIVWRSLLSGCAKAGNVELAEHAAEMAILSDPKDSGSFTMLS 764

Query: 622 NIYAAKGRWREAAEVRKMMRSKGVIKEPGWSRIKVKDQVSAFVSSDRRHSQGEDIYRMLD 681
           NIYA+KG W EA +VR+ M+ +GV+KEPG S I +  +V  F+S D+ H +   IY +LD
Sbjct: 765 NIYASKGMWTEAKKVRERMKVEGVVKEPGRSWIGINKEVHIFLSKDKSHCKANQIYEVLD 824

Arabidopsis thaliana (taxid: 3702)

>sp|P93005|PP181_ARATH Pentatricopeptide repeat-containing protein At2g33680 OS=Arabidopsis thaliana GN=PCMP-E19 PE=3 SV=1

 Score =  422 bits (1086), Expect = e-117,   Method: Compositional matrix adjust.
 Identities = 232/666 (34%), Positives = 363/666 (54%), Gaps = 9/666 (1%)

Query: 45  NSQLKHLVKSGYLHDARKMFDTMTQRDEISWTTLISGYVK---AMDSIEALALFSRVWVE 101
           N  +    K G L  A  +F+ +  +D +SW +LI+GY +      S   + LF  +  +
Sbjct: 53  NVLVNFYAKCGKLAKAHSIFNAIICKDVVSWNSLITGYSQNGGISSSYTVMQLFREMRAQ 112

Query: 102 PQMNMDPFILSLALKACALNVNVNYGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKIEL 161
             +  + + L+   KA +   +   G   H   VK      ++V ++L+ MY K G +E 
Sbjct: 113 DILP-NAYTLAGIFKAESSLQSSTVGRQAHALVVKMSSFGDIYVDTSLVGMYCKAGLVED 171

Query: 162 GCRVFDEMPLRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDS--YTFAIVLKAS 219
           G +VF  MP RN  +W+ +++G    G  +E +  F    R KE+G    Y F  VL + 
Sbjct: 172 GLKVFAYMPERNTYTWSTMVSGYATRGRVEEAIKVFNLFLREKEEGSDSDYVFTAVLSSL 231

Query: 220 ADSGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMSTRDVISWT 279
           A +  +  GR+IH I +K G      ++N+L TMYSKC  L+ + ++F+    R+ I+W+
Sbjct: 232 AATIYVGLGRQIHCITIKNGLLGFVALSNALVTMYSKCESLNEACKMFDSSGDRNSITWS 291

Query: 280 TIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRL 339
            ++T Y Q GE   A   F RM  + +KP+EYT   +++A +++  ++ G+QLH+ +L+L
Sbjct: 292 AMVTGYSQNGESLEAVKLFSRMFSAGIKPSEYTIVGVLNACSDICYLEEGKQLHSFLLKL 351

Query: 340 GLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIRRDIISWSTIIGGYSQGGYEEEAFEYL 399
           G    L    +++ MY+K G L      F  +  RD+  W+++I GY Q    EEA    
Sbjct: 352 GFERHLFATTALVDMYAKAGCLADARKGFDCLQERDVALWTSLISGYVQNSDNEEALILY 411

Query: 400 ALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKC 459
             M+  G  PN+   ASVL  C ++A LE GKQ+H H +  G      I SAL  MYSKC
Sbjct: 412 RRMKTAGIIPNDPTMASVLKACSSLATLELGKQVHGHTIKHGFGLEVPIGSALSTMYSKC 471

Query: 460 GSIKEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVL 519
           GS+++ + +F  T + D+VSW AMI+G + +G   EA+ LFE++   G+ PD VTF+ ++
Sbjct: 472 GSLEDGNLVFRRTPNKDVVSWNAMISGLSHNGQGDEALELFEEMLAEGMEPDDVTFVNII 531

Query: 520 TACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPHQKD 579
           +ACSH G V+ G+ YFN+MSD+ G  P  +HY CM+DLL RAG+L +A+  IE+      
Sbjct: 532 SACSHKGFVERGWFYFNMMSDQIGLDPKVDHYACMVDLLSRAGQLKEAKEFIESANIDHG 591

Query: 580 DVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKM 639
             +W  LL AC   G    G +  EK++ L    + T++ L+ IY A GR R+   V K 
Sbjct: 592 LCLWRILLSACKNHGKCELGVYAGEKLMALGSRESSTYVQLSGIYTALGRMRDVERVWKH 651

Query: 640 MRSKGVIKEPGWSRIKVKDQVSAFVSSDRRHSQGEDIYRMLDLLASR---ESDIDDLDSL 696
           MR+ GV KE G S I++K+Q   FV  D  H   E+   ++ L++ +   E  +  LDS 
Sbjct: 652 MRANGVSKEVGCSWIELKNQYHVFVVGDTMHPMIEETKDLVCLVSRQMIEEGFVTVLDSS 711

Query: 697 VHDAED 702
             + E+
Sbjct: 712 FVEEEE 717

Arabidopsis thaliana (taxid: 3702)

>sp|Q9S7F4|PP206_ARATH Putative pentatricopeptide repeat-containing protein At2g01510 OS=Arabidopsis thaliana GN=PCMP-H36 PE=3 SV=1

 Score =  422 bits (1085), Expect = e-117,   Method: Compositional matrix adjust.
 Identities = 229/677 (33%), Positives = 370/677 (54%), Gaps = 10/677 (1%)

Query: 34  QLPVYVSTPEVNSQLKHLVKSGYLHDARKMFDTMTQRDEISWTTLISGYVKAMDSIEALA 93
           ++P + +T   N+ +   VK+G +  AR +FD M  R  ++WT L+  Y +     EA  
Sbjct: 73  EMP-HKNTVSTNTMISGHVKTGDVSSARDLFDAMPDRTVVTWTILMGWYARNSHFDEAFK 131

Query: 94  LFSRVWVEPQMNM-DPFILSLALKACALNVNVNYGESLHGYTVKTGFVNSVF--VGSALL 150
           LF ++       + D    +  L  C   V  N    +H + VK GF  + F  V + LL
Sbjct: 132 LFRQMCRSSSCTLPDHVTFTTLLPGCNDAVPQNAVGQVHAFAVKLGFDTNPFLTVSNVLL 191

Query: 151 DMYTKLGKIELGCRVFDEMPLRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSY 210
             Y ++ +++L C +F+E+P ++ V++  +ITG  + G   E +  F +M +S  Q   +
Sbjct: 192 KSYCEVRRLDLACVLFEEIPEKDSVTFNTLITGYEKDGLYTESIHLFLKMRQSGHQPSDF 251

Query: 211 TFAIVLKASADSGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERM 270
           TF+ VLKA         G+++H + +  GF   + V N +   YSK  ++  +  LF+ M
Sbjct: 252 TFSGVLKAVVGLHDFALGQQLHALSVTTGFSRDASVGNQILDFYSKHDRVLETRMLFDEM 311

Query: 271 STRDVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGE 330
              D +S+  +I+SY Q  + E +   F  MQ        + FA ++S +ANL+ +Q G 
Sbjct: 312 PELDFVSYNVVISSYSQADQYEASLHFFREMQCMGFDRRNFPFATMLSIAANLSSLQMGR 371

Query: 331 QLHAHVLRLGLVDS-LSVANSIMAMYSKCGQLTSTSIVFHGMIRRDIISWSTIIGGYSQG 389
           QLH   L L   DS L V NS++ MY+KC       ++F  + +R  +SW+ +I GY Q 
Sbjct: 372 QLHCQAL-LATADSILHVGNSLVDMYAKCEMFEEAELIFKSLPQRTTVSWTALISGYVQK 430

Query: 390 GYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIK 449
           G      +    MR    R ++  FA+VL    + A L  GKQ+HA ++  G        
Sbjct: 431 GLHGAGLKLFTKMRGSNLRADQSTFATVLKASASFASLLLGKQLHAFIIRSGNLENVFSG 490

Query: 450 SALINMYSKCGSIKEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLR 509
           S L++MY+KCGSIK+A Q+F E    + VSW A+I+ +A++G  + AI  F K+   GL+
Sbjct: 491 SGLVDMYAKCGSIKDAVQVFEEMPDRNAVSWNALISAHADNGDGEAAIGAFAKMIESGLQ 550

Query: 510 PDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAEN 569
           PDSV+ +GVLTACSH G V+ G  YF  MS  YG  P K+HY CM+DLL R GR ++AE 
Sbjct: 551 PDSVSILGVLTACSHCGFVEQGTEYFQAMSPIYGITPKKKHYACMLDLLGRNGRFAEAEK 610

Query: 570 MIENMPHQKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHP-SCAGTHITLANIYAAKG 628
           +++ MP + D+++WS++L AC +  + +     AEK+  +     A  +++++NIYAA G
Sbjct: 611 LMDEMPFEPDEIMWSSVLNACRIHKNQSLAERAAEKLFSMEKLRDAAAYVSMSNIYAAAG 670

Query: 629 RWREAAEVRKMMRSKGVIKEPGWSRIKVKDQVSAFVSSDRRHSQGEDIYRMLDLLAS--- 685
            W +  +V+K MR +G+ K P +S ++V  ++  F S+D+ H  G++I R ++ L +   
Sbjct: 671 EWEKVRDVKKAMRERGIKKVPAYSWVEVNHKIHVFSSNDQTHPNGDEIVRKINELTAEIE 730

Query: 686 RESDIDDLDSLVHDAED 702
           RE    D  S+V D ++
Sbjct: 731 REGYKPDTSSVVQDVDE 747

Arabidopsis thaliana (taxid: 3702)

>sp|Q5G1T1|PP272_ARATH Pentatricopeptide repeat-containing protein At3g49170, chloroplastic OS=Arabidopsis thaliana GN=EMB2261 PE=2 SV=1

 Score =  416 bits (1069), Expect = e-115,   Method: Compositional matrix adjust.
 Identities = 231/667 (34%), Positives = 382/667 (57%), Gaps = 16/667 (2%)

Query: 45  NSQLKHLVKSGYLHDARKMFDTMT---QRDEISWTTLISGYVKAMDSIEALALFSRVWVE 101
           NS +    KSG    A  +F+TM    +RD +SW+ +++ Y      ++A+ +F   ++E
Sbjct: 101 NSLISLYSKSGDSAKAEDVFETMRRFGKRDVVSWSAMMACYGNNGRELDAIKVFVE-FLE 159

Query: 102 PQMNMDPFILSLALKACALNVNVNYGESLHGYTVKTG-FVNSVFVGSALLDMYTK-LGKI 159
             +  + +  +  ++AC+ +  V  G    G+ +KTG F + V VG +L+DM+ K     
Sbjct: 160 LGLVPNDYCYTAVIRACSNSDFVGVGRVTLGFLMKTGHFESDVCVGCSLIDMFVKGENSF 219

Query: 160 ELGCRVFDEMPLRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKAS 219
           E   +VFD+M   NVV+WT +IT  ++ G  +E + +F +M  S  + D +T + V  A 
Sbjct: 220 ENAYKVFDKMSELNVVTWTLMITRCMQMGFPREAIRFFLDMVLSGFESDKFTLSSVFSAC 279

Query: 220 ADSGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKC---GKLDYSLRLFERMSTRDVI 276
           A+   L+ G+++H+  ++ G  +V  V  SL  MY+KC   G +D   ++F+RM    V+
Sbjct: 280 AELENLSLGKQLHSWAIRSG--LVDDVECSLVDMYAKCSADGSVDDCRKVFDRMEDHSVM 337

Query: 277 SWTTIITSYVQMGE-EENAFDAFVRM-QESDVKPNEYTFAAIISASANLARIQWGEQLHA 334
           SWT +IT Y++       A + F  M  +  V+PN +TF++   A  NL+  + G+Q+  
Sbjct: 338 SWTALITGYMKNCNLATEAINLFSEMITQGHVEPNHFTFSSAFKACGNLSDPRVGKQVLG 397

Query: 335 HVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIRRDIISWSTIIGGYSQGGYEEE 394
              + GL  + SVANS+++M+ K  ++      F  +  ++++S++T + G  +    E+
Sbjct: 398 QAFKRGLASNSSVANSVISMFVKSDRMEDAQRAFESLSEKNLVSYNTFLDGTCRNLNFEQ 457

Query: 395 AFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALIN 454
           AF+ L+ +       + F FAS+LS   N+  + +G+QIH+ V+ +GL     + +ALI+
Sbjct: 458 AFKLLSEITERELGVSAFTFASLLSGVANVGSIRKGEQIHSQVVKLGLSCNQPVCNALIS 517

Query: 455 MYSKCGSIKEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVT 514
           MYSKCGSI  AS++F   E+ +++SWT+MI G+A+HG++   +  F ++   G++P+ VT
Sbjct: 518 MYSKCGSIDTASRVFNFMENRNVISWTSMITGFAKHGFAIRVLETFNQMIEEGVKPNEVT 577

Query: 515 FMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENM 574
           ++ +L+ACSH GLV  G+ +FN M + +   P  EHY CM+DLLCRAG L+DA   I  M
Sbjct: 578 YVAILSACSHVGLVSEGWRHFNSMYEDHKIKPKMEHYACMVDLLCRAGLLTDAFEFINTM 637

Query: 575 PHQKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAA 634
           P Q D +VW T L AC V  +   G+  A KILEL P+    +I L+NIYA  G+W E+ 
Sbjct: 638 PFQADVLVWRTFLGACRVHSNTELGKLAARKILELDPNEPAAYIQLSNIYACAGKWEEST 697

Query: 635 EVRKMMRSKGVIKEPGWSRIKVKDQVSAFVSSDRRHSQGEDIYRMLDLLAS---RESDID 691
           E+R+ M+ + ++KE G S I+V D++  F   D  H     IY  LD L +   R   + 
Sbjct: 698 EMRRKMKERNLVKEGGCSWIEVGDKIHKFYVGDTAHPNAHQIYDELDRLITEIKRCGYVP 757

Query: 692 DLDSLVH 698
           D D ++H
Sbjct: 758 DTDLVLH 764

May play a role in embryogenesis.

Arabidopsis thaliana (taxid: 3702)

>sp|O81767|PP348_ARATH Pentatricopeptide repeat-containing protein At4g33990 OS=Arabidopsis thaliana GN=EMB2758 PE=3 SV=2

 Score =  413 bits (1062), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 219/648 (33%), Positives = 361/648 (55%), Gaps = 12/648 (1%)

Query: 60  ARKMFDTMTQRDEISWTTLISGYVKAMDSIEALALFSRVWVEPQMNMDPFILSLALKACA 119
           AR  FD +  RD  +W  +ISGY +A +S E +  FS   +   +  D       LKAC 
Sbjct: 105 ARHTFDHIQNRDVYAWNLMISGYGRAGNSSEVIRCFSLFMLSSGLTPDYRTFPSVLKACR 164

Query: 120 LNVNVNYGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKIELGCRVFDEMPLRNVVSWTA 179
             ++   G  +H   +K GF+  V+V ++L+ +Y++   +     +FDEMP+R++ SW A
Sbjct: 165 TVID---GNKIHCLALKFGFMWDVYVAASLIHLYSRYKAVGNARILFDEMPVRDMGSWNA 221

Query: 180 IITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSGALNFGREIHTIMLKRG 239
           +I+G  ++G+ KE L     +       DS T   +L A  ++G  N G  IH+  +K G
Sbjct: 222 MISGYCQSGNAKEALT----LSNGLRAMDSVTVVSLLSACTEAGDFNRGVTIHSYSIKHG 277

Query: 240 FDVVSFVANSLATMYSKCGKLDYSLRLFERMSTRDVISWTTIITSYVQMGEEENAFDAFV 299
            +   FV+N L  +Y++ G+L    ++F+RM  RD+ISW +II +Y    +   A   F 
Sbjct: 278 LESELFVSNKLIDLYAEFGRLRDCQKVFDRMYVRDLISWNSIIKAYELNEQPLRAISLFQ 337

Query: 300 RMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLG-LVDSLSVANSIMAMYSKC 358
            M+ S ++P+  T  ++ S  + L  I+    +    LR G  ++ +++ N+++ MY+K 
Sbjct: 338 EMRLSRIQPDCLTLISLASILSQLGDIRACRSVQGFTLRKGWFLEDITIGNAVVVMYAKL 397

Query: 359 GQLTSTSIVFHGMIRRDIISWSTIIGGYSQGGYEEEAFEYLALMRREGP-RPNEFAFASV 417
           G + S   VF+ +   D+ISW+TII GY+Q G+  EA E   +M  EG    N+  + SV
Sbjct: 398 GLVDSARAVFNWLPNTDVISWNTIISGYAQNGFASEAIEMYNIMEEEGEIAANQGTWVSV 457

Query: 418 LSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETESDDI 477
           L  C     L QG ++H  ++  GL     + ++L +MY KCG +++A  +FY+    + 
Sbjct: 458 LPACSQAGALRQGMKLHGRLLKNGLYLDVFVVTSLADMYGKCGRLEDALSLFYQIPRVNS 517

Query: 478 VSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNL 537
           V W  +I  +  HG+ ++A+ LF+++   G++PD +TF+ +L+ACSH+GLVD G   F +
Sbjct: 518 VPWNTLIACHGFHGHGEKAVMLFKEMLDEGVKPDHITFVTLLSACSHSGLVDEGQWCFEM 577

Query: 538 MSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPHQKDDVVWSTLLRACMVQGDVN 597
           M   YG  PS +HYGCM+D+  RAG+L  A   I++M  Q D  +W  LL AC V G+V+
Sbjct: 578 MQTDYGITPSLKHYGCMVDMYGRAGQLETALKFIKSMSLQPDASIWGALLSACRVHGNVD 637

Query: 598 CGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKGVIKEPGWSRIKVK 657
            G+  +E + E+ P   G H+ L+N+YA+ G+W    E+R +   KG+ K PGWS ++V 
Sbjct: 638 LGKIASEHLFEVEPEHVGYHVLLSNMYASAGKWEGVDEIRSIAHGKGLRKTPGWSSMEVD 697

Query: 658 DQVSAFVSSDRRHSQGEDIYRMLDLLASRESDI---DDLDSLVHDAED 702
           ++V  F + ++ H   E++YR L  L ++   I    D   ++ D ED
Sbjct: 698 NKVEVFYTGNQTHPMYEEMYRELTALQAKLKMIGYVPDHRFVLQDVED 745

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	702
147812559	713	hypothetical protein VITISV_020725 [Viti	0.961	0.946	0.730	0.0
225430696	713	PREDICTED: putative pentatricopeptide re	0.961	0.946	0.730	0.0
224094835	666	predicted protein [Populus trichocarpa]	0.940	0.990	0.724	0.0
449449950	712	PREDICTED: putative pentatricopeptide re	0.987	0.973	0.645	0.0
449502685	712	PREDICTED: LOW QUALITY PROTEIN: putative	0.987	0.973	0.644	0.0
356566136	733	PREDICTED: putative pentatricopeptide re	0.940	0.900	0.665	0.0
356506884	752	PREDICTED: putative pentatricopeptide re	0.940	0.877	0.664	0.0
357468471	1033	Coatomer subunit beta'-2 [Medicago trunc	0.937	0.636	0.619	0.0
297815974	700	pentatricopeptide repeat-containing prot	0.935	0.938	0.598	0.0
15228265	706	pentatricopeptide repeat-containing prot	0.911	0.906	0.601	0.0

>gi|147812559|emb|CAN70631.1| hypothetical protein VITISV_020725 [Vitis vinifera]

 Score = 1031 bits (2666), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 499/683 (73%), Positives = 563/683 (82%), Gaps = 8/683 (1%)

Query: 12  RLFASSAIACTE--------RRPLLLFQGTQLPVYVSTPEVNSQLKHLVKSGYLHDARKM 63
           RLF + A+A TE        R    L Q          PE N QLK LVK+G+L +AR+M
Sbjct: 12  RLFTAPAVASTECIDLQVLERSNDNLSQNIHFISQTDLPESNKQLKELVKTGHLGNARRM 71

Query: 64  FDTMTQRDEISWTTLISGYVKAMDSIEALALFSRVWVEPQMNMDPFILSLALKACALNVN 123
           FD M+Q+DEISWTTLISGYV A DS EAL LF  + VE  + +DPFILSLA KAC LN +
Sbjct: 72  FDKMSQKDEISWTTLISGYVNANDSSEALLLFKNMRVESGLRIDPFILSLAHKACGLNSD 131

Query: 124 VNYGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKIELGCRVFDEMPLRNVVSWTAIITG 183
           VNYGE LHGY VKTG VNSVFVGSALLDMYTK GKI  G RVF EMP+RNVVSWTAIITG
Sbjct: 132 VNYGELLHGYAVKTGLVNSVFVGSALLDMYTKNGKIFEGRRVFHEMPMRNVVSWTAIITG 191

Query: 184 LVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSGALNFGREIHTIMLKRGFDVV 243
           LVRAG+NKE L+YF+EMWRS+ + DSYTFAI LKA ADSGALN+GREIH   +K+GFDV 
Sbjct: 192 LVRAGYNKEALVYFSEMWRSRVEYDSYTFAIALKACADSGALNYGREIHAQAMKKGFDVS 251

Query: 244 SFVANSLATMYSKCGKLDYSLRLFERMSTRDVISWTTIITSYVQMGEEENAFDAFVRMQE 303
           SFVAN+LATMY+KCGKL+Y L LFE+MS RDV+SWTTIIT+ VQMG+EE A  AF+RM+E
Sbjct: 252 SFVANTLATMYNKCGKLEYGLTLFEKMSMRDVVSWTTIITTLVQMGQEECAVQAFIRMRE 311

Query: 304 SDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTS 363
           SDV PNEYTFAA+IS  ANLARI+WGEQLHA +L LGL  SLSV NSIM MY+KCGQLTS
Sbjct: 312 SDVSPNEYTFAAVISGCANLARIEWGEQLHALILHLGLAASLSVENSIMTMYAKCGQLTS 371

Query: 364 TSIVFHGMIRRDIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGN 423
           +S++FH M RRDI+SWSTII GY QGG+  EAFE L+ MR EGP+P EFA ASVLS CGN
Sbjct: 372 SSVIFHEMTRRDIVSWSTIIAGYXQGGHVSEAFELLSWMRMEGPKPTEFALASVLSACGN 431

Query: 424 MAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETESDDIVSWTAM 483
           MAILE GKQ+HA+V+SIGLE TAM+ SALINMY KCGSI+EAS+IF   E+DDIVSWTAM
Sbjct: 432 MAILEHGKQLHAYVLSIGLEHTAMVLSALINMYCKCGSIEEASRIFDAAENDDIVSWTAM 491

Query: 484 INGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYG 543
           INGYAEHGYS+E I LFEK+P VGLRPDSVTF+GVL+ACSHAGLVDLGFHYFN MS KY 
Sbjct: 492 INGYAEHGYSREVIDLFEKIPRVGLRPDSVTFIGVLSACSHAGLVDLGFHYFNAMSKKYQ 551

Query: 544 FVPSKEHYGCMIDLLCRAGRLSDAENMIENMPHQKDDVVWSTLLRACMVQGDVNCGRHTA 603
             PSKEHYGCMIDLLCRAGRLSDAE+MIE MP  +DDVVWSTLLRAC V GDV  GR TA
Sbjct: 552 ISPSKEHYGCMIDLLCRAGRLSDAEHMIEAMPFHRDDVVWSTLLRACRVHGDVERGRRTA 611

Query: 604 EKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKGVIKEPGWSRIKVKDQVSAF 663
           E+IL+L P+CAGTHITLANIYA+KG+WREAA++RK+M+SKGVIKEPGWS IKVKD V AF
Sbjct: 612 ERILQLEPNCAGTHITLANIYASKGKWREAADIRKLMKSKGVIKEPGWSWIKVKDLVFAF 671

Query: 664 VSSDRRHSQGEDIYRMLDLLASR 686
           V+ DR H QGEDIY MLDLLASR
Sbjct: 672 VAGDRSHPQGEDIYNMLDLLASR 694

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225430696|ref|XP_002266026.1| PREDICTED: putative pentatricopeptide repeat-containing protein At3g47840 [Vitis vinifera]

 Score = 1030 bits (2663), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 499/683 (73%), Positives = 563/683 (82%), Gaps = 8/683 (1%)

Query: 12  RLFASSAIACTE--------RRPLLLFQGTQLPVYVSTPEVNSQLKHLVKSGYLHDARKM 63
           RLF + A+A TE        R    L Q          PE N QLK LVK+G+L +AR+M
Sbjct: 12  RLFTAPAVASTECIDLQVLERSNDNLSQNIHFISQTDLPESNKQLKELVKTGHLGNARRM 71

Query: 64  FDTMTQRDEISWTTLISGYVKAMDSIEALALFSRVWVEPQMNMDPFILSLALKACALNVN 123
           FD M+Q+DEISWTTLISGYV A DS EAL LF  + VE  + +DPFILSLA KAC LN +
Sbjct: 72  FDKMSQKDEISWTTLISGYVNANDSSEALLLFKNMRVESGLRIDPFILSLAHKACGLNSD 131

Query: 124 VNYGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKIELGCRVFDEMPLRNVVSWTAIITG 183
           VNYGE LHGY VKTG VNSVFVGSALLDMYTK GKI  G RVF EMP+RNVVSWTAIITG
Sbjct: 132 VNYGELLHGYAVKTGLVNSVFVGSALLDMYTKNGKIFEGRRVFHEMPMRNVVSWTAIITG 191

Query: 184 LVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSGALNFGREIHTIMLKRGFDVV 243
           LVRAG+NKE L+YF+EMWRS+ + DSYTFAI LKA ADSGALN+GREIH   +K+GFDV 
Sbjct: 192 LVRAGYNKEALVYFSEMWRSRVEYDSYTFAIALKACADSGALNYGREIHAQAMKKGFDVS 251

Query: 244 SFVANSLATMYSKCGKLDYSLRLFERMSTRDVISWTTIITSYVQMGEEENAFDAFVRMQE 303
           SFVAN+LATMY+KCGKL+Y L LFE+MS RDV+SWTTIIT+ VQMG+EE A  AF+RM+E
Sbjct: 252 SFVANTLATMYNKCGKLEYGLTLFEKMSMRDVVSWTTIITTLVQMGQEECAVQAFIRMRE 311

Query: 304 SDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTS 363
           SDV PNEYTFAA+IS  ANLARI+WGEQLHA +L LGL  SLSV NSIM MY+KCGQLTS
Sbjct: 312 SDVSPNEYTFAAVISGCANLARIEWGEQLHALILHLGLAASLSVENSIMTMYAKCGQLTS 371

Query: 364 TSIVFHGMIRRDIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGN 423
           +S++FH M RRDI+SWSTII GYSQGG+  EAFE L+ MR EGP+P EFA ASVLS CGN
Sbjct: 372 SSVIFHEMTRRDIVSWSTIIAGYSQGGHVSEAFELLSWMRMEGPKPTEFALASVLSACGN 431

Query: 424 MAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETESDDIVSWTAM 483
           MAILE GKQ+HA+V+SIGLE TAM+ SALINMY KCGSI+EAS+IF   E+DDIVSWTAM
Sbjct: 432 MAILEHGKQLHAYVLSIGLEHTAMVLSALINMYCKCGSIEEASRIFDAAENDDIVSWTAM 491

Query: 484 INGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYG 543
           INGYAEHGYS+E I LFEK+P VGLRPDSVTF+GVL+ACSHAGLVDLGF YFN MS KY 
Sbjct: 492 INGYAEHGYSREVIDLFEKIPRVGLRPDSVTFIGVLSACSHAGLVDLGFRYFNAMSKKYQ 551

Query: 544 FVPSKEHYGCMIDLLCRAGRLSDAENMIENMPHQKDDVVWSTLLRACMVQGDVNCGRHTA 603
             PSKEHYGCMIDLLCRAGRLSDAE+MIE MP  +DDVVWSTLLRAC V GDV  GR TA
Sbjct: 552 ISPSKEHYGCMIDLLCRAGRLSDAEHMIEAMPFHRDDVVWSTLLRACRVHGDVERGRRTA 611

Query: 604 EKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKGVIKEPGWSRIKVKDQVSAF 663
           E+IL+L P+CAGTHITLANIYA+KG+WREAA++RK+M+SKGVIKEPGWS IKVKD V AF
Sbjct: 612 ERILQLEPNCAGTHITLANIYASKGKWREAADIRKLMKSKGVIKEPGWSWIKVKDLVFAF 671

Query: 664 VSSDRRHSQGEDIYRMLDLLASR 686
           V+ DR H QGEDIY MLDLLASR
Sbjct: 672 VAGDRSHPQGEDIYNMLDLLASR 694

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224094835|ref|XP_002310258.1| predicted protein [Populus trichocarpa] gi|222853161|gb|EEE90708.1| predicted protein [Populus trichocarpa]

 Score = 1022 bits (2643), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 479/661 (72%), Positives = 570/661 (86%), Gaps = 1/661 (0%)

Query: 43  EVNSQLKHLVKSGYLHDARKMFDTMTQRDEISWTTLISGYVKAMDSIEALALFSRVWVEP 102
           E+N  LK+LVK+G+L++AR++FD M QRDEISWTT+ISGYV  M++ EAL+LFS++WVEP
Sbjct: 3   EINLVLKNLVKTGHLNNARQLFDKMLQRDEISWTTIISGYVNGMNTTEALSLFSKMWVEP 62

Query: 103 QMNMDPFILSLALKACALNVNVNYGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKIELG 162
            ++MDPFILSLALKAC LN++V++GESLHGY+VKT FVNSVFVGSAL+DMY K+GK++ G
Sbjct: 63  GLHMDPFILSLALKACGLNMSVSFGESLHGYSVKTDFVNSVFVGSALVDMYMKIGKVDEG 122

Query: 163 CRVFDEMPLRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADS 222
           C VF EMPLRNVVSWTAII GLVRAG+NKE L YF++MW  K   D+YTF+  LKA ADS
Sbjct: 123 CIVFKEMPLRNVVSWTAIIAGLVRAGYNKEALAYFSDMWIQKVGCDTYTFSSALKACADS 182

Query: 223 GALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMSTRDVISWTTII 282
           GALN+GREIH   LK+GF  VSFVAN+LATMY+KCGKLDY LRLFE M+ RDV+SWTTII
Sbjct: 183 GALNYGREIHCQTLKKGFTAVSFVANTLATMYNKCGKLDYGLRLFESMTQRDVVSWTTII 242

Query: 283 TSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLV 342
            S VQ+G+EENA  AF RM+E+DV PNE+TFAA+IS  A L RI+WGEQLHAHV+R GLV
Sbjct: 243 MSNVQIGQEENAVKAFRRMRETDVSPNEFTFAAVISGCATLGRIEWGEQLHAHVIRRGLV 302

Query: 343 DSLSVANSIMAMYSKCGQLTSTSIVFHGMIRRDIISWSTIIGGYSQGGYEEEAFEYLALM 402
           DSLSVANSIMAMYSKC QL   S VF G+ RRDIISWST+I GY+QGG  EEAF+YL+ M
Sbjct: 303 DSLSVANSIMAMYSKCWQLDLASTVFQGLSRRDIISWSTMISGYAQGGCGEEAFDYLSWM 362

Query: 403 RREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSI 462
           RREGPRPNEFAFASVLSVCGNMAILEQGKQ+HAHV+ +GLE+  M++SALINMYSKCGSI
Sbjct: 363 RREGPRPNEFAFASVLSVCGNMAILEQGKQLHAHVLCVGLEQNTMVQSALINMYSKCGSI 422

Query: 463 KEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTAC 522
           KEAS+IF E E ++IVSWTAMINGYAEHGYSQEAI LF+K+P VGLRPDSVTF+ VL AC
Sbjct: 423 KEASKIFDEAEYNNIVSWTAMINGYAEHGYSQEAIDLFKKLPKVGLRPDSVTFIAVLAAC 482

Query: 523 SHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPHQKDDVV 582
           SHAGLVDLGFHYFN +S  +   PSK+HYGCMIDLLCRAGRL+DAE+MI++MP Q+DDVV
Sbjct: 483 SHAGLVDLGFHYFNSLSKVHQICPSKDHYGCMIDLLCRAGRLNDAESMIQSMPFQRDDVV 542

Query: 583 WSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRS 642
           WSTLLRAC + GDV+CG+  AEKIL+L P+CA THITLAN+YAAKG+W+EAAEVRKMM+S
Sbjct: 543 WSTLLRACRIHGDVDCGKRAAEKILQLDPNCAVTHITLANMYAAKGKWKEAAEVRKMMKS 602

Query: 643 KGVIKEPGWSRIKVKDQVSAFVSSDRRHSQGEDIYRMLDLLASR-ESDIDDLDSLVHDAE 701
           KGV+KEPGWS IK KD+VSAFVS DR H +GE IY +LDLLAS+ E  + ++D L+++ +
Sbjct: 603 KGVVKEPGWSWIKFKDRVSAFVSGDRSHPEGEYIYDVLDLLASQAEMHMQEMDFLLNEVQ 662

Query: 702 D 702
           +
Sbjct: 663 E 663

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449449950|ref|XP_004142727.1| PREDICTED: putative pentatricopeptide repeat-containing protein At3g47840-like [Cucumis sativus]

 Score =  943 bits (2437), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 454/703 (64%), Positives = 550/703 (78%), Gaps = 10/703 (1%)

Query: 7   RHRVGRLFASSAIACTER---------RPLLLFQGTQLPVYVSTPEVNSQLKHLVKSGYL 57
           R  V R F   A+A  +          +PL L         V   E N+QLK LVK+ +L
Sbjct: 6   RQHVKRNFTVLAVAGAKTNDNPRHLYTKPLSLTLNAHFSNKVDLAEANNQLKILVKTNHL 65

Query: 58  HDARKMFDTMTQRDEISWTTLISGYVKAMDSIEALALFSRVWVEPQMNMDPFILSLALKA 117
            DAR +FD + QRDE+SWT +ISGYV + DS EAL LFS++ ++ ++ +DPF+LSL LK 
Sbjct: 66  KDARDLFDQLPQRDEVSWTNIISGYVNSSDSSEALRLFSKMRLQSELRIDPFLLSLGLKT 125

Query: 118 CALNVNVNYGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKIELGCRVFDEMPLRNVVSW 177
           C L +N  YG +LHG++VKTG VNSVFVGSALLDMY K+G+I   C+VFDEMP RN V+W
Sbjct: 126 CGLGLNYLYGTNLHGFSVKTGLVNSVFVGSALLDMYMKIGEIGRSCKVFDEMPTRNAVTW 185

Query: 178 TAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSGALNFGREIHTIMLK 237
           TA+ITGLVRAG+++ GL YF+ M RSK + DSY +AI LKASADSGALN GR IHT  LK
Sbjct: 186 TAVITGLVRAGYSEAGLAYFSGMGRSKVEYDSYAYAIALKASADSGALNHGRSIHTQTLK 245

Query: 238 RGFDVVSFVANSLATMYSKCGKLDYSLRLFERMSTRDVISWTTIITSYVQMGEEENAFDA 297
           +GFD  SFVANSL TMY+KCGKLDY L  F +M T DV+SWTTI+T+Y+QMG+E+    A
Sbjct: 246 KGFDENSFVANSLTTMYNKCGKLDYGLHTFRKMRTLDVVSWTTIVTAYIQMGKEDCGLQA 305

Query: 298 FVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSK 357
           F RM+ S+V PNEYTF+A+IS  AN AR++WGEQLHAHVL +G V++LSVANSIM +YSK
Sbjct: 306 FKRMRASNVIPNEYTFSAVISCCANFARLKWGEQLHAHVLCVGFVNALSVANSIMTLYSK 365

Query: 358 CGQLTSTSIVFHGMIRRDIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASV 417
           CG+L S S VF  M  RDII+WSTII  YSQ GY EEAFEYL+ MR EGP+PNEFA ASV
Sbjct: 366 CGELASVSKVFCSMKFRDIITWSTIIAAYSQVGYGEEAFEYLSRMRSEGPKPNEFALASV 425

Query: 418 LSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETESDDI 477
           LSVCG+MAILEQGKQ+HAHV+S+GLE+T+M+ SALI MY+KCGSI EAS+IF ++  DDI
Sbjct: 426 LSVCGSMAILEQGKQLHAHVLSVGLEQTSMVCSALIIMYAKCGSIAEASKIFMDSWKDDI 485

Query: 478 VSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNL 537
           +SWTAMI+GYAEHG+SQEAI LFE +  VGLRPDSVTF+GVLTACSHAG+VDLGF+YFN 
Sbjct: 486 ISWTAMISGYAEHGHSQEAIELFENIQKVGLRPDSVTFIGVLTACSHAGMVDLGFYYFNS 545

Query: 538 MSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPHQKDDVVWSTLLRACMVQGDVN 597
           MS  Y   PSKEHYGCMIDLLCRAGRL DAE +I +MP Q DDVVWSTLLRAC + GDV+
Sbjct: 546 MSKDYHITPSKEHYGCMIDLLCRAGRLHDAETLIRSMPIQWDDVVWSTLLRACRIHGDVD 605

Query: 598 CGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKGVIKEPGWSRIKVK 657
           CG+  A ++L+L P+CAGTHITLANI+AAKG+W+EAA +R +M+SKGV+KEPGWS +KVK
Sbjct: 606 CGQRAAAEVLKLDPNCAGTHITLANIFAAKGKWKEAANIRMLMKSKGVVKEPGWSSVKVK 665

Query: 658 DQVSAFVSSDRRHSQGEDIYRMLDLLAS-RESDIDDLDSLVHD 699
           D V AFVS DR H QGEDIY +L+ LAS  E  I +L+ LV D
Sbjct: 666 DSVFAFVSGDRSHPQGEDIYNILEELASGMEIYILELNHLVTD 708

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449502685|ref|XP_004161713.1| PREDICTED: LOW QUALITY PROTEIN: putative pentatricopeptide repeat-containing protein At3g47840-like [Cucumis sativus]

 Score =  940 bits (2430), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 453/703 (64%), Positives = 549/703 (78%), Gaps = 10/703 (1%)

Query: 7   RHRVGRLFASSAIACTER---------RPLLLFQGTQLPVYVSTPEVNSQLKHLVKSGYL 57
           R  V R F   A+A  +          +PL L         V   E N+QLK LVK+ +L
Sbjct: 6   RQHVKRNFTVLAVAGAKTNDNPRHLYTKPLSLTLNAHFSNKVDLAEANNQLKILVKTNHL 65

Query: 58  HDARKMFDTMTQRDEISWTTLISGYVKAMDSIEALALFSRVWVEPQMNMDPFILSLALKA 117
            DAR +FD + QRDE+SWT +ISGYV + DS EAL LFS++ ++ ++ +DPF+LSL LK 
Sbjct: 66  KDARDLFDQLPQRDEVSWTNIISGYVNSSDSSEALRLFSKMRLQSELRIDPFLLSLGLKT 125

Query: 118 CALNVNVNYGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKIELGCRVFDEMPLRNVVSW 177
           C L +N  YG +LHG++VK G VNSVFVGSALLDMY K+G+I   C+VFDEMP RN V+W
Sbjct: 126 CGLGLNYLYGTNLHGFSVKXGLVNSVFVGSALLDMYMKIGEIGRSCKVFDEMPTRNAVTW 185

Query: 178 TAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSGALNFGREIHTIMLK 237
           TA+ITGLVRAG+++ GL YF+ M RSK + DSY +AI LKASADSGALN GR IHT  LK
Sbjct: 186 TAVITGLVRAGYSEAGLAYFSGMGRSKVEYDSYAYAIALKASADSGALNHGRSIHTQTLK 245

Query: 238 RGFDVVSFVANSLATMYSKCGKLDYSLRLFERMSTRDVISWTTIITSYVQMGEEENAFDA 297
           +GFD  SFVANSL TMY+KCGKLDY L  F +M T DV+SWTTI+T+Y+QMG+E+    A
Sbjct: 246 KGFDENSFVANSLTTMYNKCGKLDYGLHTFRKMRTLDVVSWTTIVTAYIQMGKEDCGLQA 305

Query: 298 FVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSK 357
           F RM+ S+V PNEYTF+A+IS  AN AR++WGEQLHAHVL +G V++LSVANSIM +YSK
Sbjct: 306 FKRMRASNVIPNEYTFSAVISCCANFARLKWGEQLHAHVLCVGFVNALSVANSIMTLYSK 365

Query: 358 CGQLTSTSIVFHGMIRRDIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASV 417
           CG+L S S VF  M  RDII+WSTII  YSQ GY EEAFEYL+ MR EGP+PNEFA ASV
Sbjct: 366 CGELASVSKVFCSMKFRDIITWSTIIAAYSQVGYGEEAFEYLSRMRSEGPKPNEFALASV 425

Query: 418 LSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETESDDI 477
           LSVCG+MAILEQGKQ+HAHV+S+GLE+T+M+ SALI MY+KCGSI EAS+IF ++  DDI
Sbjct: 426 LSVCGSMAILEQGKQLHAHVLSVGLEQTSMVCSALIIMYAKCGSIAEASKIFMDSWKDDI 485

Query: 478 VSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNL 537
           +SWTAMI+GYAEHG+SQEAI LFE +  VGLRPDSVTF+GVLTACSHAG+VDLGF+YFN 
Sbjct: 486 ISWTAMISGYAEHGHSQEAIELFENIQKVGLRPDSVTFIGVLTACSHAGMVDLGFYYFNS 545

Query: 538 MSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPHQKDDVVWSTLLRACMVQGDVN 597
           MS  Y   PSKEHYGCMIDLLCRAGRL DAE +I +MP Q DDVVWSTLLRAC + GDV+
Sbjct: 546 MSKDYHITPSKEHYGCMIDLLCRAGRLHDAETLIRSMPIQWDDVVWSTLLRACRIHGDVD 605

Query: 598 CGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKGVIKEPGWSRIKVK 657
           CG+  A ++L+L P+CAGTHITLANI+AAKG+W+EAA +R +M+SKGV+KEPGWS +KVK
Sbjct: 606 CGQRAAAEVLKLDPNCAGTHITLANIFAAKGKWKEAANIRMLMKSKGVVKEPGWSSVKVK 665

Query: 658 DQVSAFVSSDRRHSQGEDIYRMLDLLAS-RESDIDDLDSLVHD 699
           D V AFVS DR H QGEDIY +L+ LAS  E  I +L+ LV D
Sbjct: 666 DSVFAFVSGDRSHPQGEDIYNILEELASGMEIYILELNHLVTD 708

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356566136|ref|XP_003551291.1| PREDICTED: putative pentatricopeptide repeat-containing protein At3g47840-like [Glycine max]

 Score =  930 bits (2404), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 440/661 (66%), Positives = 544/661 (82%), Gaps = 1/661 (0%)

Query: 43  EVNSQLKHLVKSGYLHDARKMFDTMTQRDEISWTTLISGYVKAMDSIEALALFSRVWVEP 102
           E+NS+LK LVK G L  AR MFD MT RDEISWTTLI+GYV A DS EAL LFS +WV P
Sbjct: 59  ELNSELKQLVKQGQLCKARYMFDKMTHRDEISWTTLIAGYVNASDSYEALILFSNMWVHP 118

Query: 103 QMNMDPFILSLALKACALNVNVNYGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKIELG 162
               D F++S+ALKACAL VN+ +GE LHG++VK+G ++SVFV SAL+DMY K+GKIE G
Sbjct: 119 GPQRDQFMISVALKACALGVNICFGELLHGFSVKSGLIHSVFVSSALIDMYMKVGKIEQG 178

Query: 163 CRVFDEMPLRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADS 222
           CRVF++M  RNVVSWTAII GLV AG+N EGL+YF+EMWRSK   DS+TFAI LKASADS
Sbjct: 179 CRVFEKMMTRNVVSWTAIIAGLVHAGYNMEGLLYFSEMWRSKVGYDSHTFAIALKASADS 238

Query: 223 GALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMSTRDVISWTTII 282
             L+ G+ IHT  +K+GFD  SFV N+LATMY+KCGK DY +RLFE+M   DV+SWTT+I
Sbjct: 239 SLLHHGKAIHTQTIKQGFDESSFVINTLATMYNKCGKPDYVMRLFEKMRMPDVVSWTTLI 298

Query: 283 TSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLV 342
           ++YVQMGEEE+A +AF RM++S V PN+YTFAA+IS+ ANLA  +WGEQ+H HVLRLGLV
Sbjct: 299 STYVQMGEEEHAVEAFKRMRKSYVSPNKYTFAAVISSCANLAAAKWGEQIHGHVLRLGLV 358

Query: 343 DSLSVANSIMAMYSKCGQLTSTSIVFHGMIRRDIISWSTIIGGYSQGGYEEEAFEYLALM 402
           ++LSVANSI+ +YSKCG L S S+VFHG+ R+DIISWSTII  YSQGGY +EAF+YL+ M
Sbjct: 359 NALSVANSIITLYSKCGLLKSASLVFHGITRKDIISWSTIISVYSQGGYAKEAFDYLSWM 418

Query: 403 RREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSI 462
           RREGP+PNEFA +SVLSVCG+MA+LEQGKQ+HAH++ IG++  AM+ SA+I+MYSKCGS+
Sbjct: 419 RREGPKPNEFALSSVLSVCGSMALLEQGKQVHAHLLCIGIDHEAMVHSAIISMYSKCGSV 478

Query: 463 KEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTAC 522
           +EAS+IF   + +DI+SWTAMINGYAEHGYSQEAI+LFEK+  VGL+PD V F+GVLTAC
Sbjct: 479 QEASKIFNGMKINDIISWTAMINGYAEHGYSQEAINLFEKISSVGLKPDYVMFIGVLTAC 538

Query: 523 SHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPHQKDDVV 582
           +HAG+VDLGF+YF LM++ Y   PSKEHYGC+IDLLCRAGRLS+AE++I +MP   DDVV
Sbjct: 539 NHAGMVDLGFYYFMLMTNVYRISPSKEHYGCLIDLLCRAGRLSEAEHIIRSMPFHTDDVV 598

Query: 583 WSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRS 642
           WSTLLRAC V GDV+ GR TAE++L+L P+ AGTHITLANIYAAKGRW+EAA +RK+M+S
Sbjct: 599 WSTLLRACRVHGDVDRGRWTAEQLLQLDPNSAGTHITLANIYAAKGRWKEAAHIRKLMKS 658

Query: 643 KGVIKEPGWSRIKVKDQVSAFVSSDRRHSQGEDIYRMLDLLASRESDI-DDLDSLVHDAE 701
           KGVIKE GWS + V DQ++AFV+ D+ H Q E I  +L LL++   D   ++ SL  D E
Sbjct: 659 KGVIKERGWSWVNVNDQLNAFVAGDQAHPQSEHITTVLKLLSANIGDAQQEIRSLHEDVE 718

Query: 702 D 702
           D
Sbjct: 719 D 719

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356506884|ref|XP_003522204.1| PREDICTED: putative pentatricopeptide repeat-containing protein At3g47840-like [Glycine max]

 Score =  927 bits (2395), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 439/661 (66%), Positives = 542/661 (81%), Gaps = 1/661 (0%)

Query: 43  EVNSQLKHLVKSGYLHDARKMFDTMTQRDEISWTTLISGYVKAMDSIEALALFSRVWVEP 102
           E+NS+LK LVK G L  +R MFD MT RDEISWTTLI+GYV A DS EAL LFS +WV+P
Sbjct: 92  ELNSELKQLVKQGQLCKSRYMFDKMTHRDEISWTTLIAGYVNASDSYEALILFSNMWVQP 151

Query: 103 QMNMDPFILSLALKACALNVNVNYGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKIELG 162
            +  D F++S+ALKAC L VN+ +GE LHG++VK+G +NSVFV SAL+DMY K+GKIE G
Sbjct: 152 GLQRDQFMISVALKACGLGVNICFGELLHGFSVKSGLINSVFVSSALIDMYMKVGKIEQG 211

Query: 163 CRVFDEMPLRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADS 222
           CRVF +M  RNVVSWTAII GLV AG+N E L+YF+EMW SK   DS+TFAI LKASADS
Sbjct: 212 CRVFKKMTKRNVVSWTAIIAGLVHAGYNMEALLYFSEMWISKVGYDSHTFAIALKASADS 271

Query: 223 GALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMSTRDVISWTTII 282
             L+ G+ IHT  +K+GFD  SFV N+LATMY+KCGK DY +RLFE+M   DV+SWTT+I
Sbjct: 272 SLLHHGKAIHTQTIKQGFDESSFVINTLATMYNKCGKADYVMRLFEKMKMPDVVSWTTLI 331

Query: 283 TSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLV 342
           T+YVQ GEEE+A +AF RM++S+V PN+YTFAA+ISA ANLA  +WGEQ+H HVLRLGLV
Sbjct: 332 TTYVQKGEEEHAVEAFKRMRKSNVSPNKYTFAAVISACANLAIAKWGEQIHGHVLRLGLV 391

Query: 343 DSLSVANSIMAMYSKCGQLTSTSIVFHGMIRRDIISWSTIIGGYSQGGYEEEAFEYLALM 402
           D+LSVANSI+ +YSK G L S S+VFHG+ R+DIISWSTII  YSQGGY +EAF+YL+ M
Sbjct: 392 DALSVANSIVTLYSKSGLLKSASLVFHGITRKDIISWSTIIAVYSQGGYAKEAFDYLSWM 451

Query: 403 RREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSI 462
           RREGP+PNEFA +SVLSVCG+MA+LEQGKQ+HAHV+ IG++  AM+ SALI+MYSKCGS+
Sbjct: 452 RREGPKPNEFALSSVLSVCGSMALLEQGKQVHAHVLCIGIDHEAMVHSALISMYSKCGSV 511

Query: 463 KEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTAC 522
           +EAS+IF   + ++I+SWTAMINGYAEHGYSQEAI+LFEK+  VGL+PD VTF+GVLTAC
Sbjct: 512 EEASKIFNGMKINNIISWTAMINGYAEHGYSQEAINLFEKISSVGLKPDYVTFIGVLTAC 571

Query: 523 SHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPHQKDDVV 582
           SHAG+VDLGF+YF LM+++Y   PSKEHYGC+IDLLCRAGRLS+AE+MI +MP   DDVV
Sbjct: 572 SHAGMVDLGFYYFMLMTNEYQISPSKEHYGCIIDLLCRAGRLSEAEHMIRSMPCYTDDVV 631

Query: 583 WSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRS 642
           WSTLLR+C V GDV+ GR TAE++L L P+ AGTHI LANIYAAKGRW+EAA +RK+M+S
Sbjct: 632 WSTLLRSCRVHGDVDRGRWTAEQLLRLDPNSAGTHIALANIYAAKGRWKEAAHIRKLMKS 691

Query: 643 KGVIKEPGWSRIKVKDQVSAFVSSDRRHSQGEDIYRMLDLLASRESDI-DDLDSLVHDAE 701
           KGVIKE GWS + V D+++AFV+ D+ H Q E I  +L+LL++   D   ++ SL  D E
Sbjct: 692 KGVIKERGWSWVNVNDKLNAFVAGDQAHPQSEHITTVLELLSANIGDARQEIRSLNDDVE 751

Query: 702 D 702
           D
Sbjct: 752 D 752

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357468471|ref|XP_003604520.1| Coatomer subunit beta'-2 [Medicago truncatula] gi|355505575|gb|AES86717.1| Coatomer subunit beta'-2 [Medicago truncatula]

 Score =  860 bits (2223), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 408/659 (61%), Positives = 515/659 (78%), Gaps = 1/659 (0%)

Query: 42  PEVNSQLKHLVKSGYLHDARKMFDTMTQRDEISWTTLISGYVKAMDSIEALALFSRVWVE 101
           PE+NSQLK L+K G + +AR MF+ M+ RDEISWT LI+GYV A +S EAL LFS +WV+
Sbjct: 85  PELNSQLKQLMKLGKICEARDMFNKMSHRDEISWTNLIAGYVNAANSNEALILFSNMWVD 144

Query: 102 PQMNMDPFILSLALKACALNVNVNYGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKIEL 161
             +  D F++S+ALKACAL +NV +GE LHG++VK+G +NSVFV SAL+DMY K+GK E 
Sbjct: 145 SGLQKDQFVVSVALKACALGMNVYFGELLHGFSVKSGLINSVFVSSALVDMYMKVGKTEQ 204

Query: 162 GCRVFDEMPLRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASAD 221
           GC VF+ M  RNVVSWTA+I GLV AG + +GL YF+EMWRSK   DS+TFA+ LKASA+
Sbjct: 205 GCSVFENMTTRNVVSWTAVIVGLVHAGCSLDGLSYFSEMWRSKVGYDSHTFAVALKASAE 264

Query: 222 SGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMSTRDVISWTTI 281
           SG L++G+ IH   +K+GF+  ++V N+L TMYSKC K DY +RLF +MST DV+SWT +
Sbjct: 265 SGLLHYGKAIHAQTIKQGFNETAYVVNTLGTMYSKCRKPDYVMRLFGKMSTPDVVSWTNL 324

Query: 282 ITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGL 341
           I +YVQMG+EE A DAF RM++SDV PNEYTFA++ISA ANLA  +WGEQ+H H LRLGL
Sbjct: 325 IMTYVQMGDEERALDAFKRMRKSDVSPNEYTFASVISACANLAITKWGEQIHGHALRLGL 384

Query: 342 VDSLSVANSIMAMYSKCGQLTSTSIVFHGMIRRDIISWSTIIGGYSQGGYEEEAFEYLAL 401
           VD+LSV+NSI+ +YSKCG L   S+VF GM R+DIISWSTII  Y QG + +EAF YL+ 
Sbjct: 385 VDALSVSNSIITLYSKCGLLQEASLVFDGMTRKDIISWSTIISVYCQGSHAKEAFNYLSW 444

Query: 402 MRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGS 461
           M REGP+PNEFA ASVLSVCG+MA+LE GKQ+HA+ + IGL+   M+ SALI+MYS+ G+
Sbjct: 445 MSREGPKPNEFALASVLSVCGSMALLEPGKQVHAYALCIGLDHETMVHSALISMYSRSGN 504

Query: 462 IKEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTA 521
           ++EAS+IF   +++DIVSWTAMINGYAEHGYSQEAI LFE +  VGL PD VTF+G+LTA
Sbjct: 505 LQEASKIFDSIKNNDIVSWTAMINGYAEHGYSQEAISLFENISSVGLMPDYVTFIGILTA 564

Query: 522 CSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPHQKDDV 581
           C+HAGLVDLGF+Y+ LM+++Y   PSKEHYGC+IDLLCRAGRLS+AE+M+ NMP   DDV
Sbjct: 565 CNHAGLVDLGFYYYKLMTNEYQIAPSKEHYGCIIDLLCRAGRLSEAEHMVRNMPFPCDDV 624

Query: 582 VWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMR 641
           VWSTLLRAC   GD++     AE++L LHP+ AG HITLANIY+A GR  EAA VRK+M+
Sbjct: 625 VWSTLLRACRDHGDLDRAIWAAEQMLRLHPNSAGAHITLANIYSASGRREEAAHVRKLMK 684

Query: 642 SKGVIKEPGWSRIKVKDQVSAFVSSDRRHSQGEDIYRMLDLLASRESDID-DLDSLVHD 699
           SKGVIKEPGWS I   DQ++ FV+  + H   + I  +L+LL +   D   D  S+V D
Sbjct: 685 SKGVIKEPGWSWINSNDQLNTFVAGVQSHPLSKQITTILELLRTSIGDARLDFGSIVED 743

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297815974|ref|XP_002875870.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata] gi|297321708|gb|EFH52129.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata]

 Score =  810 bits (2092), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 395/660 (59%), Positives = 499/660 (75%), Gaps = 3/660 (0%)

Query: 28  LLFQGTQLPVYVSTPEVNSQLKHLVKSGYLHDARKMFDTMTQRDEISWTTLISGYVKAMD 87
           LL +  +  + V T + NS L+ L+ +G L  AR++FD M  RD +SWT +I GYV A +
Sbjct: 21  LLEKPVEKTIQVVTFDTNSHLRSLINAGNLRVARQVFDKMPHRDIVSWTAIIKGYVTANN 80

Query: 88  SIEALALFS--RVWVEPQMNMDPFILSLALKACALNVNVNYGESLHGYTVKTGFVNSVFV 145
           S EA+ LFS  RV V+P ++ D  ++S+ LKAC  + N+ YGESLH Y VKT  ++SVFV
Sbjct: 81  SDEAMILFSAMRV-VDPAVSPDTSVVSVVLKACGQSSNIAYGESLHAYAVKTSLLSSVFV 139

Query: 146 GSALLDMYTKLGKIELGCRVFDEMPLRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKE 205
           GS+LLDMY ++GKIE  CRVF EMP RN V+WTAIITGLV AG  KEGL YF+EM  S+E
Sbjct: 140 GSSLLDMYKRVGKIEKSCRVFSEMPFRNAVTWTAIITGLVHAGRYKEGLTYFSEMSSSEE 199

Query: 206 QGDSYTFAIVLKASADSGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLR 265
             D++TFAI LKA A    + +G++IHT ++ RGFD   +VANSLATMY++CG++   L 
Sbjct: 200 LSDTFTFAIALKACAGLRQVKYGKQIHTHVIVRGFDATVWVANSLATMYTECGEMRDGLC 259

Query: 266 LFERMSTRDVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLAR 325
           LFE MS RDV+SWT++I +Y ++G EE A + F++M+ S V PNE TFA + SA A+L+R
Sbjct: 260 LFENMSERDVVSWTSLIVAYNRIGHEEKAVETFIKMRNSQVPPNEQTFATMFSACASLSR 319

Query: 326 IQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIRRDIISWSTIIGG 385
           + WGEQLH +V  LGL DSLSV+NS+M MYS CG+L S S++F GM  RDIISWSTIIGG
Sbjct: 320 LVWGEQLHCNVFSLGLNDSLSVSNSMMKMYSTCGKLDSASVLFQGMRCRDIISWSTIIGG 379

Query: 386 YSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERT 445
           YSQ G+ EEAF+Y + MR+ GP+P +FA AS+LSV GNMA+LE G+Q+HA     GLE+ 
Sbjct: 380 YSQAGFGEEAFKYFSWMRQSGPKPTDFALASLLSVSGNMAVLEGGRQVHALAFCFGLEQN 439

Query: 446 AMIKSALINMYSKCGSIKEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPM 505
           + ++S LINMYSKCG+IKEAS+IF ET+ DDIVS TAMINGYAEHG S+EAI LFEK   
Sbjct: 440 STVRSTLINMYSKCGNIKEASKIFEETDRDDIVSLTAMINGYAEHGKSKEAIDLFEKSLK 499

Query: 506 VGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLS 565
           VG  PDSVTF+ VLTAC+H+G +DLGFHYFNLM +KY   P+KEHYGCM+DLLCRAGRLS
Sbjct: 500 VGFSPDSVTFISVLTACTHSGQLDLGFHYFNLMQEKYNMRPAKEHYGCMVDLLCRAGRLS 559

Query: 566 DAENMIENMPHQKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYA 625
           +AE MI+ M  +KDDVVW+TLL AC  +GD+  GR  AE+ILEL P+CA   +TLANIY+
Sbjct: 560 EAEKMIDEMSWKKDDVVWTTLLIACKAKGDIERGRRAAERILELDPTCATALVTLANIYS 619

Query: 626 AKGRWREAAEVRKMMRSKGVIKEPGWSRIKVKDQVSAFVSSDRRHSQGEDIYRMLDLLAS 685
           + G   EAA VRK M++KGVIKEPGWS IK+KD VSAFVS DR H   EDIY +L+L+ S
Sbjct: 620 STGNLEEAANVRKNMKAKGVIKEPGWSSIKIKDCVSAFVSGDRFHPLSEDIYNILELVVS 679

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15228265|ref|NP_190368.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|75207726|sp|Q9STS9.1|PP268_ARATH RecName: Full=Putative pentatricopeptide repeat-containing protein At3g47840 gi|4741201|emb|CAB41867.1| putative protein [Arabidopsis thaliana] gi|332644818|gb|AEE78339.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana]

 Score =  802 bits (2072), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 387/643 (60%), Positives = 485/643 (75%), Gaps = 3/643 (0%)

Query: 45  NSQLKHLVKSGYLHDARKMFDTMTQRDEISWTTLISGYVKAMDSIEALALFS--RVWVEP 102
           NS L+ L+ +G L  AR++FD M   D +SWT++I  YV A +S EAL LFS  RV V+ 
Sbjct: 44  NSHLRSLINAGNLRAARQVFDKMPHGDIVSWTSIIKRYVTANNSDEALILFSAMRV-VDH 102

Query: 103 QMNMDPFILSLALKACALNVNVNYGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKIELG 162
            ++ D  +LS+ LKAC  + N+ YGESLH Y VKT  ++SV+VGS+LLDMY ++GKI+  
Sbjct: 103 AVSPDTSVLSVVLKACGQSSNIAYGESLHAYAVKTSLLSSVYVGSSLLDMYKRVGKIDKS 162

Query: 163 CRVFDEMPLRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADS 222
           CRVF EMP RN V+WTAIITGLV AG  KEGL YF+EM RS+E  D+YTFAI LKA A  
Sbjct: 163 CRVFSEMPFRNAVTWTAIITGLVHAGRYKEGLTYFSEMSRSEELSDTYTFAIALKACAGL 222

Query: 223 GALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMSTRDVISWTTII 282
             + +G+ IHT ++ RGF     VANSLATMY++CG++   L LFE MS RDV+SWT++I
Sbjct: 223 RQVKYGKAIHTHVIVRGFVTTLCVANSLATMYTECGEMQDGLCLFENMSERDVVSWTSLI 282

Query: 283 TSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLV 342
            +Y ++G+E  A + F++M+ S V PNE TFA++ SA A+L+R+ WGEQLH +VL LGL 
Sbjct: 283 VAYKRIGQEVKAVETFIKMRNSQVPPNEQTFASMFSACASLSRLVWGEQLHCNVLSLGLN 342

Query: 343 DSLSVANSIMAMYSKCGQLTSTSIVFHGMIRRDIISWSTIIGGYSQGGYEEEAFEYLALM 402
           DSLSV+NS+M MYS CG L S S++F GM  RDIISWSTIIGGY Q G+ EE F+Y + M
Sbjct: 343 DSLSVSNSMMKMYSTCGNLVSASVLFQGMRCRDIISWSTIIGGYCQAGFGEEGFKYFSWM 402

Query: 403 RREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSI 462
           R+ G +P +FA AS+LSV GNMA++E G+Q+HA  +  GLE+ + ++S+LINMYSKCGSI
Sbjct: 403 RQSGTKPTDFALASLLSVSGNMAVIEGGRQVHALALCFGLEQNSTVRSSLINMYSKCGSI 462

Query: 463 KEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTAC 522
           KEAS IF ET+ DDIVS TAMINGYAEHG S+EAI LFEK   VG RPDSVTF+ VLTAC
Sbjct: 463 KEASMIFGETDRDDIVSLTAMINGYAEHGKSKEAIDLFEKSLKVGFRPDSVTFISVLTAC 522

Query: 523 SHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPHQKDDVV 582
           +H+G +DLGFHYFN+M + Y   P+KEHYGCM+DLLCRAGRLSDAE MI  M  +KDDVV
Sbjct: 523 THSGQLDLGFHYFNMMQETYNMRPAKEHYGCMVDLLCRAGRLSDAEKMINEMSWKKDDVV 582

Query: 583 WSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRS 642
           W+TLL AC  +GD+  GR  AE+ILEL P+CA   +TLANIY++ G   EAA VRK M++
Sbjct: 583 WTTLLIACKAKGDIERGRRAAERILELDPTCATALVTLANIYSSTGNLEEAANVRKNMKA 642

Query: 643 KGVIKEPGWSRIKVKDQVSAFVSSDRRHSQGEDIYRMLDLLAS 685
           KGVIKEPGWS IK+KD VSAFVS DR H Q EDIY +L+L  S
Sbjct: 643 KGVIKEPGWSSIKIKDCVSAFVSGDRFHPQSEDIYNILELAVS 685

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

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	702
TAIR|locus:2100392	706	AT3G47840 [Arabidopsis thalian	0.911	0.906	0.601	1.1e-206
TAIR|locus:2078653	825	AT3G02010 [Arabidopsis thalian	0.950	0.808	0.338	6e-116
TAIR|locus:2119440	1064	AT4G13650 [Arabidopsis thalian	0.954	0.629	0.343	5.9e-112
TAIR|locus:2098901	783	AT3G61170 [Arabidopsis thalian	0.658	0.590	0.330	8.2e-112
TAIR|locus:2124137	871	DOT4 "DEFECTIVELY ORGANIZED TR	0.923	0.743	0.350	1.2e-111
TAIR|locus:2038603	868	AT2G27610 "AT2G27610" [Arabido	0.918	0.743	0.356	2.6e-111
TAIR|locus:2122551	834	AT4G39530 [Arabidopsis thalian	0.923	0.776	0.343	5.3e-111
TAIR|locus:2196583	866	ECB2 "EARLY CHLOROPLAST BIOGEN	0.913	0.740	0.347	3.9e-110
TAIR|locus:2057630	727	AT2G33680 "AT2G33680" [Arabido	0.933	0.900	0.354	4.8e-110
TAIR|locus:2082886	850	EMB2261 "embryo defective 2261	0.933	0.770	0.345	7e-109

TAIR|locus:2100392 AT3G47840 [Arabidopsis thaliana (taxid:3702)]

 Score = 1999 (708.7 bits), Expect = 1.1e-206, P = 1.1e-206
 Identities = 387/643 (60%), Positives = 485/643 (75%)

Query:    45 NSQLKHLVKSGYLHDARKMFDTMTQRDEISWTTLISGYVKAMDSIEALALFS--RVWVEP 102
             NS L+ L+ +G L  AR++FD M   D +SWT++I  YV A +S EAL LFS  RV V+ 
Sbjct:    44 NSHLRSLINAGNLRAARQVFDKMPHGDIVSWTSIIKRYVTANNSDEALILFSAMRV-VDH 102

Query:   103 QMNMDPFILSLALKACALNVNVNYGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKIELG 162
              ++ D  +LS+ LKAC  + N+ YGESLH Y VKT  ++SV+VGS+LLDMY ++GKI+  
Sbjct:   103 AVSPDTSVLSVVLKACGQSSNIAYGESLHAYAVKTSLLSSVYVGSSLLDMYKRVGKIDKS 162

Query:   163 CRVFDEMPLRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADS 222
             CRVF EMP RN V+WTAIITGLV AG  KEGL YF+EM RS+E  D+YTFAI LKA A  
Sbjct:   163 CRVFSEMPFRNAVTWTAIITGLVHAGRYKEGLTYFSEMSRSEELSDTYTFAIALKACAGL 222

Query:   223 GALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMSTRDVISWTTII 282
               + +G+ IHT ++ RGF     VANSLATMY++CG++   L LFE MS RDV+SWT++I
Sbjct:   223 RQVKYGKAIHTHVIVRGFVTTLCVANSLATMYTECGEMQDGLCLFENMSERDVVSWTSLI 282

Query:   283 TSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLV 342
              +Y ++G+E  A + F++M+ S V PNE TFA++ SA A+L+R+ WGEQLH +VL LGL 
Sbjct:   283 VAYKRIGQEVKAVETFIKMRNSQVPPNEQTFASMFSACASLSRLVWGEQLHCNVLSLGLN 342

Query:   343 DSLSVANSIMAMYSKCGQLTSTSIVFHGMIRRDIISWSTIIGGYSQGGYEEEAFEYLALM 402
             DSLSV+NS+M MYS CG L S S++F GM  RDIISWSTIIGGY Q G+ EE F+Y + M
Sbjct:   343 DSLSVSNSMMKMYSTCGNLVSASVLFQGMRCRDIISWSTIIGGYCQAGFGEEGFKYFSWM 402

Query:   403 RREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSI 462
             R+ G +P +FA AS+LSV GNMA++E G+Q+HA  +  GLE+ + ++S+LINMYSKCGSI
Sbjct:   403 RQSGTKPTDFALASLLSVSGNMAVIEGGRQVHALALCFGLEQNSTVRSSLINMYSKCGSI 462

Query:   463 KEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTAC 522
             KEAS IF ET+ DDIVS TAMINGYAEHG S+EAI LFEK   VG RPDSVTF+ VLTAC
Sbjct:   463 KEASMIFGETDRDDIVSLTAMINGYAEHGKSKEAIDLFEKSLKVGFRPDSVTFISVLTAC 522

Query:   523 SHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPHQKDDVV 582
             +H+G +DLGFHYFN+M + Y   P+KEHYGCM+DLLCRAGRLSDAE MI  M  +KDDVV
Sbjct:   523 THSGQLDLGFHYFNMMQETYNMRPAKEHYGCMVDLLCRAGRLSDAEKMINEMSWKKDDVV 582

Query:   583 WSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRS 642
             W+TLL AC  +GD+  GR  AE+ILEL P+CA   +TLANIY++ G   EAA VRK M++
Sbjct:   583 WTTLLIACKAKGDIERGRRAAERILELDPTCATALVTLANIYSSTGNLEEAANVRKNMKA 642

Query:   643 KGVIKEPGWSRIKVKDQVSAFVSSDRRHSQGEDIYRMLDLLAS 685
             KGVIKEPGWS IK+KD VSAFVS DR H Q EDIY +L+L  S
Sbjct:   643 KGVIKEPGWSSIKIKDCVSAFVSGDRFHPQSEDIYNILELAVS 685

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2078653 AT3G02010 [Arabidopsis thaliana (taxid:3702)]

 Score = 1077 (384.2 bits), Expect = 6.0e-116, Sum P(2) = 6.0e-116
 Identities = 229/677 (33%), Positives = 370/677 (54%)

Query:    34 QLPVYVSTPEVNSQLKHLVKSGYLHDARKMFDTMTQRDEISWTTLISGYVKAMDSIEALA 93
             ++P + +T   N+ +   VK+G +  AR +FD M  R  ++WT L+  Y +     EA  
Sbjct:    73 EMP-HKNTVSTNTMISGHVKTGDVSSARDLFDAMPDRTVVTWTILMGWYARNSHFDEAFK 131

Query:    94 LFSRVWVEPQMNM-DPFILSLALKACALNVNVNYGESLHGYTVKTGFVNSVF--VGSALL 150
             LF ++       + D    +  L  C   V  N    +H + VK GF  + F  V + LL
Sbjct:   132 LFRQMCRSSSCTLPDHVTFTTLLPGCNDAVPQNAVGQVHAFAVKLGFDTNPFLTVSNVLL 191

Query:   151 DMYTKLGKIELGCRVFDEMPLRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSY 210
               Y ++ +++L C +F+E+P ++ V++  +ITG  + G   E +  F +M +S  Q   +
Sbjct:   192 KSYCEVRRLDLACVLFEEIPEKDSVTFNTLITGYEKDGLYTESIHLFLKMRQSGHQPSDF 251

Query:   211 TFAIVLKASADSGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERM 270
             TF+ VLKA         G+++H + +  GF   + V N +   YSK  ++  +  LF+ M
Sbjct:   252 TFSGVLKAVVGLHDFALGQQLHALSVTTGFSRDASVGNQILDFYSKHDRVLETRMLFDEM 311

Query:   271 STRDVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGE 330
                D +S+  +I+SY Q  + E +   F  MQ        + FA ++S +ANL+ +Q G 
Sbjct:   312 PELDFVSYNVVISSYSQADQYEASLHFFREMQCMGFDRRNFPFATMLSIAANLSSLQMGR 371

Query:   331 QLHAHVLRLGLVDS-LSVANSIMAMYSKCGQLTSTSIVFHGMIRRDIISWSTIIGGYSQG 389
             QLH   L L   DS L V NS++ MY+KC       ++F  + +R  +SW+ +I GY Q 
Sbjct:   372 QLHCQAL-LATADSILHVGNSLVDMYAKCEMFEEAELIFKSLPQRTTVSWTALISGYVQK 430

Query:   390 GYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIK 449
             G      +    MR    R ++  FA+VL    + A L  GKQ+HA ++  G        
Sbjct:   431 GLHGAGLKLFTKMRGSNLRADQSTFATVLKASASFASLLLGKQLHAFIIRSGNLENVFSG 490

Query:   450 SALINMYSKCGSIKEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLR 509
             S L++MY+KCGSIK+A Q+F E    + VSW A+I+ +A++G  + AI  F K+   GL+
Sbjct:   491 SGLVDMYAKCGSIKDAVQVFEEMPDRNAVSWNALISAHADNGDGEAAIGAFAKMIESGLQ 550

Query:   510 PDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAEN 569
             PDSV+ +GVLTACSH G V+ G  YF  MS  YG  P K+HY CM+DLL R GR ++AE 
Sbjct:   551 PDSVSILGVLTACSHCGFVEQGTEYFQAMSPIYGITPKKKHYACMLDLLGRNGRFAEAEK 610

Query:   570 MIENMPHQKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHP-SCAGTHITLANIYAAKG 628
             +++ MP + D+++WS++L AC +  + +     AEK+  +     A  +++++NIYAA G
Sbjct:   611 LMDEMPFEPDEIMWSSVLNACRIHKNQSLAERAAEKLFSMEKLRDAAAYVSMSNIYAAAG 670

Query:   629 RWREAAEVRKMMRSKGVIKEPGWSRIKVKDQVSAFVSSDRRHSQGEDIYRMLDLLAS--- 685
              W +  +V+K MR +G+ K P +S ++V  ++  F S+D+ H  G++I R ++ L +   
Sbjct:   671 EWEKVRDVKKAMRERGIKKVPAYSWVEVNHKIHVFSSNDQTHPNGDEIVRKINELTAEIE 730

Query:   686 RESDIDDLDSLVHDAED 702
             RE    D  S+V D ++
Sbjct:   731 REGYKPDTSSVVQDVDE 747

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2119440 AT4G13650 [Arabidopsis thaliana (taxid:3702)]

 Score = 1105 (394.0 bits), Expect = 5.9e-112, P = 5.9e-112
 Identities = 233/678 (34%), Positives = 369/678 (54%)

Query:    27 LLLFQGTQLPVYVSTPEVNSQLKHLVKSGYLHDARKMFDTMTQRDEISWTTLISGYVKAM 86
             L+L  G     YV    V+    HL   G L  A  +F  M+QRD +++ TLI+G  +  
Sbjct:   313 LVLKLGFSSDTYVCNALVSLYF-HL---GNLISAEHIFSNMSQRDAVTYNTLINGLSQCG 368

Query:    87 DSIEALALFSRVWVEPQMNMDPFILSLALKACALNVNVNYGESLHGYTVKTGFVNSVFVG 146
                +A+ LF R+ ++  +  D   L+  + AC+ +  +  G+ LH YT K GF ++  + 
Sbjct:   369 YGEKAMELFKRMHLDG-LEPDSNTLASLVVACSADGTLFRGQQLHAYTTKLGFASNNKIE 427

Query:   147 SALLDMYTKLGKIELGCRVFDEMPLRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQ 206
              ALL++Y K   IE     F E  + NVV W  ++         +     F +M   +  
Sbjct:   428 GALLNLYAKCADIETALDYFLETEVENVVLWNVMLVAYGLLDDLRNSFRIFRQMQIEEIV 487

Query:   207 GDSYTFAIVLKASADSGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRL 266
              + YT+  +LK     G L  G +IH+ ++K  F + ++V + L  MY+K GKLD +  +
Sbjct:   488 PNQYTYPSILKTCIRLGDLELGEQIHSQIIKTNFQLNAYVCSVLIDMYAKLGKLDTAWDI 547

Query:   267 FERMSTRDVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARI 326
               R + +DV+SWTT+I  Y Q   ++ A   F +M +  ++ +E      +SA A L  +
Sbjct:   548 LIRFAGKDVVSWTTMIAGYTQYNFDDKALTTFRQMLDRGIRSDEVGLTNAVSACAGLQAL 607

Query:   327 QWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIRRDIISWSTIIGGY 386
             + G+Q+HA     G    L   N+++ +YS+CG++  + + F      D I+W+ ++ G+
Sbjct:   608 KEGQQIHAQACVSGFSSDLPFQNALVTLYSRCGKIEESYLAFEQTEAGDNIAWNALVSGF 667

Query:   387 SQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTA 446
              Q G  EEA      M REG   N F F S +      A ++QGKQ+HA +   G +   
Sbjct:   668 QQSGNNEEALRVFVRMNREGIDNNNFTFGSAVKAASETANMKQGKQVHAVITKTGYDSET 727

Query:   447 MIKSALINMYSKCGSIKEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMV 506
              + +ALI+MY+KCGSI +A + F E  + + VSW A+IN Y++HG+  EA+  F+++   
Sbjct:   728 EVCNALISMYAKCGSISDAEKQFLEVSTKNEVSWNAIINAYSKHGFGSEALDSFDQMIHS 787

Query:   507 GLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSD 566
              +RP+ VT +GVL+ACSH GLVD G  YF  M+ +YG  P  EHY C++D+L RAG LS 
Sbjct:   788 NVRPNHVTLVGVLSACSHIGLVDKGIAYFESMNSEYGLSPKPEHYVCVVDMLTRAGLLSR 847

Query:   567 AENMIENMPHQKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAA 626
             A+  I+ MP + D +VW TLL AC+V  ++  G   A  +LEL P  + T++ L+N+YA 
Sbjct:   848 AKEFIQEMPIKPDALVWRTLLSACVVHKNMEIGEFAAHHLLELEPEDSATYVLLSNLYAV 907

Query:   627 KGRWREAAEVRKMMRSKGVIKEPGWSRIKVKDQVSAFVSSDRRHSQGEDIYRMLDLLASR 686
               +W      R+ M+ KGV KEPG S I+VK+ + +F   D+ H   ++I+     L  R
Sbjct:   908 SKKWDARDLTRQKMKEKGVKKEPGQSWIEVKNSIHSFYVGDQNHPLADEIHEYFQDLTKR 967

Query:   687 ESDI---DDLDSLVHDAE 701
              S+I    D  SL+++ +
Sbjct:   968 ASEIGYVQDCFSLLNELQ 985

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2098901 AT3G61170 [Arabidopsis thaliana (taxid:3702)]

 Score = 694 (249.4 bits), Expect = 8.2e-112, Sum P(3) = 8.2e-112
 Identities = 156/472 (33%), Positives = 257/472 (54%)

Query:    45 NSQLKHLVKSGYLHDARKMFDTMTQRDEISWTTLISGYVKAMDSIEALALFSRVWVEPQM 104
             N+ +     S  L DA K+F +   ++ ISW  LISGY K+   +EA  LF   W     
Sbjct:    63 NTMIVAYSNSRRLSDAEKLFRSNPVKNTISWNALISGYCKSGSKVEAFNLF---WEMQSD 119

Query:   105 NMDP--FILSLALKACALNVNVNYGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKIELG 162
              + P  + L   L+ C   V +  GE +HG+T+KTGF   V V + LL MY +  +I   
Sbjct:   120 GIKPNEYTLGSVLRMCTSLVLLLRGEQIHGHTIKTGFDLDVNVVNGLLAMYAQCKRISEA 179

Query:   163 CRVFDEMP-LRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASAD 221
               +F+ M   +N V+WT+++TG  + G   + +  F ++ R   Q + YTF  VL A A 
Sbjct:   180 EYLFETMEGEKNNVTWTSMLTGYSQNGFAFKAIECFRDLRREGNQSNQYTFPSVLTACAS 239

Query:   222 SGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMSTRDVISWTTI 281
               A   G ++H  ++K GF    +V ++L  MY+KC +++ +  L E M   DV+SW ++
Sbjct:   240 VSACRVGVQVHCCIVKSGFKTNIYVQSALIDMYAKCREMESARALLEGMEVDDVVSWNSM 299

Query:   282 ITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQW--GEQLHAHVLRL 339
             I   V+ G    A   F RM E D+K +++T  +I++  A L+R +       H  +++ 
Sbjct:   300 IVGCVRQGLIGEALSMFGRMHERDMKIDDFTIPSILNCFA-LSRTEMKIASSAHCLIVKT 358

Query:   340 GLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIRRDIISWSTIIGGYSQGGYEEEAFEYL 399
             G      V N+++ MY+K G + S   VF GMI +D+ISW+ ++ G +  G  +EA +  
Sbjct:   359 GYATYKLVNNALVDMYAKRGIMDSALKVFEGMIEKDVISWTALVTGNTHNGSYDEALKLF 418

Query:   400 ALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKC 459
               MR  G  P++   ASVLS    + +LE G+Q+H + +  G   +  + ++L+ MY+KC
Sbjct:   419 CNMRVGGITPDKIVTASVLSASAELTLLEFGQQVHGNYIKSGFPSSLSVNNSLVTMYTKC 478

Query:   460 GSIKEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMV-GLRP 510
             GS+++A+ IF   E  D+++WT +I GYA++G  ++A   F+ +  V G+ P
Sbjct:   479 GSLEDANVIFNSMEIRDLITWTCLIVGYAKNGLLEDAQRYFDSMRTVYGITP 530

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2124137 DOT4 "DEFECTIVELY ORGANIZED TRIBUTARIES 4" [Arabidopsis thaliana (taxid:3702)]

 Score = 1102 (393.0 bits), Expect = 1.2e-111, P = 1.2e-111
 Identities = 228/651 (35%), Positives = 365/651 (56%)

Query:    38 YVSTPEVNSQLKHLVKS-GYLHDARKMFDTMTQRDEISWTTLISGYVKAMDSIEALALFS 96
             +V    + S+L  +  + G L +A ++FD +     + W  L++   K+ D   ++ LF 
Sbjct:   125 FVIDSNLGSKLSLMYTNCGDLKEASRVFDEVKIEKALFWNILMNELAKSGDFSGSIGLFK 184

Query:    97 RVWVEPQMNMDPFILSLALKACALNVNVNYGESLHGYTVKTGFVNSVFVGSALLDMYTKL 156
             ++ +   + MD +  S   K+ +   +V+ GE LHG+ +K+GF     VG++L+  Y K 
Sbjct:   185 KM-MSSGVEMDSYTFSCVSKSFSSLRSVHGGEQLHGFILKSGFGERNSVGNSLVAFYLKN 243

Query:   157 GKIELGCRVFDEMPLRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVL 216
              +++   +VFDEM  R+V+SW +II G V  G  ++GL  F +M  S  + D  T   V 
Sbjct:   244 QRVDSARKVFDEMTERDVISWNSIINGYVSNGLAEKGLSVFVQMLVSGIEIDLATIVSVF 303

Query:   217 KASADSGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMSTRDVI 276
                ADS  ++ GR +H+I +K  F       N+L  MYSKCG LD +  +F  MS R V+
Sbjct:   304 AGCADSRLISLGRAVHSIGVKACFSREDRFCNTLLDMYSKCGDLDSAKAVFREMSDRSVV 363

Query:   277 SWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHV 336
             S+T++I  Y + G    A   F  M+E  + P+ YT  A+++  A    +  G+++H  +
Sbjct:   364 SYTSMIAGYAREGLAGEAVKLFEEMEEEGISPDVYTVTAVLNCCARYRLLDEGKRVHEWI 423

Query:   337 LRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIRRDIISWSTIIGGYSQGGYEEEAF 396
                 L   + V+N++M MY+KCG +    +VF  M  +DIISW+TIIGGYS+  Y  EA 
Sbjct:   424 KENDLGFDIFVSNALMDMYAKCGSMQEAELVFSEMRVKDIISWNTIIGGYSKNCYANEAL 483

Query:   397 EYLALMRREGP-RPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINM 455
                 L+  E    P+E   A VL  C +++  ++G++IH ++M  G      + ++L++M
Sbjct:   484 SLFNLLLEEKRFSPDERTVACVLPACASLSAFDKGREIHGYIMRNGYFSDRHVANSLVDM 543

Query:   456 YSKCGSIKEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTF 515
             Y+KCG++  A  +F +  S D+VSWT MI GY  HG+ +EAI LF ++   G+  D ++F
Sbjct:   544 YAKCGALLLAHMLFDDIASKDLVSWTVMIAGYGMHGFGKEAIALFNQMRQAGIEADEISF 603

Query:   516 MGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMP 575
             + +L ACSH+GLVD G+ +FN+M  +    P+ EHY C++D+L R G L  A   IENMP
Sbjct:   604 VSLLYACSHSGLVDEGWRFFNIMRHECKIEPTVEHYACIVDMLARTGDLIKAYRFIENMP 663

Query:   576 HQKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAE 635
                D  +W  LL  C +  DV      AEK+ EL P   G ++ +ANIYA   +W +   
Sbjct:   664 IPPDATIWGALLCGCRIHHDVKLAEKVAEKVFELEPENTGYYVLMANIYAEAEKWEQVKR 723

Query:   636 VRKMMRSKGVIKEPGWSRIKVKDQVSAFVSSDRRHSQGEDIYRMLDLLASR 686
             +RK +  +G+ K PG S I++K +V+ FV+ D  + + E+I   L  + +R
Sbjct:   724 LRKRIGQRGLRKNPGCSWIEIKGRVNIFVAGDSSNPETENIEAFLRKVRAR 774

GO:0009507 "chloroplast" evidence=ISM

GO:0010087 "phloem or xylem histogenesis" evidence=IMP

GO:0010305 "leaf vascular tissue pattern formation" evidence=IMP

GO:0010588 "cotyledon vascular tissue pattern formation" evidence=IMP

GO:0048366 "leaf development" evidence=IMP

TAIR|locus:2038603 AT2G27610 "AT2G27610" [Arabidopsis thaliana (taxid:3702)]

 Score = 1099 (391.9 bits), Expect = 2.6e-111, P = 2.6e-111
 Identities = 234/657 (35%), Positives = 378/657 (57%)

Query:    52 VKSGYLHDARKMFDTMTQRDEISWTTLISGYVKAMDSIEALALFSRVWVE-PQMNMDPFI 110
             +K     D RK+FD M +R+ ++WTTLISGY +   + E L LF R+  E  Q N   F 
Sbjct:   139 MKGSNFKDGRKVFDEMKERNVVTWTTLISGYARNSMNDEVLTLFMRMQNEGTQPNS--FT 196

Query:   111 LSLALKACALNVNVNYGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKIELGCRVFDEMP 170
              + AL   A       G  +H   VK G   ++ V ++L+++Y K G +     +FD+  
Sbjct:   197 FAAALGVLAEEGVGGRGLQVHTVVVKNGLDKTIPVSNSLINLYLKCGNVRKARILFDKTE 256

Query:   171 LRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSGALNFGRE 230
             +++VV+W ++I+G    G + E L  F  M  +  +    +FA V+K  A+   L F  +
Sbjct:   257 VKSVVTWNSMISGYAANGLDLEALGMFYSMRLNYVRLSESSFASVIKLCANLKELRFTEQ 316

Query:   231 IHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMS-TRDVISWTTIITSYVQMG 289
             +H  ++K GF     +  +L   YSKC  +  +LRLF+ +    +V+SWT +I+ ++Q  
Sbjct:   317 LHCSVVKYGFLFDQNIRTALMVAYSKCTAMLDALRLFKEIGCVGNVVSWTAMISGFLQND 376

Query:   290 EEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVAN 349
              +E A D F  M+   V+PNE+T++ I++A   L  I   E +HA V++     S +V  
Sbjct:   377 GKEEAVDLFSEMKRKGVRPNEFTYSVILTA---LPVISPSE-VHAQVVKTNYERSSTVGT 432

Query:   350 SIMAMYSKCGQLTSTSIVFHGMIRRDIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRP 409
             +++  Y K G++   + VF G+  +DI++WS ++ GY+Q G  E A +    + + G +P
Sbjct:   433 ALLDAYVKLGKVEEAAKVFSGIDDKDIVAWSAMLAGYAQTGETEAAIKMFGELTKGGIKP 492

Query:   410 NEFAFASVLSVCG-NMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQI 468
             NEF F+S+L+VC    A + QGKQ H   +   L+ +  + SAL+ MY+K G+I+ A ++
Sbjct:   493 NEFTFSSILNVCAATNASMGQGKQFHGFAIKSRLDSSLCVSSALLTMYAKKGNIESAEEV 552

Query:   469 FYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLV 528
             F      D+VSW +MI+GYA+HG + +A+ +F+++    ++ D VTF+GV  AC+HAGLV
Sbjct:   553 FKRQREKDLVSWNSMISGYAQHGQAMKALDVFKEMKKRKVKMDGVTFIGVFAACTHAGLV 612

Query:   529 DLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPHQKDDVVWSTLLR 588
             + G  YF++M       P+KEH  CM+DL  RAG+L  A  +IENMP+     +W T+L 
Sbjct:   613 EEGEKYFDIMVRDCKIAPTKEHNSCMVDLYSRAGQLEKAMKVIENMPNPAGSTIWRTILA 672

Query:   589 ACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKGVIKE 648
             AC V      GR  AEKI+ + P  +  ++ L+N+YA  G W+E A+VRK+M  + V KE
Sbjct:   673 ACRVHKKTELGRLAAEKIIAMKPEDSAAYVLLSNMYAESGDWQERAKVRKLMNERNVKKE 732

Query:   649 PGWSRIKVKDQVSAFVSSDRRHSQGEDIYRMLDLLASRESDID---DLDSLVHDAED 702
             PG+S I+VK++  +F++ DR H   + IY  L+ L++R  D+    D   ++ D +D
Sbjct:   733 PGYSWIEVKNKTYSFLAGDRSHPLKDQIYMKLEDLSTRLKDLGYEPDTSYVLQDIDD 789

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2122551 AT4G39530 [Arabidopsis thaliana (taxid:3702)]

 Score = 1096 (390.9 bits), Expect = 5.3e-111, P = 5.3e-111
 Identities = 226/657 (34%), Positives = 377/657 (57%)

Query:    28 LLFQGTQLPVYVSTPEVNSQLKHLVKSGYLHDARKMFDTMTQRDEISWTTLISGYVKAMD 87
             L+  G    VYV T  ++  LK     G +  AR +FD + ++  ++WTT+ISG VK   
Sbjct:   174 LVKSGFDRDVYVGTLLIDFYLK----DGNIDYARLVFDALPEKSTVTWTTMISGCVKMGR 229

Query:    88 SIEALALFSRVWVEPQMNMDPFILSLALKACALNVNVNYGESLHGYTVKTGFVNSVFVGS 147
             S  +L LF ++ +E  +  D +ILS  L AC++   +  G+ +H + ++ G      + +
Sbjct:   230 SYVSLQLFYQL-MEDNVVPDGYILSTVLSACSILPFLEGGKQIHAHILRYGLEMDASLMN 288

Query:   148 ALLDMYTKLGKIELGCRVFDEMPLRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQG 207
              L+D Y K G++    ++F+ MP +N++SWT +++G  +   +KE +  F  M +   + 
Sbjct:   289 VLIDSYVKCGRVIAAHKLFNGMPNKNIISWTTLLSGYKQNALHKEAMELFTSMSKFGLKP 348

Query:   208 DSYTFAIVLKASADSGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLF 267
             D Y  + +L + A   AL FG ++H   +K      S+V NSL  MY+KC  L  + ++F
Sbjct:   349 DMYACSSILTSCASLHALGFGTQVHAYTIKANLGNDSYVTNSLIDMYAKCDCLTDARKVF 408

Query:   268 ERMSTRDVISWTTIITSYVQMG---EEENAFDAFVRMQESDVKPNEYTFAAIISASANLA 324
             +  +  DV+ +  +I  Y ++G   E   A + F  M+   ++P+  TF +++ ASA+L 
Sbjct:   409 DIFAAADVVLFNAMIEGYSRLGTQWELHEALNIFRDMRFRLIRPSLLTFVSLLRASASLT 468

Query:   325 RIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIRRDIISWSTIIG 384
              +   +Q+H  + + GL   +   ++++ +YS C  L  + +VF  M  +D++ W+++  
Sbjct:   469 SLGLSKQIHGLMFKYGLNLDIFAGSALIDVYSNCYCLKDSRLVFDEMKVKDLVIWNSMFA 528

Query:   385 GYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLER 444
             GY Q    EEA      ++    RP+EF FA++++  GN+A ++ G++ H  ++  GLE 
Sbjct:   529 GYVQQSENEEALNLFLELQLSRERPDEFTFANMVTAAGNLASVQLGQEFHCQLLKRGLEC 588

Query:   445 TAMIKSALINMYSKCGSIKEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVP 504
                I +AL++MY+KCGS ++A + F    S D+V W ++I+ YA HG  ++A+ + EK+ 
Sbjct:   589 NPYITNALLDMYAKCGSPEDAHKAFDSAASRDVVCWNSVISSYANHGEGKKALQMLEKMM 648

Query:   505 MVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRL 564
               G+ P+ +TF+GVL+ACSHAGLV+ G   F LM  ++G  P  EHY CM+ LL RAGRL
Sbjct:   649 SEGIEPNYITFVGVLSACSHAGLVEDGLKQFELML-RFGIEPETEHYVCMVSLLGRAGRL 707

Query:   565 SDAENMIENMPHQKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIY 624
             + A  +IE MP +   +VW +LL  C   G+V    H AE  +   P  +G+   L+NIY
Sbjct:   708 NKARELIEKMPTKPAAIVWRSLLSGCAKAGNVELAEHAAEMAILSDPKDSGSFTMLSNIY 767

Query:   625 AAKGRWREAAEVRKMMRSKGVIKEPGWSRIKVKDQVSAFVSSDRRHSQGEDIYRMLD 681
             A+KG W EA +VR+ M+ +GV+KEPG S I +  +V  F+S D+ H +   IY +LD
Sbjct:   768 ASKGMWTEAKKVRERMKVEGVVKEPGRSWIGINKEVHIFLSKDKSHCKANQIYEVLD 824

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2196583 ECB2 "EARLY CHLOROPLAST BIOGENESIS2" [Arabidopsis thaliana (taxid:3702)]

 Score = 1059 (377.8 bits), Expect = 3.9e-110, Sum P(2) = 3.9e-110
 Identities = 225/648 (34%), Positives = 354/648 (54%)

Query:    45 NSQLKHLVKSGYLHDARKMFDTMTQRDEISWTTLISGYVKAMDSIEALALFSRV-WVEPQ 103
             N+ L   V+ G L DA  +F  M++R+  SW  L+ GY K     EA+ L+ R+ WV   
Sbjct:   133 NAFLAMFVRFGNLVDAWYVFGKMSERNLFSWNVLVGGYAKQGYFDEAMCLYHRMLWVGG- 191

Query:   104 MNMDPFILSLALKACALNVNVNYGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKIELGC 163
             +  D +     L+ C    ++  G+ +H + V+ G+   + V +AL+ MY K G ++   
Sbjct:   192 VKPDVYTFPCVLRTCGGIPDLARGKEVHVHVVRYGYELDIDVVNALITMYVKCGDVKSAR 251

Query:   164 RVFDEMPLRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSG 223
              +FD MP R+++SW A+I+G    G   EGL  F  M       D  T   V+ A    G
Sbjct:   252 LLFDRMPRRDIISWNAMISGYFENGMCHEGLELFFAMRGLSVDPDLMTLTSVISACELLG 311

Query:   224 ALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMSTRDVISWTTIIT 283
                 GR+IH  ++  GF V   V NSL  MY   G    + +LF RM  +D++SWTT+I+
Sbjct:   312 DRRLGRDIHAYVITTGFAVDISVCNSLTQMYLNAGSWREAEKLFSRMERKDIVSWTTMIS 371

Query:   284 SYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLVD 343
              Y      + A D +  M +  VKP+E T AA++SA A L  +  G +LH   ++  L+ 
Sbjct:   372 GYEYNFLPDKAIDTYRMMDQDSVKPDEITVAAVLSACATLGDLDTGVELHKLAIKARLIS 431

Query:   344 SLSVANSIMAMYSKCGQLTSTSIVFHGMIRRDIISWSTIIGGYSQGGYEEEAFEYLALMR 403
              + VAN+++ MYSKC  +     +FH + R+++ISW++II G        EA  +L  M+
Sbjct:   432 YVIVANNLINMYSKCKCIDKALDIFHNIPRKNVISWTSIIAGLRLNNRCFEALIFLRQMK 491

Query:   404 REGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIK 463
                 +PN     + L+ C  +  L  GK+IHAHV+  G+     + +AL++MY +CG + 
Sbjct:   492 MT-LQPNAITLTAALAACARIGALMCGKEIHAHVLRTGVGLDDFLPNALLDMYVRCGRMN 550

Query:   464 EA-SQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTAC 522
              A SQ  + ++  D+ SW  ++ GY+E G     + LF+++    +RPD +TF+ +L  C
Sbjct:   551 TAWSQ--FNSQKKDVTSWNILLTGYSERGQGSMVVELFDRMVKSRVRPDEITFISLLCGC 608

Query:   523 SHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPHQKDDVV 582
             S + +V  G  YF+ M D YG  P+ +HY C++DLL RAG L +A   I+ MP   D  V
Sbjct:   609 SKSQMVRQGLMYFSKMED-YGVTPNLKHYACVVDLLGRAGELQEAHKFIQKMPVTPDPAV 667

Query:   583 WSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRS 642
             W  LL AC +   ++ G  +A+ I EL     G +I L N+YA  G+WRE A+VR+MM+ 
Sbjct:   668 WGALLNACRIHHKIDLGELSAQHIFELDKKSVGYYILLCNLYADCGKWREVAKVRRMMKE 727

Query:   643 KGVIKEPGWSRIKVKDQVSAFVSSDRRHSQGEDIYRMLDLLASRESDI 690
              G+  + G S ++VK +V AF+S D+ H Q ++I  +L+    + S++
Sbjct:   728 NGLTVDAGCSWVEVKGKVHAFLSDDKYHPQTKEINTVLEGFYEKMSEV 775

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0009451 "RNA modification" evidence=IMP

GO:0009658 "chloroplast organization" evidence=IMP

GO:0040007 "growth" evidence=IMP

GO:0009416 "response to light stimulus" evidence=IEP

TAIR|locus:2057630 AT2G33680 "AT2G33680" [Arabidopsis thaliana (taxid:3702)]

 Score = 1087 (387.7 bits), Expect = 4.8e-110, P = 4.8e-110
 Identities = 237/668 (35%), Positives = 368/668 (55%)

Query:    45 NSQLKHLVKSGYLHDARKMFDTMTQRDEISWTTLISGYVK---AMDSIEALALFSRVWVE 101
             N  +    K G L  A  +F+ +  +D +SW +LI+GY +      S   + LF  +  +
Sbjct:    53 NVLVNFYAKCGKLAKAHSIFNAIICKDVVSWNSLITGYSQNGGISSSYTVMQLFREMRAQ 112

Query:   102 PQMNMDPFILSLALKACALNVNVNYGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKIEL 161
               +  + + L+   KA +   +   G   H   VK      ++V ++L+ MY K G +E 
Sbjct:   113 DILP-NAYTLAGIFKAESSLQSSTVGRQAHALVVKMSSFGDIYVDTSLVGMYCKAGLVED 171

Query:   162 GCRVFDEMPLRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQG-DS-YTFAIVLKAS 219
             G +VF  MP RN  +W+ +++G    G  +E +  F    R KE+G DS Y F  VL + 
Sbjct:   172 GLKVFAYMPERNTYTWSTMVSGYATRGRVEEAIKVFNLFLREKEEGSDSDYVFTAVLSSL 231

Query:   220 ADSGALNFGREIHTIMLKRGFDVVSFVA--NSLATMYSKCGKLDYSLRLFERMSTRDVIS 277
             A +  +  GR+IH I +K G  ++ FVA  N+L TMYSKC  L+ + ++F+    R+ I+
Sbjct:   232 AATIYVGLGRQIHCITIKNG--LLGFVALSNALVTMYSKCESLNEACKMFDSSGDRNSIT 289

Query:   278 WTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVL 337
             W+ ++T Y Q GE   A   F RM  + +KP+EYT   +++A +++  ++ G+QLH+ +L
Sbjct:   290 WSAMVTGYSQNGESLEAVKLFSRMFSAGIKPSEYTIVGVLNACSDICYLEEGKQLHSFLL 349

Query:   338 RLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIRRDIISWSTIIGGYSQGGYEEEAFE 397
             +LG    L    +++ MY+K G L      F  +  RD+  W+++I GY Q    EEA  
Sbjct:   350 KLGFERHLFATTALVDMYAKAGCLADARKGFDCLQERDVALWTSLISGYVQNSDNEEALI 409

Query:   398 YLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYS 457
                 M+  G  PN+   ASVL  C ++A LE GKQ+H H +  G      I SAL  MYS
Sbjct:   410 LYRRMKTAGIIPNDPTMASVLKACSSLATLELGKQVHGHTIKHGFGLEVPIGSALSTMYS 469

Query:   458 KCGSIKEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMG 517
             KCGS+++ + +F  T + D+VSW AMI+G + +G   EA+ LFE++   G+ PD VTF+ 
Sbjct:   470 KCGSLEDGNLVFRRTPNKDVVSWNAMISGLSHNGQGDEALELFEEMLAEGMEPDDVTFVN 529

Query:   518 VLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPHQ 577
             +++ACSH G V+ G+ YFN+MSD+ G  P  +HY CM+DLL RAG+L +A+  IE+    
Sbjct:   530 IISACSHKGFVERGWFYFNMMSDQIGLDPKVDHYACMVDLLSRAGQLKEAKEFIESANID 589

Query:   578 KDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVR 637
                 +W  LL AC   G    G +  EK++ L    + T++ L+ IY A GR R+   V 
Sbjct:   590 HGLCLWRILLSACKNHGKCELGVYAGEKLMALGSRESSTYVQLSGIYTALGRMRDVERVW 649

Query:   638 KMMRSKGVIKEPGWSRIKVKDQVSAFVSSDRRHSQGEDIYRMLDLLASR---ESDIDDLD 694
             K MR+ GV KE G S I++K+Q   FV  D  H   E+   ++ L++ +   E  +  LD
Sbjct:   650 KHMRANGVSKEVGCSWIELKNQYHVFVVGDTMHPMIEETKDLVCLVSRQMIEEGFVTVLD 709

Query:   695 SLVHDAED 702
             S   + E+
Sbjct:   710 SSFVEEEE 717

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2082886 EMB2261 "embryo defective 2261" [Arabidopsis thaliana (taxid:3702)]

 Score = 1076 (383.8 bits), Expect = 7.0e-109, P = 7.0e-109
 Identities = 232/671 (34%), Positives = 384/671 (57%)

Query:    45 NSQLKHLVKSGYLHDARKMFDTMTQ---RDEISWTTLISGYVKAMDSIEALALFSRVWVE 101
             NS +    KSG    A  +F+TM +   RD +SW+ +++ Y      ++A+ +F   ++E
Sbjct:   101 NSLISLYSKSGDSAKAEDVFETMRRFGKRDVVSWSAMMACYGNNGRELDAIKVFVE-FLE 159

Query:   102 PQMNMDPFILSLALKACALNVNVNYGESLHGYTVKTG-FVNSVFVGSALLDMYTK-LGKI 159
               +  + +  +  ++AC+ +  V  G    G+ +KTG F + V VG +L+DM+ K     
Sbjct:   160 LGLVPNDYCYTAVIRACSNSDFVGVGRVTLGFLMKTGHFESDVCVGCSLIDMFVKGENSF 219

Query:   160 ELGCRVFDEMPLRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKAS 219
             E   +VFD+M   NVV+WT +IT  ++ G  +E + +F +M  S  + D +T + V  A 
Sbjct:   220 ENAYKVFDKMSELNVVTWTLMITRCMQMGFPREAIRFFLDMVLSGFESDKFTLSSVFSAC 279

Query:   220 ADSGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKC---GKLDYSLRLFERMSTRDVI 276
             A+   L+ G+++H+  ++ G  +V  V  SL  MY+KC   G +D   ++F+RM    V+
Sbjct:   280 AELENLSLGKQLHSWAIRSG--LVDDVECSLVDMYAKCSADGSVDDCRKVFDRMEDHSVM 337

Query:   277 SWTTIITSYVQ-MGEEENAFDAFVRM-QESDVKPNEYTFAAIISASANLARIQWGEQLHA 334
             SWT +IT Y++       A + F  M  +  V+PN +TF++   A  NL+  + G+Q+  
Sbjct:   338 SWTALITGYMKNCNLATEAINLFSEMITQGHVEPNHFTFSSAFKACGNLSDPRVGKQVLG 397

Query:   335 HVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIRRDIISWSTIIGGYSQGGYEEE 394
                + GL  + SVANS+++M+ K  ++      F  +  ++++S++T + G  +    E+
Sbjct:   398 QAFKRGLASNSSVANSVISMFVKSDRMEDAQRAFESLSEKNLVSYNTFLDGTCRNLNFEQ 457

Query:   395 AFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALIN 454
             AF+ L+ +       + F FAS+LS   N+  + +G+QIH+ V+ +GL     + +ALI+
Sbjct:   458 AFKLLSEITERELGVSAFTFASLLSGVANVGSIRKGEQIHSQVVKLGLSCNQPVCNALIS 517

Query:   455 MYSKCGSIKEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVT 514
             MYSKCGSI  AS++F   E+ +++SWT+MI G+A+HG++   +  F ++   G++P+ VT
Sbjct:   518 MYSKCGSIDTASRVFNFMENRNVISWTSMITGFAKHGFAIRVLETFNQMIEEGVKPNEVT 577

Query:   515 FMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENM 574
             ++ +L+ACSH GLV  G+ +FN M + +   P  EHY CM+DLLCRAG L+DA   I  M
Sbjct:   578 YVAILSACSHVGLVSEGWRHFNSMYEDHKIKPKMEHYACMVDLLCRAGLLTDAFEFINTM 637

Query:   575 PHQKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAA 634
             P Q D +VW T L AC V  +   G+  A KILEL P+    +I L+NIYA  G+W E+ 
Sbjct:   638 PFQADVLVWRTFLGACRVHSNTELGKLAARKILELDPNEPAAYIQLSNIYACAGKWEEST 697

Query:   635 EVRKMMRSKGVIKEPGWSRIKVKDQVSAFVSSDRRHSQGEDIYRMLDLLAS---RESDID 691
             E+R+ M+ + ++KE G S I+V D++  F   D  H     IY  LD L +   R   + 
Sbjct:   698 EMRRKMKERNLVKEGGCSWIEVGDKIHKFYVGDTAHPNAHQIYDELDRLITEIKRCGYVP 757

Query:   692 DLDSLVHDAED 702
             D D ++H  E+
Sbjct:   758 DTDLVLHKLEE 768

GO:0009507 "chloroplast" evidence=ISM

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

---

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)
Q9STS9	PP268_ARATH	No assigned EC number	0.6018	0.9116	0.9065	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	702
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-157
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-108
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	8e-88
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-69
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	2e-42
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	6e-16
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	4e-11
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-09
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	5e-09
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	6e-08
pfam13041	50	pfam13041, PPR_2, PPR repeat family	4e-07
pfam13041	50	pfam13041, PPR_2, PPR repeat family	6e-06
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-05
pfam13041	50	pfam13041, PPR_2, PPR repeat family	5e-04
pfam13041	50	pfam13041, PPR_2, PPR repeat family	0.001
pfam12854	34	pfam12854, PPR_1, PPR repeat	0.001
pfam01535	31	pfam01535, PPR, PPR repeat	0.004
pfam01535	31	pfam01535, PPR, PPR repeat	0.004

>gnl|CDD|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score =  474 bits (1222), Expect = e-157
 Identities = 235/638 (36%), Positives = 343/638 (53%), Gaps = 5/638 (0%)

Query: 45  NSQLKHLVKSGYLHDARKMFDTMTQRDEISWTTLISGYVKAMDSIEALALFSRV-WVEPQ 103
           N+ L   V+ G L  A  +F  M +RD  SW  L+ GY KA    EAL L+ R+ W    
Sbjct: 125 NAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWA--G 182

Query: 104 MNMDPFILSLALKACALNVNVNYGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKIELGC 163
           +  D +     L+ C    ++  G  +H + V+ GF   V V +AL+ MY K G +    
Sbjct: 183 VRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSAR 242

Query: 164 RVFDEMPLRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSG 223
            VFD MP R+ +SW A+I+G    G   EGL  F  M       D  T   V+ A    G
Sbjct: 243 LVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLG 302

Query: 224 ALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMSTRDVISWTTIIT 283
               GRE+H  ++K GF V   V NSL  MY   G    + ++F RM T+D +SWT +I+
Sbjct: 303 DERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMIS 362

Query: 284 SYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLVD 343
            Y + G  + A + +  M++ +V P+E T A+++SA A L  +  G +LH    R GL+ 
Sbjct: 363 GYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLIS 422

Query: 344 SLSVANSIMAMYSKCGQLTSTSIVFHGMIRRDIISWSTIIGGYSQGGYEEEAFEYLALMR 403
            + VAN+++ MYSKC  +     VFH +  +D+ISW++II G        EA  +   M 
Sbjct: 423 YVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQML 482

Query: 404 REGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIK 463
               +PN     + LS C  +  L  GK+IHAHV+  G+     + +AL+++Y +CG + 
Sbjct: 483 LT-LKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMN 541

Query: 464 EASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACS 523
            A   F   E D +VSW  ++ GY  HG    A+ LF ++   G+ PD VTF+ +L ACS
Sbjct: 542 YAWNQFNSHEKD-VVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACS 600

Query: 524 HAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPHQKDDVVW 583
            +G+V  G  YF+ M +KY   P+ +HY C++DLL RAG+L++A N I  MP   D  VW
Sbjct: 601 RSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMPITPDPAVW 660

Query: 584 STLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSK 643
             LL AC +   V  G   A+ I EL P+  G +I L N+YA  G+W E A VRK MR  
Sbjct: 661 GALLNACRIHRHVELGELAAQHIFELDPNSVGYYILLCNLYADAGKWDEVARVRKTMREN 720

Query: 644 GVIKEPGWSRIKVKDQVSAFVSSDRRHSQGEDIYRMLD 681
           G+  +PG S ++VK +V AF++ D  H Q ++I  +L+
Sbjct: 721 GLTVDPGCSWVEVKGKVHAFLTDDESHPQIKEINTVLE 758

Length = 857

>gnl|CDD|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing protein; Provisional

 Score =  343 bits (880), Expect = e-108
 Identities = 173/525 (32%), Positives = 282/525 (53%), Gaps = 9/525 (1%)

Query: 164 RVFDEMPLRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSY-----TFAIVLKA 218
           R+ D    ++ VS  + I  LV  G ++E L    E++   E G  +     T+  +++A
Sbjct: 77  RLDDTQIRKSGVSLCSQIEKLVACGRHREAL----ELFEILEAGCPFTLPASTYDALVEA 132

Query: 219 SADSGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMSTRDVISW 278
                ++   + ++  +   GF+   ++ N +  M+ KCG L  + RLF+ M  R++ SW
Sbjct: 133 CIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPERNLASW 192

Query: 279 TTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLR 338
            TII   V  G    AF  F  M E        TF  ++ ASA L   + G+QLH  VL+
Sbjct: 193 GTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLK 252

Query: 339 LGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIRRDIISWSTIIGGYSQGGYEEEAFEY 398
            G+V    V+ +++ MYSKCG +     VF GM  +  ++W++++ GY+  GY EEA   
Sbjct: 253 TGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCL 312

Query: 399 LALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSK 458
              MR  G   ++F F+ ++ +   +A+LE  KQ HA ++  G     +  +AL+++YSK
Sbjct: 313 YYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSK 372

Query: 459 CGSIKEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGV 518
            G +++A  +F      +++SW A+I GY  HG   +A+ +FE++   G+ P+ VTF+ V
Sbjct: 373 WGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAV 432

Query: 519 LTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPHQK 578
           L+AC ++GL + G+  F  MS+ +   P   HY CMI+LL R G L +A  MI   P + 
Sbjct: 433 LSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAPFKP 492

Query: 579 DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRK 638
              +W+ LL AC +  ++  GR  AEK+  + P     ++ L N+Y + GR  EAA+V +
Sbjct: 493 TVNMWAALLTACRIHKNLELGRLAAEKLYGMGPEKLNNYVVLLNLYNSSGRQAEAAKVVE 552

Query: 639 MMRSKGVIKEPGWSRIKVKDQVSAFVSSDRRHSQGEDIYRMLDLL 683
            ++ KG+   P  + I+VK Q  +F S DR H Q  +IY+ LD L
Sbjct: 553 TLKRKGLSMHPACTWIEVKKQDHSFFSGDRLHPQSREIYQKLDEL 597

Length = 697

>gnl|CDD|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score =  293 bits (751), Expect = 8e-88
 Identities = 172/559 (30%), Positives = 277/559 (49%), Gaps = 44/559 (7%)

Query: 40  STPEVNSQLKHLVKSGYLHDARKMFDTMTQRDEISWTTLISGYVKAMDSIEALALFSRVW 99
           ST + NSQL+ L   G L  A K+ ++M +                           RV 
Sbjct: 50  STHDSNSQLRALCSHGQLEQALKLLESMQE--------------------------LRVP 83

Query: 100 VEPQMNMDPFILSLALKACALNVNVNYGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKI 159
           V+     D ++    L  C     V  G  +    + +     V +G+A+L M+ + G++
Sbjct: 84  VDE----DAYVALFRL--CEWKRAVEEGSRVCSRALSSHPSLGVRLGNAMLSMFVRFGEL 137

Query: 160 ELGCRVFDEMPLRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKAS 219
                VF +MP R++ SW  ++ G  +AG+  E L  +  M  +  + D YTF  VL+  
Sbjct: 138 VHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTC 197

Query: 220 ADSGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMSTRDVISWT 279
                L  GRE+H  +++ GF++   V N+L TMY KCG +  +  +F+RM  RD ISW 
Sbjct: 198 GGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWN 257

Query: 280 TIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRL 339
            +I+ Y + GE     + F  M+E  V P+  T  ++ISA   L   + G ++H +V++ 
Sbjct: 258 AMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKT 317

Query: 340 GLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIRRDIISWSTIIGGYSQGGYEEEAFEYL 399
           G    +SV NS++ MY   G       VF  M  +D +SW+ +I GY + G  ++A E  
Sbjct: 318 GFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETY 377

Query: 400 ALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKC 459
           ALM ++   P+E   ASVLS C  +  L+ G ++H      GL    ++ +ALI MYSKC
Sbjct: 378 ALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKC 437

Query: 460 GSIKEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVL 519
             I +A ++F+     D++SWT++I G   +    EA+  F ++ +  L+P+SVT +  L
Sbjct: 438 KCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAAL 496

Query: 520 TACSHAGLVDLG--FHYFNLMSD--KYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMP 575
           +AC+  G +  G   H   L +     GF+P+      ++DL  R GR++ A N   +  
Sbjct: 497 SACARIGALMCGKEIHAHVLRTGIGFDGFLPN-----ALLDLYVRCGRMNYAWNQFNS-- 549

Query: 576 HQKDDVVWSTLLRACMVQG 594
           H+KD V W+ LL   +  G
Sbjct: 550 HEKDVVSWNILLTGYVAHG 568

Length = 857

>gnl|CDD|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score =  243 bits (622), Expect = 1e-69
 Identities = 143/450 (31%), Positives = 229/450 (50%), Gaps = 15/450 (3%)

Query: 44  VNSQLKHLVKSGYLHDARKMFDTMTQRDEISWTTLISGYVKAMDSIEALALFSRVWVEPQ 103
           VN+ +   VK G +  AR +FD M +RD ISW  +ISGY +  + +E L LF  +    +
Sbjct: 225 VNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMR---E 281

Query: 104 MNMDPFILSLA--LKACALNVNVNYGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKIEL 161
           +++DP ++++   + AC L  +   G  +HGY VKTGF   V V ++L+ MY  LG    
Sbjct: 282 LSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGE 341

Query: 162 GCRVFDEMPLRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASAD 221
             +VF  M  ++ VSWTA+I+G  + G   + L  +A M +     D  T A VL A A 
Sbjct: 342 AEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACAC 401

Query: 222 SGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMSTRDVISWTTI 281
            G L+ G ++H +  ++G      VAN+L  MYSKC  +D +L +F  +  +DVISWT+I
Sbjct: 402 LGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSI 461

Query: 282 ITSYVQMGEEENAFDA--FVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRL 339
           I            F+A  F R     +KPN  T  A +SA A +  +  G+++HAHVLR 
Sbjct: 462 IAGLRL---NNRCFEALIFFRQMLLTLKPNSVTLIAALSACARIGALMCGKEIHAHVLRT 518

Query: 340 GLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIRRDIISWSTIIGGYSQGGYEEEAFEYL 399
           G+     + N+++ +Y +CG+  + +        +D++SW+ ++ GY   G    A E  
Sbjct: 519 GIGFDGFLPNALLDLYVRCGR-MNYAWNQFNSHEKDVVSWNILLTGYVAHGKGSMAVELF 577

Query: 400 ALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIK--SALINMYS 457
             M   G  P+E  F S+L  C    ++ QG +   H M      T  +K  + ++++  
Sbjct: 578 NRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYF-HSMEEKYSITPNLKHYACVVDLLG 636

Query: 458 KCGSIKEASQIFYETESD-DIVSWTAMING 486
           + G + EA     +     D   W A++N 
Sbjct: 637 RAGKLTEAYNFINKMPITPDPAVWGALLNA 666

Length = 857

>gnl|CDD|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score =  165 bits (418), Expect = 2e-42
 Identities = 102/363 (28%), Positives = 172/363 (47%), Gaps = 11/363 (3%)

Query: 289 GEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVA 348
           G+ E A      MQE  V  +E  + A+         ++ G ++ +  L       + + 
Sbjct: 65  GQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLG 124

Query: 349 NSIMAMYSKCGQLTSTSIVFHGMIRRDIISWSTIIGGYSQGGYEEEAFEYLALMRREGPR 408
           N++++M+ + G+L     VF  M  RD+ SW+ ++GGY++ GY +EA      M   G R
Sbjct: 125 NAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVR 184

Query: 409 PNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQI 468
           P+ + F  VL  CG +  L +G+++HAHV+  G E    + +ALI MY KCG +  A  +
Sbjct: 185 PDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLV 244

Query: 469 FYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLV 528
           F      D +SW AMI+GY E+G   E + LF  +  + + PD +T   V++AC   G  
Sbjct: 245 FDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDE 304

Query: 529 DLG--FHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPHQKDDVVWSTL 586
            LG   H + +   K GF         +I +    G   +AE +   M   KD V W+ +
Sbjct: 305 RLGREMHGYVV---KTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRM-ETKDAVSWTAM 360

Query: 587 LRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAA---KGRWREAAEVRKMMRSK 643
           +      G  +    T   ++E   + +   IT+A++ +A    G      ++ ++   K
Sbjct: 361 ISGYEKNGLPDKALETY-ALMEQD-NVSPDEITIASVLSACACLGDLDVGVKLHELAERK 418

Query: 644 GVI 646
           G+I
Sbjct: 419 GLI 421

Length = 857

>gnl|CDD|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score = 81.8 bits (202), Expect = 6e-16
 Identities = 75/353 (21%), Positives = 143/353 (40%), Gaps = 79/353 (22%)

Query: 390 GYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIK 449
           G  E+A + L  M+      +E A+ ++  +C     +E+G ++ +  +S        + 
Sbjct: 65  GQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLG 124

Query: 450 SALINMYSKCGSIKEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLR 509
           +A+++M+ + G +  A  +F +    D+ SW  ++ GYA+ GY  EA+ L+ ++   G+R
Sbjct: 125 NAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVR 184

Query: 510 PDSVTFMGVLTACSHAGLVDLG----FHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLS 565
           PD  TF  VL  C   G+ DL      H   +   ++GF    +    +I +  + G + 
Sbjct: 185 PDVYTFPCVLRTC--GGIPDLARGREVHAHVV---RFGFELDVDVVNALITMYVKCGDVV 239

Query: 566 DAENMIENMPHQKDDVVWSTLLR-----------------------------------AC 590
            A  + + MP ++D + W+ ++                                    AC
Sbjct: 240 SARLVFDRMP-RRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISAC 298

Query: 591 MVQGDVNCGRHTAEKILELHPSCAGTHI--------TLANIYAAKGRWREAAEVRKMMRS 642
            + GD   GR       E+H     T          +L  +Y + G W EA +V      
Sbjct: 299 ELLGDERLGR-------EMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKV------ 345

Query: 643 KGVIKEPGWSRIKVKDQVS--AFVSSDRRH---SQGEDIYRMLDLLASRESDI 690
                   +SR++ KD VS  A +S   ++    +  + Y +++       +I
Sbjct: 346 --------FSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEI 390

Length = 857

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

 Score = 66.1 bits (161), Expect = 4e-11
 Identities = 44/214 (20%), Positives = 97/214 (45%), Gaps = 16/214 (7%)

Query: 393 EEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSAL 452
           +EAF +  L+      P    F  ++SVC +   ++   ++   V   GL+    + + L
Sbjct: 423 KEAFRFAKLI----RNPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTL 478

Query: 453 INMYSKCGSIKEASQIFYETESDDIV----SWTAMINGYAEHGYSQEAIHLFEKVPMVGL 508
           I+  +K G +    ++F+E  +  +     ++ A+I+G A  G   +A   +  +    +
Sbjct: 479 ISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNV 538

Query: 509 RPDSVTFMGVLTACSHAGLVDLGFHYFNLM-SDKYGFVPSKEHYGCMIDLLCRAGRLSDA 567
           +PD V F  +++AC  +G VD  F     M ++ +   P     G ++     AG++  A
Sbjct: 539 KPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRA 598

Query: 568 ENMIENMPHQKDDV-----VWSTLLRACMVQGDV 596
           + + + +   + ++     V++  + +C  +GD 
Sbjct: 599 KEVYQMI--HEYNIKGTPEVYTIAVNSCSQKGDW 630

Length = 1060

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

 Score = 52.8 bits (128), Expect = 3e-09
 Identities = 16/46 (34%), Positives = 28/46 (60%)

Query: 274 DVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISA 319
           DV+++ T+I  Y + G+ E A   F  M++  +KPN YT++ +I  
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDG 47

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 = 59.5 bits (144), Expect = 5e-09
 Identities = 78/417 (18%), Positives = 152/417 (36%), Gaps = 110/417 (26%)

Query: 155 KLGKIELGCRVFDEMPLR----NVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSY 210
           K GK++    VF EM       NV ++ A+I G  RAG   +    +  M     + D  
Sbjct: 484 KSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRV 543

Query: 211 TFAIVLKASADSGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERM 270
            F  ++ A   SGA++           R FDV       LA M ++   +D         
Sbjct: 544 VFNALISACGQSGAVD-----------RAFDV-------LAEMKAETHPID--------- 576

Query: 271 STRDVISWTTIITSYVQMGEEENAFDAFVRMQESDVK--PNEYTFAAIISASANLARIQW 328
              D I+   ++ +    G+ + A + +  + E ++K  P  YT A              
Sbjct: 577 --PDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIA-------------- 620

Query: 329 GEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIRRDI----ISWSTIIG 384
              +++                     S+ G       ++  M ++ +    + +S ++ 
Sbjct: 621 ---VNSC--------------------SQKGDWDFALSIYDDMKKKGVKPDEVFFSALVD 657

Query: 385 GYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLER 444
                G  ++AFE L   R++G +    +++S++  C N    ++  +++  + SI L  
Sbjct: 658 VAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRP 717

Query: 445 TAMIKSALINMYSKCGSIKEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVP 504
           T    +ALI       ++ E +Q+                          +A+ +  ++ 
Sbjct: 718 TVSTMNALIT------ALCEGNQL-------------------------PKALEVLSEMK 746

Query: 505 MVGLRPDSVTFMGVLTACSHAGLVDLGFH-YFNLMSDKYGFVPSKEHYGCMIDLLCR 560
            +GL P+++T+  +L A       D+G         D  G  P+     C+  L  R
Sbjct: 747 RLGLCPNTITYSILLVASERKDDADVGLDLLSQAKED--GIKPNLVMCRCITGLCLR 801

Length = 1060

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

 Score = 56.0 bits (135), Expect = 6e-08
 Identities = 74/350 (21%), Positives = 144/350 (41%), Gaps = 50/350 (14%)

Query: 264 LRLF-ERMSTRDVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASAN 322
           LRL  E     D   +TT+I++  + G+ +  F+ F  M  + V+ N +TF A+I   A 
Sbjct: 460 LRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCA- 518

Query: 323 LARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIRRDIISWSTI 382
                          R G V     A  IM   SK              ++ D + ++ +
Sbjct: 519 ---------------RAGQVAKAFGAYGIMR--SK-------------NVKPDRVVFNAL 548

Query: 383 IGGYSQGGYEEEAFEYLALMRREGP--RPNEFAFASVLSVCGNMAILEQGKQIHAHVMSI 440
           I    Q G  + AF+ LA M+ E     P+     +++  C N   +++ K+++  +   
Sbjct: 549 ISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEY 608

Query: 441 GLERTAMIKSALINMYSKCGSIKEASQIFYETESDDI----VSWTAMINGYAEHGYSQEA 496
            ++ T  + +  +N  S+ G    A  I+ + +   +    V ++A+++     G   +A
Sbjct: 609 NIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKA 668

Query: 497 IHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFH-YFNLMSDKYGFVPSKEHYGCMI 555
             + +     G++  +V++  ++ ACS+A         Y ++ S K    P+      +I
Sbjct: 669 FEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIK--LRPTVSTMNALI 726

Query: 556 DLLCRAGRLSDAENMIENM------PHQKDDVVWSTLLRACMVQGDVNCG 599
             LC   +L  A  ++  M      P+    + +S LL A   + D + G
Sbjct: 727 TALCEGNQLPKALEVLSEMKRLGLCPNT---ITYSILLVASERKDDADVG 773

Length = 1060

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

 Score = 46.6 bits (112), Expect = 4e-07
 Identities = 14/42 (33%), Positives = 27/42 (64%), Gaps = 4/42 (9%)

Query: 476 DIVSWTAMINGYAEHGYSQEAIHLFEKVPMV--GLRPDSVTF 515
           D+V++  +I+GY + G  +EA+ LF +  M   G++P+  T+
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNE--MKKRGIKPNVYTY 41

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|205222 pfam13041, PPR_2, PPR repeat family

 Score = 43.5 bits (104), Expect = 6e-06
 Identities = 13/46 (28%), Positives = 26/46 (56%)

Query: 173 NVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKA 218
           +VV++  +I G  + G  +E L  F EM +   + + YT++I++  
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDG 47

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|205222 pfam13041, PPR_2, PPR repeat family

 Score = 41.6 bits (99), Expect = 3e-05
 Identities = 13/49 (26%), Positives = 29/49 (59%)

Query: 375 DIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGN 423
           D+++++T+I GY + G  EEA +    M++ G +PN + ++ ++     
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 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|205222 pfam13041, PPR_2, PPR repeat family

 Score = 37.8 bits (89), Expect = 5e-04
 Identities = 12/44 (27%), Positives = 23/44 (52%), Gaps = 4/44 (9%)

Query: 45 NSQLKHLVKSGYLHDARKMFDTMTQR----DEISWTTLISGYVK 84
          N+ +    K G + +A K+F+ M +R    +  +++ LI G  K
Sbjct: 7  NTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 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|205222 pfam13041, PPR_2, PPR repeat family

 Score = 37.0 bits (87), Expect = 0.001
 Identities = 16/51 (31%), Positives = 24/51 (47%), Gaps = 1/51 (1%)

Query: 510 PDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCR 560
           PD VT+  ++      G V+     FN M  + G  P+   Y  +ID LC+
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKR-GIKPNVYTYSILIDGLCK 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|205109 pfam12854, PPR_1, PPR repeat

 Score = 36.2 bits (85), Expect = 0.001
 Identities = 13/33 (39%), Positives = 19/33 (57%)

Query: 543 GFVPSKEHYGCMIDLLCRAGRLSDAENMIENMP 575
           G  P    Y  +ID LCRAGR+ +A  +++ M 
Sbjct: 2   GLKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 34

This family matches additional variants of the PPR repeat that were not captured by the model for pfam01535. The exact function is not known. Length = 34

>gnl|CDD|144943 pfam01535, PPR, PPR repeat

 Score = 35.1 bits (82), Expect = 0.004
 Identities = 9/25 (36%), Positives = 19/25 (76%)

Query: 478 VSWTAMINGYAEHGYSQEAIHLFEK 502
           V++ ++I+GY + G  +EA+ LF++
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKE 25

This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309, which may be involved in RNA stabilisation. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein that has a domain organisation similar to the human BRCA1 protein. The repeat has been called PPR. Length = 31

>gnl|CDD|144943 pfam01535, PPR, PPR repeat

 Score = 34.7 bits (81), Expect = 0.004
 Identities = 10/30 (33%), Positives = 19/30 (63%)

Query: 377 ISWSTIIGGYSQGGYEEEAFEYLALMRREG 406
           ++++++I GY + G  EEA E    M+ +G
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKG 30

This repeat has no known function. It is about 35 amino acids long and found in up to 18 copies in some proteins. This family appears to be greatly expanded in plants. This repeat occurs in PET309, which may be involved in RNA stabilisation. This domain occurs in crp1 that is involved in RNA processing. This repeat is associated with a predicted plant protein that has a domain organisation similar to the human BRCA1 protein. The repeat has been called PPR. Length = 31

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	702
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	100.0
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	100.0
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.98
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.96
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.96
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.95
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.91
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.91
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.88
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.87
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.87
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.85
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.84
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.84
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.84
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.84
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.83
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.83
PRK14574	822	hmsH outer membrane protein; Provisional	99.82
KOG2076	895	consensus RNA polymerase III transcription factor	99.8
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.8
PRK14574	822	hmsH outer membrane protein; Provisional	99.77
KOG2003	840	consensus TPR repeat-containing protein [General f	99.76
KOG2076	895	consensus RNA polymerase III transcription factor	99.75
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.74
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.73
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.72
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.67
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.66
KOG2003	840	consensus TPR repeat-containing protein [General f	99.63
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.63
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.63
KOG1126	638	consensus DNA-binding cell division cycle control	99.58
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.57
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.56
KOG1126	638	consensus DNA-binding cell division cycle control	99.56
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.55
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.53
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.52
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.51
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.49
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.48
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.48
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.47
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.47
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.42
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.42
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.4
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.4
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.36
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.36
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.36
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.35
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.35
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	99.35
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.33
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.33
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.33
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.31
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.28
KOG1129	478	consensus TPR repeat-containing protein [General f	99.28
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.27
KOG3616	1636	consensus Selective LIM binding factor [Transcript	99.26
KOG1129	478	consensus TPR repeat-containing protein [General f	99.24
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.23
PF13041	50	PPR_2: PPR repeat family	99.23
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.2
PRK11189	296	lipoprotein NlpI; Provisional	99.19
PF13041	50	PPR_2: PPR repeat family	99.19
PRK12370	553	invasion protein regulator; Provisional	99.17
PRK12370	553	invasion protein regulator; Provisional	99.16
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	99.16
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.15
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.15
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	99.14
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.12
KOG3616	1636	consensus Selective LIM binding factor [Transcript	99.09
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.08
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	99.08
PRK11189	296	lipoprotein NlpI; Provisional	99.07
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.02
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.99
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.99
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.98
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.98
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.97
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.97
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.97
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.97
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	98.94
KOG1125	579	consensus TPR repeat-containing protein [General f	98.93
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.92
PRK04841	903	transcriptional regulator MalT; Provisional	98.88
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.87
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.84
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.82
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.81
PRK15359	144	type III secretion system chaperone protein SscB;	98.78
PRK15359	144	type III secretion system chaperone protein SscB;	98.73
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.69
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.68
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.65
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.62
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.62
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.61
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.59
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.59
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.58
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.54
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.54
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.49
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.49
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.47
PRK04841	903	transcriptional regulator MalT; Provisional	98.47
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.47
KOG1125	579	consensus TPR repeat-containing protein [General f	98.46
PF12854	34	PPR_1: PPR repeat	98.45
PF12854	34	PPR_1: PPR repeat	98.44
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.43
PLN02789	320	farnesyltranstransferase	98.42
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.42
PLN02789	320	farnesyltranstransferase	98.4
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.4
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.39
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.35
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.29
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.27
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.26
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.26
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.25
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.21
KOG0553	304	consensus TPR repeat-containing protein [General f	98.21
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.19
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	98.19
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.16
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.14
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.14
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.1
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.1
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	98.08
KOG0553	304	consensus TPR repeat-containing protein [General f	98.07
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.06
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.04
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	98.0
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.0
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.0
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.97
PRK15331	165	chaperone protein SicA; Provisional	97.97
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.96
PF13812	34	PPR_3: Pentatricopeptide repeat domain	97.93
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.93
PF13812	34	PPR_3: Pentatricopeptide repeat domain	97.9
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.89
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.89
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	97.83
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.81
PF13371	73	TPR_9: Tetratricopeptide repeat	97.79
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.79
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.78
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.75
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.74
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.72
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	97.64
COG3898	531	Uncharacterized membrane-bound protein [Function u	97.62
PF13431	34	TPR_17: Tetratricopeptide repeat	97.62
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.62
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.59
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.59
PF12688	120	TPR_5: Tetratrico peptide repeat	97.56
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.55
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.54
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.54
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.54
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.53
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	97.52
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.51
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.5
PRK10803	263	tol-pal system protein YbgF; Provisional	97.5
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.49
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.48
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.41
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	97.41
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.38
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.37
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.36
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.36
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.35
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.33
PF13428	44	TPR_14: Tetratricopeptide repeat	97.33
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.27
COG3898	531	Uncharacterized membrane-bound protein [Function u	97.25
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.23
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.22
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.22
PF13371	73	TPR_9: Tetratricopeptide repeat	97.2
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.18
PRK10803	263	tol-pal system protein YbgF; Provisional	97.17
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	97.17
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.12
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.12
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	97.07
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.01
PRK11906	458	transcriptional regulator; Provisional	97.0
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.0
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.98
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.93
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.92
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	96.92
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.84
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	96.81
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	96.81
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.78
PF12688	120	TPR_5: Tetratrico peptide repeat	96.78
PF13512	142	TPR_18: Tetratricopeptide repeat	96.76
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	96.76
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.74
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	96.66
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	96.64
KOG4555	175	consensus TPR repeat-containing protein [Function	96.56
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	96.54
COG0457	291	NrfG FOG: TPR repeat [General function prediction	96.4
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.35
KOG4234	271	consensus TPR repeat-containing protein [General f	96.3
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	96.25
KOG1258	577	consensus mRNA processing protein [RNA processing	96.22
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.18
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.14
KOG2041	1189	consensus WD40 repeat protein [General function pr	96.14
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.12
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	95.89
PRK15331	165	chaperone protein SicA; Provisional	95.85
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	95.83
PRK11619	644	lytic murein transglycosylase; Provisional	95.78
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	95.78
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	95.75
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	95.73
PRK11906	458	transcriptional regulator; Provisional	95.72
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	95.66
KOG1585	308	consensus Protein required for fusion of vesicles	95.64
COG3118	304	Thioredoxin domain-containing protein [Posttransla	95.46
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	95.45
KOG2610	491	consensus Uncharacterized conserved protein [Funct	95.37
PF03704	146	BTAD: Bacterial transcriptional activator domain;	95.35
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	95.33
PF13428	44	TPR_14: Tetratricopeptide repeat	95.28
COG0457	291	NrfG FOG: TPR repeat [General function prediction	95.25
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	95.21
KOG4555	175	consensus TPR repeat-containing protein [Function	95.16
COG4105	254	ComL DNA uptake lipoprotein [General function pred	95.02
COG4105	254	ComL DNA uptake lipoprotein [General function pred	95.02
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	94.98
KOG2610	491	consensus Uncharacterized conserved protein [Funct	94.92
PF13512	142	TPR_18: Tetratricopeptide repeat	94.86
COG3118	304	Thioredoxin domain-containing protein [Posttransla	94.81
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	94.74
smart00299	140	CLH Clathrin heavy chain repeat homology.	94.52
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	94.4
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	94.26
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	94.08
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	94.03
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	94.01
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	94.0
KOG3941	406	consensus Intermediate in Toll signal transduction	93.91
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	93.85
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	93.85
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	93.65
KOG3941	406	consensus Intermediate in Toll signal transduction	93.65
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	93.59
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	93.56
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	93.44
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	93.28
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	93.26
KOG1258	577	consensus mRNA processing protein [RNA processing	93.21
KOG4648	536	consensus Uncharacterized conserved protein, conta	93.16
KOG4234	271	consensus TPR repeat-containing protein [General f	92.84
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	92.65
KOG4648	536	consensus Uncharacterized conserved protein, conta	92.6
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	92.44
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	92.1
smart00299	140	CLH Clathrin heavy chain repeat homology.	92.02
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	91.94
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	91.87
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	91.74
PRK11619	644	lytic murein transglycosylase; Provisional	91.42
KOG1941	518	consensus Acetylcholine receptor-associated protei	91.38
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	91.14
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	90.86
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	90.83
PRK10941	269	hypothetical protein; Provisional	90.76
COG3629	280	DnrI DNA-binding transcriptional activator of the	90.69
KOG1585	308	consensus Protein required for fusion of vesicles	90.59
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	90.11
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	90.09
COG3947	361	Response regulator containing CheY-like receiver a	89.88
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	89.81
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	89.79
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	89.75
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	89.62
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	89.41
PRK09687	280	putative lyase; Provisional	89.39
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	89.32
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	89.23
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	89.15
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	88.92
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	88.89
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	88.8
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	88.79
COG3629	280	DnrI DNA-binding transcriptional activator of the	88.76
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	88.5
PRK09687	280	putative lyase; Provisional	88.36
KOG1550	552	consensus Extracellular protein SEL-1 and related	88.33
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	88.33
KOG1308	377	consensus Hsp70-interacting protein Hip/Transient	88.19
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	87.54
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	87.13
KOG0403	645	consensus Neoplastic transformation suppressor Pdc	86.44
PF13431	34	TPR_17: Tetratricopeptide repeat	86.41
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	86.3
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	86.04
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	85.96
KOG4642	284	consensus Chaperone-dependent E3 ubiquitin protein	85.93
PF14853	53	Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repe	85.91
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	85.37
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	85.36
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	85.25
PF14561	90	TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S	85.0
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	84.44
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	84.44
KOG4507	886	consensus Uncharacterized conserved protein, conta	84.14
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	84.09
KOG4570	418	consensus Uncharacterized conserved protein [Funct	84.04
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	84.04
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	83.73
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	83.44
KOG4570	418	consensus Uncharacterized conserved protein [Funct	83.32
KOG1550	552	consensus Extracellular protein SEL-1 and related	83.23
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	82.68
KOG1586	288	consensus Protein required for fusion of vesicles	82.48
KOG1498	439	consensus 26S proteasome regulatory complex, subun	82.26
KOG2062	929	consensus 26S proteasome regulatory complex, subun	82.0
COG1747	711	Uncharacterized N-terminal domain of the transcrip	81.91
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	81.28
COG4455	273	ImpE Protein of avirulence locus involved in tempe	81.28
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	80.54

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=3.3e-99  Score=850.16  Aligned_cols=686  Identities=34%  Similarity=0.596  Sum_probs=662.1

Q ss_pred             HHHHHHHHHHhhccCccc-----cccccccCcccCchhhhhHHHHHHccCChHHHHHHhhcCCCCCcchHHHHHHHHHcC
Q 005329           11 GRLFASSAIACTERRPLL-----LFQGTQLPVYVSTPEVNSQLKHLVKSGYLHDARKMFDTMTQRDEISWTTLISGYVKA   85 (702)
Q Consensus        11 ~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~ll~~~~~~   85 (702)
                      +.++..++++|++.+...     .......+..++..++|+|+.+|++.|+++.|.++|++|++||..+||.+|.+|++.
T Consensus        86 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~n~li~~~~~~g~~~~A~~~f~~m~~~d~~~~n~li~~~~~~  165 (857)
T PLN03077         86 EDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKA  165 (857)
T ss_pred             hhHHHHHHHHHhhCCCHHHHHHHHHHHHHcCCCCCchHHHHHHHHHHhCCChHHHHHHHhcCCCCCeeEHHHHHHHHHhC
Confidence            457889999999877641     112222334577889999999999999999999999999999999999999999999


Q ss_pred             CChhHHHHHHHHhhhCCCCCCCHHHHHHHHHHhhccCCchhhhHHHHHHHHhcCCCchhHHHHHHHhhhcCCChhHHHHH
Q 005329           86 MDSIEALALFSRVWVEPQMNMDPFILSLALKACALNVNVNYGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKIELGCRV  165 (702)
Q Consensus        86 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  165 (702)
                      |++++|+++|++|... |+.||..||+.++++|+..+++..+.+++..+.+.|+.||+.++|+||.+|++.|++++|.++
T Consensus       166 g~~~~A~~~f~~M~~~-g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~l  244 (857)
T PLN03077        166 GYFDEALCLYHRMLWA-GVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLV  244 (857)
T ss_pred             CCHHHHHHHHHHHHHc-CCCCChhHHHHHHHHhCCccchhhHHHHHHHHHHcCCCcccchHhHHHHHHhcCCCHHHHHHH
Confidence            9999999999999987 899999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hccCCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchh
Q 005329          166 FDEMPLRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSGALNFGREIHTIMLKRGFDVVSF  245 (702)
Q Consensus       166 ~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  245 (702)
                      |++|+.||..+||+||.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|+++.|.+++..+.+.|+.||..
T Consensus       245 f~~m~~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~  324 (857)
T PLN03077        245 FDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVS  324 (857)
T ss_pred             HhcCCCCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhhCCChHHHHHHHhccCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCc
Q 005329          246 VANSLATMYSKCGKLDYSLRLFERMSTRDVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLAR  325 (702)
Q Consensus       246 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~  325 (702)
                      +|+.|+.+|++.|++++|.++|++|.+||..+||++|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|+
T Consensus       325 ~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~  404 (857)
T PLN03077        325 VCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGD  404 (857)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHhhCCCCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccch
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhhHHHHHHHHHcCCChHHHHHHHHHHHHC
Q 005329          326 IQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIRRDIISWSTIIGGYSQGGYEEEAFEYLALMRRE  405 (702)
Q Consensus       326 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  405 (702)
                      ++.+.++++.+.+.|+.|+..++++|+++|+++|++++|.++|++|.++|+.+|+.+|.+|++.|+.++|+.+|++|.. 
T Consensus       405 ~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~-  483 (857)
T PLN03077        405 LDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLL-  483 (857)
T ss_pred             HHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHCCCHHHHHHHHHHHHh-
Confidence            9999999999999999999999999999999999999999999999999999999999999999999999999999986 


Q ss_pred             CCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCHHHHHHHHH
Q 005329          406 GPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETESDDIVSWTAMIN  485 (702)
Q Consensus       406 g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~  485 (702)
                      ++.||..||+.++.+|++.|+++.+.+++..+.+.|+.++..++++|+++|+++|++++|.++|+.+ .+|+.+||++|.
T Consensus       484 ~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~-~~d~~s~n~lI~  562 (857)
T PLN03077        484 TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH-EKDVVSWNILLT  562 (857)
T ss_pred             CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhc-CCChhhHHHHHH
Confidence            5999999999999999999999999999999999999999999999999999999999999999999 899999999999


Q ss_pred             HHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHH
Q 005329          486 GYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLS  565 (702)
Q Consensus       486 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~  565 (702)
                      +|++.|+.++|+++|++|.+.|+.||..||+.++.+|++.|++++|.++|+.|.+.+|+.|+..+|+.|+++|++.|+++
T Consensus       563 ~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~~  642 (857)
T PLN03077        563 GYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLT  642 (857)
T ss_pred             HHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCHH
Confidence            99999999999999999999999999999999999999999999999999999977799999999999999999999999


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 005329          566 DAENMIENMPHQKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKGV  645 (702)
Q Consensus       566 ~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  645 (702)
                      +|.+++++|..+|+..+|++|+.+|..+|+.+.++...+++++++|+++..|..|+++|...|+|++|.++++.|.+.|+
T Consensus       643 eA~~~~~~m~~~pd~~~~~aLl~ac~~~~~~e~~e~~a~~l~~l~p~~~~~y~ll~n~ya~~g~~~~a~~vr~~M~~~g~  722 (857)
T PLN03077        643 EAYNFINKMPITPDPAVWGALLNACRIHRHVELGELAAQHIFELDPNSVGYYILLCNLYADAGKWDEVARVRKTMRENGL  722 (857)
T ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhhCCCCcchHHHHHHHHHHCCChHHHHHHHHHHHHcCC
Confidence            99999999988999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccCCeeeEEEECCEEEEEEcCCCCCCChhHHHHHHHHHHH---HhcCCCCCCccccC
Q 005329          646 IKEPGWSRIKVKDQVSAFVSSDRRHSQGEDIYRMLDLLAS---RESDIDDLDSLVHD  699 (702)
Q Consensus       646 ~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~l~~l~~---~~~~~~~~~~~~~~  699 (702)
                      +++||+||+++++++|.|..+|..||+..+||..|..+..   +.|+.|++..++++
T Consensus       723 ~k~~g~s~ie~~~~~~~f~~~d~~h~~~~~i~~~l~~l~~~~~~~g~~~~~~~~~~~  779 (857)
T PLN03077        723 TVDPGCSWVEVKGKVHAFLTDDESHPQIKEINTVLEGFYEKMKASGLAGSESSSMDE  779 (857)
T ss_pred             CCCCCccEEEECCEEEEEecCCCCCcchHHHHHHHHHHHHHHHhCCcCCCcchhccc
Confidence            9999999999999999999999999999999999998865   45667999988844

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=1.1e-78  Score=683.98  Aligned_cols=576  Identities=28%  Similarity=0.467  Sum_probs=560.6

Q ss_pred             CCCcchHHHHHHHHHcCCChhHHHHHHHHhhhCCCCCCCHHHHHHHHHHhhccCCchhhhHHHHHHHHhcCCCchhHHHH
Q 005329           69 QRDEISWTTLISGYVKAMDSIEALALFSRVWVEPQMNMDPFILSLALKACALNVNVNYGESLHGYTVKTGFVNSVFVGSA  148 (702)
Q Consensus        69 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  148 (702)
                      .++..++|.++.++++.|++++|..+|+.|.+. |++|+..+|..++++|...+.++.+..++..+.+.+..++...+|+
T Consensus        48 ~~~~~~~n~~i~~l~~~g~~~~A~~l~~~m~~~-g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~n~  126 (857)
T PLN03077         48 SSSTHDSNSQLRALCSHGQLEQALKLLESMQEL-RVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLGNA  126 (857)
T ss_pred             ccchhhHHHHHHHHHhCCCHHHHHHHHHHHHhc-CCCCChhHHHHHHHHHhhCCCHHHHHHHHHHHHHcCCCCCchHHHH
Confidence            457778999999999999999999999999887 8999999999999999999999999999999999999999999999


Q ss_pred             HHHhhhcCCChhHHHHHhccCCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhccCChHHH
Q 005329          149 LLDMYTKLGKIELGCRVFDEMPLRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSGALNFG  228 (702)
Q Consensus       149 li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a  228 (702)
                      ++.+|++.|+++.|.++|++|++||..+||++|.+|++.|++++|+++|++|...|+.||..||+.++++|+..+++..+
T Consensus       127 li~~~~~~g~~~~A~~~f~~m~~~d~~~~n~li~~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~~~~~~~~~  206 (857)
T PLN03077        127 MLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARG  206 (857)
T ss_pred             HHHHHHhCCChHHHHHHHhcCCCCCeeEHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHhCCccchhhH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhCCCCchhHHHHHHHHhhhCCChHHHHHHHhccCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCC
Q 005329          229 REIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMSTRDVISWTTIITSYVQMGEEENAFDAFVRMQESDVKP  308 (702)
Q Consensus       229 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  308 (702)
                      .+++..+.+.|+.||..+++.|+.+|++.|+++.|.++|++|+++|..+||++|.+|++.|++++|+++|.+|.+.|+.|
T Consensus       207 ~~~~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~P  286 (857)
T PLN03077        207 REVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDP  286 (857)
T ss_pred             HHHHHHHHHcCCCcccchHhHHHHHHhcCCCHHHHHHHHhcCCCCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ChhhHHHHHHHHHccCchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhhHHHHHHHHHc
Q 005329          309 NEYTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIRRDIISWSTIIGGYSQ  388 (702)
Q Consensus       309 ~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~  388 (702)
                      |..||+.++.+|++.|+++.+.+++..+.+.|+.||..+|++++.+|+++|++++|.++|++|..+|..+||.+|.+|++
T Consensus       287 d~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~s~n~li~~~~~  366 (857)
T PLN03077        287 DLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEK  366 (857)
T ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCeeeHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHH
Q 005329          389 GGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQI  468 (702)
Q Consensus       389 ~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  468 (702)
                      .|++++|+++|++|.+.|+.||..||+.++.+|++.|+++.+.++++.+.+.|+.|+..++++|+++|++.|++++|.++
T Consensus       367 ~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~v  446 (857)
T PLN03077        367 NGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEV  446 (857)
T ss_pred             CCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhhCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCCh
Q 005329          469 FYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSK  548 (702)
Q Consensus       469 ~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~  548 (702)
                      |++|.++|+.+|+++|.+|++.|+.++|+.+|++|.. +++||..||+.++.+|++.|+.+.+.+++..+.+. |+.++.
T Consensus       447 f~~m~~~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~-g~~~~~  524 (857)
T PLN03077        447 FHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRT-GIGFDG  524 (857)
T ss_pred             HHhCCCCCeeeHHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHh-CCCccc
Confidence            9999999999999999999999999999999999986 59999999999999999999999999999999877 999999


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CCCchhHHHHHHHHHhc
Q 005329          549 EHYGCMIDLLCRAGRLSDAENMIENMPHQKDDVVWSTLLRACMVQGDVNCGRHTAEKILELH-PSCAGTHITLANIYAAK  627 (702)
Q Consensus       549 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~  627 (702)
                      .++++|+++|++.|++++|.++|+++  +|+..+|++++.+|.++|+.++|.++|++|.+.+ .+|..+|..++.+|.+.
T Consensus       525 ~~~naLi~~y~k~G~~~~A~~~f~~~--~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~  602 (857)
T PLN03077        525 FLPNALLDLYVRCGRMNYAWNQFNSH--EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRS  602 (857)
T ss_pred             eechHHHHHHHHcCCHHHHHHHHHhc--CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhc
Confidence            99999999999999999999999999  7899999999999999999999999999999876 33888999999999999


Q ss_pred             CChHHHHHHHHHHH-hCCCccCC
Q 005329          628 GRWREAAEVRKMMR-SKGVIKEP  649 (702)
Q Consensus       628 g~~~~A~~~~~~~~-~~~~~~~~  649 (702)
                      |++++|.++|+.|. +.|+.|+.
T Consensus       603 g~v~ea~~~f~~M~~~~gi~P~~  625 (857)
T PLN03077        603 GMVTQGLEYFHSMEEKYSITPNL  625 (857)
T ss_pred             ChHHHHHHHHHHHHHHhCCCCch
Confidence            99999999999998 57776653

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

Probab=100.00  E-value=8.3e-78  Score=660.59  Aligned_cols=532  Identities=32%  Similarity=0.573  Sum_probs=519.8

Q ss_pred             CCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCC-CCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHH
Q 005329          171 LRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSK-EQGDSYTFAIVLKASADSGALNFGREIHTIMLKRGFDVVSFVANS  249 (702)
Q Consensus       171 ~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  249 (702)
                      .++..+|+.+|.+|.+.|++++|+++|+.|...+ ..||..+|+.++.+|++.++++.+.+++..|.+.|+.||..+|+.
T Consensus        84 ~~~~~~~~~~i~~l~~~g~~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~  163 (697)
T PLN03081         84 RKSGVSLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNR  163 (697)
T ss_pred             CCCceeHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHH
Confidence            4577799999999999999999999999998764 789999999999999999999999999999999999999999999


Q ss_pred             HHHHhhhCCChHHHHHHHhccCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCchHHH
Q 005329          250 LATMYSKCGKLDYSLRLFERMSTRDVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWG  329 (702)
Q Consensus       250 li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a  329 (702)
                      |+.+|++.|+++.|.++|++|++||..+||++|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|+..|..+.+
T Consensus       164 Li~~y~k~g~~~~A~~lf~~m~~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~  243 (697)
T PLN03081        164 VLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAG  243 (697)
T ss_pred             HHHHHhcCCCHHHHHHHHhcCCCCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCC
Q 005329          330 EQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIRRDIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRP  409 (702)
Q Consensus       330 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  409 (702)
                      .+++..+.+.|+.+|..++++|+++|+++|++++|.++|++|.++|+.+||.+|.+|++.|++++|+++|++|.+.|+.|
T Consensus       244 ~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~p  323 (697)
T PLN03081        244 QQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSI  323 (697)
T ss_pred             HHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCHHHHHHHHHHHHH
Q 005329          410 NEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETESDDIVSWTAMINGYAE  489 (702)
Q Consensus       410 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~  489 (702)
                      |..||+.++.+|++.|+++.|.+++..+.+.|+.|+..++++|+++|++.|++++|.++|++|.++|+.+||+||.+|++
T Consensus       324 d~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~~d~~t~n~lI~~y~~  403 (697)
T PLN03081        324 DQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGN  403 (697)
T ss_pred             CHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCCCCeeeHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHH
Q 005329          490 HGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAEN  569 (702)
Q Consensus       490 ~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~  569 (702)
                      .|+.++|+++|++|.+.|+.||..||+.++.+|++.|++++|.++|+.|.+++|+.|+..+|+.|+++|++.|++++|.+
T Consensus       404 ~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~  483 (697)
T PLN03081        404 HGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYA  483 (697)
T ss_pred             cCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHH
Confidence            99999999999999999999999999999999999999999999999998878999999999999999999999999999


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhCCCccCC
Q 005329          570 MIENMPHQKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKGVIKEP  649 (702)
Q Consensus       570 ~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~  649 (702)
                      ++++|..+|+..+|++|+.+|..+|+++.|..+++++++++|++..+|..|+++|.+.|+|++|.++++.|.+.|+++.|
T Consensus       484 ~~~~~~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~~p~~~~~y~~L~~~y~~~G~~~~A~~v~~~m~~~g~~k~~  563 (697)
T PLN03081        484 MIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLSMHP  563 (697)
T ss_pred             HHHHCCCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhCCCCCCCcchHHHHHHHHhCCCHHHHHHHHHHHHHcCCccCC
Confidence            99999989999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             eeeEEEECCEEEEEEcCCCCCCChhHHHHHHHHHHHH---hcCCCCCCccccCCCC
Q 005329          650 GWSRIKVKDQVSAFVSSDRRHSQGEDIYRMLDLLASR---ESDIDDLDSLVHDAED  702 (702)
Q Consensus       650 ~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~l~~l~~~---~~~~~~~~~~~~~~~~  702 (702)
                      ++||+++++.+|.|.++|..||+..+++..+..+...   .|+.|++..+++|++|
T Consensus       564 g~s~i~~~~~~~~f~~~d~~h~~~~~i~~~l~~l~~~~~~~gy~~~~~~~~~~~~~  619 (697)
T PLN03081        564 ACTWIEVKKQDHSFFSGDRLHPQSREIYQKLDELMKEISEYGYVAEENELLPDVDE  619 (697)
T ss_pred             CeeEEEECCeEEEEccCCCCCccHHHHHHHHHHHHHHHHHcCCCCCcchhhccccH
Confidence            9999999999999999999999999999999988664   5667999999999875

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=7.6e-68  Score=582.24  Aligned_cols=529  Identities=16%  Similarity=0.232  Sum_probs=480.8

Q ss_pred             ccccCcccCchhhhhHHHHHHccCChHHHHHHhhcCCCCCc-----chHHHHHHHHHcCCChhHHHHHHHHhhhCCCCCC
Q 005329           32 GTQLPVYVSTPEVNSQLKHLVKSGYLHDARKMFDTMTQRDE-----ISWTTLISGYVKAMDSIEALALFSRVWVEPQMNM  106 (702)
Q Consensus        32 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~  106 (702)
                      ........+.+.|..++..|++.|++++|+++|++|.+++.     .+++.++.+|.+.|..++|+.+|+.|.     .|
T Consensus       361 ~~~~~~~~~~~~~~~~y~~l~r~G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~-----~p  435 (1060)
T PLN03218        361 NGGVSGKRKSPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIR-----NP  435 (1060)
T ss_pred             ccccCCCCCchHHHHHHHHHHHCcCHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcC-----CC
Confidence            34455566788999999999999999999999999987644     456778888999999999999999996     39


Q ss_pred             CHHHHHHHHHHhhccCCchhhhHHHHHHHHhcCCCchhHHHHHHHhhhcCCChhHHHHHhccCC----CCCcchHHHHHH
Q 005329          107 DPFILSLALKACALNVNVNYGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKIELGCRVFDEMP----LRNVVSWTAIIT  182 (702)
Q Consensus       107 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~li~  182 (702)
                      |..+|+.++.+|++.|+++.|.++|+.|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.    .||..+|+.||.
T Consensus       436 d~~Tyn~LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~  515 (1060)
T PLN03218        436 TLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALID  515 (1060)
T ss_pred             CHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999998    689999999999


Q ss_pred             HHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHH--hCCCCchhHHHHHHHHhhhCCCh
Q 005329          183 GLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSGALNFGREIHTIMLK--RGFDVVSFVANSLATMYSKCGKL  260 (702)
Q Consensus       183 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~li~~~~~~g~~  260 (702)
                      +|++.|++++|.++|++|.+.|+.||..||+.+|.+|++.|++++|.++|++|.+  .|+.||..+|+.++.+|++.|++
T Consensus       516 gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~l  595 (1060)
T PLN03218        516 GCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQV  595 (1060)
T ss_pred             HHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCH
Confidence            9999999999999999999999999999999999999999999999999999987  67899999999999999999999


Q ss_pred             HHHHHHHhccCC----CCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCchHHHHHHHHHH
Q 005329          261 DYSLRLFERMST----RDVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHV  336 (702)
Q Consensus       261 ~~A~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~  336 (702)
                      ++|.++|+.|.+    |+..+|+.+|.+|++.|++++|.++|++|.+.|+.||..||+.++.+|++.|++++|.++++.|
T Consensus       596 deA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM  675 (1060)
T PLN03218        596 DRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDA  675 (1060)
T ss_pred             HHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence            999999999974    5779999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHhcC----CCCChhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHH
Q 005329          337 LRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGM----IRRDIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEF  412 (702)
Q Consensus       337 ~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~----~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~  412 (702)
                      .+.|+.|+..+|++++.+|++.|++++|.++|++|    ..||..+||.||.+|++.|++++|.++|++|...|+.||..
T Consensus       676 ~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~  755 (1060)
T PLN03218        676 RKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTI  755 (1060)
T ss_pred             HHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHH
Confidence            99999999999999999999999999999999999    46899999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCHHHHHHHHHHHHHcCC
Q 005329          413 AFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETESDDIVSWTAMINGYAEHGY  492 (702)
Q Consensus       413 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~  492 (702)
                      ||+.++.+|++.|+++.|.+++..|.+.|+.|+..+|++++.++.+  ++++|..+.+.+..     |+. .......+.
T Consensus       756 Ty~sLL~a~~k~G~le~A~~l~~~M~k~Gi~pd~~tynsLIglc~~--~y~ka~~l~~~v~~-----f~~-g~~~~~n~w  827 (1060)
T PLN03218        756 TYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCLR--RFEKACALGEPVVS-----FDS-GRPQIENKW  827 (1060)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH--HHHHHhhhhhhhhh-----hhc-cccccccch
Confidence            9999999999999999999999999999999999999999976542  45555554433221     110 111112234


Q ss_pred             hHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHH
Q 005329          493 SQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIE  572 (702)
Q Consensus       493 ~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~  572 (702)
                      .+.|+.+|++|.+.|+.||..||+.++.+++..+..+.+..+++.|... +..|+..+|++|++++.+.  .++|..+++
T Consensus       828 ~~~Al~lf~eM~~~Gi~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~~~-~~~~~~~~y~~Li~g~~~~--~~~A~~l~~  904 (1060)
T PLN03218        828 TSWALMVYRETISAGTLPTMEVLSQVLGCLQLPHDATLRNRLIENLGIS-ADSQKQSNLSTLVDGFGEY--DPRAFSLLE  904 (1060)
T ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHhcccccHHHHHHHHHHhccC-CCCcchhhhHHHHHhhccC--hHHHHHHHH
Confidence            5679999999999999999999999998888889999999999888655 7778899999999988432  468999999


Q ss_pred             hCCC
Q 005329          573 NMPH  576 (702)
Q Consensus       573 ~~~~  576 (702)
                      +|..
T Consensus       905 em~~  908 (1060)
T PLN03218        905 EAAS  908 (1060)
T ss_pred             HHHH
Confidence            9977

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

Probab=100.00  E-value=3.7e-67  Score=576.32  Aligned_cols=476  Identities=26%  Similarity=0.450  Sum_probs=459.1

Q ss_pred             CCCcchHHHHHHHHHcCCChhHHHHHHHHhhhCCCCCCCHHHHHHHHHHhhccCCchhhhHHHHHHHHhcCCCchhHHHH
Q 005329           69 QRDEISWTTLISGYVKAMDSIEALALFSRVWVEPQMNMDPFILSLALKACALNVNVNYGESLHGYTVKTGFVNSVFVGSA  148 (702)
Q Consensus        69 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  148 (702)
                      .++..+|+.+|.++.+.|++++|+++|+.|....+..||..+|+.++.+|++.++++.+.+++..|.+.|+.||..+||.
T Consensus        84 ~~~~~~~~~~i~~l~~~g~~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~  163 (697)
T PLN03081         84 RKSGVSLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNR  163 (697)
T ss_pred             CCCceeHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHH
Confidence            34677999999999999999999999999987756889999999999999999999999999999999999999999999


Q ss_pred             HHHhhhcCCChhHHHHHhccCCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhccCChHHH
Q 005329          149 LLDMYTKLGKIELGCRVFDEMPLRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSGALNFG  228 (702)
Q Consensus       149 li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a  228 (702)
                      ++.+|++.|++++|.++|++|+.||..+||++|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|+..|..+.+
T Consensus       164 Li~~y~k~g~~~~A~~lf~~m~~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~  243 (697)
T PLN03081        164 VLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAG  243 (697)
T ss_pred             HHHHHhcCCCHHHHHHHHhcCCCCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhCCCCchhHHHHHHHHhhhCCChHHHHHHHhccCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCC
Q 005329          229 REIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMSTRDVISWTTIITSYVQMGEEENAFDAFVRMQESDVKP  308 (702)
Q Consensus       229 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  308 (702)
                      .+++..+.+.|+.||..++++|+++|+++|++++|.++|++|+++|+.+||++|.+|++.|++++|+++|++|.+.|+.|
T Consensus       244 ~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~p  323 (697)
T PLN03081        244 QQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSI  323 (697)
T ss_pred             HHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ChhhHHHHHHHHHccCchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhhHHHHHHHHHc
Q 005329          309 NEYTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIRRDIISWSTIIGGYSQ  388 (702)
Q Consensus       309 ~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~  388 (702)
                      |..||+.++.+|++.|+++.|.+++..|.+.|+.||..++++|+++|+++|++++|.++|++|.++|+.+||.||.+|++
T Consensus       324 d~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~~d~~t~n~lI~~y~~  403 (697)
T PLN03081        324 DQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGN  403 (697)
T ss_pred             CHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCCCCeeeHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHH-hCCCCChhHHHHHHHHHHhcCCHHHHHH
Q 005329          389 GGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMS-IGLERTAMIKSALINMYSKCGSIKEASQ  467 (702)
Q Consensus       389 ~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~li~~~~~~g~~~~A~~  467 (702)
                      .|+.++|+++|++|.+.|+.||..||+.++.+|++.|.+++|.++|+.|.+ .|+.|+..+|+.++++|++.|++++|.+
T Consensus       404 ~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~  483 (697)
T PLN03081        404 HGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYA  483 (697)
T ss_pred             cCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHH
Confidence            999999999999999999999999999999999999999999999999986 6999999999999999999999999999


Q ss_pred             HHhhCC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCC
Q 005329          468 IFYETE-SDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPD-SVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFV  545 (702)
Q Consensus       468 ~~~~~~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~  545 (702)
                      ++++|. .|+..+|++|+.+|...|+++.|..+++++.+  +.|+ ..+|..++..|++.|++++|.++++.|.++ |+.
T Consensus       484 ~~~~~~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~--~~p~~~~~y~~L~~~y~~~G~~~~A~~v~~~m~~~-g~~  560 (697)
T PLN03081        484 MIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYG--MGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRK-GLS  560 (697)
T ss_pred             HHHHCCCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhC--CCCCCCcchHHHHHHHHhCCCHHHHHHHHHHHHHc-CCc
Confidence            999987 68999999999999999999999999999875  4564 568999999999999999999999999877 775


Q ss_pred             CC
Q 005329          546 PS  547 (702)
Q Consensus       546 p~  547 (702)
                      ..
T Consensus       561 k~  562 (697)
T PLN03081        561 MH  562 (697)
T ss_pred             cC
Confidence            43

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=1.4e-64  Score=556.57  Aligned_cols=504  Identities=15%  Similarity=0.203  Sum_probs=460.7

Q ss_pred             CCCCHHHHHHHHHHhhccCCchhhhHHHHHHHHhcC-CCchhHHHHHHHhhhcCCChhHHHHHhccCCCCCcchHHHHHH
Q 005329          104 MNMDPFILSLALKACALNVNVNYGESLHGYTVKTGF-VNSVFVGSALLDMYTKLGKIELGCRVFDEMPLRNVVSWTAIIT  182 (702)
Q Consensus       104 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~  182 (702)
                      -.++...|..++..+.+.|++++|.++|+.|.+.|+ .++..+++.++..|.+.|.+++|..+|+.|..||..+|+.||.
T Consensus       366 ~~~~~~~~~~~y~~l~r~G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~~pd~~Tyn~LL~  445 (1060)
T PLN03218        366 GKRKSPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRNPTLSTFNMLMS  445 (1060)
T ss_pred             CCCCchHHHHHHHHHHHCcCHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            356677888888899999999999999999999985 5778888899999999999999999999999999999999999


Q ss_pred             HHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhhhCCChHH
Q 005329          183 GLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDY  262 (702)
Q Consensus       183 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  262 (702)
                      +|++.|+++.|.++|++|.+.|+.||..+|+.+|.+|++.|+++.|.++|++|.+.|+.||..+|+.+|.+|++.|++++
T Consensus       446 a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~ee  525 (1060)
T PLN03218        446 VCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAK  525 (1060)
T ss_pred             HHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhccC----CCCcchHHHHHHHHHhcCChhHHHHHHHHHHH--CCCCCChhhHHHHHHHHHccCchHHHHHHHHHH
Q 005329          263 SLRLFERMS----TRDVISWTTIITSYVQMGEEENAFDAFVRMQE--SDVKPNEYTFAAIISASANLARIQWGEQLHAHV  336 (702)
Q Consensus       263 A~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~  336 (702)
                      |.++|++|.    .||..+|+.+|.+|++.|++++|.++|++|..  .|+.||..+|+.++.+|++.|++++|.++|+.|
T Consensus       526 Al~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M  605 (1060)
T PLN03218        526 AFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMI  605 (1060)
T ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            999999995    58999999999999999999999999999976  678999999999999999999999999999999


Q ss_pred             HHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHhcCC----CCChhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHH
Q 005329          337 LRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMI----RRDIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEF  412 (702)
Q Consensus       337 ~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~  412 (702)
                      .+.|+.|+..+|+.++.+|++.|++++|.++|++|.    .||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..
T Consensus       606 ~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~  685 (1060)
T PLN03218        606 HEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTV  685 (1060)
T ss_pred             HHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHH
Confidence            999999999999999999999999999999999994    5688999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCC----CCCHHHHHHHHHHHH
Q 005329          413 AFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETE----SDDIVSWTAMINGYA  488 (702)
Q Consensus       413 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~li~~~~  488 (702)
                      +|+.++.+|++.|++++|.++|+.|.+.|+.|+..+|+.+|.+|++.|++++|.++|++|.    .||..+|++++.+|+
T Consensus       686 tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~a~~  765 (1060)
T PLN03218        686 SYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASE  765 (1060)
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999886    489999999999999


Q ss_pred             HcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhc----c-------------------CcHHHHHHHHHHhHHhhCCC
Q 005329          489 EHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSH----A-------------------GLVDLGFHYFNLMSDKYGFV  545 (702)
Q Consensus       489 ~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~----~-------------------g~~~~A~~~~~~~~~~~~~~  545 (702)
                      +.|++++|.+++++|.+.|+.||..+|+.++..|.+    .                   +..+.|..+|++|.+. |+.
T Consensus       766 k~G~le~A~~l~~~M~k~Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~g~~~~~n~w~~~Al~lf~eM~~~-Gi~  844 (1060)
T PLN03218        766 RKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWALMVYRETISA-GTL  844 (1060)
T ss_pred             HCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccccccchHHHHHHHHHHHHHC-CCC
Confidence            999999999999999999999999999999876532    1                   1236788899999887 999


Q ss_pred             CChhhHHHHHHHHHhcCCHHHHHHHHHhCCC---CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC
Q 005329          546 PSKEHYGCMIDLLCRAGRLSDAENMIENMPH---QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELH  610 (702)
Q Consensus       546 p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  610 (702)
                      ||..+|+.++.++.+.+..+.+..+++.|..   .|+..+|++++.++...  .++|..++++|.+.+
T Consensus       845 Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~~~~~~~~~~~y~~Li~g~~~~--~~~A~~l~~em~~~G  910 (1060)
T PLN03218        845 PTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGFGEY--DPRAFSLLEEAASLG  910 (1060)
T ss_pred             CCHHHHHHHHHHhcccccHHHHHHHHHHhccCCCCcchhhhHHHHHhhccC--hHHHHHHHHHHHHcC
Confidence            9999999999888888888999999888865   46788999999987332  368999999998876

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

Probab=100.00  E-value=8e-36  Score=345.30  Aligned_cols=582  Identities=14%  Similarity=0.059  Sum_probs=366.5

Q ss_pred             HHHHHHccCChHHHHHHhhcCCC--C-CcchHHHHHHHHHcCCChhHHHHHHHHhhhCCCCCCCHHHHHHHHHHhhccCC
Q 005329           47 QLKHLVKSGYLHDARKMFDTMTQ--R-DEISWTTLISGYVKAMDSIEALALFSRVWVEPQMNMDPFILSLALKACALNVN  123 (702)
Q Consensus        47 l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~  123 (702)
                      +...+.+.|++++|...|+++.+  | +...+..+...+.+.|++++|...++++....  +.+...+..+...+...|+
T Consensus       301 ~~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~  378 (899)
T TIGR02917       301 AGASEYQLGNLEQAYQYLNQILKYAPNSHQARRLLASIQLRLGRVDEAIATLSPALGLD--PDDPAALSLLGEAYLALGD  378 (899)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHCCC
Confidence            33445555666666666555432  1 33345555555666666666666666665332  3344555556666666666


Q ss_pred             chhhhHHHHHHHHhcCCCchhHHHHHHHhhhcCCChhHHHHHhccCCC---CCcchHHHHHHHHHhCCChHHHHHHHHHH
Q 005329          124 VNYGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKIELGCRVFDEMPL---RNVVSWTAIITGLVRAGHNKEGLIYFAEM  200 (702)
Q Consensus       124 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m  200 (702)
                      +++|..+++.+.+.. +.+...+..+...+...|++++|.+.|+.+..   .+...+..++..+.+.|++++|.++++.+
T Consensus       379 ~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  457 (899)
T TIGR02917       379 FEKAAEYLAKATELD-PENAAARTQLGISKLSQGDPSEAIADLETAAQLDPELGRADLLLILSYLRSGQFDKALAAAKKL  457 (899)
T ss_pred             HHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhhCCcchhhHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            666666666665543 23344555555556666666666666655432   22334455556666666666666666666


Q ss_pred             HHCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhhhCCChHHHHHHHhccCC---CCcch
Q 005329          201 WRSKEQGDSYTFAIVLKASADSGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMST---RDVIS  277 (702)
Q Consensus       201 ~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~  277 (702)
                      ... .+++..++..+...+...|++++|.+.|+++.+.. +.+...+..+...+...|++++|.+.|+++.+   .+..+
T Consensus       458 ~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  535 (899)
T TIGR02917       458 EKK-QPDNASLHNLLGAIYLGKGDLAKAREAFEKALSIE-PDFFPAAANLARIDIQEGNPDDAIQRFEKVLTIDPKNLRA  535 (899)
T ss_pred             HHh-CCCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcCcHHH
Confidence            543 34455566666666666777777777777666653 33445555666666667777777777666542   24456


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHh
Q 005329          278 WTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSK  357 (702)
Q Consensus       278 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  357 (702)
                      +..+...+.+.|+.++|...++++...+ +.+...+..+...+...|++++|..+++.+.+.. +.+...+..+...|..
T Consensus       536 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~  613 (899)
T TIGR02917       536 ILALAGLYLRTGNEEEAVAWLEKAAELN-PQEIEPALALAQYYLGKGQLKKALAILNEAADAA-PDSPEAWLMLGRAQLA  613 (899)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHH
Confidence            6666666667777777777777766543 3344555566666777777777777777666543 4455666777777777


Q ss_pred             cCCHHHHHHHHhcCCC---CChhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHH
Q 005329          358 CGQLTSTSIVFHGMIR---RDIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIH  434 (702)
Q Consensus       358 ~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~  434 (702)
                      .|++++|+..|+.+.+   .+...+..+...+.+.|++++|...|+++.+.. +.+..++..+...+...|+++.|..++
T Consensus       614 ~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~  692 (899)
T TIGR02917       614 AGDLNKAVSSFKKLLALQPDSALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIA  692 (899)
T ss_pred             cCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            7777777777766532   244566666777777777777777777766532 223556666666777777777777777


Q ss_pred             HHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCH
Q 005329          435 AHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETE--SDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDS  512 (702)
Q Consensus       435 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  512 (702)
                      +.+.+.. +.+...+..+...+.+.|++++|...|+.+.  .|+..++..++.++.+.|++++|.+.++++.+.. +.+.
T Consensus       693 ~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~-~~~~  770 (899)
T TIGR02917       693 KSLQKQH-PKAALGFELEGDLYLRQKDYPAAIQAYRKALKRAPSSQNAIKLHRALLASGNTAEAVKTLEAWLKTH-PNDA  770 (899)
T ss_pred             HHHHhhC-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCH
Confidence            7766654 3345556666677777777777777777654  2444556666777777777777777777766542 4455


Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHH
Q 005329          513 VTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRAC  590 (702)
Q Consensus       513 ~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~  590 (702)
                      ..+..+...|...|++++|.++|+++.+.  -+++...+..++..+...|+ ++|+.+++++..  +.+...+..++..+
T Consensus       771 ~~~~~la~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~~~~~~  847 (899)
T TIGR02917       771 VLRTALAELYLAQKDYDKAIKHYRTVVKK--APDNAVVLNNLAWLYLELKD-PRALEYAEKALKLAPNIPAILDTLGWLL  847 (899)
T ss_pred             HHHHHHHHHHHHCcCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhCCCCcHHHHHHHHHH
Confidence            66666677777777777777777777643  12346666777777777777 667777776655  33455666677777


Q ss_pred             HhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHH
Q 005329          591 MVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMR  641 (702)
Q Consensus       591 ~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  641 (702)
                      ...|++++|...++++++.+|.++.++..++.+|.+.|++++|.+++++|.
T Consensus       848 ~~~g~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  898 (899)
T TIGR02917       848 VEKGEADRALPLLRKAVNIAPEAAAIRYHLALALLATGRKAEARKELDKLL  898 (899)
T ss_pred             HHcCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            777777777777777777777777777777777777777777777777664

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=100.00  E-value=2.1e-35  Score=341.86  Aligned_cols=621  Identities=12%  Similarity=0.066  Sum_probs=354.7

Q ss_pred             CchhhhhHHHHHHccCChHHHHHHhhcCCCC---CcchHHHHHHHHHcCCChhHHHHHHHHhhhCCCCCCC-HHHHHHHH
Q 005329           40 STPEVNSQLKHLVKSGYLHDARKMFDTMTQR---DEISWTTLISGYVKAMDSIEALALFSRVWVEPQMNMD-PFILSLAL  115 (702)
Q Consensus        40 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~ll  115 (702)
                      +..++..++..+.+.|++++|...++.+.+.   +...+......+...|++++|...|+++...   .|+ ...+..+.
T Consensus       226 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~---~~~~~~~~~~~~  302 (899)
T TIGR02917       226 NPAVLLALATILIEAGEFEEAEKHADALLKKAPNSPLAHYLKALVDFQKKNYEDARETLQDALKS---APEYLPALLLAG  302 (899)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCHHHHHHHHHHHHHh---CCCchhHHHHHH
Confidence            4455677777777788888888777776432   2222323333445566677777666666543   222 22333334


Q ss_pred             HHhhccCCchhhhHHHHHHHHhcCCCchhHHHHHHHhhhcCCChhHHHHHhccCC---CCCcchHHHHHHHHHhCCChHH
Q 005329          116 KACALNVNVNYGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKIELGCRVFDEMP---LRNVVSWTAIITGLVRAGHNKE  192 (702)
Q Consensus       116 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~~~~~~  192 (702)
                      ..+...|++++|...++.+.+.. +.+...+..+...+.+.|++++|...++.+.   ..+...++.+...+.+.|++++
T Consensus       303 ~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  381 (899)
T TIGR02917       303 ASEYQLGNLEQAYQYLNQILKYA-PNSHQARRLLASIQLRLGRVDEAIATLSPALGLDPDDPAALSLLGEAYLALGDFEK  381 (899)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHCCCHHH
Confidence            44555566666666666555543 2234444455555555555555555555443   1233445555555555555555


Q ss_pred             HHHHHHHHHHCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhC---------------------------------
Q 005329          193 GLIYFAEMWRSKEQGDSYTFAIVLKASADSGALNFGREIHTIMLKRG---------------------------------  239 (702)
Q Consensus       193 a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~---------------------------------  239 (702)
                      |.+.|+++.+.. +.+...+..+...+...|++++|.+.++.+.+..                                 
T Consensus       382 A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  460 (899)
T TIGR02917       382 AAEYLAKATELD-PENAAARTQLGISKLSQGDPSEAIADLETAAQLDPELGRADLLLILSYLRSGQFDKALAAAKKLEKK  460 (899)
T ss_pred             HHHHHHHHHhcC-CCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhhCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHHh
Confidence            555555554431 1123333344444444444444444444444432                                 


Q ss_pred             CCCchhHHHHHHHHhhhCCChHHHHHHHhccCC---CCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHH
Q 005329          240 FDVVSFVANSLATMYSKCGKLDYSLRLFERMST---RDVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAI  316 (702)
Q Consensus       240 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~l  316 (702)
                      .+++..++..+...+...|++++|.+.|+++.+   .+...+..+...+...|++++|.+.|+++...+ +.+..++..+
T Consensus       461 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l  539 (899)
T TIGR02917       461 QPDNASLHNLLGAIYLGKGDLAKAREAFEKALSIEPDFFPAAANLARIDIQEGNPDDAIQRFEKVLTID-PKNLRAILAL  539 (899)
T ss_pred             CCCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHH
Confidence            133444555555555555555555555555431   233344445555555555555555555555442 2334445555


Q ss_pred             HHHHHccCchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHhcCCC---CChhhHHHHHHHHHcCCChH
Q 005329          317 ISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIR---RDIISWSTIIGGYSQGGYEE  393 (702)
Q Consensus       317 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~  393 (702)
                      ...+...|+.++|...+..+.+.+ +.+...+..++..|.+.|++++|...++.+..   .+...|..+..++...|+++
T Consensus       540 ~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  618 (899)
T TIGR02917       540 AGLYLRTGNEEEAVAWLEKAAELN-PQEIEPALALAQYYLGKGQLKKALAILNEAADAAPDSPEAWLMLGRAQLAAGDLN  618 (899)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-ccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCHH
Confidence            555555566666666655555443 33344455555666666666666666655532   24455666666666666666


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCC
Q 005329          394 EAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETE  473 (702)
Q Consensus       394 ~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~  473 (702)
                      +|...|+.+.+.. +.+...+..+...+...|+++.|..+++.+.+.. +.+...+..++..+...|++++|.++++.+.
T Consensus       619 ~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  696 (899)
T TIGR02917       619 KAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQ  696 (899)
T ss_pred             HHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            6666666665532 2233445555555666666666666666655533 2234555556666666666666666666554


Q ss_pred             C---CCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhh
Q 005329          474 S---DDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEH  550 (702)
Q Consensus       474 ~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~  550 (702)
                      +   .+...+..+...+...|++++|.+.|+++...  .|+..++..+..++...|++++|.+.++.+.+.  .+.+...
T Consensus       697 ~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~--~~~~~~~  772 (899)
T TIGR02917       697 KQHPKAALGFELEGDLYLRQKDYPAAIQAYRKALKR--APSSQNAIKLHRALLASGNTAEAVKTLEAWLKT--HPNDAVL  772 (899)
T ss_pred             hhCcCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHH
Confidence            2   24455666666666666666666666666653  344455555666666667777777766666543  2233566


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcC
Q 005329          551 YGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKG  628 (702)
Q Consensus       551 ~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  628 (702)
                      +..++..|.+.|++++|...|+++..  +++..+++.++..+...|+ .+|+..++++++..|+++..+..++.++...|
T Consensus       773 ~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g  851 (899)
T TIGR02917       773 RTALAELYLAQKDYDKAIKHYRTVVKKAPDNAVVLNNLAWLYLELKD-PRALEYAEKALKLAPNIPAILDTLGWLLVEKG  851 (899)
T ss_pred             HHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcC
Confidence            66667777777777777777777655  3455666777777777777 66777777777777777777777777777777


Q ss_pred             ChHHHHHHHHHHHhCCCccCCeeeEEEECCEEEEEEcCCCCCCChhHHHHHHHHHHHHhcCCCCCCccccCC
Q 005329          629 RWREAAEVRKMMRSKGVIKEPGWSRIKVKDQVSAFVSSDRRHSQGEDIYRMLDLLASRESDIDDLDSLVHDA  700 (702)
Q Consensus       629 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~l~~l~~~~~~~~~~~~~~~~~  700 (702)
                      ++++|.++++++.+.+                          |.+.+++..+..+..+.|+..++..++.+|
T Consensus       852 ~~~~A~~~~~~a~~~~--------------------------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  897 (899)
T TIGR02917       852 EADRALPLLRKAVNIA--------------------------PEAAAIRYHLALALLATGRKAEARKELDKL  897 (899)
T ss_pred             CHHHHHHHHHHHHhhC--------------------------CCChHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            7777777777776543                          456677888888888888776665555433

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=99.98  E-value=1.3e-26  Score=267.76  Aligned_cols=580  Identities=12%  Similarity=0.035  Sum_probs=418.8

Q ss_pred             hhhHHHHHHccCChHHHHHHhhcCCC--C-CcchHHHHHHHHHcCCChhHHHHHHHHhhhCCCCCCCHHHH---------
Q 005329           44 VNSQLKHLVKSGYLHDARKMFDTMTQ--R-DEISWTTLISGYVKAMDSIEALALFSRVWVEPQMNMDPFIL---------  111 (702)
Q Consensus        44 ~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~---------  111 (702)
                      .-..++.+...++.+.|.+.++++..  | |+..+..++..+.+.|+.++|...+++..+.   .|+...+         
T Consensus        31 Ll~q~~~~~~~~~~d~a~~~l~kl~~~~p~~p~~~~~~~~~~l~~g~~~~A~~~l~~l~~~---~P~~~~~~~~~~~~~~  107 (1157)
T PRK11447         31 LLEQVRLGEATHREDLVRQSLYRLELIDPNNPDVIAARFRLLLRQGDSDGAQKLLDRLSQL---APDSNAYRSSRTTMLL  107 (1157)
T ss_pred             HHHHHHHHHhhCChHHHHHHHHHHHccCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhh---CCCChHHHHHHHHHHh
Confidence            45566777788888888888887653  3 6667777888888888888888888888755   3332221         


Q ss_pred             --------HHHHHHhhccCCchhhhHHHHHHHHhcCCCchh-HHHHHHHhhhcCCChhHHHHHhccCCC--C-CcchHHH
Q 005329          112 --------SLALKACALNVNVNYGESLHGYTVKTGFVNSVF-VGSALLDMYTKLGKIELGCRVFDEMPL--R-NVVSWTA  179 (702)
Q Consensus       112 --------~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~  179 (702)
                              ..+.+.+...|++++|.+.++.+++.+. |+.. ............|+.++|++.|+++..  | +...+..
T Consensus       108 ~~~~~~~~l~~A~ll~~~g~~~eA~~~~~~~l~~~p-~~~~la~~y~~~~~~~~g~~~~A~~~L~~ll~~~P~~~~~~~~  186 (1157)
T PRK11447        108 STPEGRQALQQARLLATTGRTEEALASYDKLFNGAP-PELDLAVEYWRLVAKLPAQRPEAINQLQRLNADYPGNTGLRNT  186 (1157)
T ss_pred             cCCchhhHHHHHHHHHhCCCHHHHHHHHHHHccCCC-CChHHHHHHHHHHhhCCccHHHHHHHHHHHHHhCCCCHHHHHH
Confidence                    2233456778888888888888876542 3322 111112222345888888888887763  2 4556777


Q ss_pred             HHHHHHhCCChHHHHHHHHHHHHCCC------------------C--------------CChhhH---------------
Q 005329          180 IITGLVRAGHNKEGLIYFAEMWRSKE------------------Q--------------GDSYTF---------------  212 (702)
Q Consensus       180 li~~~~~~~~~~~a~~~~~~m~~~~~------------------~--------------p~~~~~---------------  212 (702)
                      +...+...|++++|+..++++.+...                  .              |+...+               
T Consensus       187 LA~ll~~~g~~~eAl~~l~~~~~~~~~~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~  266 (1157)
T PRK11447        187 LALLLFSSGRRDEGFAVLEQMAKSPAGRDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQLA  266 (1157)
T ss_pred             HHHHHHccCCHHHHHHHHHHHhhCCCchHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhcc
Confidence            77888888888888888887754210                  0              110000               


Q ss_pred             ------HHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhhhCCChHHHHHHHhccCC--CCc---chHHH-
Q 005329          213 ------AIVLKASADSGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMST--RDV---ISWTT-  280 (702)
Q Consensus       213 ------~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~---~~~~~-  280 (702)
                            ......+...|++++|...|++.++.. +.+...+..+...|.+.|++++|+..|++..+  |+.   ..|.. 
T Consensus       267 dp~~~~~~~G~~~~~~g~~~~A~~~l~~aL~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~l  345 (1157)
T PRK11447        267 DPAFRARAQGLAAVDSGQGGKAIPELQQAVRAN-PKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESL  345 (1157)
T ss_pred             CcchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHH
Confidence                  011233456788888888888888764 44667778888888888888888888887653  221   11221 


Q ss_pred             -----------HHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCchHHHHHHHHHHHHhCCCCchHHHH
Q 005329          281 -----------IITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVAN  349 (702)
Q Consensus       281 -----------li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  349 (702)
                                 ....+.+.|++++|...|++..+.. +.+...+..+...+...|++++|++.|+.+.+.. +.+...+.
T Consensus       346 l~~~~~~~~~~~g~~~~~~g~~~eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~-p~~~~a~~  423 (1157)
T PRK11447        346 LKVNRYWLLIQQGDAALKANNLAQAERLYQQARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMD-PGNTNAVR  423 (1157)
T ss_pred             HHhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHH
Confidence                       2345667888888888888888763 3345556667778888888888888888888764 33445556


Q ss_pred             HHHHHHHhcCCHHHHHHHHhcCCCCC------------hhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCC-CHHHHHH
Q 005329          350 SIMAMYSKCGQLTSTSIVFHGMIRRD------------IISWSTIIGGYSQGGYEEEAFEYLALMRREGPRP-NEFAFAS  416 (702)
Q Consensus       350 ~l~~~~~~~g~~~~a~~~~~~~~~~~------------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~  416 (702)
                      .+...|. .++.++|+..++.+....            ...+..+...+...|++++|++.|++..+.  .| +...+..
T Consensus       424 ~L~~l~~-~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~--~P~~~~~~~~  500 (1157)
T PRK11447        424 GLANLYR-QQSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLAL--DPGSVWLTYR  500 (1157)
T ss_pred             HHHHHHH-hcCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHH
Confidence            6666664 457788888887764321            123455667788899999999999999885  44 3446667


Q ss_pred             HHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCCC----CH---------HHHHHH
Q 005329          417 VLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETESD----DI---------VSWTAM  483 (702)
Q Consensus       417 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~----~~---------~~~~~l  483 (702)
                      +...+.+.|++++|...++.+.+.... +...+..+...+...++.++|...++.+...    +.         ..+..+
T Consensus       501 LA~~~~~~G~~~~A~~~l~~al~~~P~-~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~  579 (1157)
T PRK11447        501 LAQDLRQAGQRSQADALMRRLAQQKPN-DPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLET  579 (1157)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHH
Confidence            778899999999999999998875433 3444444555677889999999999987632    11         122345


Q ss_pred             HHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcC
Q 005329          484 INGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAG  562 (702)
Q Consensus       484 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g  562 (702)
                      ...+...|++++|.++++.     .+++...+..+...+...|++++|++.|+.+.+.   .|+ ...+..++.+|...|
T Consensus       580 a~~l~~~G~~~eA~~~l~~-----~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~---~P~~~~a~~~la~~~~~~g  651 (1157)
T PRK11447        580 ANRLRDSGKEAEAEALLRQ-----QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTR---EPGNADARLGLIEVDIAQG  651 (1157)
T ss_pred             HHHHHHCCCHHHHHHHHHh-----CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHCC
Confidence            6778899999999999872     2455667778888999999999999999999854   565 788899999999999


Q ss_pred             CHHHHHHHHHhCCC-CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCc------hhHHHHHHHHHhcCChHHHH
Q 005329          563 RLSDAENMIENMPH-QK-DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCA------GTHITLANIYAAKGRWREAA  634 (702)
Q Consensus       563 ~~~~A~~~~~~~~~-~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~------~~~~~l~~~~~~~g~~~~A~  634 (702)
                      ++++|.+.++.... .| +...+..+..++...|++++|.+.++++++..|+++      ..+..++.++...|++++|+
T Consensus       652 ~~~eA~~~l~~ll~~~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~  731 (1157)
T PRK11447        652 DLAAARAQLAKLPATANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQAL  731 (1157)
T ss_pred             CHHHHHHHHHHHhccCCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHH
Confidence            99999999998876 34 566778888899999999999999999999876554      36677899999999999999


Q ss_pred             HHHHHHHh
Q 005329          635 EVRKMMRS  642 (702)
Q Consensus       635 ~~~~~~~~  642 (702)
                      ..++++..
T Consensus       732 ~~y~~Al~  739 (1157)
T PRK11447        732 ETYKDAMV  739 (1157)
T ss_pred             HHHHHHHh
Confidence            99998864

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.96  E-value=3e-24  Score=248.28  Aligned_cols=557  Identities=11%  Similarity=0.051  Sum_probs=352.9

Q ss_pred             HHHHHHHHHcCCChhHHHHHHHHhhhCCCCCCCHHHHHHHHHHhhccCCchhhhHHHHHHHHhcCCCchhHH--------
Q 005329           75 WTTLISGYVKAMDSIEALALFSRVWVEPQMNMDPFILSLALKACALNVNVNYGESLHGYTVKTGFVNSVFVG--------  146 (702)
Q Consensus        75 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~--------  146 (702)
                      .-..++.....++.+.|.+.++++....  +.|+..+..+...+...|+.++|.+.++++.+..+. +....        
T Consensus        31 Ll~q~~~~~~~~~~d~a~~~l~kl~~~~--p~~p~~~~~~~~~~l~~g~~~~A~~~l~~l~~~~P~-~~~~~~~~~~~~~  107 (1157)
T PRK11447         31 LLEQVRLGEATHREDLVRQSLYRLELID--PNNPDVIAARFRLLLRQGDSDGAQKLLDRLSQLAPD-SNAYRSSRTTMLL  107 (1157)
T ss_pred             HHHHHHHHHhhCChHHHHHHHHHHHccC--CCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhhCCC-ChHHHHHHHHHHh
Confidence            3445556778999999999999998543  446778888889999999999999999999988732 22221        


Q ss_pred             --------HHHHHhhhcCCChhHHHHHhccCCCCCcchHH--H-HHH-HHHhCCChHHHHHHHHHHHHCCCCCChhhHHH
Q 005329          147 --------SALLDMYTKLGKIELGCRVFDEMPLRNVVSWT--A-IIT-GLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAI  214 (702)
Q Consensus       147 --------~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~--~-li~-~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~  214 (702)
                              ..+...+.+.|++++|...|+.....++....  . ... .....|++++|++.|+++.+.. +-+...+..
T Consensus       108 ~~~~~~~~l~~A~ll~~~g~~~eA~~~~~~~l~~~p~~~~la~~y~~~~~~~~g~~~~A~~~L~~ll~~~-P~~~~~~~~  186 (1157)
T PRK11447        108 STPEGRQALQQARLLATTGRTEEALASYDKLFNGAPPELDLAVEYWRLVAKLPAQRPEAINQLQRLNADY-PGNTGLRNT  186 (1157)
T ss_pred             cCCchhhHHHHHHHHHhCCCHHHHHHHHHHHccCCCCChHHHHHHHHHHhhCCccHHHHHHHHHHHHHhC-CCCHHHHHH
Confidence                    22334678899999999999987643222211  1 111 1224599999999999998863 335556777


Q ss_pred             HHHHHhccCChHHHHHHHHHHHHhCCC----------------Cch---hHHH---------------------------
Q 005329          215 VLKASADSGALNFGREIHTIMLKRGFD----------------VVS---FVAN---------------------------  248 (702)
Q Consensus       215 ll~~~~~~~~~~~a~~~~~~~~~~~~~----------------~~~---~~~~---------------------------  248 (702)
                      +...+...|+.++|.+.++++.+....                ++.   ..+.                           
T Consensus       187 LA~ll~~~g~~~eAl~~l~~~~~~~~~~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~  266 (1157)
T PRK11447        187 LALLLFSSGRRDEGFAVLEQMAKSPAGRDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQLA  266 (1157)
T ss_pred             HHHHHHccCCHHHHHHHHHHHhhCCCchHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhcc
Confidence            888888999999999999988653210                000   0011                           


Q ss_pred             -------HHHHHhhhCCChHHHHHHHhccCC--C-CcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCC-ChhhH----
Q 005329          249 -------SLATMYSKCGKLDYSLRLFERMST--R-DVISWTTIITSYVQMGEEENAFDAFVRMQESDVKP-NEYTF----  313 (702)
Q Consensus       249 -------~li~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~t~----  313 (702)
                             .....+...|++++|+..|++..+  | +...+..+...+.+.|++++|+..|++..+..... ....+    
T Consensus       267 dp~~~~~~~G~~~~~~g~~~~A~~~l~~aL~~~P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll  346 (1157)
T PRK11447        267 DPAFRARAQGLAAVDSGQGGKAIPELQQAVRANPKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLL  346 (1157)
T ss_pred             CcchHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHH
Confidence                   112233445556666666655432  2 44455555556666666666666666655432111 00001    


Q ss_pred             --------HHHHHHHHccCchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHhcCCC--C-ChhhHHHH
Q 005329          314 --------AAIISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIR--R-DIISWSTI  382 (702)
Q Consensus       314 --------~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--~-~~~~~~~l  382 (702)
                              ......+.+.|++++|...|+.+.+.. +.+...+..+...+...|++++|++.|+++.+  | +...+..+
T Consensus       347 ~~~~~~~~~~~g~~~~~~g~~~eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~~~~a~~~L  425 (1157)
T PRK11447        347 KVNRYWLLIQQGDAALKANNLAQAERLYQQARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMDPGNTNAVRGL  425 (1157)
T ss_pred             HhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHH
Confidence                    011223445566666666666655543 23344445555566666666666666655532  1 23344444


Q ss_pred             HHHHHcCCChHHHHHHHHHHHHCCCC--------CCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHH
Q 005329          383 IGGYSQGGYEEEAFEYLALMRREGPR--------PNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALIN  454 (702)
Q Consensus       383 i~~~~~~g~~~~a~~~~~~m~~~g~~--------p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  454 (702)
                      ...|. .++.++|+.+++.+......        .....+..+...+...|++++|...++++.+.... +...+..+..
T Consensus       426 ~~l~~-~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~-~~~~~~~LA~  503 (1157)
T PRK11447        426 ANLYR-QQSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALDPG-SVWLTYRLAQ  503 (1157)
T ss_pred             HHHHH-hcCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHH
Confidence            44443 33455555555443221000        00112233444555667777777777777765432 4455566777


Q ss_pred             HHHhcCCHHHHHHHHhhCC---CCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHH---------HHHHHHHHH
Q 005329          455 MYSKCGSIKEASQIFYETE---SDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSV---------TFMGVLTAC  522 (702)
Q Consensus       455 ~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~---------~~~~ll~~~  522 (702)
                      .|.+.|++++|...|+++.   ..+...+..+...+...++.++|+..++++......++..         .+..+...+
T Consensus       504 ~~~~~G~~~~A~~~l~~al~~~P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l  583 (1157)
T PRK11447        504 DLRQAGQRSQADALMRRLAQQKPNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRL  583 (1157)
T ss_pred             HHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHH
Confidence            7777777777777777653   2244455555555666777777777777665432222221         122345566


Q ss_pred             hccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHH
Q 005329          523 SHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGR  600 (702)
Q Consensus       523 ~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~  600 (702)
                      ...|+.++|.++++.      .+++...+..+...+.+.|++++|+..|+++..  +.+...+..++..+...|++++|+
T Consensus       584 ~~~G~~~eA~~~l~~------~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~P~~~~a~~~la~~~~~~g~~~eA~  657 (1157)
T PRK11447        584 RDSGKEAEAEALLRQ------QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTREPGNADARLGLIEVDIAQGDLAAAR  657 (1157)
T ss_pred             HHCCCHHHHHHHHHh------CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHH
Confidence            777888888877761      133466677788888999999999999988876  345778888888898999999999


Q ss_pred             HHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 005329          601 HTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKG  644 (702)
Q Consensus       601 ~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  644 (702)
                      +.++++.+..|+++..+..++.++...|++++|.++++++.+..
T Consensus       658 ~~l~~ll~~~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~  701 (1157)
T PRK11447        658 AQLAKLPATANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQA  701 (1157)
T ss_pred             HHHHHHhccCCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhC
Confidence            99999888888888888889999999999999999998887654

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.96  E-value=2.9e-23  Score=228.66  Aligned_cols=570  Identities=10%  Similarity=-0.014  Sum_probs=405.0

Q ss_pred             hhhHHHHH--HccCChHHHHHHhhcCCC--C-CcchHHHHHHHHHcCCChhHHHHHHHHhhhCCCCCCCHHHHHHHHHHh
Q 005329           44 VNSQLKHL--VKSGYLHDARKMFDTMTQ--R-DEISWTTLISGYVKAMDSIEALALFSRVWVEPQMNMDPFILSLALKAC  118 (702)
Q Consensus        44 ~~~l~~~~--~~~g~~~~A~~~~~~~~~--~-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~  118 (702)
                      +-.+..++  ...|++++|...|+...+  | +..++..+.+.|...|++++|+..+++....   .|+...|..++...
T Consensus        45 ~~~f~~a~~~~~~Gd~~~A~~~l~~Al~~dP~n~~~~~~LA~~yl~~g~~~~A~~~~~kAv~l---dP~n~~~~~~La~i  121 (987)
T PRK09782         45 YPRLDKALKAQKNNDEATAIREFEYIHQQVPDNIPLTLYLAEAYRHFGHDDRARLLLEDQLKR---HPGDARLERSLAAI  121 (987)
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc---CcccHHHHHHHHHh
Confidence            33344443  344999999999999875  3 5667899999999999999999999999855   55555554444333


Q ss_pred             hccCCchhhhHHHHHHHHhcCCCchhHHHHHHHh--------hhcCCChhHHHHHhccCCCCC--cchHHHH-HHHHHhC
Q 005329          119 ALNVNVNYGESLHGYTVKTGFVNSVFVGSALLDM--------YTKLGKIELGCRVFDEMPLRN--VVSWTAI-ITGLVRA  187 (702)
Q Consensus       119 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~--------~~~~g~~~~A~~~~~~~~~~~--~~~~~~l-i~~~~~~  187 (702)
                         ++..+|..+++++++..+ -+..++..+...        |.+.+...++++ . ....|+  ....... .+.|.+.
T Consensus       122 ---~~~~kA~~~ye~l~~~~P-~n~~~~~~la~~~~~~~~l~y~q~eqAl~AL~-l-r~~~~~~~~~vL~L~~~rlY~~l  195 (987)
T PRK09782        122 ---PVEVKSVTTVEELLAQQK-ACDAVPTLRCRSEVGQNALRLAQLPVARAQLN-D-ATFAASPEGKTLRTDLLQRAIYL  195 (987)
T ss_pred             ---ccChhHHHHHHHHHHhCC-CChhHHHHHHHHhhccchhhhhhHHHHHHHHH-H-hhhCCCCCcHHHHHHHHHHHHHH
Confidence               888999999999999863 344555555554        777777777776 3 333343  4434444 8999999


Q ss_pred             CChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhc-cCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhhhCCChHHHHHH
Q 005329          188 GHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASAD-SGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRL  266 (702)
Q Consensus       188 ~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  266 (702)
                      |++++|++++.++.+.+. .+..-...+-.++.. .++ +.+..+++.    .+..+......+...|.+.|+.++|.++
T Consensus       196 ~dw~~Ai~lL~~L~k~~p-l~~~~~~~L~~ay~q~l~~-~~a~al~~~----~lk~d~~l~~ala~~yi~~G~~~~A~~~  269 (987)
T PRK09782        196 KQWSQADTLYNEARQQNT-LSAAERRQWFDVLLAGQLD-DRLLALQSQ----GIFTDPQSRITYATALAYRGEKARLQHY  269 (987)
T ss_pred             hCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHhhCH-HHHHHHhch----hcccCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            999999999999998753 334445556667766 366 777777543    3346788889999999999999999999


Q ss_pred             HhccCC-----CCcchHH------------------------------HHHHHHHhcCChhHHHHHHHHHHHCCCCCChh
Q 005329          267 FERMST-----RDVISWT------------------------------TIITSYVQMGEEENAFDAFVRMQESDVKPNEY  311 (702)
Q Consensus       267 ~~~~~~-----~~~~~~~------------------------------~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~  311 (702)
                      +++++.     |+..+|-                              .++..+.+.++++.+.++.      .+.|...
T Consensus       270 L~~~~~~~~~~~~~~~~~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~  343 (987)
T PRK09782        270 LIENKPLFTTDAQEKSWLYLLSKYSANPVQALANYTVQFADNRQYVVGATLPVLLKEGQYDAAQKLL------ATLPANE  343 (987)
T ss_pred             HHhCcccccCCCccHHHHHHHHhccCchhhhccchhhhhHHHHHHHHHHHHHHHHhccHHHHHHHHh------cCCCcch
Confidence            998862     2222211                              1244555566666444331      1334433


Q ss_pred             hHHHHHHHHH--ccCchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHhcCCC-C-----ChhhHHHHH
Q 005329          312 TFAAIISASA--NLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIR-R-----DIISWSTII  383 (702)
Q Consensus       312 t~~~ll~~~~--~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~-----~~~~~~~li  383 (702)
                      .  ..+....  ..+...++.+.+..+.+.. +-+....--+.-...+.|+.++|..+|+.... +     +.....-++
T Consensus       344 ~--~~~r~~~~~~~~~~~~~~~~~~~~y~~~-~~~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~  420 (987)
T PRK09782        344 M--LEERYAVSVATRNKAEALRLARLLYQQE-PANLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQTLMARLA  420 (987)
T ss_pred             H--HHHHHhhccccCchhHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHHHHHHHH
Confidence            2  2333222  3355666666666666542 23444444455556788999999999988744 2     223344667


Q ss_pred             HHHHcCCC---hHHHHHH----------------------HHHHHH-CCC-CC--CHHHHHHHHHHHcccCcHHHHHHHH
Q 005329          384 GGYSQGGY---EEEAFEY----------------------LALMRR-EGP-RP--NEFAFASVLSVCGNMAILEQGKQIH  434 (702)
Q Consensus       384 ~~~~~~g~---~~~a~~~----------------------~~~m~~-~g~-~p--~~~~~~~ll~~~~~~~~~~~a~~~~  434 (702)
                      ..|.+.+.   ..++..+                      +..... .+. ++  +...+..+..++.. ++.++|...+
T Consensus       421 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~-~~~~eAi~a~  499 (987)
T PRK09782        421 SLLESHPYLATPAKVAILSKPLPLAEQRQWQSQLPGIADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRD-TLPGVALYAW  499 (987)
T ss_pred             HHHHhCCcccchHHHHHhccccccchhHHHHhhhhhhhhhHHHHHHhcccCCCCCCHHHHHHHHHHHHh-CCcHHHHHHH
Confidence            77776655   3333333                      111111 112 22  45556666655555 7888899987


Q ss_pred             HHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCC--CCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCH
Q 005329          435 AHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETES--DDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDS  512 (702)
Q Consensus       435 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  512 (702)
                      .......  |+......+...+...|++++|...|+++..  ++...+..+..++.+.|++++|...+++..+.. +++.
T Consensus       500 ~~Al~~~--Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~-P~~~  576 (987)
T PRK09782        500 LQAEQRQ--PDAWQHRAVAYQAYQVEDYATALAAWQKISLHDMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRG-LGDN  576 (987)
T ss_pred             HHHHHhC--CchHHHHHHHHHHHHCCCHHHHHHHHHHHhccCCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CccH
Confidence            7777655  4433333445555789999999999997663  445567777888999999999999999998754 3333


Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CC-CHHHHHHHHHHH
Q 005329          513 VTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPH-QK-DDVVWSTLLRAC  590 (702)
Q Consensus       513 ~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p-~~~~~~~l~~~~  590 (702)
                      ..+..+...+...|++++|...+++..+   +.|+...+..+..++.+.|++++|...+++... .| +...+..+..++
T Consensus       577 ~l~~~La~~l~~~Gr~~eAl~~~~~AL~---l~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~Pd~~~a~~nLG~aL  653 (987)
T PRK09782        577 ALYWWLHAQRYIPGQPELALNDLTRSLN---IAPSANAYVARATIYRQRHNVPAAVSDLRAALELEPNNSNYQAALGYAL  653 (987)
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHH---hCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            3444444555667999999999999984   578888999999999999999999999999888 44 567888899999


Q ss_pred             HhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 005329          591 MVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKG  644 (702)
Q Consensus       591 ~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  644 (702)
                      ...|++++|+..++++++.+|+++..+..++.++...|++++|+..++++.+..
T Consensus       654 ~~~G~~eeAi~~l~~AL~l~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~  707 (987)
T PRK09782        654 WDSGDIAQSREMLERAHKGLPDDPALIRQLAYVNQRLDDMAATQHYARLVIDDI  707 (987)
T ss_pred             HHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            999999999999999999999999999999999999999999999999998754

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.95  E-value=5.3e-22  Score=218.73  Aligned_cols=580  Identities=9%  Similarity=0.014  Sum_probs=410.9

Q ss_pred             CchhhhhHHHHHHccCChHHHHHHhhcCCCCCc--chHHHHHHHHHcCCChhHHHHHHHHhhhCCCCCCCHHHHHHHHHH
Q 005329           40 STPEVNSQLKHLVKSGYLHDARKMFDTMTQRDE--ISWTTLISGYVKAMDSIEALALFSRVWVEPQMNMDPFILSLALKA  117 (702)
Q Consensus        40 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~--~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~  117 (702)
                      +..++..|.+.|.+.|+.++|+..+++..+.++  ..|..++..+   +++.+|..+|+++....  +-+..++..+...
T Consensus        77 n~~~~~~LA~~yl~~g~~~~A~~~~~kAv~ldP~n~~~~~~La~i---~~~~kA~~~ye~l~~~~--P~n~~~~~~la~~  151 (987)
T PRK09782         77 NIPLTLYLAEAYRHFGHDDRARLLLEDQLKRHPGDARLERSLAAI---PVEVKSVTTVEELLAQQ--KACDAVPTLRCRS  151 (987)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcccHHHHHHHHHh---ccChhHHHHHHHHHHhC--CCChhHHHHHHHH
Confidence            467789999999999999999999999876432  3333334333   88999999999998663  2233344444333


Q ss_pred             h-----hccCCchhhhHHHHHHHHhcCCCchhHHHHH-HHhhhcCCChhHHHHHhccCCCC---CcchHHHHHHHHHhC-
Q 005329          118 C-----ALNVNVNYGESLHGYTVKTGFVNSVFVGSAL-LDMYTKLGKIELGCRVFDEMPLR---NVVSWTAIITGLVRA-  187 (702)
Q Consensus       118 ~-----~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-i~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~-  187 (702)
                      .     ......+++.+.++ .......|+..+.... ...|.+.|++++|+.++.++.+.   +......|-..|... 
T Consensus       152 ~~~~~~l~y~q~eqAl~AL~-lr~~~~~~~~~vL~L~~~rlY~~l~dw~~Ai~lL~~L~k~~pl~~~~~~~L~~ay~q~l  230 (987)
T PRK09782        152 EVGQNALRLAQLPVARAQLN-DATFAASPEGKTLRTDLLQRAIYLKQWSQADTLYNEARQQNTLSAAERRQWFDVLLAGQ  230 (987)
T ss_pred             hhccchhhhhhHHHHHHHHH-HhhhCCCCCcHHHHHHHHHHHHHHhCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhh
Confidence            0     11223366666666 3334444455555555 78899999999999999888642   233355566677763 


Q ss_pred             CChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCC-CchhHH-------------------
Q 005329          188 GHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSGALNFGREIHTIMLKRGFD-VVSFVA-------------------  247 (702)
Q Consensus       188 ~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~-------------------  247 (702)
                      ++ +.+..+++.    .++-|......+...+.+.|+.++|.++++++...... |...++                   
T Consensus       231 ~~-~~a~al~~~----~lk~d~~l~~ala~~yi~~G~~~~A~~~L~~~~~~~~~~~~~~~~~~~l~r~~~~~~~~~~~~~  305 (987)
T PRK09782        231 LD-DRLLALQSQ----GIFTDPQSRITYATALAYRGEKARLQHYLIENKPLFTTDAQEKSWLYLLSKYSANPVQALANYT  305 (987)
T ss_pred             CH-HHHHHHhch----hcccCHHHHHHHHHHHHHCCCHHHHHHHHHhCcccccCCCccHHHHHHHHhccCchhhhccchh
Confidence            66 777777543    24457778888888899999999999888877543211 222221                   


Q ss_pred             -----------HHHHHHhhhCCChHHHHHHHhccCCCCcchHHHHHHHH--HhcCChhHHHHHHHHHHHCCCCCChhhHH
Q 005329          248 -----------NSLATMYSKCGKLDYSLRLFERMSTRDVISWTTIITSY--VQMGEEENAFDAFVRMQESDVKPNEYTFA  314 (702)
Q Consensus       248 -----------~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~--~~~g~~~~a~~~~~~m~~~g~~p~~~t~~  314 (702)
                                 -.++..+.+.++++.++++.. ....+. .  ..+...  ...+...++.+.+..|.+.. +-+....-
T Consensus       306 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~-~--~~~r~~~~~~~~~~~~~~~~~~~~y~~~-~~~~~~l~  380 (987)
T PRK09782        306 VQFADNRQYVVGATLPVLLKEGQYDAAQKLLA-TLPANE-M--LEERYAVSVATRNKAEALRLARLLYQQE-PANLTRLD  380 (987)
T ss_pred             hhhHHHHHHHHHHHHHHHHhccHHHHHHHHhc-CCCcch-H--HHHHHhhccccCchhHHHHHHHHHHhcC-CCCHHHHH
Confidence                       122556667777777776643 221222 1  233222  23356667777777776652 22444444


Q ss_pred             HHHHHHHccCchHHHHHHHHHHHHh-C-CCCchHHHHHHHHHHHhcCC---HHHHHHH----------------------
Q 005329          315 AIISASANLARIQWGEQLHAHVLRL-G-LVDSLSVANSIMAMYSKCGQ---LTSTSIV----------------------  367 (702)
Q Consensus       315 ~ll~~~~~~~~~~~a~~~~~~~~~~-~-~~~~~~~~~~l~~~~~~~g~---~~~a~~~----------------------  367 (702)
                      .+--.....|+.++|.+++...... + -..+.....-++..|.+.+.   ..++..+                      
T Consensus       381 q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~  460 (987)
T PRK09782        381 QLTWQLMQNGQSREAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATPAKVAILSKPLPLAEQRQWQSQLPGIADN  460 (987)
T ss_pred             HHHHHHHHcccHHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccchHHHHHhccccccchhHHHHhhhhhhhhh
Confidence            4444566788999999999988763 1 22345566677888887766   3333333                      


Q ss_pred             ---HhcCC---CC--ChhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHH
Q 005329          368 ---FHGMI---RR--DIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMS  439 (702)
Q Consensus       368 ---~~~~~---~~--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  439 (702)
                         +....   ..  +...|..+..++.. ++.++|+..+.+....  .|+......+...+...|+++.|...++.+..
T Consensus       461 ~~~~~~al~~~p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~--~Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~  537 (987)
T PRK09782        461 CPAIVRLLGDMSPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQR--QPDAWQHRAVAYQAYQVEDYATALAAWQKISL  537 (987)
T ss_pred             HHHHHHhcccCCCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHHh--CCchHHHHHHHHHHHHCCCHHHHHHHHHHHhc
Confidence               11111   12  45677778877776 8999999988888764  46655544455566789999999999998765


Q ss_pred             hCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCH---HHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHH
Q 005329          440 IGLERTAMIKSALINMYSKCGSIKEASQIFYETESDDI---VSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFM  516 (702)
Q Consensus       440 ~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~  516 (702)
                      .  +|+...+..+...+.+.|++++|...|++..+.++   ..+..+...+...|++++|...+++..+.  .|+...+.
T Consensus       538 ~--~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l--~P~~~a~~  613 (987)
T PRK09782        538 H--DMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRGLGDNALYWWLHAQRYIPGQPELALNDLTRSLNI--APSANAYV  613 (987)
T ss_pred             c--CCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCCHHHHH
Confidence            4  33344456677888999999999999998775332   23333334444569999999999999874  67788899


Q ss_pred             HHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CC-CHHHHHHHHHHHHhc
Q 005329          517 GVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH-QK-DDVVWSTLLRACMVQ  593 (702)
Q Consensus       517 ~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p-~~~~~~~l~~~~~~~  593 (702)
                      .+...+.+.|++++|...+++...   +.|+ ...+..+..++...|++++|+..++++.. .| +...+..+..++...
T Consensus       614 ~LA~~l~~lG~~deA~~~l~~AL~---l~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P~~~~a~~nLA~al~~l  690 (987)
T PRK09782        614 ARATIYRQRHNVPAAVSDLRAALE---LEPNNSNYQAALGYALWDSGDIAQSREMLERAHKGLPDDPALIRQLAYVNQRL  690 (987)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHC
Confidence            999999999999999999999984   4776 77888999999999999999999999877 44 677999999999999


Q ss_pred             CCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 005329          594 GDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKGV  645 (702)
Q Consensus       594 g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  645 (702)
                      |++++|+..+++++++.|++..+....+++..+..+++.|.+-++....-.+
T Consensus       691 Gd~~eA~~~l~~Al~l~P~~a~i~~~~g~~~~~~~~~~~a~~~~~r~~~~~~  742 (987)
T PRK09782        691 DDMAATQHYARLVIDDIDNQALITPLTPEQNQQRFNFRRLHEEVGRRWTFSF  742 (987)
T ss_pred             CCHHHHHHHHHHHHhcCCCCchhhhhhhHHHHHHHHHHHHHHHHHHHhhcCc
Confidence            9999999999999999999999999999999999999999998887765443

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

Probab=99.91  E-value=3.7e-21  Score=187.62  Aligned_cols=443  Identities=13%  Similarity=0.145  Sum_probs=342.6

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhhh
Q 005329          177 WTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSGALNFGREIHTIMLKRGFDVVSFVANSLATMYSK  256 (702)
Q Consensus       177 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  256 (702)
                      -..|..-..+.|++++|.+.-...-... +.+......+-..+.+..+.+...+.-....+.. +.-..+|..+.+.+-.
T Consensus        51 ~l~lah~~yq~gd~~~a~~h~nmv~~~d-~t~~~~llll~ai~~q~~r~d~s~a~~~~a~r~~-~q~ae~ysn~aN~~ke  128 (966)
T KOG4626|consen   51 RLELAHRLYQGGDYKQAEKHCNMVGQED-PTNTERLLLLSAIFFQGSRLDKSSAGSLLAIRKN-PQGAEAYSNLANILKE  128 (966)
T ss_pred             HHHHHHHHHhccCHHHHHHHHhHhhccC-CCcccceeeehhhhhcccchhhhhhhhhhhhhcc-chHHHHHHHHHHHHHH
Confidence            4455556667788888877655443321 2222233333333444455554444333333332 4456678888888888


Q ss_pred             CCChHHHHHHHhccCC---CCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHH-HHHHHHccCchHHHHHH
Q 005329          257 CGKLDYSLRLFERMST---RDVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAA-IISASANLARIQWGEQL  332 (702)
Q Consensus       257 ~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~-ll~~~~~~~~~~~a~~~  332 (702)
                      .|++++|+.+++.+.+   ..+..|..+..++...|+.+.|.+.|.+..+.  .|+.....+ +-..+-..|++++|..-
T Consensus       129 rg~~~~al~~y~~aiel~p~fida~inla~al~~~~~~~~a~~~~~~alql--nP~l~ca~s~lgnLlka~Grl~ea~~c  206 (966)
T KOG4626|consen  129 RGQLQDALALYRAAIELKPKFIDAYINLAAALVTQGDLELAVQCFFEALQL--NPDLYCARSDLGNLLKAEGRLEEAKAC  206 (966)
T ss_pred             hchHHHHHHHHHHHHhcCchhhHHHhhHHHHHHhcCCCcccHHHHHHHHhc--CcchhhhhcchhHHHHhhcccchhHHH
Confidence            8999999988887764   25678888888999999999999988888764  455444333 33334457888888888


Q ss_pred             HHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHhcCCCCC---hhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCC
Q 005329          333 HAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIRRD---IISWSTIIGGYSQGGYEEEAFEYLALMRREGPRP  409 (702)
Q Consensus       333 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  409 (702)
                      |-+.++... -=...|+.|...+-..|+...|+..|++...-|   ..+|-.|...|...+.+++|...+.+...  ..|
T Consensus       207 YlkAi~~qp-~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkldP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~--lrp  283 (966)
T KOG4626|consen  207 YLKAIETQP-CFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLDPNFLDAYINLGNVYKEARIFDRAVSCYLRALN--LRP  283 (966)
T ss_pred             HHHHHhhCC-ceeeeehhcchHHhhcchHHHHHHHHHHhhcCCCcchHHHhhHHHHHHHHhcchHHHHHHHHHHh--cCC
Confidence            887777542 224567778888888999999999999886544   34788899999999999999999988876  456


Q ss_pred             CH-HHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCC---CCHHHHHHHHH
Q 005329          410 NE-FAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETES---DDIVSWTAMIN  485 (702)
Q Consensus       410 ~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~  485 (702)
                      +. ..+..+...|...|.++.|+..+++.++.... -+..|+.|..++...|++.+|.+.|.+...   ....+.+.|..
T Consensus       284 n~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~P~-F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p~hadam~NLgn  362 (966)
T KOG4626|consen  284 NHAVAHGNLACIYYEQGLLDLAIDTYKRALELQPN-FPDAYNNLANALKDKGSVTEAVDCYNKALRLCPNHADAMNNLGN  362 (966)
T ss_pred             cchhhccceEEEEeccccHHHHHHHHHHHHhcCCC-chHHHhHHHHHHHhccchHHHHHHHHHHHHhCCccHHHHHHHHH
Confidence            54 46667777788899999999999998876532 356788999999999999999999998763   45678899999


Q ss_pred             HHHHcCChHHHHHHHHHchhCCCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCC
Q 005329          486 GYAEHGYSQEAIHLFEKVPMVGLRPDS-VTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGR  563 (702)
Q Consensus       486 ~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~  563 (702)
                      .|...|.+++|..+|.+..+  +.|.- ..++.|...|-+.|++++|+..|++..   .+.|+ ...|+.+...|-..|+
T Consensus       363 i~~E~~~~e~A~~ly~~al~--v~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykeal---rI~P~fAda~~NmGnt~ke~g~  437 (966)
T KOG4626|consen  363 IYREQGKIEEATRLYLKALE--VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEAL---RIKPTFADALSNMGNTYKEMGD  437 (966)
T ss_pred             HHHHhccchHHHHHHHHHHh--hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHH---hcCchHHHHHHhcchHHHHhhh
Confidence            99999999999999999886  56655 578999999999999999999999987   68998 8899999999999999


Q ss_pred             HHHHHHHHHhCCC-CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHH
Q 005329          564 LSDAENMIENMPH-QK-DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWRE  632 (702)
Q Consensus       564 ~~~A~~~~~~~~~-~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  632 (702)
                      .+.|.+.+.++.. .| -....+.|...|...|+..+|+..|+.++++.|+.+..|.+++.++---.+|.+
T Consensus       438 v~~A~q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkPDfpdA~cNllh~lq~vcdw~D  508 (966)
T KOG4626|consen  438 VSAAIQCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKPDFPDAYCNLLHCLQIVCDWTD  508 (966)
T ss_pred             HHHHHHHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCCCCchhhhHHHHHHHHHhcccc
Confidence            9999999999877 55 467899999999999999999999999999999999999999888765555544

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

Probab=99.91  E-value=6.2e-22  Score=192.97  Aligned_cols=420  Identities=14%  Similarity=0.151  Sum_probs=338.6

Q ss_pred             HHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhhhCCChHHHHHHHhccCC---CCcchHHHHHHHHHhcCC
Q 005329          214 IVLKASADSGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMST---RDVISWTTIITSYVQMGE  290 (702)
Q Consensus       214 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~  290 (702)
                      .+..-..+.|++++|++.-..+-..+ +.+....-.+-..+....+.+....--....+   .-..+|..+...+-..|+
T Consensus        53 ~lah~~yq~gd~~~a~~h~nmv~~~d-~t~~~~llll~ai~~q~~r~d~s~a~~~~a~r~~~q~ae~ysn~aN~~kerg~  131 (966)
T KOG4626|consen   53 ELAHRLYQGGDYKQAEKHCNMVGQED-PTNTERLLLLSAIFFQGSRLDKSSAGSLLAIRKNPQGAEAYSNLANILKERGQ  131 (966)
T ss_pred             HHHHHHHhccCHHHHHHHHhHhhccC-CCcccceeeehhhhhcccchhhhhhhhhhhhhccchHHHHHHHHHHHHHHhch
Confidence            34444567789999888776665543 22222222333455555555554332222221   245689999999999999


Q ss_pred             hhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCchHHHHHHHHHHHHhCCCCchHH-HHHHHHHHHhcCCHHHHHHHHh
Q 005329          291 EENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSV-ANSIMAMYSKCGQLTSTSIVFH  369 (702)
Q Consensus       291 ~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~g~~~~a~~~~~  369 (702)
                      +++|+..++.+.+.. +-....|..+..++...|+.+.|.+.|.+.++.  .|+... .+.+...+...|++.+|...+.
T Consensus       132 ~~~al~~y~~aiel~-p~fida~inla~al~~~~~~~~a~~~~~~alql--nP~l~ca~s~lgnLlka~Grl~ea~~cYl  208 (966)
T KOG4626|consen  132 LQDALALYRAAIELK-PKFIDAYINLAAALVTQGDLELAVQCFFEALQL--NPDLYCARSDLGNLLKAEGRLEEAKACYL  208 (966)
T ss_pred             HHHHHHHHHHHHhcC-chhhHHHhhHHHHHHhcCCCcccHHHHHHHHhc--CcchhhhhcchhHHHHhhcccchhHHHHH
Confidence            999999999999863 235678888999999999999999999998875  454443 3445666667899999999998


Q ss_pred             cCCCCC---hhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCC
Q 005329          370 GMIRRD---IISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNE-FAFASVLSVCGNMAILEQGKQIHAHVMSIGLERT  445 (702)
Q Consensus       370 ~~~~~~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~  445 (702)
                      +.++.+   .++|+.|...+-.+|+...|+..|++..+  +.|+. ..|..+-..+...+.++.|...+..+..... ..
T Consensus       209 kAi~~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvk--ldP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lrp-n~  285 (966)
T KOG4626|consen  209 KAIETQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVK--LDPNFLDAYINLGNVYKEARIFDRAVSCYLRALNLRP-NH  285 (966)
T ss_pred             HHHhhCCceeeeehhcchHHhhcchHHHHHHHHHHhhc--CCCcchHHHhhHHHHHHHHhcchHHHHHHHHHHhcCC-cc
Confidence            875543   35899999999999999999999999987  45553 3777888888888889999888877766442 23


Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhhCCC--C-CHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCH-HHHHHHHHH
Q 005329          446 AMIKSALINMYSKCGSIKEASQIFYETES--D-DIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDS-VTFMGVLTA  521 (702)
Q Consensus       446 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~  521 (702)
                      ...+..+...|-.+|.++-|+..|++..+  | -+..|+.|..++...|+..+|...|.+...  +.|+. ...+.|...
T Consensus       286 A~a~gNla~iYyeqG~ldlAI~~Ykral~~~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~--l~p~hadam~NLgni  363 (966)
T KOG4626|consen  286 AVAHGNLACIYYEQGLLDLAIDTYKRALELQPNFPDAYNNLANALKDKGSVTEAVDCYNKALR--LCPNHADAMNNLGNI  363 (966)
T ss_pred             hhhccceEEEEeccccHHHHHHHHHHHHhcCCCchHHHhHHHHHHHhccchHHHHHHHHHHHH--hCCccHHHHHHHHHH
Confidence            45566677788899999999999998763  3 467999999999999999999999999887  45655 588899999


Q ss_pred             HhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CCC-HHHHHHHHHHHHhcCCHHH
Q 005329          522 CSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH-QKD-DVVWSTLLRACMVQGDVNC  598 (702)
Q Consensus       522 ~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~-~~~~~~l~~~~~~~g~~~~  598 (702)
                      +...|+++.|..+|....   .+.|. ...++.|...|-.+|++++|+..++++.. +|. ..+++.++..|-..|+.+.
T Consensus       364 ~~E~~~~e~A~~ly~~al---~v~p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI~P~fAda~~NmGnt~ke~g~v~~  440 (966)
T KOG4626|consen  364 YREQGKIEEATRLYLKAL---EVFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALRIKPTFADALSNMGNTYKEMGDVSA  440 (966)
T ss_pred             HHHhccchHHHHHHHHHH---hhChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhcCchHHHHHHhcchHHHHhhhHHH
Confidence            999999999999999887   56787 77899999999999999999999999988 665 6799999999999999999


Q ss_pred             HHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 005329          599 GRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKGV  645 (702)
Q Consensus       599 A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  645 (702)
                      |.+.+.+++..+|.-++.+.+|+.+|..+|+..+|+.-++...+..+
T Consensus       441 A~q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkP  487 (966)
T KOG4626|consen  441 AIQCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKP  487 (966)
T ss_pred             HHHHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCC
Confidence            99999999999999999999999999999999999999999887543

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

Probab=99.88  E-value=7.5e-18  Score=173.69  Aligned_cols=577  Identities=15%  Similarity=0.091  Sum_probs=414.6

Q ss_pred             hHHHHHHhhcCCCCCcc-hHHHHHHH--HHcCCChhHHHHHHHHhhhC-CCCCCCHHHHHHHHHHhhccCCchhhhHHHH
Q 005329           57 LHDARKMFDTMTQRDEI-SWTTLISG--YVKAMDSIEALALFSRVWVE-PQMNMDPFILSLALKACALNVNVNYGESLHG  132 (702)
Q Consensus        57 ~~~A~~~~~~~~~~~~~-~~~~ll~~--~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~  132 (702)
                      ++.|.+.|..+.+.++. ..-.+.++  ....+++..|+.+|+..... +..+||+.+  .+..++++.++.+.|...|.
T Consensus       146 ~~~A~a~F~~Vl~~sp~Nil~LlGkA~i~ynkkdY~~al~yyk~al~inp~~~aD~rI--gig~Cf~kl~~~~~a~~a~~  223 (1018)
T KOG2002|consen  146 MDDADAQFHFVLKQSPDNILALLGKARIAYNKKDYRGALKYYKKALRINPACKADVRI--GIGHCFWKLGMSEKALLAFE  223 (1018)
T ss_pred             HHHHHHHHHHHHhhCCcchHHHHHHHHHHhccccHHHHHHHHHHHHhcCcccCCCccc--hhhhHHHhccchhhHHHHHH
Confidence            68899999887654222 23333444  34678999999999996533 345666543  33467889999999999999


Q ss_pred             HHHHhcCCCchhHHHHHHHhhhcC---CChhHHHHHhccCC---CCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCC
Q 005329          133 YTVKTGFVNSVFVGSALLDMYTKL---GKIELGCRVFDEMP---LRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQ  206 (702)
Q Consensus       133 ~~~~~~~~~~~~~~~~li~~~~~~---g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~  206 (702)
                      +..+..+ -++.++-.|--.-...   ..+..+..++...-   ..|+..-+.|...|.-.|++..++.+...+...-..
T Consensus       224 ralqLdp-~~v~alv~L~~~~l~~~d~~s~~~~~~ll~~ay~~n~~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~  302 (1018)
T KOG2002|consen  224 RALQLDP-TCVSALVALGEVDLNFNDSDSYKKGVQLLQRAYKENNENPVALNHLANHFYFKKDYERVWHLAEHAIKNTEN  302 (1018)
T ss_pred             HHHhcCh-hhHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhhcCCCcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhh
Confidence            9988763 2333333222221222   33555666655432   468889999999999999999999999998764311


Q ss_pred             --CChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchh--HHHHHHHHhhhCCChHHHHHHHhccCC--C-CcchHH
Q 005329          207 --GDSYTFAIVLKASADSGALNFGREIHTIMLKRGFDVVSF--VANSLATMYSKCGKLDYSLRLFERMST--R-DVISWT  279 (702)
Q Consensus       207 --p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~  279 (702)
                        .-...|-.+.+++-..|++++|..+|.+..+..  ++.+  .+--|..+|.+.|+++.+...|+.+.+  | +..+.-
T Consensus       303 ~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~--~d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k~~p~~~etm~  380 (1018)
T KOG2002|consen  303 KSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKAD--NDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLKQLPNNYETMK  380 (1018)
T ss_pred             hHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccC--CCCccccccchhHHHHHhchHHHHHHHHHHHHHhCcchHHHHH
Confidence              122357778889999999999999998888764  4443  344577999999999999999999864  3 445555


Q ss_pred             HHHHHHHhcC----ChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCchHHHHHHHHHH----HHhCCCCchHHHHHH
Q 005329          280 TIITSYVQMG----EEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHV----LRLGLVDSLSVANSI  351 (702)
Q Consensus       280 ~li~~~~~~g----~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~----~~~~~~~~~~~~~~l  351 (702)
                      .|...|...+    ..+.|..++.+..+.- +.|...|..+...+-. ++...+..+|..+    ...+..+.+.+.|.+
T Consensus       381 iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~l~laql~e~-~d~~~sL~~~~~A~d~L~~~~~~ip~E~LNNv  458 (1018)
T KOG2002|consen  381 ILGCLYAHSAKKQEKRDKASNVLGKVLEQT-PVDSEAWLELAQLLEQ-TDPWASLDAYGNALDILESKGKQIPPEVLNNV  458 (1018)
T ss_pred             HHHhHHHhhhhhhHHHHHHHHHHHHHHhcc-cccHHHHHHHHHHHHh-cChHHHHHHHHHHHHHHHHcCCCCCHHHHHhH
Confidence            6666666664    4566777766666542 4455566555555544 3444446655544    455667888999999


Q ss_pred             HHHHHhcCCHHHHHHHHhcCCCC-------Ch------hhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHH-HHHHH
Q 005329          352 MAMYSKCGQLTSTSIVFHGMIRR-------DI------ISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEF-AFASV  417 (702)
Q Consensus       352 ~~~~~~~g~~~~a~~~~~~~~~~-------~~------~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~-~~~~l  417 (702)
                      ...+...|++.+|...|++....       |.      .+--.+...+-..++++.|.+.|..+.+.  .|+-. .|..+
T Consensus       459 aslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilke--hp~YId~ylRl  536 (1018)
T KOG2002|consen  459 ASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKE--HPGYIDAYLRL  536 (1018)
T ss_pred             HHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHH--CchhHHHHHHh
Confidence            99999999999999999876222       22      12233566666778999999999999874  45443 44444


Q ss_pred             HHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCC-----CCCHHHHHHHHHHHHH---
Q 005329          418 LSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETE-----SDDIVSWTAMINGYAE---  489 (702)
Q Consensus       418 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~-----~~~~~~~~~li~~~~~---  489 (702)
                      .......+...+|...+....... ..++..++.+.+.+.+...+..|..-|..+.     .+|+.+.-+|.+.|.+   
T Consensus       537 ~~ma~~k~~~~ea~~~lk~~l~~d-~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~  615 (1018)
T KOG2002|consen  537 GCMARDKNNLYEASLLLKDALNID-SSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALH  615 (1018)
T ss_pred             hHHHHhccCcHHHHHHHHHHHhcc-cCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhc
Confidence            433334467778888777776543 3345556667778998888888888665543     2466666666665532   


Q ss_pred             ---------cCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHh
Q 005329          490 ---------HGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCR  560 (702)
Q Consensus       490 ---------~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~  560 (702)
                               .+..++|+++|.+..... +-|...-+.+...++..|++..|..+|.+..+..  .-...+|-.+.++|..
T Consensus       616 ~~~rn~ek~kk~~~KAlq~y~kvL~~d-pkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~--~~~~dv~lNlah~~~e  692 (1018)
T KOG2002|consen  616 NPSRNPEKEKKHQEKALQLYGKVLRND-PKNMYAANGIGIVLAEKGRFSEARDIFSQVREAT--SDFEDVWLNLAHCYVE  692 (1018)
T ss_pred             ccccChHHHHHHHHHHHHHHHHHHhcC-cchhhhccchhhhhhhccCchHHHHHHHHHHHHH--hhCCceeeeHHHHHHH
Confidence                     345778999999888753 4566777888888999999999999999998762  2356788899999999


Q ss_pred             cCCHHHHHHHHHhCCC----CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhc---------
Q 005329          561 AGRLSDAENMIENMPH----QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAK---------  627 (702)
Q Consensus       561 ~g~~~~A~~~~~~~~~----~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~---------  627 (702)
                      .|++-.|+++|+...+    +.+......|..++...|++.+|.+.+..+..+.|.++....+++.+..+.         
T Consensus       693 ~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~p~~~~v~FN~a~v~kkla~s~lr~~k  772 (1018)
T KOG2002|consen  693 QGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLAPSNTSVKFNLALVLKKLAESILRLEK  772 (1018)
T ss_pred             HHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCccchHHhHHHHHHHHHHHHHHhccc
Confidence            9999999999998766    457889999999999999999999999999999999999888888776654         


Q ss_pred             ----------CChHHHHHHHHHHHhCCCc
Q 005329          628 ----------GRWREAAEVRKMMRSKGVI  646 (702)
Q Consensus       628 ----------g~~~~A~~~~~~~~~~~~~  646 (702)
                                +..++|.++|..+...+-.
T Consensus       773 ~t~eev~~a~~~le~a~r~F~~ls~~~d~  801 (1018)
T KOG2002|consen  773 RTLEEVLEAVKELEEARRLFTELSKNGDK  801 (1018)
T ss_pred             ccHHHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence                      3566778888888776543

>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=99.87  E-value=1.5e-18  Score=188.77  Aligned_cols=418  Identities=13%  Similarity=0.024  Sum_probs=266.3

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhhh
Q 005329          177 WTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSGALNFGREIHTIMLKRGFDVVSFVANSLATMYSK  256 (702)
Q Consensus       177 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  256 (702)
                      +......+.+.|++++|++.|++.++  +.|+...|..+..++...|++++|.+.++..++.. +.+...+..+..+|..
T Consensus       130 ~k~~G~~~~~~~~~~~Ai~~y~~al~--~~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~a~a~~~  206 (615)
T TIGR00990       130 LKEKGNKAYRNKDFNKAIKLYSKAIE--CKPDPVYYSNRAACHNALGDWEKVVEDTTAALELD-PDYSKALNRRANAYDG  206 (615)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHh--cCCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHH
Confidence            44556677778888888888888765  45666677777777777788888877777777664 3345566666677777


Q ss_pred             CCChHHHHHHHhccCCCC---cchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCchHHHHHHH
Q 005329          257 CGKLDYSLRLFERMSTRD---VISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLH  333 (702)
Q Consensus       257 ~g~~~~A~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~  333 (702)
                      .|++++|...|..+...+   ......++..+..    ..+........+.. +++...+..+.                
T Consensus       207 lg~~~eA~~~~~~~~~~~~~~~~~~~~~~~~~l~----~~a~~~~~~~l~~~-~~~~~~~~~~~----------------  265 (615)
T TIGR00990       207 LGKYADALLDLTASCIIDGFRNEQSAQAVERLLK----KFAESKAKEILETK-PENLPSVTFVG----------------  265 (615)
T ss_pred             cCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHH----HHHHHHHHHHHhcC-CCCCCCHHHHH----------------
Confidence            777777766554432111   1111111111111    11112222221111 11111111111                


Q ss_pred             HHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHhcCCCCC---hhhHHHHHHH---HHcCCChHHHHHHHHHHHHCC-
Q 005329          334 AHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIRRD---IISWSTIIGG---YSQGGYEEEAFEYLALMRREG-  406 (702)
Q Consensus       334 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~---~~~~~~li~~---~~~~g~~~~a~~~~~~m~~~g-  406 (702)
                                         . |...........-+....+.+   ...+..+...   ....+++++|.+.|+...+.+ 
T Consensus       266 -------------------~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~  325 (615)
T TIGR00990       266 -------------------N-YLQSFRPKPRPAGLEDSNELDEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGK  325 (615)
T ss_pred             -------------------H-HHHHccCCcchhhhhcccccccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCC
Confidence                               1 111001111111111110000   0111111111   122456777777777777654 


Q ss_pred             CCCC-HHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCHHHHHH
Q 005329          407 PRPN-EFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETE---SDDIVSWTA  482 (702)
Q Consensus       407 ~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~  482 (702)
                      ..|+ ...+..+...+...|+++.|...++...+... .....+..+...+...|++++|...|++..   ..+...|..
T Consensus       326 ~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~P-~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p~~~~~~~~  404 (615)
T TIGR00990       326 LGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELDP-RVTQSYIKRASMNLELGDPDKAEEDFDKALKLNSEDPDIYYH  404 (615)
T ss_pred             CChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHH
Confidence            2332 33455555666677888888888777776532 234466667778888888888888888764   346778888


Q ss_pred             HHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhc
Q 005329          483 MINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRA  561 (702)
Q Consensus       483 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~  561 (702)
                      +...+...|++++|+..|++..+.. +.+...+..+...+.+.|++++|+..|+...+.   .|+ ...+..+..++...
T Consensus       405 lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~---~P~~~~~~~~lg~~~~~~  480 (615)
T TIGR00990       405 RAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGVTQYKEGSIASSMATFRRCKKN---FPEAPDVYNYYGELLLDQ  480 (615)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCChHHHHHHHHHHHHc
Confidence            9999999999999999999988752 334567777888889999999999999998754   455 78888999999999


Q ss_pred             CCHHHHHHHHHhCCC-CCC-HH-------HHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHH
Q 005329          562 GRLSDAENMIENMPH-QKD-DV-------VWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWRE  632 (702)
Q Consensus       562 g~~~~A~~~~~~~~~-~p~-~~-------~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  632 (702)
                      |++++|+..|++... .|. ..       .++..+..+...|++++|...++++++++|++...+..++.++.+.|++++
T Consensus       481 g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~p~~~~a~~~la~~~~~~g~~~e  560 (615)
T TIGR00990       481 NKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALIIDPECDIAVATMAQLLLQQGDVDE  560 (615)
T ss_pred             cCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHccCHHH
Confidence            999999999998766 332 11       112222233457999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhC
Q 005329          633 AAEVRKMMRSK  643 (702)
Q Consensus       633 A~~~~~~~~~~  643 (702)
                      |+.+++++.+.
T Consensus       561 Ai~~~e~A~~l  571 (615)
T TIGR00990       561 ALKLFERAAEL  571 (615)
T ss_pred             HHHHHHHHHHH
Confidence            99999998764

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

Probab=99.87  E-value=1.6e-17  Score=171.33  Aligned_cols=423  Identities=13%  Similarity=0.093  Sum_probs=232.1

Q ss_pred             ChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCC--CchhHHHHHHHHhhhCCChHHHHHHHhccCC--CC--cchHHHH
Q 005329          208 DSYTFAIVLKASADSGALNFGREIHTIMLKRGFD--VVSFVANSLATMYSKCGKLDYSLRLFERMST--RD--VISWTTI  281 (702)
Q Consensus       208 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~--~~~~~~l  281 (702)
                      |+...+.|-..+.-.|+++.+..+...+......  .-...|--+.++|-..|++++|...|.+..+  +|  +..+--+
T Consensus       269 nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~~~l~~~Gl  348 (1018)
T KOG2002|consen  269 NPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDNFVLPLVGL  348 (1018)
T ss_pred             CcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCCccccccch
Confidence            4444455555555555555555555555543211  1112244455555555555555555554432  11  1222334


Q ss_pred             HHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccC----chHHHHHHHHHHHHhCCCCchHHHHHHHHHHHh
Q 005329          282 ITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLA----RIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSK  357 (702)
Q Consensus       282 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  357 (702)
                      ...|...|+.+.+...|+...+.. +-+..|...+...|+..+    ..+.|..++....+.- +.|...|-.+...|..
T Consensus       349 gQm~i~~~dle~s~~~fEkv~k~~-p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~l~laql~e~  426 (1018)
T KOG2002|consen  349 GQMYIKRGDLEESKFCFEKVLKQL-PNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQT-PVDSEAWLELAQLLEQ  426 (1018)
T ss_pred             hHHHHHhchHHHHHHHHHHHHHhC-cchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcc-cccHHHHHHHHHHHHh
Confidence            455555555555555555555431 223344444444444443    2333333333333322 3344444444444433


Q ss_pred             cCCHHHHHHHHhcC--------CCCChhhHHHHHHHHHcCCChHHHHHHHHHHHHC---CCCCCHH------HHHHHHHH
Q 005329          358 CGQLTSTSIVFHGM--------IRRDIISWSTIIGGYSQGGYEEEAFEYLALMRRE---GPRPNEF------AFASVLSV  420 (702)
Q Consensus       358 ~g~~~~a~~~~~~~--------~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~---g~~p~~~------~~~~ll~~  420 (702)
                      .+-+. ++..|...        ....+...|.+...+...|.+.+|...|......   ...+|..      +--.+...
T Consensus       427 ~d~~~-sL~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl  505 (1018)
T KOG2002|consen  427 TDPWA-SLDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARL  505 (1018)
T ss_pred             cChHH-HHHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHH
Confidence            22221 12222221        1234445566666666666666666666655443   1222221      11112233


Q ss_pred             HcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhc-------CCHHHHHHHHhhCC---CCCHHHHHHHHHHHHHc
Q 005329          421 CGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKC-------GSIKEASQIFYETE---SDDIVSWTAMINGYAEH  490 (702)
Q Consensus       421 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~-------g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~  490 (702)
                      .-..++.+.|.+.+..+.+..+.        .|++|.+.       +...+|...++...   +.++..+.-+...+...
T Consensus       506 ~E~l~~~~~A~e~Yk~Ilkehp~--------YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d~~np~arsl~G~~~l~k  577 (1018)
T KOG2002|consen  506 LEELHDTEVAEEMYKSILKEHPG--------YIDAYLRLGCMARDKNNLYEASLLLKDALNIDSSNPNARSLLGNLHLKK  577 (1018)
T ss_pred             HHhhhhhhHHHHHHHHHHHHCch--------hHHHHHHhhHHHHhccCcHHHHHHHHHHHhcccCCcHHHHHHHHHHHhh
Confidence            33445566666666665553321        33333333       45556666666554   24556666666666666


Q ss_pred             CChHHHHHHHHHchhC-CCCCCHHHHHHHHHHHhcc------------CcHHHHHHHHHHhHHhhCCCC-ChhhHHHHHH
Q 005329          491 GYSQEAIHLFEKVPMV-GLRPDSVTFMGVLTACSHA------------GLVDLGFHYFNLMSDKYGFVP-SKEHYGCMID  556 (702)
Q Consensus       491 g~~~~A~~~~~~m~~~-g~~p~~~~~~~ll~~~~~~------------g~~~~A~~~~~~~~~~~~~~p-~~~~~~~l~~  556 (702)
                      ..+..|.+-|....+. ...+|......|.+.|...            +..++|+++|.+..+   ..| |...-+-++-
T Consensus       578 ~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~---~dpkN~yAANGIgi  654 (1018)
T KOG2002|consen  578 SEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLR---NDPKNMYAANGIGI  654 (1018)
T ss_pred             hhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHh---cCcchhhhccchhh
Confidence            6666666655544432 1235555555666654321            345677777777763   244 4666677888


Q ss_pred             HHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC--CCCchhHHHHHHHHHhcCChHH
Q 005329          557 LLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELH--PSCAGTHITLANIYAAKGRWRE  632 (702)
Q Consensus       557 ~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--p~~~~~~~~l~~~~~~~g~~~~  632 (702)
                      +++..|++.+|..+|....+  .....+|-.++..|...|++..|+++|+..+...  .+++.+...|+.++.+.|++.+
T Consensus       655 VLA~kg~~~~A~dIFsqVrEa~~~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~e  734 (1018)
T KOG2002|consen  655 VLAEKGRFSEARDIFSQVREATSDFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQE  734 (1018)
T ss_pred             hhhhccCchHHHHHHHHHHHHHhhCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHH
Confidence            88888888888888887766  3456688888888888888888888888888765  4567788888888888888888


Q ss_pred             HHHHHHHHHhCC
Q 005329          633 AAEVRKMMRSKG  644 (702)
Q Consensus       633 A~~~~~~~~~~~  644 (702)
                      |.+.+..+....
T Consensus       735 ak~~ll~a~~~~  746 (1018)
T KOG2002|consen  735 AKEALLKARHLA  746 (1018)
T ss_pred             HHHHHHHHHHhC
Confidence            888887766543

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.85  E-value=6.7e-19  Score=182.07  Aligned_cols=292  Identities=13%  Similarity=0.133  Sum_probs=197.2

Q ss_pred             HHccCchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHhcCCCCC-------hhhHHHHHHHHHcCCCh
Q 005329          320 SANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIRRD-------IISWSTIIGGYSQGGYE  392 (702)
Q Consensus       320 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-------~~~~~~li~~~~~~g~~  392 (702)
                      +...|+++.|...|..+.+.+ +.+..++..+...+...|++++|..+++.+....       ...+..++..|.+.|++
T Consensus        45 ~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~  123 (389)
T PRK11788         45 FLLNEQPDKAIDLFIEMLKVD-PETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLL  123 (389)
T ss_pred             HHhcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCH
Confidence            345566666666666666543 2334455555555555555555555555543211       12344455555555555


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhC
Q 005329          393 EEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYET  472 (702)
Q Consensus       393 ~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~  472 (702)
                      ++|..+|+++.+.. +++..+                                   +..++..+.+.|++++|.+.++.+
T Consensus       124 ~~A~~~~~~~l~~~-~~~~~~-----------------------------------~~~la~~~~~~g~~~~A~~~~~~~  167 (389)
T PRK11788        124 DRAEELFLQLVDEG-DFAEGA-----------------------------------LQQLLEIYQQEKDWQKAIDVAERL  167 (389)
T ss_pred             HHHHHHHHHHHcCC-cchHHH-----------------------------------HHHHHHHHHHhchHHHHHHHHHHH
Confidence            55555555554431 123334                                   444455555555555555555544


Q ss_pred             CCC--C------HHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCC
Q 005329          473 ESD--D------IVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGF  544 (702)
Q Consensus       473 ~~~--~------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~  544 (702)
                      .+.  +      ...+..++..+...|++++|...|+++.+.. +.+...+..+...+...|++++|.++|+++.+.   
T Consensus       168 ~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~---  243 (389)
T PRK11788        168 EKLGGDSLRVEIAHFYCELAQQALARGDLDAARALLKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQ---  243 (389)
T ss_pred             HHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH---
Confidence            321  0      1234567777888899999999999888643 334557777888899999999999999998754   


Q ss_pred             CCC--hhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHH
Q 005329          545 VPS--KEHYGCMIDLLCRAGRLSDAENMIENMPH-QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLA  621 (702)
Q Consensus       545 ~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~  621 (702)
                      .|+  ...+..++.+|...|++++|...++++.. .|+...+..++..+.+.|++++|...++++++..|++. .+..+.
T Consensus       244 ~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~~P~~~-~~~~l~  322 (389)
T PRK11788        244 DPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEEYPGADLLLALAQLLEEQEGPEAAQALLREQLRRHPSLR-GFHRLL  322 (389)
T ss_pred             ChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHhCcCHH-HHHHHH
Confidence            444  45678889999999999999999999877 67777778899999999999999999999999999766 444444


Q ss_pred             HHHHh---cCChHHHHHHHHHHHhCCCccCCeeeE
Q 005329          622 NIYAA---KGRWREAAEVRKMMRSKGVIKEPGWSR  653 (702)
Q Consensus       622 ~~~~~---~g~~~~A~~~~~~~~~~~~~~~~~~~~  653 (702)
                      ..+..   .|+.++|..++++|.+++++++|.+..
T Consensus       323 ~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p~~~c  357 (389)
T PRK11788        323 DYHLAEAEEGRAKESLLLLRDLVGEQLKRKPRYRC  357 (389)
T ss_pred             HHhhhccCCccchhHHHHHHHHHHHHHhCCCCEEC
Confidence            44443   569999999999999999988887543

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.84  E-value=2.6e-17  Score=178.31  Aligned_cols=350  Identities=10%  Similarity=0.021  Sum_probs=265.4

Q ss_pred             hCCChHHHHHHHhccCCC------CcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCchHHH
Q 005329          256 KCGKLDYSLRLFERMSTR------DVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWG  329 (702)
Q Consensus       256 ~~g~~~~A~~~~~~~~~~------~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a  329 (702)
                      +..+++.-.-.|..-++.      +......++..+.+.|++++|..+++........+ ...+..++.+....|+++.|
T Consensus        17 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~~-~~~l~~l~~~~l~~g~~~~A   95 (656)
T PRK15174         17 KQEDWEGLCLYFSQHPEKVRDSAGNEQNIILFAIACLRKDETDVGLTLLSDRVLTAKNG-RDLLRRWVISPLASSQPDAV   95 (656)
T ss_pred             hhhchhhHhHHhhcccHhhhhhcccccCHHHHHHHHHhcCCcchhHHHhHHHHHhCCCc-hhHHHHHhhhHhhcCCHHHH
Confidence            445555555555544421      23344556677888899999999988888764332 33444455666678899999


Q ss_pred             HHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHhcCCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHCC
Q 005329          330 EQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIR--R-DIISWSTIIGGYSQGGYEEEAFEYLALMRREG  406 (702)
Q Consensus       330 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  406 (702)
                      ...++.+.+.. +.+...+..+...+...|++++|+..+++...  | +...+..+...+...|++++|...++.+....
T Consensus        96 ~~~l~~~l~~~-P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~  174 (656)
T PRK15174         96 LQVVNKLLAVN-VCQPEDVLLVASVLLKSKQYATVADLAEQAWLAFSGNSQIFALHLRTLVLMDKELQAISLARTQAQEV  174 (656)
T ss_pred             HHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhC
Confidence            99998888764 44566777888888899999999999888743  3 56678888889999999999999998887654


Q ss_pred             CCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCC---CCHHHHHHH
Q 005329          407 PRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETES---DDIVSWTAM  483 (702)
Q Consensus       407 ~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l  483 (702)
                      ..+.. .+..+ ..+...|++++|...++.+.+....++......+...+...|++++|...|++...   .+...+..+
T Consensus       175 P~~~~-a~~~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p~~~~~~~~L  252 (656)
T PRK15174        175 PPRGD-MIATC-LSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARGLDGAALRRSL  252 (656)
T ss_pred             CCCHH-HHHHH-HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHH
Confidence            33322 22222 34677899999999988887765444455555567788899999999999988663   467788889


Q ss_pred             HHHHHHcCChHH----HHHHHHHchhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHH
Q 005329          484 INGYAEHGYSQE----AIHLFEKVPMVGLRP-DSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDL  557 (702)
Q Consensus       484 i~~~~~~g~~~~----A~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~  557 (702)
                      ...+...|++++    |...|++..+.  .| +...+..+...+...|++++|...++++.+.   .|+ ...+..+..+
T Consensus       253 g~~l~~~G~~~eA~~~A~~~~~~Al~l--~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l---~P~~~~a~~~La~~  327 (656)
T PRK15174        253 GLAYYQSGRSREAKLQAAEHWRHALQF--NSDNVRIVTLYADALIRTGQNEKAIPLLQQSLAT---HPDLPYVRAMYARA  327 (656)
T ss_pred             HHHHHHcCCchhhHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHH
Confidence            999999999986    79999998874  45 4568888999999999999999999998754   565 6677788999


Q ss_pred             HHhcCCHHHHHHHHHhCCC-CCCHHH-HHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCc
Q 005329          558 LCRAGRLSDAENMIENMPH-QKDDVV-WSTLLRACMVQGDVNCGRHTAEKILELHPSCA  614 (702)
Q Consensus       558 ~~~~g~~~~A~~~~~~~~~-~p~~~~-~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~  614 (702)
                      +.+.|++++|...++++.. .|+... +..++.++...|+.++|...|+++++..|++.
T Consensus       328 l~~~G~~~eA~~~l~~al~~~P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~~P~~~  386 (656)
T PRK15174        328 LRQVGQYTAASDEFVQLAREKGVTSKWNRYAAAALLQAGKTSEAESVFEHYIQARASHL  386 (656)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhChhhc
Confidence            9999999999999998876 565443 44457778899999999999999999998764

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.84  E-value=2.1e-16  Score=175.14  Aligned_cols=390  Identities=7%  Similarity=0.007  Sum_probs=184.4

Q ss_pred             HHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhhhCCChHHHHHHHhccC---CCCcchHHHHHHHHHhcCChh
Q 005329          216 LKASADSGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMS---TRDVISWTTIITSYVQMGEEE  292 (702)
Q Consensus       216 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~  292 (702)
                      +......|+.++|.+++....... +.+...+..+...+.+.|++++|.++|++..   ..+...+..+...+...|+++
T Consensus        22 ~~ia~~~g~~~~A~~~~~~~~~~~-~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~l~~~g~~~  100 (765)
T PRK10049         22 LQIALWAGQDAEVITVYNRYRVHM-QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLEPQNDDYQRGLILTLADAGQYD  100 (765)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHH
Confidence            333344444444444444444311 2223334444444555555555555554432   112333444445555555555


Q ss_pred             HHHHHHHHHHHCCCCCChhhHHHHHHHHHccCchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHhcCC
Q 005329          293 NAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMI  372 (702)
Q Consensus       293 ~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  372 (702)
                      +|+..+++..+.. +.+.. +..+...+...|+.++|...++.+.+.. +.+...+..+...+...+..++|++.++...
T Consensus       101 eA~~~l~~~l~~~-P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~-P~~~~~~~~la~~l~~~~~~e~Al~~l~~~~  177 (765)
T PRK10049        101 EALVKAKQLVSGA-PDKAN-LLALAYVYKRAGRHWDELRAMTQALPRA-PQTQQYPTEYVQALRNNRLSAPALGAIDDAN  177 (765)
T ss_pred             HHHHHHHHHHHhC-CCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCChHHHHHHHHhCC
Confidence            5555555555441 12222 4444445555555555555555555543 2233333445555555566666666665554


Q ss_pred             CCChh--------hHHHHHHHHH-----cCCCh---HHHHHHHHHHHHC-CCCCCHH-HHHHHHHHHcccCcHHHHHHHH
Q 005329          373 RRDII--------SWSTIIGGYS-----QGGYE---EEAFEYLALMRRE-GPRPNEF-AFASVLSVCGNMAILEQGKQIH  434 (702)
Q Consensus       373 ~~~~~--------~~~~li~~~~-----~~g~~---~~a~~~~~~m~~~-g~~p~~~-~~~~ll~~~~~~~~~~~a~~~~  434 (702)
                      . ++.        ....++....     ..+++   ++|+..++.+.+. ...|+.. .+...                 
T Consensus       178 ~-~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a-----------------  239 (765)
T PRK10049        178 L-TPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRA-----------------  239 (765)
T ss_pred             C-CHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHH-----------------
Confidence            3 110        1111111111     11222   4555555555532 1122111 11000                 


Q ss_pred             HHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCCCC---H-HHHHHHHHHHHHcCChHHHHHHHHHchhCCCCC
Q 005329          435 AHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETESDD---I-VSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRP  510 (702)
Q Consensus       435 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~---~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  510 (702)
                                    ....+..+...|++++|+..|+.+.+.+   + .....+..+|...|++++|+..|+++.+..  |
T Consensus       240 --------------~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~a~~~la~~yl~~g~~e~A~~~l~~~l~~~--p  303 (765)
T PRK10049        240 --------------RIDRLGALLARDRYKDVISEYQRLKAEGQIIPPWAQRWVASAYLKLHQPEKAQSILTELFYHP--E  303 (765)
T ss_pred             --------------HHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhcC--C
Confidence                          0000112223344555555555444211   1 011113444555555555555555544321  1


Q ss_pred             C-----HHHHHHHHHHHhccCcHHHHHHHHHHhHHhh----------CCCCC---hhhHHHHHHHHHhcCCHHHHHHHHH
Q 005329          511 D-----SVTFMGVLTACSHAGLVDLGFHYFNLMSDKY----------GFVPS---KEHYGCMIDLLCRAGRLSDAENMIE  572 (702)
Q Consensus       511 ~-----~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~----------~~~p~---~~~~~~l~~~~~~~g~~~~A~~~~~  572 (702)
                      .     ......+..++...|++++|.++++.+.+..          .-.|+   ...+..++..+...|++++|++.++
T Consensus       304 ~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~  383 (765)
T PRK10049        304 TIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRAR  383 (765)
T ss_pred             CCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            1     1223334444555555555555555554321          01123   2234455566666667777776666


Q ss_pred             hCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 005329          573 NMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSK  643 (702)
Q Consensus       573 ~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  643 (702)
                      ++..  +.+...+..++..+...|++++|++.++++++++|++...+..++.++...|++++|..+++.+.+.
T Consensus       384 ~al~~~P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~  456 (765)
T PRK10049        384 ELAYNAPGNQGLRIDYASVLQARGWPRAAENELKKAEVLEPRNINLEVEQAWTALDLQEWRQMDVLTDDVVAR  456 (765)
T ss_pred             HHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence            6555  3345566666666666677777777777777777766666666666666777777777666666654

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.84  E-value=8.1e-17  Score=178.35  Aligned_cols=372  Identities=10%  Similarity=0.067  Sum_probs=258.6

Q ss_pred             CCchhHHHHHHHHhhhCCChHHHHHHHhccCC---CCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHH
Q 005329          241 DVVSFVANSLATMYSKCGKLDYSLRLFERMST---RDVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAII  317 (702)
Q Consensus       241 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll  317 (702)
                      +.+.....-.+......|+.++|++++.+...   .+...+..+...+...|++++|.++|++..+.. +.+......+.
T Consensus        12 ~~~~~~~~d~~~ia~~~g~~~~A~~~~~~~~~~~~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la   90 (765)
T PRK10049         12 ALSNNQIADWLQIALWAGQDAEVITVYNRYRVHMQLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLE-PQNDDYQRGLI   90 (765)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            44555556667777888899999988888763   233457888888889999999999999887752 33445566677


Q ss_pred             HHHHccCchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHhcCCC--C-ChhhHHHHHHHHHcCCChHH
Q 005329          318 SASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIR--R-DIISWSTIIGGYSQGGYEEE  394 (702)
Q Consensus       318 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~  394 (702)
                      ..+...|++++|...++.+.+.. +.+.. +..+..++...|+.++|+..++++.+  | +...+..+...+...|..++
T Consensus        91 ~~l~~~g~~~eA~~~l~~~l~~~-P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P~~~~~~~~la~~l~~~~~~e~  168 (765)
T PRK10049         91 LTLADAGQYDEALVKAKQLVSGA-PDKAN-LLALAYVYKRAGRHWDELRAMTQALPRAPQTQQYPTEYVQALRNNRLSAP  168 (765)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC-CCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCChHH
Confidence            77888888888888888888763 44445 77778888888888888888888743  2 44556667777777888888


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCH---HHHHHHHhh
Q 005329          395 AFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSI---KEASQIFYE  471 (702)
Q Consensus       395 a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~---~~A~~~~~~  471 (702)
                      |+..++....   .|+....   +.       ...+..    ..+.          .+.......+++   ++|++.++.
T Consensus       169 Al~~l~~~~~---~p~~~~~---l~-------~~~~~~----~~r~----------~~~~~~~~~~r~~~ad~Al~~~~~  221 (765)
T PRK10049        169 ALGAIDDANL---TPAEKRD---LE-------ADAAAE----LVRL----------SFMPTRSEKERYAIADRALAQYDA  221 (765)
T ss_pred             HHHHHHhCCC---CHHHHHH---HH-------HHHHHH----HHHh----------hcccccChhHHHHHHHHHHHHHHH
Confidence            8887765543   3321000   00       000000    0000          000011112223   555555555


Q ss_pred             CCC-----CCHH-----HHHHHHHHHHHcCChHHHHHHHHHchhCCCC-CCHHHHHHHHHHHhccCcHHHHHHHHHHhHH
Q 005329          472 TES-----DDIV-----SWTAMINGYAEHGYSQEAIHLFEKVPMVGLR-PDSVTFMGVLTACSHAGLVDLGFHYFNLMSD  540 (702)
Q Consensus       472 ~~~-----~~~~-----~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~  540 (702)
                      +.+     |+..     .....+..+...|++++|+..|+++.+.+-+ |+. ....+..++...|++++|+..|+.+.+
T Consensus       222 ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A~~~l~~~l~  300 (765)
T PRK10049        222 LEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKAQSILTELFY  300 (765)
T ss_pred             HHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHHHHHHHHHhh
Confidence            441     2111     1111133456779999999999999986532 332 222256788999999999999999875


Q ss_pred             hhCCCCC-----hhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CC-------------C---HHHHHHHHHHHHhcCCHHH
Q 005329          541 KYGFVPS-----KEHYGCMIDLLCRAGRLSDAENMIENMPH-QK-------------D---DVVWSTLLRACMVQGDVNC  598 (702)
Q Consensus       541 ~~~~~p~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p-------------~---~~~~~~l~~~~~~~g~~~~  598 (702)
                      .   .|.     ......+..++...|++++|...++.+.. .|             +   ...+..+...+...|+.++
T Consensus       301 ~---~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~e  377 (765)
T PRK10049        301 H---PETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQ  377 (765)
T ss_pred             c---CCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHH
Confidence            4   332     34567778889999999999999998876 23             2   2345667778889999999


Q ss_pred             HHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhCCCc
Q 005329          599 GRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKGVI  646 (702)
Q Consensus       599 A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  646 (702)
                      |++.++++++..|.++..+..++.++...|++++|++.++++.+..+.
T Consensus       378 A~~~l~~al~~~P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~Pd  425 (765)
T PRK10049        378 AEMRARELAYNAPGNQGLRIDYASVLQARGWPRAAENELKKAEVLEPR  425 (765)
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhCCC
Confidence            999999999999999999999999999999999999999999886543

>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=99.84  E-value=1.1e-16  Score=174.24  Aligned_cols=428  Identities=11%  Similarity=-0.004  Sum_probs=261.0

Q ss_pred             HHHHHHHhhhcCCChhHHHHHhccCC--CCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhcc
Q 005329          145 VGSALLDMYTKLGKIELGCRVFDEMP--LRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADS  222 (702)
Q Consensus       145 ~~~~li~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~  222 (702)
                      .+......|.+.|++++|+..|++..  .|+...|..+..+|.+.|++++|++.++...+.. +.+...+..+..++...
T Consensus       129 ~~k~~G~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~a~a~~~l  207 (615)
T TIGR00990       129 KLKEKGNKAYRNKDFNKAIKLYSKAIECKPDPVYYSNRAACHNALGDWEKVVEDTTAALELD-PDYSKALNRRANAYDGL  207 (615)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHc
Confidence            35566778889999999999999865  5777889999999999999999999999998753 23455788888999999


Q ss_pred             CChHHHHHHHHHHHHhCCCCchhHHHHHHHHhhhCCChHHHHHHHhccCCCCcchHHHHHHHHHhcCChhHHHHHHHHHH
Q 005329          223 GALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMSTRDVISWTTIITSYVQMGEEENAFDAFVRMQ  302 (702)
Q Consensus       223 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  302 (702)
                      |++++|...+..+...+...+.. ...++..+........+...++.-+ ++...+..+.. |...........-+..-.
T Consensus       208 g~~~eA~~~~~~~~~~~~~~~~~-~~~~~~~~l~~~a~~~~~~~l~~~~-~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~  284 (615)
T TIGR00990       208 GKYADALLDLTASCIIDGFRNEQ-SAQAVERLLKKFAESKAKEILETKP-ENLPSVTFVGN-YLQSFRPKPRPAGLEDSN  284 (615)
T ss_pred             CCHHHHHHHHHHHHHhCCCccHH-HHHHHHHHHHHHHHHHHHHHHhcCC-CCCCCHHHHHH-HHHHccCCcchhhhhccc
Confidence            99999999888776654222222 2222222222112233444443322 23333433322 322222222222222111


Q ss_pred             HCCCCCCh-hhHHHHHHH---HHccCchHHHHHHHHHHHHhC-CCCchHHHHHHHHHHHhcCCHHHHHHHHhcCCCCChh
Q 005329          303 ESDVKPNE-YTFAAIISA---SANLARIQWGEQLHAHVLRLG-LVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIRRDII  377 (702)
Q Consensus       303 ~~g~~p~~-~t~~~ll~~---~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  377 (702)
                      +  ..++. ..+..+...   ....+++++|.+.|+...+.+ ..|+                              ...
T Consensus       285 ~--~~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~------------------------------~a~  332 (615)
T TIGR00990       285 E--LDEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEK------------------------------EAI  332 (615)
T ss_pred             c--cccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChh------------------------------hHH
Confidence            1  11111 111111100   112345556666665555443 1111                              122


Q ss_pred             hHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHH
Q 005329          378 SWSTIIGGYSQGGYEEEAFEYLALMRREGPRPN-EFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMY  456 (702)
Q Consensus       378 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  456 (702)
                      .|+.+...+...|++++|+..|++..+.  .|+ ...|..+...+...|++++|...++.+.+.. +.+..++..+...+
T Consensus       333 a~~~lg~~~~~~g~~~eA~~~~~kal~l--~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~~~  409 (615)
T TIGR00990       333 ALNLRGTFKCLKGKHLEALADLSKSIEL--DPRVTQSYIKRASMNLELGDPDKAEEDFDKALKLN-SEDPDIYYHRAQLH  409 (615)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            3444444455555555555555555442  232 2244444445555555555555555554442 22345556667777


Q ss_pred             HhcCCHHHHHHHHhhCCC---CCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHH
Q 005329          457 SKCGSIKEASQIFYETES---DDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFH  533 (702)
Q Consensus       457 ~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~  533 (702)
                      ...|++++|...|++...   .+...+..+..++.+.|++++|+..|++.... .+.+...++.+...+...|++++|++
T Consensus       410 ~~~g~~~~A~~~~~kal~l~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~-~P~~~~~~~~lg~~~~~~g~~~~A~~  488 (615)
T TIGR00990       410 FIKGEFAQAGKDYQKSIDLDPDFIFSHIQLGVTQYKEGSIASSMATFRRCKKN-FPEAPDVYNYYGELLLDQNKFDEAIE  488 (615)
T ss_pred             HHcCCHHHHHHHHHHHHHcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCChHHHHHHHHHHHHccCHHHHHH
Confidence            777778878777776652   35567777888888889999999999888764 23345678888888888999999999


Q ss_pred             HHHHhHHhhCCCCCh-hh-------HHHHHHHHHhcCCHHHHHHHHHhCCC-CC-CHHHHHHHHHHHHhcCCHHHHHHHH
Q 005329          534 YFNLMSDKYGFVPSK-EH-------YGCMIDLLCRAGRLSDAENMIENMPH-QK-DDVVWSTLLRACMVQGDVNCGRHTA  603 (702)
Q Consensus       534 ~~~~~~~~~~~~p~~-~~-------~~~l~~~~~~~g~~~~A~~~~~~~~~-~p-~~~~~~~l~~~~~~~g~~~~A~~~~  603 (702)
                      .|+...+   +.|+. ..       ++.....+...|++++|..++++... .| +...+..++..+...|++++|+..|
T Consensus       489 ~~~~Al~---l~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~p~~~~a~~~la~~~~~~g~~~eAi~~~  565 (615)
T TIGR00990       489 KFDTAIE---LEKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALIIDPECDIAVATMAQLLLQQGDVDEALKLF  565 (615)
T ss_pred             HHHHHHh---cCCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHccCHHHHHHHH
Confidence            9988764   34431 11       11222234446899999999988755 44 4557888999999999999999999


Q ss_pred             HHHHHhCCCCch
Q 005329          604 EKILELHPSCAG  615 (702)
Q Consensus       604 ~~~~~~~p~~~~  615 (702)
                      +++.++.+....
T Consensus       566 e~A~~l~~~~~e  577 (615)
T TIGR00990       566 ERAAELARTEGE  577 (615)
T ss_pred             HHHHHHhccHHH
Confidence            999998775443

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.83  E-value=5.2e-17  Score=175.93  Aligned_cols=353  Identities=12%  Similarity=-0.023  Sum_probs=280.5

Q ss_pred             HHhcCChhHHHHHHHHHHHCC--CCCChhhHHHHHHHHHccCchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHH
Q 005329          285 YVQMGEEENAFDAFVRMQESD--VKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLT  362 (702)
Q Consensus       285 ~~~~g~~~~a~~~~~~m~~~g--~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  362 (702)
                      +.+..+|+.-.-.|..-.++-  -.-+......++..+.+.|+++.|..++.........+ ......++......|+++
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~~-~~~l~~l~~~~l~~g~~~   93 (656)
T PRK15174         15 LLKQEDWEGLCLYFSQHPEKVRDSAGNEQNIILFAIACLRKDETDVGLTLLSDRVLTAKNG-RDLLRRWVISPLASSQPD   93 (656)
T ss_pred             hhhhhchhhHhHHhhcccHhhhhhcccccCHHHHHHHHHhcCCcchhHHHhHHHHHhCCCc-hhHHHHHhhhHhhcCCHH
Confidence            345566665555554433221  11233445667788899999999999999999876544 444445557777899999


Q ss_pred             HHHHHHhcCCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHcccCcHHHHHHHHHHHH
Q 005329          363 STSIVFHGMIR--R-DIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPN-EFAFASVLSVCGNMAILEQGKQIHAHVM  438 (702)
Q Consensus       363 ~a~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~  438 (702)
                      +|+..|+++..  | +...+..+...+...|++++|...++++.+.  .|+ ...+..+...+...|+.+.|...++.+.
T Consensus        94 ~A~~~l~~~l~~~P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l--~P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~  171 (656)
T PRK15174         94 AVLQVVNKLLAVNVCQPEDVLLVASVLLKSKQYATVADLAEQAWLA--FSGNSQIFALHLRTLVLMDKELQAISLARTQA  171 (656)
T ss_pred             HHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHCCChHHHHHHHHHHH
Confidence            99999999843  3 5668888999999999999999999999874  444 5567778889999999999999999887


Q ss_pred             HhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCCC----CHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHH
Q 005329          439 SIGLERTAMIKSALINMYSKCGSIKEASQIFYETESD----DIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVT  514 (702)
Q Consensus       439 ~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~  514 (702)
                      .....+....+. + ..+...|++++|...++.+.+.    +...+..+..++...|++++|+..++++.+.. +.+...
T Consensus       172 ~~~P~~~~a~~~-~-~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~  248 (656)
T PRK15174        172 QEVPPRGDMIAT-C-LSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAAL  248 (656)
T ss_pred             HhCCCCHHHHHH-H-HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHH
Confidence            766544333333 3 3478899999999999986642    33344556778899999999999999998753 345567


Q ss_pred             HHHHHHHHhccCcHHH----HHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CC-CHHHHHHHH
Q 005329          515 FMGVLTACSHAGLVDL----GFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH-QK-DDVVWSTLL  587 (702)
Q Consensus       515 ~~~ll~~~~~~g~~~~----A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p-~~~~~~~l~  587 (702)
                      +..+...+...|++++    |...|+++.+   +.|+ ...+..++..+.+.|++++|...++++.. .| +...+..+.
T Consensus       249 ~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~---l~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P~~~~a~~~La  325 (656)
T PRK15174        249 RRSLGLAYYQSGRSREAKLQAAEHWRHALQ---FNSDNVRIVTLYADALIRTGQNEKAIPLLQQSLATHPDLPYVRAMYA  325 (656)
T ss_pred             HHHHHHHHHHcCCchhhHHHHHHHHHHHHh---hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHH
Confidence            8888999999999986    8999999874   4676 77889999999999999999999999877 44 466788899


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhCCCc
Q 005329          588 RACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKGVI  646 (702)
Q Consensus       588 ~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  646 (702)
                      .++...|++++|+..++++++.+|+++..+..++.++...|++++|...++++.+..+.
T Consensus       326 ~~l~~~G~~~eA~~~l~~al~~~P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~~P~  384 (656)
T PRK15174        326 RALRQVGQYTAASDEFVQLAREKGVTSKWNRYAAAALLQAGKTSEAESVFEHYIQARAS  384 (656)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhChh
Confidence            99999999999999999999999988877777899999999999999999998876543

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.83  E-value=1.5e-17  Score=172.05  Aligned_cols=294  Identities=13%  Similarity=0.107  Sum_probs=231.0

Q ss_pred             HHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCchHHHHHHHHHHHHhCCCCc---hHHHHHHHHHHHh
Q 005329          281 IITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLVDS---LSVANSIMAMYSK  357 (702)
Q Consensus       281 li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~  357 (702)
                      ....+...|++++|...|.++.+.+ +.+..++..+...+...|+++.|..+++.+.+.+..++   ...+..+...|.+
T Consensus        41 ~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~  119 (389)
T PRK11788         41 KGLNFLLNEQPDKAIDLFIEMLKVD-PETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLK  119 (389)
T ss_pred             HHHHHHhcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHH
Confidence            3455678899999999999999874 33456788888999999999999999999987543222   3567888999999


Q ss_pred             cCCHHHHHHHHhcCCC---CChhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHH
Q 005329          358 CGQLTSTSIVFHGMIR---RDIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIH  434 (702)
Q Consensus       358 ~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~  434 (702)
                      .|++++|..+|+++.+   .+..+++.++..+.+.|++++|.+.++.+.+.+..+.....                    
T Consensus       120 ~g~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~--------------------  179 (389)
T PRK11788        120 AGLLDRAEELFLQLVDEGDFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEI--------------------  179 (389)
T ss_pred             CCCHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHH--------------------
Confidence            9999999999999965   46678999999999999999999999999876543322110                    


Q ss_pred             HHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCC---CCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCC
Q 005329          435 AHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETES---DDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPD  511 (702)
Q Consensus       435 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  511 (702)
                                 ...+..+...+.+.|++++|...|+++.+   .+...+..++..+.+.|++++|.++|+++.+.+....
T Consensus       180 -----------~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~  248 (389)
T PRK11788        180 -----------AHFYCELAQQALARGDLDAARALLKKALAADPQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYL  248 (389)
T ss_pred             -----------HHHHHHHHHHHHhCCCHHHHHHHHHHHHhHCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhH
Confidence                       01123355566667777777777776542   2455777788889999999999999999886532222


Q ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CCCHHHHHHHHHHH
Q 005329          512 SVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPH-QKDDVVWSTLLRAC  590 (702)
Q Consensus       512 ~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~~~~~~~l~~~~  590 (702)
                      ..++..++.++...|++++|.+.++.+.+.   .|+...+..++..+.+.|++++|..+++++.. .|+...++.++..+
T Consensus       249 ~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~---~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~~P~~~~~~~l~~~~  325 (389)
T PRK11788        249 SEVLPKLMECYQALGDEAEGLEFLRRALEE---YPGADLLLALAQLLEEQEGPEAAQALLREQLRRHPSLRGFHRLLDYH  325 (389)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHhCcCHHHHHHHHHHh
Confidence            356788889999999999999999998754   67777778899999999999999999998777 68888888888776


Q ss_pred             Hh---cCCHHHHHHHHHHHHHh
Q 005329          591 MV---QGDVNCGRHTAEKILEL  609 (702)
Q Consensus       591 ~~---~g~~~~A~~~~~~~~~~  609 (702)
                      ..   .|+.+++...++++++.
T Consensus       326 ~~~~~~g~~~~a~~~~~~~~~~  347 (389)
T PRK11788        326 LAEAEEGRAKESLLLLRDLVGE  347 (389)
T ss_pred             hhccCCccchhHHHHHHHHHHH
Confidence            64   55888888888888763

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.82  E-value=1.5e-15  Score=164.61  Aligned_cols=435  Identities=9%  Similarity=0.022  Sum_probs=253.2

Q ss_pred             hhhcCCChhHHHHHhccCCC--CCc-chHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhH---HHHHHHHhccCCh
Q 005329          152 MYTKLGKIELGCRVFDEMPL--RNV-VSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTF---AIVLKASADSGAL  225 (702)
Q Consensus       152 ~~~~~g~~~~A~~~~~~~~~--~~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~---~~ll~~~~~~~~~  225 (702)
                      ...+.|+++.|...|++..+  |+. .....++..+...|+.++|+..+++..    .|+...+   ..+...+...|++
T Consensus        43 i~~r~Gd~~~Al~~L~qaL~~~P~~~~av~dll~l~~~~G~~~~A~~~~eka~----~p~n~~~~~llalA~ly~~~gdy  118 (822)
T PRK14574         43 IRARAGDTAPVLDYLQEESKAGPLQSGQVDDWLQIAGWAGRDQEVIDVYERYQ----SSMNISSRGLASAARAYRNEKRW  118 (822)
T ss_pred             HHHhCCCHHHHHHHHHHHHhhCccchhhHHHHHHHHHHcCCcHHHHHHHHHhc----cCCCCCHHHHHHHHHHHHHcCCH
Confidence            35677888888888888764  332 123377888888888888888888876    3332222   2224466677888


Q ss_pred             HHHHHHHHHHHHhCCCCchhHHHHHHHHhhhCCChHHHHHHHhccCCCCcchHHHHHHHHHh--cCChhHHHHHHHHHHH
Q 005329          226 NFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMSTRDVISWTTIITSYVQ--MGEEENAFDAFVRMQE  303 (702)
Q Consensus       226 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~--~g~~~~a~~~~~~m~~  303 (702)
                      ++|.++++++.+.. +.+...+..++..+...++.++|++.++++.+.+......+..++..  .++..+|++.++++.+
T Consensus       119 d~Aiely~kaL~~d-P~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~dp~~~~~l~layL~~~~~~~~~AL~~~ekll~  197 (822)
T PRK14574        119 DQALALWQSSLKKD-PTNPDLISGMIMTQADAGRGGVVLKQATELAERDPTVQNYMTLSYLNRATDRNYDALQASSEAVR  197 (822)
T ss_pred             HHHHHHHHHHHhhC-CCCHHHHHHHHHHHhhcCCHHHHHHHHHHhcccCcchHHHHHHHHHHHhcchHHHHHHHHHHHHH
Confidence            88888888888875 44456666777788888888888888888775443332224334443  4555558888888877


Q ss_pred             CCCCCChhhHHHHHHHHHccCchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhhHHHHH
Q 005329          304 SDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIRRDIISWSTII  383 (702)
Q Consensus       304 ~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li  383 (702)
                      .. +-+...+..++.++.+.|-...|.++...-.      +..+-.....     =+.+.|.+..+....++.       
T Consensus       198 ~~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p------~~f~~~~~~~-----l~~~~~a~~vr~a~~~~~-------  258 (822)
T PRK14574        198 LA-PTSEEVLKNHLEILQRNRIVEPALRLAKENP------NLVSAEHYRQ-----LERDAAAEQVRMAVLPTR-------  258 (822)
T ss_pred             hC-CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCc------cccCHHHHHH-----HHHHHHHHHHhhcccccc-------
Confidence            63 3344555666666777776666665544321      1111000000     001111111111100000       


Q ss_pred             HHHHcCCC---hHHHHHHHHHHHHC-CCCCCH-HHHH----HHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHH
Q 005329          384 GGYSQGGY---EEEAFEYLALMRRE-GPRPNE-FAFA----SVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALIN  454 (702)
Q Consensus       384 ~~~~~~g~---~~~a~~~~~~m~~~-g~~p~~-~~~~----~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  454 (702)
                         ....+   .+.|+.-++.+... +..|.. .-|.    =-+-++...|+...+.+.++.+...+.+....+-.++.+
T Consensus       259 ---~~~~r~~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~ad  335 (822)
T PRK14574        259 ---SETERFDIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAAS  335 (822)
T ss_pred             ---cchhhHHHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHH
Confidence               01112   23444555554431 122321 1111    123455666777777777777777776655666677777


Q ss_pred             HHHhcCCHHHHHHHHhhCCCC---------CHHHHHHHHHHHHHcCChHHHHHHHHHchhCCC-----------CCCH--
Q 005329          455 MYSKCGSIKEASQIFYETESD---------DIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGL-----------RPDS--  512 (702)
Q Consensus       455 ~~~~~g~~~~A~~~~~~~~~~---------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-----------~p~~--  512 (702)
                      +|...+++++|..+|+.+..+         +......|.-+|...+++++|..+++++.+.-.           .||+  
T Consensus       336 ayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~  415 (822)
T PRK14574        336 AYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDW  415 (822)
T ss_pred             HHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccH
Confidence            777777777777777765321         222345566677777777777777777765211           1221  


Q ss_pred             H-HHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCC-ChhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CC-CHHHHHHHHH
Q 005329          513 V-TFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVP-SKEHYGCMIDLLCRAGRLSDAENMIENMPH-QK-DDVVWSTLLR  588 (702)
Q Consensus       513 ~-~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p-~~~~~~~l~~  588 (702)
                      . .+..++..+...|+..+|++.++++...   .| |......+.+.+...|.+.+|++.++.+.. .| +..+....+.
T Consensus       416 ~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~---aP~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l~P~~~~~~~~~~~  492 (822)
T PRK14574        416 IEGQTLLVQSLVALNDLPTAQKKLEDLSST---APANQNLRIALASIYLARDLPRKAEQELKAVESLAPRSLILERAQAE  492 (822)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhCCccHHHHHHHHH
Confidence            1 2333455556667777777777776533   34 466666677777777777777777765544 33 3445556666


Q ss_pred             HHHhcCCHHHHHHHHHHHHHhCCCCchh
Q 005329          589 ACMVQGDVNCGRHTAEKILELHPSCAGT  616 (702)
Q Consensus       589 ~~~~~g~~~~A~~~~~~~~~~~p~~~~~  616 (702)
                      ++...|++.+|..+.+.+++..|+++.+
T Consensus       493 ~al~l~e~~~A~~~~~~l~~~~Pe~~~~  520 (822)
T PRK14574        493 TAMALQEWHQMELLTDDVISRSPEDIPS  520 (822)
T ss_pred             HHHhhhhHHHHHHHHHHHHhhCCCchhH
Confidence            6667777777777777777777766643

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

Probab=99.80  E-value=2.2e-14  Score=147.53  Aligned_cols=585  Identities=12%  Similarity=0.067  Sum_probs=372.2

Q ss_pred             HHHHHHccCChHHHHHHhhcCCCC---CcchHHHHHHHHHcCCChhHHHHHHHHhhhCCCCCCCHHHHHHHHHHhhccCC
Q 005329           47 QLKHLVKSGYLHDARKMFDTMTQR---DEISWTTLISGYVKAMDSIEALALFSRVWVEPQMNMDPFILSLALKACALNVN  123 (702)
Q Consensus        47 l~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~  123 (702)
                      ..+.+.-.|++++|..++.++.+.   +...|..|...|-+.|+.++++..+-..-..  .+-|...|..+.......|+
T Consensus       145 eAN~lfarg~~eeA~~i~~EvIkqdp~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL--~p~d~e~W~~ladls~~~~~  222 (895)
T KOG2076|consen  145 EANNLFARGDLEEAEEILMEVIKQDPRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHL--NPKDYELWKRLADLSEQLGN  222 (895)
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHhCccchhhHHHHHHHHHHcccHHHHHHHHHHHHhc--CCCChHHHHHHHHHHHhccc
Confidence            344444559999999999998764   6678999999999999999998766655433  25566789999999999999


Q ss_pred             chhhhHHHHHHHHhcCCCchhHHHHHHHhhhcCCChhHHHHHhccCCCCCc----chHH----HHHHHHHhCCChHHHHH
Q 005329          124 VNYGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKIELGCRVFDEMPLRNV----VSWT----AIITGLVRAGHNKEGLI  195 (702)
Q Consensus       124 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~----~~~~----~li~~~~~~~~~~~a~~  195 (702)
                      +++|.-++.++++.. +++...+-.-+..|-+.|+...|...|.++..-++    .-..    ..+..+...++-+.|++
T Consensus       223 i~qA~~cy~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~  301 (895)
T KOG2076|consen  223 INQARYCYSRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAK  301 (895)
T ss_pred             HHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHH
Confidence            999999999999987 44555555567889999999999998888763222    2222    33556667777799999


Q ss_pred             HHHHHHHC-CCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhC---------------------------CCCchhHH
Q 005329          196 YFAEMWRS-KEQGDSYTFAIVLKASADSGALNFGREIHTIMLKRG---------------------------FDVVSFVA  247 (702)
Q Consensus       196 ~~~~m~~~-~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~---------------------------~~~~~~~~  247 (702)
                      .++..... +-..+..+++++...+.+...++.+......+....                           +.++..+.
T Consensus       302 ~le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~  381 (895)
T KOG2076|consen  302 ALEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVI  381 (895)
T ss_pred             HHHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhH
Confidence            98888662 223455677888888888888888888877776621                           22222231


Q ss_pred             HHHHHHhhhC--CChHHHHHHHhccC----CCCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHH
Q 005329          248 NSLATMYSKC--GKLDYSLRLFERMS----TRDVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASA  321 (702)
Q Consensus       248 ~~li~~~~~~--g~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~  321 (702)
                       .++-++.+.  +...+++.-|....    ..++..|.-+..+|...|++.+|+.+|..+......-+...|-.+...+-
T Consensus       382 -rl~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~  460 (895)
T KOG2076|consen  382 -RLMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYM  460 (895)
T ss_pred             -hHhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHH
Confidence             122222233  33333333332221    22556788889999999999999999999988755556778888999999


Q ss_pred             ccCchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHhcCCCCCh------------hhHHHHHHHHHcC
Q 005329          322 NLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIRRDI------------ISWSTIIGGYSQG  389 (702)
Q Consensus       322 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~------------~~~~~li~~~~~~  389 (702)
                      ..|..+.|.+.|+.++... +.+...-..|...+.+.|+.++|.+.+..+..+|.            .........+.+.
T Consensus       461 ~l~e~e~A~e~y~kvl~~~-p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~~~  539 (895)
T KOG2076|consen  461 ELGEYEEAIEFYEKVLILA-PDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILFQV  539 (895)
T ss_pred             HHhhHHHHHHHHHHHHhcC-CCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHHHh
Confidence            9999999999999998864 44566667788889999999999999999866652            1223345567778


Q ss_pred             CChHHHHHHHHHHHHCC----------------------CCCCHHHHHHHHHHHcccCcHHHHHHH------HHHHHHhC
Q 005329          390 GYEEEAFEYLALMRREG----------------------PRPNEFAFASVLSVCGNMAILEQGKQI------HAHVMSIG  441 (702)
Q Consensus       390 g~~~~a~~~~~~m~~~g----------------------~~p~~~~~~~ll~~~~~~~~~~~a~~~------~~~~~~~~  441 (702)
                      |+.++=+++-..|....                      ..-...+...++.+-.+.++.....+-      +......+
T Consensus       540 gk~E~fi~t~~~Lv~~~~~~~~~f~~~~k~r~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~l~d~~~~~~~e~~~  619 (895)
T KOG2076|consen  540 GKREEFINTASTLVDDFLKKRYIFPRNKKKRRRAIAGTTSKRYSELLKQIIRAREKATDDNVMEKALSDGTEFRAVELRG  619 (895)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHhhccccccccchhHHHHHHHHhccCchHHhhhcccchhhhhhhhhcc
Confidence            88777555555443211                      111112222233333333332221111      11112233


Q ss_pred             CCCCh--hHHHHHHHHHHhcCCHHHHHHHHhhCCCC-----CH----HHHHHHHHHHHHcCChHHHHHHHHHchhC-CC-
Q 005329          442 LERTA--MIKSALINMYSKCGSIKEASQIFYETESD-----DI----VSWTAMINGYAEHGYSQEAIHLFEKVPMV-GL-  508 (702)
Q Consensus       442 ~~~~~--~~~~~li~~~~~~g~~~~A~~~~~~~~~~-----~~----~~~~~li~~~~~~g~~~~A~~~~~~m~~~-g~-  508 (702)
                      +..+.  ..+.-++..+++.+++++|+.+...+...     +.    ..-...+.+.+..+++..|.+.++.|+.. +. 
T Consensus       620 Lsiddwfel~~e~i~~L~k~~r~qeAl~vv~~a~~~~~f~~~~~~~k~l~~~~l~~s~~~~d~~~a~~~lR~~i~~~~~~  699 (895)
T KOG2076|consen  620 LSIDDWFELFRELILSLAKLQRVQEALSVVFTALEAYIFFQDSEIRKELQFLGLKASLYARDPGDAFSYLRSVITQFQFY  699 (895)
T ss_pred             CcHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhhhhhhccHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhh
Confidence            33322  35566778888888888888887776532     11    12344556667788888888888887753 11 


Q ss_pred             -CCCH-HHHHHHHHHHhcc-----------------------------------CcHHHHHHHHHHhHHhhCCCCChhhH
Q 005329          509 -RPDS-VTFMGVLTACSHA-----------------------------------GLVDLGFHYFNLMSDKYGFVPSKEHY  551 (702)
Q Consensus       509 -~p~~-~~~~~ll~~~~~~-----------------------------------g~~~~A~~~~~~~~~~~~~~p~~~~~  551 (702)
                       .|.. ..|+..++...+.                                   +.+..|++.+-.+..   ..|+....
T Consensus       700 ~~~~q~~l~n~~~s~~~~~~q~v~~~R~~~~~~~~~~~~~~~l~~i~gh~~~~~~s~~~Al~~y~ra~~---~~pd~Pl~  776 (895)
T KOG2076|consen  700 LDVYQLNLWNLDFSYFSKYGQRVCYLRLIMRLLVKNKDDTPPLALIYGHNLFVNASFKHALQEYMRAFR---QNPDSPLI  776 (895)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCccCCcceeeeechhHhhccchHHHHHHHHHHHH---hCCCCcHH
Confidence             1221 2333223222222                                   344555555544432   34553333


Q ss_pred             HH-HHHHHH----------hcCCHHHHHHHHHhCCC--CC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCC---
Q 005329          552 GC-MIDLLC----------RAGRLSDAENMIENMPH--QK--DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSC---  613 (702)
Q Consensus       552 ~~-l~~~~~----------~~g~~~~A~~~~~~~~~--~p--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~---  613 (702)
                      +. |+-++.          |.-..-.+..++.+..+  .+  ...++-.++.+|...|-...|+..|+++++..|.+   
T Consensus       777 nl~lglafih~a~qr~v~~Rh~~i~qG~afL~RY~~lR~~~~~QEa~YNigRayh~~gl~~LA~~YYekvL~~~p~~~~~  856 (895)
T KOG2076|consen  777 NLCLGLAFIHLALQRRVSNRHAQIAQGFAFLKRYKELRRCEEKQEAFYNIGRAYHQIGLVHLAVSYYEKVLEVSPKDVTD  856 (895)
T ss_pred             HHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHhCCCcccccc
Confidence            22 221111          11122234444444333  22  44566667777777777777777777777775432   


Q ss_pred             ---------chhHHHHHHHHHhcCChHHHHHHHHH
Q 005329          614 ---------AGTHITLANIYAAKGRWREAAEVRKM  639 (702)
Q Consensus       614 ---------~~~~~~l~~~~~~~g~~~~A~~~~~~  639 (702)
                               ..+-.+|.-+|..+|+...|.+++++
T Consensus       857 ~~~d~~dLrkeAA~NL~LIY~~SGn~~lArqil~k  891 (895)
T KOG2076|consen  857 PKEDNYDLRKEAAYNLHLIYKKSGNMQLARQILEK  891 (895)
T ss_pred             ccCCcccHHHHHHhhhhhhhccCCcHHHHHHHHHh
Confidence                     12445667777777777777777654

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.80  E-value=3.2e-15  Score=140.34  Aligned_cols=445  Identities=13%  Similarity=0.113  Sum_probs=263.5

Q ss_pred             cchHHHHHHHHHcCCChhHHHHHHHHhhhCCCCCCCHHHHHHHHHHhhc--cCCchhh-hHHHHHHHHhcCCCchhHHHH
Q 005329           72 EISWTTLISGYVKAMDSIEALALFSRVWVEPQMNMDPFILSLALKACAL--NVNVNYG-ESLHGYTVKTGFVNSVFVGSA  148 (702)
Q Consensus        72 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~--~~~~~~a-~~~~~~~~~~~~~~~~~~~~~  148 (702)
                      +.+=|.|++ ++.+|..+++.-+|+.|++. |++.+...-..|++..+-  ..++--+ .+.|-.|.+.| +.+..+|  
T Consensus       116 V~~E~nL~k-mIS~~EvKDs~ilY~~m~~e-~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~-E~S~~sW--  190 (625)
T KOG4422|consen  116 VETENNLLK-MISSREVKDSCILYERMRSE-NVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFG-EDSTSSW--  190 (625)
T ss_pred             hcchhHHHH-HHhhcccchhHHHHHHHHhc-CCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhccccc-ccccccc--
Confidence            445666765 45677899999999999988 677666665555544333  2333222 12233333333 2233333  


Q ss_pred             HHHhhhcCCChhHHHHHhccCCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhccCChHHH
Q 005329          149 LLDMYTKLGKIELGCRVFDEMPLRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSGALNFG  228 (702)
Q Consensus       149 li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a  228 (702)
                            +.|++.+   ++-+....+..+|..||.++++--..++|.++|++......+.+..+||.+|.+..-..    .
T Consensus       191 ------K~G~vAd---L~~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~----~  257 (625)
T KOG4422|consen  191 ------KSGAVAD---LLFETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSV----G  257 (625)
T ss_pred             ------ccccHHH---HHHhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhc----c
Confidence                  4455444   55555566788999999999999999999999999998889999999999998765332    3


Q ss_pred             HHHHHHHHHhCCCCchhHHHHHHHHhhhCCChHHHHHHH----hccC----CCCcchHHHHHHHHHhcCChhH-HHHHHH
Q 005329          229 REIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLF----ERMS----TRDVISWTTIITSYVQMGEEEN-AFDAFV  299 (702)
Q Consensus       229 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~----~~~~----~~~~~~~~~li~~~~~~g~~~~-a~~~~~  299 (702)
                      ++++.+|.+..+.||..|+|+++++..+.|+++.|.+.+    .+|+    +|...+|..+|..+++.++..+ +..++.
T Consensus       258 K~Lv~EMisqkm~Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~  337 (625)
T KOG4422|consen  258 KKLVAEMISQKMTPNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWIN  337 (625)
T ss_pred             HHHHHHHHHhhcCCchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHH
Confidence            889999999999999999999999999999988776543    3332    4566666666666666655533 333333


Q ss_pred             HHH----HCCCCC----ChhhHHHHHHHHHccCchHHHHHHHHHHHHhC----CCCchHHHHHHHHHHHhcCCHHHHHHH
Q 005329          300 RMQ----ESDVKP----NEYTFAAIISASANLARIQWGEQLHAHVLRLG----LVDSLSVANSIMAMYSKCGQLTSTSIV  367 (702)
Q Consensus       300 ~m~----~~g~~p----~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~----~~~~~~~~~~l~~~~~~~g~~~~a~~~  367 (702)
                      +..    .+.++|    |...|...|..|.+..+.+.|.++...+....    +.|+.                      
T Consensus       338 dI~N~ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~----------------------  395 (625)
T KOG4422|consen  338 DIQNSLTGKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQ----------------------  395 (625)
T ss_pred             HHHHhhccCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHH----------------------
Confidence            322    222222    23334555555666666666655554433211    01110                      


Q ss_pred             HhcCCCCChhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChh
Q 005329          368 FHGMIRRDIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAM  447 (702)
Q Consensus       368 ~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  447 (702)
                            ....-|..+....++....+.-+..|+.|.-.-.-|+..+...++++..-.+.++-..++|..++..|......
T Consensus       396 ------~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~  469 (625)
T KOG4422|consen  396 ------HRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSD  469 (625)
T ss_pred             ------HHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHH
Confidence                  01123445566666667777777777777766677777777778887777788888778887777766544333


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhhCCCCCHHHHHHHHHHHHHc-CChHH-HHHHHHHchhCCCCCCHHHHHHHHHHHhcc
Q 005329          448 IKSALINMYSKCGSIKEASQIFYETESDDIVSWTAMINGYAEH-GYSQE-AIHLFEKVPMVGLRPDSVTFMGVLTACSHA  525 (702)
Q Consensus       448 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~-g~~~~-A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~  525 (702)
                      ....+...+++..            ..|+......+-....+. -++-+ ....-.+|.+..++|..  .+.+.-.+.+.
T Consensus       470 l~eeil~~L~~~k------------~hp~tp~r~Ql~~~~ak~aad~~e~~e~~~~R~r~~~~~~t~--l~~ia~Ll~R~  535 (625)
T KOG4422|consen  470 LREEILMLLARDK------------LHPLTPEREQLQVAFAKCAADIKEAYESQPIRQRAQDWPATS--LNCIAILLLRA  535 (625)
T ss_pred             HHHHHHHHHhcCC------------CCCCChHHHHHHHHHHHHHHHHHHHHHhhHHHHHhccCChhH--HHHHHHHHHHc
Confidence            3332322222221            012111111111111110 01111 11122334444444433  33344446677


Q ss_pred             CcHHHHHHHHHHhHHhhCCCCChhhHHH---HHHHHHhcCCHHHHHHHHHhCCC
Q 005329          526 GLVDLGFHYFNLMSDKYGFVPSKEHYGC---MIDLLCRAGRLSDAENMIENMPH  576 (702)
Q Consensus       526 g~~~~A~~~~~~~~~~~~~~p~~~~~~~---l~~~~~~~g~~~~A~~~~~~~~~  576 (702)
                      |..++|.+++..+.++.+-.|-....++   +++.-.+.++.-.|..+++-|..
T Consensus       536 G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~d~a~~~~spsqA~~~lQ~a~~  589 (625)
T KOG4422|consen  536 GRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELMDSAKVSNSPSQAIEVLQLASA  589 (625)
T ss_pred             chHHHHHHHHHHHHhcCCcCCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            7777777777777555444444444443   34445566677777777777644

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.77  E-value=2.6e-14  Score=155.15  Aligned_cols=443  Identities=10%  Similarity=0.022  Sum_probs=296.6

Q ss_pred             HHHhhccCCchhhhHHHHHHHHhcCCCchhHHHHHHHhhhcCCChhHHHHHhccCCCCCcchHHHH---HHHHHhCCChH
Q 005329          115 LKACALNVNVNYGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKIELGCRVFDEMPLRNVVSWTAI---ITGLVRAGHNK  191 (702)
Q Consensus       115 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l---i~~~~~~~~~~  191 (702)
                      +-...+.|++..|...|++.++........++ .++..+...|+.++|+..+++...|+...+..+   ...|...|+++
T Consensus        41 aii~~r~Gd~~~Al~~L~qaL~~~P~~~~av~-dll~l~~~~G~~~~A~~~~eka~~p~n~~~~~llalA~ly~~~gdyd  119 (822)
T PRK14574         41 LIIRARAGDTAPVLDYLQEESKAGPLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQSSMNISSRGLASAARAYRNEKRWD  119 (822)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHhhCccchhhHH-HHHHHHHHcCCcHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHH
Confidence            33456899999999999999887643323444 788888899999999999999887655544443   34777889999


Q ss_pred             HHHHHHHHHHHCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhhhCCChHHHHHHHhccC
Q 005329          192 EGLIYFAEMWRSKEQGDSYTFAIVLKASADSGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMS  271 (702)
Q Consensus       192 ~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~  271 (702)
                      +|+++|+++.+.. +-++..+..++..+...++.++|.+.++.+.+.  .|+...+..++..+...++..+|++.++++.
T Consensus       120 ~Aiely~kaL~~d-P~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~~AL~~~ekll  196 (822)
T PRK14574        120 QALALWQSSLKKD-PTNPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNYDALQASSEAV  196 (822)
T ss_pred             HHHHHHHHHHhhC-CCCHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHHHHHHHHHHHH
Confidence            9999999998864 334566667778889999999999999999887  5555555555555545666666999999886


Q ss_pred             C--C-CcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCchHHHHHHHHHHHHhCCCCchHHH
Q 005329          272 T--R-DVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVA  348 (702)
Q Consensus       272 ~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  348 (702)
                      +  | +...+..++.++.+.|-...|.++..+-... +.+  .....+-.        +.    ..+.++.+..++..--
T Consensus       197 ~~~P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~-f~~--~~~~~l~~--------~~----~a~~vr~a~~~~~~~~  261 (822)
T PRK14574        197 RLAPTSEEVLKNHLEILQRNRIVEPALRLAKENPNL-VSA--EHYRQLER--------DA----AAEQVRMAVLPTRSET  261 (822)
T ss_pred             HhCCCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccc-cCH--HHHHHHHH--------HH----HHHHHhhcccccccch
Confidence            3  4 5667788889999999999999877663211 111  11111100        00    0011111110100000


Q ss_pred             HHHHHHHHhcCCHHHHHHHHhcCC----C-CC-----hhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 005329          349 NSIMAMYSKCGQLTSTSIVFHGMI----R-RD-----IISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVL  418 (702)
Q Consensus       349 ~~l~~~~~~~g~~~~a~~~~~~~~----~-~~-----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll  418 (702)
                      .       +-.-.+.|+.-++.+.    . |.     ..+..-.+.++...|++.++++.|+.+...|.+....+-..+.
T Consensus       262 ~-------r~~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~a  334 (822)
T PRK14574        262 E-------RFDIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAA  334 (822)
T ss_pred             h-------hHHHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHH
Confidence            0       0000112222222211    1 10     1122234556667777777777777777776655556667777


Q ss_pred             HHHcccCcHHHHHHHHHHHHHhCC-----CCChhHHHHHHHHHHhcCCHHHHHHHHhhCCC--C-------------CH-
Q 005329          419 SVCGNMAILEQGKQIHAHVMSIGL-----ERTAMIKSALINMYSKCGSIKEASQIFYETES--D-------------DI-  477 (702)
Q Consensus       419 ~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-------------~~-  477 (702)
                      ++|...+.+++|..++..+.....     +++......|..+|...+++++|..+++.+.+  |             |. 
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            777777777777777777765431     22333345677777788888888887777653  1             11 


Q ss_pred             --HHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHH
Q 005329          478 --VSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCM  554 (702)
Q Consensus       478 --~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l  554 (702)
                        ..+..++..+...|+..+|.+.++++.... +-|......+...+...|.+.+|.+.++.+.   .+.|+ ..+....
T Consensus       415 ~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~a-P~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~---~l~P~~~~~~~~~  490 (822)
T PRK14574        415 WIEGQTLLVQSLVALNDLPTAQKKLEDLSSTA-PANQNLRIALASIYLARDLPRKAEQELKAVE---SLAPRSLILERAQ  490 (822)
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHh---hhCCccHHHHHHH
Confidence              234556777889999999999999998653 5577888888889999999999999997765   45776 6677788


Q ss_pred             HHHHHhcCCHHHHHHHHHhCCC-CCCHHHHHHHH
Q 005329          555 IDLLCRAGRLSDAENMIENMPH-QKDDVVWSTLL  587 (702)
Q Consensus       555 ~~~~~~~g~~~~A~~~~~~~~~-~p~~~~~~~l~  587 (702)
                      +..+...|++++|..+.+.... .|+......|-
T Consensus       491 ~~~al~l~e~~~A~~~~~~l~~~~Pe~~~~~~l~  524 (822)
T PRK14574        491 AETAMALQEWHQMELLTDDVISRSPEDIPSQELD  524 (822)
T ss_pred             HHHHHhhhhHHHHHHHHHHHHhhCCCchhHHHHH
Confidence            8888999999999999888766 55544433333

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

Probab=99.76  E-value=7.6e-15  Score=138.70  Aligned_cols=464  Identities=13%  Similarity=0.081  Sum_probs=291.0

Q ss_pred             HHHHHHHhhhcCCChhHHHHHhccCCC----CCcch-HHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHH---
Q 005329          145 VGSALLDMYTKLGKIELGCRVFDEMPL----RNVVS-WTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVL---  216 (702)
Q Consensus       145 ~~~~li~~~~~~g~~~~A~~~~~~~~~----~~~~~-~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll---  216 (702)
                      +...|..-|.......+|+..++-+.+    ||... --.+-..+.+...+..|+++|+.....-...+..+-..++   
T Consensus       203 vl~nlaqqy~~ndm~~ealntyeiivknkmf~nag~lkmnigni~~kkr~fskaikfyrmaldqvpsink~~rikil~ni  282 (840)
T KOG2003|consen  203 VLFNLAQQYEANDMTAEALNTYEIIVKNKMFPNAGILKMNIGNIHFKKREFSKAIKFYRMALDQVPSINKDMRIKILNNI  282 (840)
T ss_pred             HHHHHHHHhhhhHHHHHHhhhhhhhhcccccCCCceeeeeecceeeehhhHHHHHHHHHHHHhhccccchhhHHHHHhhc
Confidence            333444445555566677766665542    22211 1122345566667777777777665542222222222222   


Q ss_pred             -HHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhhhCCChHHHHHHHhccCC----------------CCcchHH
Q 005329          217 -KASADSGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMST----------------RDVISWT  279 (702)
Q Consensus       217 -~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~----------------~~~~~~~  279 (702)
                       -.+.+.|.++.|...|+...+.  .|+..+--.|+-.+..-|+.++..+.|.+|..                |+....|
T Consensus       283 gvtfiq~gqy~dainsfdh~m~~--~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~~~ll~  360 (840)
T KOG2003|consen  283 GVTFIQAGQYDDAINSFDHCMEE--APNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPDDNLLN  360 (840)
T ss_pred             CeeEEecccchhhHhhHHHHHHh--CccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcchHHHH
Confidence             2355677777777777777665  45555544455555556777777777766631                1111122


Q ss_pred             HHH-----HHHHhcC--ChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCchHHHHHHHHHHHHhCCCCchHHHHHHH
Q 005329          280 TII-----TSYVQMG--EEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIM  352 (702)
Q Consensus       280 ~li-----~~~~~~g--~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  352 (702)
                      .-|     +-+-+.+  +.++++-.-.++..--+.||-..            ..+.+.+.++.-....+..+..  -.-.
T Consensus       361 eai~nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~------------g~dwcle~lk~s~~~~la~dle--i~ka  426 (840)
T KOG2003|consen  361 EAIKNDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFAA------------GCDWCLESLKASQHAELAIDLE--INKA  426 (840)
T ss_pred             HHHhhHHHHHHHHhhhhhHHHHHHHHHHHhccccccchhc------------ccHHHHHHHHHhhhhhhhhhhh--hhHH
Confidence            111     1111111  11111111111111111121110            1122222222111111111111  1123


Q ss_pred             HHHHhcCCHHHHHHHHhcCCCCChhhHHH----HH-HHHHc-CCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCc
Q 005329          353 AMYSKCGQLTSTSIVFHGMIRRDIISWST----II-GGYSQ-GGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAI  426 (702)
Q Consensus       353 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~----li-~~~~~-~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~  426 (702)
                      ..|.+.|+++.|+++++-....|..+-++    |- --|.+ ..++..|..+-+...... +-+....+.--+.....|+
T Consensus       427 ~~~lk~~d~~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~d-ryn~~a~~nkgn~~f~ngd  505 (840)
T KOG2003|consen  427 GELLKNGDIEGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNID-RYNAAALTNKGNIAFANGD  505 (840)
T ss_pred             HHHHhccCHHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc-ccCHHHhhcCCceeeecCc
Confidence            35778999999999988886665443222    21 12222 346677777666554321 2222222222233445689


Q ss_pred             HHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCHHHHHHHHHHHHHcCChHHHHHHHHHc
Q 005329          427 LEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETE---SDDIVSWTAMINGYAEHGYSQEAIHLFEKV  503 (702)
Q Consensus       427 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  503 (702)
                      +++|.+.+.+.....-......|| +.-.+-+.|++++|+..|-++.   ..++.....+.+.|-...++..|++++.+.
T Consensus       506 ~dka~~~ykeal~ndasc~ealfn-iglt~e~~~~ldeald~f~klh~il~nn~evl~qianiye~led~aqaie~~~q~  584 (840)
T KOG2003|consen  506 LDKAAEFYKEALNNDASCTEALFN-IGLTAEALGNLDEALDCFLKLHAILLNNAEVLVQIANIYELLEDPAQAIELLMQA  584 (840)
T ss_pred             HHHHHHHHHHHHcCchHHHHHHHH-hcccHHHhcCHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhCHHHHHHHHHHh
Confidence            999999999998877666666666 4445778899999999998765   467778888899999999999999999887


Q ss_pred             hhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCC-ChhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CCCHH
Q 005329          504 PMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVP-SKEHYGCMIDLLCRAGRLSDAENMIENMPH-QKDDV  581 (702)
Q Consensus       504 ~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~~~  581 (702)
                      ... ++.|+....-|...|-+.|+-..|.+.+-.--   ..-| +.++...|...|....-+++|+.+|+++.- +|+..
T Consensus       585 ~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsy---ryfp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp~~~  660 (840)
T KOG2003|consen  585 NSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSY---RYFPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQPNQS  660 (840)
T ss_pred             ccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhcc---cccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCccHH
Confidence            754 45577889999999999999999999876543   3444 689999999999999999999999999866 89999


Q ss_pred             HHHHHHHHHH-hcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCCh
Q 005329          582 VWSTLLRACM-VQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRW  630 (702)
Q Consensus       582 ~~~~l~~~~~-~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  630 (702)
                      -|..++..|. +.|++..|.++|+.+....|.+..++..|+.++...|..
T Consensus       661 kwqlmiasc~rrsgnyqka~d~yk~~hrkfpedldclkflvri~~dlgl~  710 (840)
T KOG2003|consen  661 KWQLMIASCFRRSGNYQKAFDLYKDIHRKFPEDLDCLKFLVRIAGDLGLK  710 (840)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHHhCccchHHHHHHHHHhccccch
Confidence            9999888875 789999999999999999999999999999999888743

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

Probab=99.75  E-value=5.1e-13  Score=137.72  Aligned_cols=561  Identities=13%  Similarity=0.057  Sum_probs=373.6

Q ss_pred             HHcCCChhHHHHHHHHhhhCCCCCCCHHHHHHHHHHhhccCCchhhhHHHHHHHHhcCCCchhHHHHHHHhhhcCCChhH
Q 005329           82 YVKAMDSIEALALFSRVWVEPQMNMDPFILSLALKACALNVNVNYGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKIEL  161 (702)
Q Consensus        82 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  161 (702)
                      +..+|+.++|.+++.++++..  +-+...|.+|...+-..|+.+.+...+-.+.... +.|...|..+-....+.|+++.
T Consensus       149 lfarg~~eeA~~i~~EvIkqd--p~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~-p~d~e~W~~ladls~~~~~i~q  225 (895)
T KOG2076|consen  149 LFARGDLEEAEEILMEVIKQD--PRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLN-PKDYELWKRLADLSEQLGNINQ  225 (895)
T ss_pred             HHHhCCHHHHHHHHHHHHHhC--ccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHhcccHHH
Confidence            444599999999999998764  6667789999999999999999888776665554 5567899999999999999999


Q ss_pred             HHHHhccCCCC---CcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHH----HHHHhccCChHHHHHHHHH
Q 005329          162 GCRVFDEMPLR---NVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIV----LKASADSGALNFGREIHTI  234 (702)
Q Consensus       162 A~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l----l~~~~~~~~~~~a~~~~~~  234 (702)
                      |.-.|.+..+.   +...+--=+..|-+.|+...|.+.|.++.....+.|..-+..+    ++.+...++-+.|.+.++.
T Consensus       226 A~~cy~rAI~~~p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~  305 (895)
T KOG2076|consen  226 ARYCYSRAIQANPSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEG  305 (895)
T ss_pred             HHHHHHHHHhcCCcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            99999987643   3333334456788899999999999999886443333333333    4456667777999999888


Q ss_pred             HHHhC-CCCchhHHHHHHHHhhhCCChHHHHHHHhccCC----C----------------------CcchHH----HHHH
Q 005329          235 MLKRG-FDVVSFVANSLATMYSKCGKLDYSLRLFERMST----R----------------------DVISWT----TIIT  283 (702)
Q Consensus       235 ~~~~~-~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~----~----------------------~~~~~~----~li~  283 (702)
                      ..+.+ -..+...++.++..|.+...++.|......+..    +                      +..+|+    -++-
T Consensus       306 ~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~rl~i  385 (895)
T KOG2076|consen  306 ALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVIRLMI  385 (895)
T ss_pred             HHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhHhHhh
Confidence            88733 245566788899999999999988877755532    1                      111222    1233


Q ss_pred             HHHhcCChhHHHHHHHHHHHCCCC--CChhhHHHHHHHHHccCchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCH
Q 005329          284 SYVQMGEEENAFDAFVRMQESDVK--PNEYTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQL  361 (702)
Q Consensus       284 ~~~~~g~~~~a~~~~~~m~~~g~~--p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  361 (702)
                      ++......+....+.....+..+.  -+...|.-+..++.+.|.+..|..++..+.......+..+|-.+..+|...|..
T Consensus       386 cL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~  465 (895)
T KOG2076|consen  386 CLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEY  465 (895)
T ss_pred             hhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhH
Confidence            444455555555555556665533  345678889999999999999999999999877667788999999999999999


Q ss_pred             HHHHHHHhcCCCC---ChhhHHHHHHHHHcCCChHHHHHHHHHHHH--------CCCCCCHHHHHHHHHHHcccCcHHHH
Q 005329          362 TSTSIVFHGMIRR---DIISWSTIIGGYSQGGYEEEAFEYLALMRR--------EGPRPNEFAFASVLSVCGNMAILEQG  430 (702)
Q Consensus       362 ~~a~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~--------~g~~p~~~~~~~ll~~~~~~~~~~~a  430 (702)
                      +.|...|+.+...   +..+-..|...+.+.|+.++|.+.+..+..        .+..|+..........+...|+.++-
T Consensus       466 e~A~e~y~kvl~~~p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~~~gk~E~f  545 (895)
T KOG2076|consen  466 EEAIEFYEKVLILAPDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILFQVGKREEF  545 (895)
T ss_pred             HHHHHHHHHHHhcCCCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHHHhhhHHHH
Confidence            9999999998543   444566777889999999999999998642        23445555555556667777887776


Q ss_pred             HHHHHHHHHhCC----------------------CCChhHHHHHHHHHHhcCCHHHHHHHHhhC--------CC---CCH
Q 005329          431 KQIHAHVMSIGL----------------------ERTAMIKSALINMYSKCGSIKEASQIFYET--------ES---DDI  477 (702)
Q Consensus       431 ~~~~~~~~~~~~----------------------~~~~~~~~~li~~~~~~g~~~~A~~~~~~~--------~~---~~~  477 (702)
                      ..+...++....                      .........++.+-.+.++......-...-        ..   .+.
T Consensus       546 i~t~~~Lv~~~~~~~~~f~~~~k~r~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~l~d~~~~~~~e~~~Lsiddw  625 (895)
T KOG2076|consen  546 INTASTLVDDFLKKRYIFPRNKKKRRRAIAGTTSKRYSELLKQIIRAREKATDDNVMEKALSDGTEFRAVELRGLSIDDW  625 (895)
T ss_pred             HHHHHHHHHHHHHHHHhcchHHHHHHHhhccccccccchhHHHHHHHHhccCchHHhhhcccchhhhhhhhhccCcHHHH
Confidence            555444433110                      111112222333333333322222111111        00   111


Q ss_pred             -HHHHHHHHHHHHcCChHHHHHHHHHchhCCC--CCCHH--H-HHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC---h
Q 005329          478 -VSWTAMINGYAEHGYSQEAIHLFEKVPMVGL--RPDSV--T-FMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS---K  548 (702)
Q Consensus       478 -~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~--~p~~~--~-~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~---~  548 (702)
                       ..+.-++.++++.+++++|+.+...+.....  .++..  . -...+.++...+++..|...++.|...++...+   .
T Consensus       626 fel~~e~i~~L~k~~r~qeAl~vv~~a~~~~~f~~~~~~~k~l~~~~l~~s~~~~d~~~a~~~lR~~i~~~~~~~~~~q~  705 (895)
T KOG2076|consen  626 FELFRELILSLAKLQRVQEALSVVFTALEAYIFFQDSEIRKELQFLGLKASLYARDPGDAFSYLRSVITQFQFYLDVYQL  705 (895)
T ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHhhhhhhccHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhhhhhHHH
Confidence             2345677889999999999999988875432  22221  2 234556667899999999999988766443322   3


Q ss_pred             hhHHHHHHHHH-----------------------------------hcCCHHHHHHHHHhCCC-CCCHHHHHHH-HHHHH
Q 005329          549 EHYGCMIDLLC-----------------------------------RAGRLSDAENMIENMPH-QKDDVVWSTL-LRACM  591 (702)
Q Consensus       549 ~~~~~l~~~~~-----------------------------------~~g~~~~A~~~~~~~~~-~p~~~~~~~l-~~~~~  591 (702)
                      ..|+...+.+.                                   .++.+..|+..+-.+.. .|+.+..+.. +.++.
T Consensus       706 ~l~n~~~s~~~~~~q~v~~~R~~~~~~~~~~~~~~~l~~i~gh~~~~~~s~~~Al~~y~ra~~~~pd~Pl~nl~lglafi  785 (895)
T KOG2076|consen  706 NLWNLDFSYFSKYGQRVCYLRLIMRLLVKNKDDTPPLALIYGHNLFVNASFKHALQEYMRAFRQNPDSPLINLCLGLAFI  785 (895)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhccCccCCcceeeeechhHhhccchHHHHHHHHHHHHhCCCCcHHHHHHHHHHH
Confidence            33442222222                                   33455555554433332 3443332222 22221


Q ss_pred             ----------hcCCHHHHHHHHHHHHHhCCC--CchhHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 005329          592 ----------VQGDVNCGRHTAEKILELHPS--CAGTHITLANIYAAKGRWREAAEVRKMMRSKGV  645 (702)
Q Consensus       592 ----------~~g~~~~A~~~~~~~~~~~p~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  645 (702)
                                ++-..-.+...+++-.++...  .-++.+++|.+|...|-..-|..+++++.+-.+
T Consensus       786 h~a~qr~v~~Rh~~i~qG~afL~RY~~lR~~~~~QEa~YNigRayh~~gl~~LA~~YYekvL~~~p  851 (895)
T KOG2076|consen  786 HLALQRRVSNRHAQIAQGFAFLKRYKELRRCEEKQEAFYNIGRAYHQIGLVHLAVSYYEKVLEVSP  851 (895)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHhCCCc
Confidence                      222344556666666665533  567888999999999999999999999987543

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.74  E-value=4.6e-14  Score=132.74  Aligned_cols=421  Identities=10%  Similarity=0.041  Sum_probs=224.7

Q ss_pred             ccccccccCcccCchhhhhHHHHHHc---cCChHHHHHHhhcCCC---CCcchHHHHHHHHHcCCChhHHHHHHHHhhhC
Q 005329           28 LLFQGTQLPVYVSTPEVNSQLKHLVK---SGYLHDARKMFDTMTQ---RDEISWTTLISGYVKAMDSIEALALFSRVWVE  101 (702)
Q Consensus        28 ~~~~~~~~~~~~~~~~~~~l~~~~~~---~g~~~~A~~~~~~~~~---~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  101 (702)
                      ++..+++-...++..+--.|++.-+-   +.-.-.-++.|-.|..   .+..+|        +.|+..+   ++.+..  
T Consensus       137 lY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~S~~sW--------K~G~vAd---L~~E~~--  203 (625)
T KOG4422|consen  137 LYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGEDSTSSW--------KSGAVAD---LLFETL--  203 (625)
T ss_pred             HHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhcccccccccccc--------ccccHHH---HHHhhc--
Confidence            44566666777776666665554332   2223334455555543   122233        1222222   222111  


Q ss_pred             CCCCCCHHHHHHHHHHhhccCCchhhhHHHHHHHHhcCCCchhHHHHHHHhhhcCCChhHHHHHhccCCCCCcchHHHHH
Q 005329          102 PQMNMDPFILSLALKACALNVNVNYGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKIELGCRVFDEMPLRNVVSWTAII  181 (702)
Q Consensus       102 ~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li  181 (702)
                         +-...++..++.+.++-...+.|.+++.+......+.+..++|.+|.+-.-.-+-+..-++...-..||..|+|+++
T Consensus       204 ---PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~K~Lv~EMisqkm~Pnl~TfNalL  280 (625)
T KOG4422|consen  204 ---PKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVGKKLVAEMISQKMTPNLFTFNALL  280 (625)
T ss_pred             ---CCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhccHHHHHHHHHhhcCCchHhHHHHH
Confidence               22234444444444444444444444444444444444445554444322221111111111111245555555555


Q ss_pred             HHHHhCCChH----HHHHHHHHHHHCCCCCChhhHHHHHHHHhccCChH-HHHHHHHHHHHh--C--C----CCchhHHH
Q 005329          182 TGLVRAGHNK----EGLIYFAEMWRSKEQGDSYTFAIVLKASADSGALN-FGREIHTIMLKR--G--F----DVVSFVAN  248 (702)
Q Consensus       182 ~~~~~~~~~~----~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~-~a~~~~~~~~~~--~--~----~~~~~~~~  248 (702)
                      ++..+.|+++    .|.+++.+|++.|+.|...+|..+|..+++.++.. .+..++.++...  |  +    +.|..-|.
T Consensus       281 ~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~FF~  360 (625)
T KOG4422|consen  281 SCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKFFQ  360 (625)
T ss_pred             HHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhHHHH
Confidence            5555555443    34567777888888888888888888877766653 345555555442  1  2    22344556


Q ss_pred             HHHHHhhhCCChHHHHHHHhccCCC-----------CcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHH
Q 005329          249 SLATMYSKCGKLDYSLRLFERMSTR-----------DVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAII  317 (702)
Q Consensus       249 ~li~~~~~~g~~~~A~~~~~~~~~~-----------~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll  317 (702)
                      .-+..|.+..+.+.|.++-.-+...           ...-|..+....|+....+.-+..|+.|.-.-+-|+..+...++
T Consensus       361 ~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~~l  440 (625)
T KOG4422|consen  361 SAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQTMIHLL  440 (625)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCchhHHHHH
Confidence            6677777777777777766544321           12335667778888889999999999998888889999999999


Q ss_pred             HHHHccCchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhhHHHHHHHHHc--CCChHHH
Q 005329          318 SASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIRRDIISWSTIIGGYSQ--GGYEEEA  395 (702)
Q Consensus       318 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~--~g~~~~a  395 (702)
                      ++....|.++-.-+++..++..|..........++..+++..            +.|+...-..+-...++  ..-.+..
T Consensus       441 rA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k------------~hp~tp~r~Ql~~~~ak~aad~~e~~  508 (625)
T KOG4422|consen  441 RALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARDK------------LHPLTPEREQLQVAFAKCAADIKEAY  508 (625)
T ss_pred             HHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCC------------CCCCChHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999998886555555444444444432            01111111111111111  0001111


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCC-CC---ChhHHHHHHHHHHhcCCHHHHHHHHhh
Q 005329          396 FEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGL-ER---TAMIKSALINMYSKCGSIKEASQIFYE  471 (702)
Q Consensus       396 ~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~---~~~~~~~li~~~~~~g~~~~A~~~~~~  471 (702)
                      ...-.+|.+...  .....+.+...+.+.|..++|.+++..+.+.+- .|   .......+++.-.+......|..+++-
T Consensus       509 e~~~~R~r~~~~--~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~d~a~~~~spsqA~~~lQ~  586 (625)
T KOG4422|consen  509 ESQPIRQRAQDW--PATSLNCIAILLLRAGRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELMDSAKVSNSPSQAIEVLQL  586 (625)
T ss_pred             HhhHHHHHhccC--ChhHHHHHHHHHHHcchHHHHHHHHHHHHhcCCcCCCCcchhhHHHHHHHHHhcCCHHHHHHHHHH
Confidence            112223333222  333344444455666777777776666644322 22   222223455555566667777777766


Q ss_pred             CCCCCHH
Q 005329          472 TESDDIV  478 (702)
Q Consensus       472 ~~~~~~~  478 (702)
                      +...+..
T Consensus       587 a~~~n~~  593 (625)
T KOG4422|consen  587 ASAFNLP  593 (625)
T ss_pred             HHHcCch
Confidence            6544433

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

Probab=99.73  E-value=2.7e-11  Score=120.36  Aligned_cols=462  Identities=11%  Similarity=0.058  Sum_probs=326.5

Q ss_pred             HHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHH----HhCCCCchhHHHHHHHHhh
Q 005329          180 IITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSGALNFGREIHTIML----KRGFDVVSFVANSLATMYS  255 (702)
Q Consensus       180 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~----~~~~~~~~~~~~~li~~~~  255 (702)
                      |.-+|++..-++.|..++....+. ++.+...|.+....=-.+|+.+...++++.-+    ..|+..+..-|-.=...|-
T Consensus       412 LwlAlarLetYenAkkvLNkaRe~-iptd~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~e  490 (913)
T KOG0495|consen  412 LWLALARLETYENAKKVLNKAREI-IPTDREIWITAAKLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAEACE  490 (913)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhh-CCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHHh
Confidence            334555566667777777777654 66666677666665566777777766665443    3466666666655556666


Q ss_pred             hCCChHHHHHHHhccCC------CCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCchHHH
Q 005329          256 KCGKLDYSLRLFERMST------RDVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWG  329 (702)
Q Consensus       256 ~~g~~~~A~~~~~~~~~------~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a  329 (702)
                      +.|..--+..+......      .--.+|+.-...|.+.+.++-|..+|....+. ++-+...|......--..|..+..
T Consensus       491 ~agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alqv-fp~k~slWlra~~~ek~hgt~Esl  569 (913)
T KOG0495|consen  491 DAGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQV-FPCKKSLWLRAAMFEKSHGTRESL  569 (913)
T ss_pred             hcCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhh-ccchhHHHHHHHHHHHhcCcHHHH
Confidence            66665555555544421      12346777777777778888888888777664 233444555555555566777888


Q ss_pred             HHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHhcCCC---CChhhHHHHHHHHHcCCChHHHHHHHHHHHHCC
Q 005329          330 EQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIR---RDIISWSTIIGGYSQGGYEEEAFEYLALMRREG  406 (702)
Q Consensus       330 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  406 (702)
                      ..++..+...- +.....|-.....+-..|+...|..++.+..+   .+...|-.-+.......+++.|..+|.+...  
T Consensus       570 ~Allqkav~~~-pkae~lwlM~ake~w~agdv~~ar~il~~af~~~pnseeiwlaavKle~en~e~eraR~llakar~--  646 (913)
T KOG0495|consen  570 EALLQKAVEQC-PKAEILWLMYAKEKWKAGDVPAARVILDQAFEANPNSEEIWLAAVKLEFENDELERARDLLAKARS--  646 (913)
T ss_pred             HHHHHHHHHhC-CcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCcHHHHHHHHHHhhccccHHHHHHHHHHHhc--
Confidence            88888777653 44455566666667777888888888877633   2555777777777888888888888888766  


Q ss_pred             CCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCC--C-CHHHHHHH
Q 005329          407 PRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETES--D-DIVSWTAM  483 (702)
Q Consensus       407 ~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~l  483 (702)
                      ..|+...|..-+...--.++.++|.+++++..+. ++.-...|-.+.+.+-+.++++.|...|..-.+  | .+..|-.|
T Consensus       647 ~sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~-fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~cP~~ipLWllL  725 (913)
T KOG0495|consen  647 ISGTERVWMKSANLERYLDNVEEALRLLEEALKS-FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKKCPNSIPLWLLL  725 (913)
T ss_pred             cCCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHh-CCchHHHHHHHhHHHHHHHHHHHHHHHHHhccccCCCCchHHHHH
Confidence            4555555555555555567888888888777664 233455677778888888888888888876553  3 45677777


Q ss_pred             HHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCC
Q 005329          484 INGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGR  563 (702)
Q Consensus       484 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~  563 (702)
                      ...--+.|....|..++++..-.+ +-|...|...|+.=.+.|..+.|..+..++.+.  ++.+...|..-|.+..+.++
T Consensus       726 akleEk~~~~~rAR~ildrarlkN-Pk~~~lwle~Ir~ElR~gn~~~a~~lmakALQe--cp~sg~LWaEaI~le~~~~r  802 (913)
T KOG0495|consen  726 AKLEEKDGQLVRARSILDRARLKN-PKNALLWLESIRMELRAGNKEQAELLMAKALQE--CPSSGLLWAEAIWLEPRPQR  802 (913)
T ss_pred             HHHHHHhcchhhHHHHHHHHHhcC-CCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCccchhHHHHHHhccCccc
Confidence            777777888888888888877553 446677888888888888888888888887765  34456677777777777777


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 005329          564 LSDAENMIENMPHQKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSK  643 (702)
Q Consensus       564 ~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  643 (702)
                      -..+.+.+++...  |+.....+...+....+++.|.+-|++++..+|++..+|..+-..+.+.|.-++-.+++++....
T Consensus       803 kTks~DALkkce~--dphVllaia~lfw~e~k~~kar~Wf~Ravk~d~d~GD~wa~fykfel~hG~eed~kev~~~c~~~  880 (913)
T KOG0495|consen  803 KTKSIDALKKCEH--DPHVLLAIAKLFWSEKKIEKAREWFERAVKKDPDNGDAWAWFYKFELRHGTEEDQKEVLKKCETA  880 (913)
T ss_pred             chHHHHHHHhccC--CchhHHHHHHHHHHHHHHHHHHHHHHHHHccCCccchHHHHHHHHHHHhCCHHHHHHHHHHHhcc
Confidence            6666666666543  55667778888999999999999999999999999999999999999999999999999988764


Q ss_pred             CCccCCeeeEE
Q 005329          644 GVIKEPGWSRI  654 (702)
Q Consensus       644 ~~~~~~~~~~~  654 (702)
                        .|..|..|.
T Consensus       881 --EP~hG~~W~  889 (913)
T KOG0495|consen  881 --EPTHGELWQ  889 (913)
T ss_pred             --CCCCCcHHH
Confidence              455666665

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

Probab=99.72  E-value=4.6e-12  Score=125.71  Aligned_cols=545  Identities=12%  Similarity=0.069  Sum_probs=299.4

Q ss_pred             CChhHHHHHHHHhhhCCCCCCCHHHHHHHHHHhhccCCchhhhHHHHHHHHhcCCCchhHHHHHHHhhhcCCChhHHHHH
Q 005329           86 MDSIEALALFSRVWVEPQMNMDPFILSLALKACALNVNVNYGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKIELGCRV  165 (702)
Q Consensus        86 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  165 (702)
                      ++..+|..+++.+++.+...|..++-.  .+.--..|.+..|+.+...=-+. ++.+..+|-.-+    +....+.|..+
T Consensus       265 ~DikKaR~llKSvretnP~hp~gWIAs--ArLEEvagKl~~Ar~~I~~GCe~-cprSeDvWLeai----RLhp~d~aK~v  337 (913)
T KOG0495|consen  265 EDIKKARLLLKSVRETNPKHPPGWIAS--ARLEEVAGKLSVARNLIMKGCEE-CPRSEDVWLEAI----RLHPPDVAKTV  337 (913)
T ss_pred             HHHHHHHHHHHHHHhcCCCCCchHHHH--HHHHHHhhHHHHHHHHHHHHHhh-CCchHHHHHHHH----hcCChHHHHHH
Confidence            367789999999988764445444433  33333445555555432211110 223333332222    33344444444


Q ss_pred             hccCCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchh
Q 005329          166 FDEMPLRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSGALNFGREIHTIMLKRGFDVVSF  245 (702)
Q Consensus       166 ~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  245 (702)
                      .-...+..+.+-..-+.+---..+...=..++++..+. ++-+...|    ++.....+.+.|+-++....+-- +.+..
T Consensus       338 vA~Avr~~P~Sv~lW~kA~dLE~~~~~K~RVlRKALe~-iP~sv~LW----KaAVelE~~~darilL~rAvecc-p~s~d  411 (913)
T KOG0495|consen  338 VANAVRFLPTSVRLWLKAADLESDTKNKKRVLRKALEH-IPRSVRLW----KAAVELEEPEDARILLERAVECC-PQSMD  411 (913)
T ss_pred             HHHHHHhCCCChhhhhhHHhhhhHHHHHHHHHHHHHHh-CCchHHHH----HHHHhccChHHHHHHHHHHHHhc-cchHH
Confidence            43332211111111122221222223333444444442 22222223    22233344445666666555542 22222


Q ss_pred             HHHHHHHHhhhCCChHHHHHHHhccCC---CCcchHHHHHHHHHhcCChhHHHHHHHH----HHHCCCCCChhhHHHHHH
Q 005329          246 VANSLATMYSKCGKLDYSLRLFERMST---RDVISWTTIITSYVQMGEEENAFDAFVR----MQESDVKPNEYTFAAIIS  318 (702)
Q Consensus       246 ~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~----m~~~g~~p~~~t~~~ll~  318 (702)
                          |.-+|.+...++.|..+++...+   .+...|.+-...=-.+|+.+....++.+    +...|+..+..-|..=..
T Consensus       412 ----LwlAlarLetYenAkkvLNkaRe~iptd~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe  487 (913)
T KOG0495|consen  412 ----LWLALARLETYENAKKVLNKAREIIPTDREIWITAAKLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAE  487 (913)
T ss_pred             ----HHHHHHHHHHHHHHHHHHHHHHhhCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHH
Confidence                22334444555556666555432   2455555554444556666665555543    344566666666655555


Q ss_pred             HHHccCchHHHHHHHHHHHHhCCCC--chHHHHHHHHHHHhcCCHHHHHHHHhcCCCC---ChhhHHHHHHHHHcCCChH
Q 005329          319 ASANLARIQWGEQLHAHVLRLGLVD--SLSVANSIMAMYSKCGQLTSTSIVFHGMIRR---DIISWSTIIGGYSQGGYEE  393 (702)
Q Consensus       319 ~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~g~~~  393 (702)
                      .|-..|..-.+..+....+..|+..  -..+|..-...+.+.+.++-|+.+|....+-   +...|...+..--..|..+
T Consensus       488 ~~e~agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alqvfp~k~slWlra~~~ek~hgt~E  567 (913)
T KOG0495|consen  488 ACEDAGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQVFPCKKSLWLRAAMFEKSHGTRE  567 (913)
T ss_pred             HHhhcCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhhccchhHHHHHHHHHHHhcCcHH
Confidence            6666666666666666666666543  2345566666666666666666666655332   3445555555555556666


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCC
Q 005329          394 EAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETE  473 (702)
Q Consensus       394 ~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~  473 (702)
                      ....+|++....- +-....+.......-..|++..|+.++..+.+.... +..++-+-+........++.|..+|.+..
T Consensus       568 sl~Allqkav~~~-pkae~lwlM~ake~w~agdv~~ar~il~~af~~~pn-seeiwlaavKle~en~e~eraR~llakar  645 (913)
T KOG0495|consen  568 SLEALLQKAVEQC-PKAEILWLMYAKEKWKAGDVPAARVILDQAFEANPN-SEEIWLAAVKLEFENDELERARDLLAKAR  645 (913)
T ss_pred             HHHHHHHHHHHhC-CcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCC-cHHHHHHHHHHhhccccHHHHHHHHHHHh
Confidence            6666666666542 222233333334444556666666666666665543 55566666666666666777777666655


Q ss_pred             --CCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hh
Q 005329          474 --SDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDS-VTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KE  549 (702)
Q Consensus       474 --~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~  549 (702)
                        .+....|.--+...--.+..++|++++++..+.  -|+. ..|..+.+.+.+.++++.|.+.|..-.+   .-|+ +.
T Consensus       646 ~~sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~--fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k---~cP~~ip  720 (913)
T KOG0495|consen  646 SISGTERVWMKSANLERYLDNVEEALRLLEEALKS--FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTK---KCPNSIP  720 (913)
T ss_pred             ccCCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHh--CCchHHHHHHHhHHHHHHHHHHHHHHHHHhccc---cCCCCch
Confidence              244455555555555556666777766666653  3443 3555566666666666666666665442   2343 55


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCC---------------
Q 005329          550 HYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPS---------------  612 (702)
Q Consensus       550 ~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~---------------  612 (702)
                      .|-.|.+.=.+.|..-.|..++++...  +.+...|...+..-.+.|+.+.|..+..++++..|.               
T Consensus       721 LWllLakleEk~~~~~rAR~ildrarlkNPk~~~lwle~Ir~ElR~gn~~~a~~lmakALQecp~sg~LWaEaI~le~~~  800 (913)
T KOG0495|consen  721 LWLLLAKLEEKDGQLVRARSILDRARLKNPKNALLWLESIRMELRAGNKEQAELLMAKALQECPSSGLLWAEAIWLEPRP  800 (913)
T ss_pred             HHHHHHHHHHHhcchhhHHHHHHHHHhcCCCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccchhHHHHHHhccCc
Confidence            566666666666666677777666544  345566666666666777777776666666655444               


Q ss_pred             ---------------CchhHHHHHHHHHhcCChHHHHHHHHHHHhCCCccCCeeeEE
Q 005329          613 ---------------CAGTHITLANIYAAKGRWREAAEVRKMMRSKGVIKEPGWSRI  654 (702)
Q Consensus       613 ---------------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  654 (702)
                                     |+......+..+....++++|.+.|++.++.+...-..|.|+
T Consensus       801 ~rkTks~DALkkce~dphVllaia~lfw~e~k~~kar~Wf~Ravk~d~d~GD~wa~f  857 (913)
T KOG0495|consen  801 QRKTKSIDALKKCEHDPHVLLAIAKLFWSEKKIEKAREWFERAVKKDPDNGDAWAWF  857 (913)
T ss_pred             ccchHHHHHHHhccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHccCCccchHHHHH
Confidence                           455677788889999999999999999998776655555554

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

Probab=99.67  E-value=6.1e-13  Score=136.29  Aligned_cols=525  Identities=10%  Similarity=-0.018  Sum_probs=300.2

Q ss_pred             HHHHHhhhCCCCCCCHHHHHHHHHHhhccCCchhhhHHHHHHHHhcCCCchhHHHHHHHhhhcCCChhHHHHHhccCCCC
Q 005329           93 ALFSRVWVEPQMNMDPFILSLALKACALNVNVNYGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKIELGCRVFDEMPLR  172 (702)
Q Consensus        93 ~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  172 (702)
                      .++-.+... |+.|+.+||..++.-|+..|+.+.|- +|..|.-...+.....++.++.+..+.++.+.+.       .|
T Consensus        11 nfla~~e~~-gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-------ep   81 (1088)
T KOG4318|consen   11 NFLALHEIS-GILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-------EP   81 (1088)
T ss_pred             hHHHHHHHh-cCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC-------CC
Confidence            345555555 88888888888888888888888888 8888888887888888888888888888866655       67


Q ss_pred             CcchHHHHHHHHHhCCChHHHHHHHHH-HH-------HCCCCCChhhHHHHHHHHhcc-CChHH------HHHHHHHHHH
Q 005329          173 NVVSWTAIITGLVRAGHNKEGLIYFAE-MW-------RSKEQGDSYTFAIVLKASADS-GALNF------GREIHTIMLK  237 (702)
Q Consensus       173 ~~~~~~~li~~~~~~~~~~~a~~~~~~-m~-------~~~~~p~~~~~~~ll~~~~~~-~~~~~------a~~~~~~~~~  237 (702)
                      ...+|..|..+|.+.||... ++..++ |.       ..|+..-...|-..++++... .+...      -+.+++...+
T Consensus        82 ~aDtyt~Ll~ayr~hGDli~-fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllk  160 (1088)
T KOG4318|consen   82 LADTYTNLLKAYRIHGDLIL-FEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLK  160 (1088)
T ss_pred             chhHHHHHHHHHHhccchHH-HHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHH
Confidence            77888889998888888655 222222 21       122222222222222221110 00000      1112222222


Q ss_pred             hCC-CCchhHHH---HHHHHhh-hCCChHHHHHHHhccCC-CCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChh
Q 005329          238 RGF-DVVSFVAN---SLATMYS-KCGKLDYSLRLFERMST-RDVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEY  311 (702)
Q Consensus       238 ~~~-~~~~~~~~---~li~~~~-~~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~  311 (702)
                      .+. .|...-++   ..++-.. ....+++-..+.....+ ++..+|.+++.+-..+|+.+.|..++.+|+++|++.+..
T Consensus       161 ll~~~Pvsa~~~p~~vfLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~H  240 (1088)
T KOG4318|consen  161 LLAKVPVSAWNAPFQVFLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAH  240 (1088)
T ss_pred             HHhhCCcccccchHHHHHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccc
Confidence            221 11111111   1122221 22334444444444444 899999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHccCchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhhHHHHHHHHHcCCC
Q 005329          312 TFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIRRDIISWSTIIGGYSQGGY  391 (702)
Q Consensus       312 t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~  391 (702)
                      -|..++.+   .++...++.+.+-|...|+.|+..|+.-.+-.+..+|....+....+.-.--....+..+..+.....+
T Consensus       241 yFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~t~~~~e~sq~~hg~tAavrsaa~rg~~a~k~  317 (1088)
T KOG4318|consen  241 YFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQTKYGEEGSQLAHGFTAAVRSAACRGLLANKR  317 (1088)
T ss_pred             cchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchhhhhcccccchhhhhhHHHHHHHhcccHhHHH
Confidence            99888877   888899999999999999999999998877777775553222111111000011223333322111111


Q ss_pred             hH-----HHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCC---ChhHHHHHHHHHHhcCCHH
Q 005329          392 EE-----EAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLER---TAMIKSALINMYSKCGSIK  463 (702)
Q Consensus       392 ~~-----~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~li~~~~~~g~~~  463 (702)
                      .+     -....+.+..-.|.......|... .-....|.-+.+.++...+.......   +...|..+           
T Consensus       318 l~~nl~~~v~~s~k~~fLlg~d~~~aiws~c-~~l~hQgk~e~veqlvg~l~npt~r~s~~~V~a~~~~-----------  385 (1088)
T KOG4318|consen  318 LRQNLRKSVIGSTKKLFLLGTDILEAIWSMC-EKLRHQGKGEEVEQLVGQLLNPTLRDSGQNVDAFGAL-----------  385 (1088)
T ss_pred             HHHHHHHHHHHHhhHHHHhccccchHHHHHH-HHHHHcCCCchHHHHHhhhcCCccccCcchHHHHHHH-----------
Confidence            11     112222222223333333333222 22223555566666555554322111   12222222           


Q ss_pred             HHHHHHhhCCCCCHHHHHHHHHHHHH---cCChHHHHHHHHHc------------hh----CCCCC-------CHHHHHH
Q 005329          464 EASQIFYETESDDIVSWTAMINGYAE---HGYSQEAIHLFEKV------------PM----VGLRP-------DSVTFMG  517 (702)
Q Consensus       464 ~A~~~~~~~~~~~~~~~~~li~~~~~---~g~~~~A~~~~~~m------------~~----~g~~p-------~~~~~~~  517 (702)
                       +.+.|.+...+..........+...   .....+..++....            ..    ....|       -...-+.
T Consensus       386 -lrqyFrr~e~~~~~~i~~~~qgls~~l~se~tp~vsell~~lrkns~lr~lv~Lss~Eler~he~~~~~~h~irdi~~q  464 (1088)
T KOG4318|consen  386 -LRQYFRRIERHICSRIYYAGQGLSLNLNSEDTPRVSELLENLRKNSFLRQLVGLSSTELERSHEPWPLIAHLIRDIANQ  464 (1088)
T ss_pred             -HHHHHHHHHhhHHHHHHHHHHHHHhhhchhhhHHHHHHHHHhCcchHHHHHhhhhHHHHhcccccchhhhhHHHHHHHH
Confidence             3334444333222111111111111   11112222222111            10    00111       1122345


Q ss_pred             HHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCCC-----CCHHHHHHHHHHHHh
Q 005329          518 VLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPHQ-----KDDVVWSTLLRACMV  592 (702)
Q Consensus       518 ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----p~~~~~~~l~~~~~~  592 (702)
                      ++..|+..-+..++...-+.....  +-  ...|..|++.+......+.|..+.++...+     -+..-+..+.+...+
T Consensus       465 l~l~l~se~n~lK~l~~~ekye~~--lf--~g~ya~Li~l~~~hdkle~Al~~~~e~d~~d~s~~Ld~~~m~~l~dLL~r  540 (1088)
T KOG4318|consen  465 LHLTLNSEYNKLKILCDEEKYEDL--LF--AGLYALLIKLMDLHDKLEYALSFVDEIDTRDESIHLDLPLMTSLQDLLQR  540 (1088)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH--Hh--hhHHHHHhhhHHHHHHHHHHHhchhhhcccchhhhcccHhHHHHHHHHHH
Confidence            555666666666666544444221  11  267899999999999999999999888762     344566778888889


Q ss_pred             cCCHHHHHHHHHHHHHhC---CCCchhHHHHHHHHHhcCChHHHHHHHHHHHhCCCcc
Q 005329          593 QGDVNCGRHTAEKILELH---PSCAGTHITLANIYAAKGRWREAAEVRKMMRSKGVIK  647 (702)
Q Consensus       593 ~g~~~~A~~~~~~~~~~~---p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  647 (702)
                      .+....+..+++++.+.-   |....+...+.+.....|..+.-.++.+-+...|+..
T Consensus       541 ~~~l~dl~tiL~e~ks~a~n~~~~a~~~f~~lns~a~agqqe~Lkkl~d~lvslgl~e  598 (1088)
T KOG4318|consen  541 LAILYDLSTILYEDKSSAENEPLVAIILFPLLNSGAPAGQQEKLKKLADILVSLGLSE  598 (1088)
T ss_pred             hHHHHHHHHHHhhhhHHhhCCchHHHHHHHHHhhhhhccCHHHHHHHHHHHHHhhhhh
Confidence            999999999988887642   4445666777777888899988888888888888765

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

Probab=99.66  E-value=3.5e-13  Score=129.20  Aligned_cols=405  Identities=15%  Similarity=0.079  Sum_probs=231.3

Q ss_pred             HHHHHHHhCCChHHHHHHHHHHHHCCCCCC-hhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCc-hhHHHHHHHHhhh
Q 005329          179 AIITGLVRAGHNKEGLIYFAEMWRSKEQGD-SYTFAIVLKASADSGALNFGREIHTIMLKRGFDVV-SFVANSLATMYSK  256 (702)
Q Consensus       179 ~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~  256 (702)
                      ..-.-|.++|.+++|++.|.+.++  ..|| +..|...-.+|...|+++++.+--...++.  .|+ +..+..-.+++-.
T Consensus       120 ~~GN~~f~~kkY~eAIkyY~~AI~--l~p~epiFYsNraAcY~~lgd~~~Vied~TkALEl--~P~Y~KAl~RRA~A~E~  195 (606)
T KOG0547|consen  120 TKGNKFFRNKKYDEAIKYYTQAIE--LCPDEPIFYSNRAACYESLGDWEKVIEDCTKALEL--NPDYVKALLRRASAHEQ  195 (606)
T ss_pred             hhhhhhhhcccHHHHHHHHHHHHh--cCCCCchhhhhHHHHHHHHhhHHHHHHHHHHHhhc--CcHHHHHHHHHHHHHHh
Confidence            344567788889999999998887  4677 667777777788888888888777666665  343 3344455566667


Q ss_pred             CCChHHHHHHHhccCCCCcchHHHHHHHHHhcCChhHHHHHHHH---------HHHCC--CCCChhhHHHHHHHHHccCc
Q 005329          257 CGKLDYSLRLFERMSTRDVISWTTIITSYVQMGEEENAFDAFVR---------MQESD--VKPNEYTFAAIISASANLAR  325 (702)
Q Consensus       257 ~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~---------m~~~g--~~p~~~t~~~ll~~~~~~~~  325 (702)
                      .|++++|+.=         .+-.++..++....-.-.+.+++.+         |.+.+  +-|+.....+....+...-.
T Consensus       196 lg~~~eal~D---------~tv~ci~~~F~n~s~~~~~eR~Lkk~a~~ka~e~~k~nr~p~lPS~~fi~syf~sF~~~~~  266 (606)
T KOG0547|consen  196 LGKFDEALFD---------VTVLCILEGFQNASIEPMAERVLKKQAMKKAKEKLKENRPPVLPSATFIASYFGSFHADPK  266 (606)
T ss_pred             hccHHHHHHh---------hhHHHHhhhcccchhHHHHHHHHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHhhcccccc
Confidence            7777766532         2223333333333322233333332         11111  33444443333333221000


Q ss_pred             hHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhc-CCHHHHHHHHhcC-------CCCC---------hhhHHHHHHHHHc
Q 005329          326 IQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKC-GQLTSTSIVFHGM-------IRRD---------IISWSTIIGGYSQ  388 (702)
Q Consensus       326 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~a~~~~~~~-------~~~~---------~~~~~~li~~~~~  388 (702)
                      .        .+...+-..|...-..+-..+... ..+..|...+.+-       ...+         ..+......-+.-
T Consensus       267 ~--------~~~~~~~ksDa~l~~~l~~l~~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~le~~A~al~~~gtF~fL  338 (606)
T KOG0547|consen  267 P--------LFDNKSDKSDAALAEALEALEKGLEEGYLKAYDKATEECLGSESSLSVNEIDAELEYMAEALLLRGTFHFL  338 (606)
T ss_pred             c--------cccCCCccchhhHHHHHHHHHhhCchhHHHHHHHHHHHhhhhhhhccccccchhHHHHHHHHHHhhhhhhh
Confidence            0        000000001111111111111110 1222222222211       0111         1112222222334


Q ss_pred             CCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHH
Q 005329          389 GGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQI  468 (702)
Q Consensus       389 ~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  468 (702)
                      .|+.-.|..-|+..+.....++.. |..+...|....+.++....|....+.+.                          
T Consensus       339 ~g~~~~a~~d~~~~I~l~~~~~~l-yI~~a~~y~d~~~~~~~~~~F~~A~~ldp--------------------------  391 (606)
T KOG0547|consen  339 KGDSLGAQEDFDAAIKLDPAFNSL-YIKRAAAYADENQSEKMWKDFNKAEDLDP--------------------------  391 (606)
T ss_pred             cCCchhhhhhHHHHHhcCcccchH-HHHHHHHHhhhhccHHHHHHHHHHHhcCC--------------------------
Confidence            566666666666666544333321 33333444444444444444444444332                          


Q ss_pred             HhhCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC
Q 005329          469 FYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRP-DSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS  547 (702)
Q Consensus       469 ~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~  547 (702)
                            .|+.+|.--...+.-.+++++|..=|++.++  +.| +...|..+..+..+.+.++++...|++..++  ++--
T Consensus       392 ------~n~dvYyHRgQm~flL~q~e~A~aDF~Kai~--L~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk--FP~~  461 (606)
T KOG0547|consen  392 ------ENPDVYYHRGQMRFLLQQYEEAIADFQKAIS--LDPENAYAYIQLCCALYRQHKIAESMKTFEEAKKK--FPNC  461 (606)
T ss_pred             ------CCCchhHhHHHHHHHHHHHHHHHHHHHHHhh--cChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--CCCC
Confidence                  2344444444555556677888888888776  345 3456766766677888888889999888765  3333


Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CCC---------HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhH
Q 005329          548 KEHYGCMIDLLCRAGRLSDAENMIENMPH-QKD---------DVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTH  617 (702)
Q Consensus       548 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~---------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~  617 (702)
                      ++.|+.....+..++++++|.+.|+.+.. .|.         +.+-..++..- -.+++..|+.+++++++++|..-..|
T Consensus       462 ~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~~~~~~v~~~plV~Ka~l~~q-wk~d~~~a~~Ll~KA~e~Dpkce~A~  540 (606)
T KOG0547|consen  462 PEVYNLFAEILTDQQQFDKAVKQYDKAIELEPREHLIIVNAAPLVHKALLVLQ-WKEDINQAENLLRKAIELDPKCEQAY  540 (606)
T ss_pred             chHHHHHHHHHhhHHhHHHHHHHHHHHHhhccccccccccchhhhhhhHhhhc-hhhhHHHHHHHHHHHHccCchHHHHH
Confidence            88888888888889999999998888766 332         22222333332 33899999999999999999999999


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHh
Q 005329          618 ITLANIYAAKGRWREAAEVRKMMRS  642 (702)
Q Consensus       618 ~~l~~~~~~~g~~~~A~~~~~~~~~  642 (702)
                      ..|+....++|+.++|+++|++...
T Consensus       541 ~tlaq~~lQ~~~i~eAielFEksa~  565 (606)
T KOG0547|consen  541 ETLAQFELQRGKIDEAIELFEKSAQ  565 (606)
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            9999999999999999999998654

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

Probab=99.63  E-value=1.7e-12  Score=123.10  Aligned_cols=434  Identities=12%  Similarity=0.133  Sum_probs=286.4

Q ss_pred             HHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHH-HHHHHhccCChHHHHHHHHHHHHhCCCCc----hhHHHHHHHHhh
Q 005329          181 ITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAI-VLKASADSGALNFGREIHTIMLKRGFDVV----SFVANSLATMYS  255 (702)
Q Consensus       181 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~-ll~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~li~~~~  255 (702)
                      ..-|.-+....+|+..|+-+.+...-|+...... +-..+.+.+++.+|.++++..+..-...+    ..+.+.+.-.+.
T Consensus       208 aqqy~~ndm~~ealntyeiivknkmf~nag~lkmnigni~~kkr~fskaikfyrmaldqvpsink~~rikil~nigvtfi  287 (840)
T KOG2003|consen  208 AQQYEANDMTAEALNTYEIIVKNKMFPNAGILKMNIGNIHFKKREFSKAIKFYRMALDQVPSINKDMRIKILNNIGVTFI  287 (840)
T ss_pred             HHHhhhhHHHHHHhhhhhhhhcccccCCCceeeeeecceeeehhhHHHHHHHHHHHHhhccccchhhHHHHHhhcCeeEE
Confidence            3456666778899999999988888888776543 33446677888999999988887632222    224445556678


Q ss_pred             hCCChHHHHHHHhccCC--CCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhH--------HHHHHHHHccCc
Q 005329          256 KCGKLDYSLRLFERMST--RDVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTF--------AAIISASANLAR  325 (702)
Q Consensus       256 ~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~--------~~ll~~~~~~~~  325 (702)
                      +.|+++.|..-|+...+  |+..+--.|+-++..-|+.++..+.|.+|..-...||..-|        ..|+.-..+...
T Consensus       288 q~gqy~dainsfdh~m~~~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~~~ll~eai~nd~  367 (840)
T KOG2003|consen  288 QAGQYDDAINSFDHCMEEAPNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPDDNLLNEAIKNDH  367 (840)
T ss_pred             ecccchhhHhhHHHHHHhCccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcchHHHHHHHhhHH
Confidence            88999999998887653  56554444455556678889999999998875444444433        112211111111


Q ss_pred             hHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHH----HHHHhcCCCCChh-------------hH--------H
Q 005329          326 IQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTST----SIVFHGMIRRDII-------------SW--------S  380 (702)
Q Consensus       326 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a----~~~~~~~~~~~~~-------------~~--------~  380 (702)
                             ++.|.+.+ +                .+.+++    .++..-++.++-.             .+        .
T Consensus       368 -------lk~~ek~~-k----------------a~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~la~dlei  423 (840)
T KOG2003|consen  368 -------LKNMEKEN-K----------------ADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLKASQHAELAIDLEI  423 (840)
T ss_pred             -------HHHHHHhh-h----------------hhHHHHHHHHHHHhccccccchhcccHHHHHHHHHhhhhhhhhhhhh
Confidence                   11111111 0                011111    1122222222110             00        1


Q ss_pred             HHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHHH--HHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHh
Q 005329          381 TIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASV--LSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSK  458 (702)
Q Consensus       381 ~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~l--l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  458 (702)
                      .-...|.+.|+++.|+++++-+.+..-+.-...-+.+  +.-+-...++..|.+.-+...... ..+......-.+....
T Consensus       424 ~ka~~~lk~~d~~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~d-ryn~~a~~nkgn~~f~  502 (840)
T KOG2003|consen  424 NKAGELLKNGDIEGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNID-RYNAAALTNKGNIAFA  502 (840)
T ss_pred             hHHHHHHhccCHHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc-ccCHHHhhcCCceeee
Confidence            1234578899999999999988776544333332222  222222335666666655554322 1122222222233445


Q ss_pred             cCCHHHHHHHHhhCCCCCHHHHHHHH---HHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHH
Q 005329          459 CGSIKEASQIFYETESDDIVSWTAMI---NGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYF  535 (702)
Q Consensus       459 ~g~~~~A~~~~~~~~~~~~~~~~~li---~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~  535 (702)
                      .|++++|.+.|++....|..+-.+|.   -.+-..|+.++|++.|-++... +.-+......+...|....+...|++++
T Consensus       503 ngd~dka~~~ykeal~ndasc~ealfniglt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~~  581 (840)
T KOG2003|consen  503 NGDLDKAAEFYKEALNNDASCTEALFNIGLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIELL  581 (840)
T ss_pred             cCcHHHHHHHHHHHHcCchHHHHHHHHhcccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHHH
Confidence            79999999999999988776555444   3467889999999999887642 2345567777888888899999999999


Q ss_pred             HHhHHhhCCCC-ChhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCC
Q 005329          536 NLMSDKYGFVP-SKEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPS  612 (702)
Q Consensus       536 ~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~  612 (702)
                      .+..   .+.| |+.....|.+.|-+.|+-..|.+..-+--.  +-+..+..-|...|....-.+.++..|+++--+.|+
T Consensus       582 ~q~~---slip~dp~ilskl~dlydqegdksqafq~~ydsyryfp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp~  658 (840)
T KOG2003|consen  582 MQAN---SLIPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRYFPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQPN  658 (840)
T ss_pred             HHhc---ccCCCCHHHHHHHHHHhhcccchhhhhhhhhhcccccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCcc
Confidence            8875   4555 488999999999999999999988655444  456777777888888888899999999999999996


Q ss_pred             CchhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 005329          613 CAGTHITLANIYAAKGRWREAAEVRKMMRSK  643 (702)
Q Consensus       613 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  643 (702)
                      ...-...++.++.+.|++.+|.++++....+
T Consensus       659 ~~kwqlmiasc~rrsgnyqka~d~yk~~hrk  689 (840)
T KOG2003|consen  659 QSKWQLMIASCFRRSGNYQKAFDLYKDIHRK  689 (840)
T ss_pred             HHHHHHHHHHHHHhcccHHHHHHHHHHHHHh
Confidence            6666666788889999999999999987664

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

Probab=99.63  E-value=3.5e-12  Score=130.89  Aligned_cols=452  Identities=11%  Similarity=0.002  Sum_probs=234.1

Q ss_pred             CCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHH
Q 005329          172 RNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSGALNFGREIHTIMLKRGFDVVSFVANSLA  251 (702)
Q Consensus       172 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  251 (702)
                      ++..+|..++.+-.-+|+.+.|..++.+|++.|++.+.+-|-.++-+   .++..-++.++..|...|+.|+..|+...+
T Consensus       202 ~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyv  278 (1088)
T KOG4318|consen  202 PTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYV  278 (1088)
T ss_pred             CChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHH
Confidence            67777888888878888888888888888888888777766666544   677777778888888888888888887777


Q ss_pred             HHhhhCCChHHHHHHHhccCCCCcchHHHHHHHHHhcC-----Chh-----HHHHHHHHHHHCCCCCChhhHHHHHHHHH
Q 005329          252 TMYSKCGKLDYSLRLFERMSTRDVISWTTIITSYVQMG-----EEE-----NAFDAFVRMQESDVKPNEYTFAAIISASA  321 (702)
Q Consensus       252 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g-----~~~-----~a~~~~~~m~~~g~~p~~~t~~~ll~~~~  321 (702)
                      ..+.++|....+.+..     +....+++-+.+-.-.|     +.+     -....+.+..-.|+......|.... -..
T Consensus       279 ip~l~N~~t~~~~e~s-----q~~hg~tAavrsaa~rg~~a~k~l~~nl~~~v~~s~k~~fLlg~d~~~aiws~c~-~l~  352 (1088)
T KOG4318|consen  279 IPQLSNGQTKYGEEGS-----QLAHGFTAAVRSAACRGLLANKRLRQNLRKSVIGSTKKLFLLGTDILEAIWSMCE-KLR  352 (1088)
T ss_pred             Hhhhcchhhhhccccc-----chhhhhhHHHHHHHhcccHhHHHHHHHHHHHHHHHhhHHHHhccccchHHHHHHH-HHH
Confidence            6666655533222221     12222222222222222     111     1122222222234333333332222 223


Q ss_pred             ccCchHHHHHHHHHHHHhCC---CCchHHHHHHHHHHHhcCCHHHHHHHHh--cCCCC--ChhhHHHHHHHHHcCCChHH
Q 005329          322 NLARIQWGEQLHAHVLRLGL---VDSLSVANSIMAMYSKCGQLTSTSIVFH--GMIRR--DIISWSTIIGGYSQGGYEEE  394 (702)
Q Consensus       322 ~~~~~~~a~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~a~~~~~--~~~~~--~~~~~~~li~~~~~~g~~~~  394 (702)
                      ..|.-+.++++...+..-..   ..++..+..++.-|.+.-+-.-...++.  +..+.  ++...- .+.-+...-+...
T Consensus       353 hQgk~e~veqlvg~l~npt~r~s~~~V~a~~~~lrqyFrr~e~~~~~~i~~~~qgls~~l~se~tp-~vsell~~lrkns  431 (1088)
T KOG4318|consen  353 HQGKGEEVEQLVGQLLNPTLRDSGQNVDAFGALLRQYFRRIERHICSRIYYAGQGLSLNLNSEDTP-RVSELLENLRKNS  431 (1088)
T ss_pred             HcCCCchHHHHHhhhcCCccccCcchHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhhchhhhH-HHHHHHHHhCcch
Confidence            35666666666665543221   1223334444444443222111111111  00000  000000 0000000001111


Q ss_pred             HHHHHHHHHH----CCCC-------CCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHH
Q 005329          395 AFEYLALMRR----EGPR-------PNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIK  463 (702)
Q Consensus       395 a~~~~~~m~~----~g~~-------p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  463 (702)
                      +++-+..+..    ....       +-...-+.++..|+..-+..+++..-+.....-+.   ..|..||+.+....+.+
T Consensus       432 ~lr~lv~Lss~Eler~he~~~~~~h~irdi~~ql~l~l~se~n~lK~l~~~ekye~~lf~---g~ya~Li~l~~~hdkle  508 (1088)
T KOG4318|consen  432 FLRQLVGLSSTELERSHEPWPLIAHLIRDIANQLHLTLNSEYNKLKILCDEEKYEDLLFA---GLYALLIKLMDLHDKLE  508 (1088)
T ss_pred             HHHHHhhhhHHHHhcccccchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh---hHHHHHhhhHHHHHHHH
Confidence            1111111100    0000       11122344555565555555555443333332222   56788999999999999


Q ss_pred             HHHHHHhhCCCCCH------HHHHHHHHHHHHcCChHHHHHHHHHchhCCC-CCC-HHHHHHHHHHHhccCcHHHHHHHH
Q 005329          464 EASQIFYETESDDI------VSWTAMINGYAEHGYSQEAIHLFEKVPMVGL-RPD-SVTFMGVLTACSHAGLVDLGFHYF  535 (702)
Q Consensus       464 ~A~~~~~~~~~~~~------~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~-~~~~~~ll~~~~~~g~~~~A~~~~  535 (702)
                      .|....++...++.      .-+..+.+.+.+.+...++..+++++.+.-. .|+ ..++-.++......|+.+...+++
T Consensus       509 ~Al~~~~e~d~~d~s~~Ld~~~m~~l~dLL~r~~~l~dl~tiL~e~ks~a~n~~~~a~~~f~~lns~a~agqqe~Lkkl~  588 (1088)
T KOG4318|consen  509 YALSFVDEIDTRDESIHLDLPLMTSLQDLLQRLAILYDLSTILYEDKSSAENEPLVAIILFPLLNSGAPAGQQEKLKKLA  588 (1088)
T ss_pred             HHHhchhhhcccchhhhcccHhHHHHHHHHHHhHHHHHHHHHHhhhhHHhhCCchHHHHHHHHHhhhhhccCHHHHHHHH
Confidence            99999988876543      4577788888889999999999988876322 232 245556667777778888777777


Q ss_pred             HHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHH---------------------HHh
Q 005329          536 NLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRA---------------------CMV  592 (702)
Q Consensus       536 ~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~---------------------~~~  592 (702)
                      +-+... |+.-+    ..++....+.++...|.+..+....  +|.+.....+...                     |.+
T Consensus       589 d~lvsl-gl~et----gPl~~vhLrkdd~s~a~ea~e~~~qkyk~~P~~~e~lcrlv~ke~td~~qk~mDls~~iq~f~k  663 (1088)
T KOG4318|consen  589 DILVSL-GLSET----GPLWMVHLRKDDQSAAQEAPEPEEQKYKPYPKDLEGLCRLVYKETTDSPQKTMDLSIPIQKFEK  663 (1088)
T ss_pred             HHHHHh-hhhhc----ccceEEEeeccchhhhhhcchHHHHHhcCChHHHHHHHHHHHhhccccHHHHHhhcchhHHHHh
Confidence            766543 44432    3344445556666666555444332  3333322222222                     233


Q ss_pred             cCCHHHHHHHHHHH--HHhCCC--------------------CchhHHHHHHHHHhcCChHHHHHHHHHHH
Q 005329          593 QGDVNCGRHTAEKI--LELHPS--------------------CAGTHITLANIYAAKGRWREAAEVRKMMR  641 (702)
Q Consensus       593 ~g~~~~A~~~~~~~--~~~~p~--------------------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  641 (702)
                      .|++..|..+.+--  .-..|.                    .......|...|.+.|+++.|..+|.++.
T Consensus       664 ~g~~~~a~di~etpG~r~r~~RDr~~de~e~~~lEll~elt~~lg~~dRLL~sy~~~g~~erA~glwnK~Q  734 (1088)
T KOG4318|consen  664 LGSCVDAGDITETPGVRCRNGRDRDTDEGEIVPLELLLELTHELGKNDRLLQSYLEEGRIERASGLWNKDQ  734 (1088)
T ss_pred             cccccchhhccccCcccccCCCccccccCccccHHHHHHHHhHhHHHHHHHHHHHhhhHHHHHHhHHhhCc
Confidence            33333332222100  000010                    12234458889999999999999999886

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

Probab=99.63  E-value=1.4e-15  Score=148.48  Aligned_cols=255  Identities=17%  Similarity=0.179  Sum_probs=114.9

Q ss_pred             HHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHH-HHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCC
Q 005329          383 IGGYSQGGYEEEAFEYLALMRREGPRPNEFAFAS-VLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGS  461 (702)
Q Consensus       383 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~-ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  461 (702)
                      ...+.+.|++++|++++++.......|+...|.. +...+...++.+.|...++.+...+.. ++..+..++.. ...++
T Consensus        15 A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~~~~~   92 (280)
T PF13429_consen   15 ARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-LQDGD   92 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccc-ccccc
Confidence            4445556666666666644433322333333333 233444456666666666666655433 44455556666 67788


Q ss_pred             HHHHHHHHhhCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCC-CCCCHHHHHHHHHHHhccCcHHHHHHHHHHh
Q 005329          462 IKEASQIFYETE--SDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVG-LRPDSVTFMGVLTACSHAGLVDLGFHYFNLM  538 (702)
Q Consensus       462 ~~~A~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~  538 (702)
                      +++|.+++...-  .+++..+..++..+...++++++.++++++.... .+++...|..+...+.+.|+.++|.+.+++.
T Consensus        93 ~~~A~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~a  172 (280)
T PF13429_consen   93 PEEALKLAEKAYERDGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKA  172 (280)
T ss_dssp             -------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHH
T ss_pred             ccccccccccccccccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            888888777653  3456677788888999999999999999877532 3456677888888899999999999999999


Q ss_pred             HHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCch
Q 005329          539 SDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAG  615 (702)
Q Consensus       539 ~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~  615 (702)
                      .+.   .|+ ......++..+...|+.+++..+++....  +.++..|..++.++...|+.++|...++++...+|+|+.
T Consensus       173 l~~---~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p~d~~  249 (280)
T PF13429_consen  173 LEL---DPDDPDARNALAWLLIDMGDYDEAREALKRLLKAAPDDPDLWDALAAAYLQLGRYEEALEYLEKALKLNPDDPL  249 (280)
T ss_dssp             HHH----TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHSTT-HH
T ss_pred             HHc---CCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHHHHHHHHHHHhccccccccccccccccccccccccc
Confidence            865   675 77888999999999999998888877655  356678899999999999999999999999999999999


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHh
Q 005329          616 THITLANIYAAKGRWREAAEVRKMMRS  642 (702)
Q Consensus       616 ~~~~l~~~~~~~g~~~~A~~~~~~~~~  642 (702)
                      ....++.++...|+.++|.+++.++..
T Consensus       250 ~~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  250 WLLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             HHHHHHHHHT-----------------
T ss_pred             ccccccccccccccccccccccccccc
Confidence            999999999999999999999887643

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

Probab=99.58  E-value=3.5e-13  Score=134.68  Aligned_cols=273  Identities=15%  Similarity=0.054  Sum_probs=166.9

Q ss_pred             CHHHHHHHHhcCCCC--C-hhhHHHHHHHHHcCCChHHHHHHHHHHHHCC--CCCCHHHHHHHHHHHcccCcHHHHHHHH
Q 005329          360 QLTSTSIVFHGMIRR--D-IISWSTIIGGYSQGGYEEEAFEYLALMRREG--PRPNEFAFASVLSVCGNMAILEQGKQIH  434 (702)
Q Consensus       360 ~~~~a~~~~~~~~~~--~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g--~~p~~~~~~~ll~~~~~~~~~~~a~~~~  434 (702)
                      +..+|+..|..++..  | ......+..+|...+++++|.++|+.+.+..  .--+...|.+.+.-+-+    +.+...+
T Consensus       334 ~~~~A~~~~~klp~h~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~----~v~Ls~L  409 (638)
T KOG1126|consen  334 NCREALNLFEKLPSHHYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQD----EVALSYL  409 (638)
T ss_pred             HHHHHHHHHHhhHHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHh----hHHHHHH
Confidence            456777888775432  2 2345567778888888888888888887632  11245567666654321    1122222


Q ss_pred             H-HHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCCC---CHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCC
Q 005329          435 A-HVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETESD---DIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRP  510 (702)
Q Consensus       435 ~-~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  510 (702)
                      . .+.+ --+..+.+|.++.++|.-+++.+.|++.|++..+-   ...+|+.+..-+.....+|.|...|+..+.  +.|
T Consensus       410 aq~Li~-~~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~--~~~  486 (638)
T KOG1126|consen  410 AQDLID-TDPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPRFAYAYTLLGHESIATEEFDKAMKSFRKALG--VDP  486 (638)
T ss_pred             HHHHHh-hCCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCccchhhhhcCChhhhhHHHHhHHHHHHhhhc--CCc
Confidence            1 2222 12345666777777777777777777777766532   345666666666666667777777766553  233


Q ss_pred             CH-HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHH
Q 005329          511 DS-VTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTL  586 (702)
Q Consensus       511 ~~-~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l  586 (702)
                      .. ..|..+.-.|.+.++++.|.-.|+++.   .+.|. ......++..+.+.|+.|+|+.+++++..  +.++..--.-
T Consensus       487 rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~---~INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~~  563 (638)
T KOG1126|consen  487 RHYNAWYGLGTVYLKQEKLEFAEFHFQKAV---EINPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYHR  563 (638)
T ss_pred             hhhHHHHhhhhheeccchhhHHHHHHHhhh---cCCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHHH
Confidence            22 344455566667777777777777665   45564 55555666666677777777777776655  3344444445


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 005329          587 LRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRS  642 (702)
Q Consensus       587 ~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  642 (702)
                      +..+...+++++|...++++.++-|++...+..++.+|.+.|+.+.|+.-|--|.+
T Consensus       564 ~~il~~~~~~~eal~~LEeLk~~vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~  619 (638)
T KOG1126|consen  564 ASILFSLGRYVEALQELEELKELVPQESSVFALLGKIYKRLGNTDLALLHFSWALD  619 (638)
T ss_pred             HHHHHhhcchHHHHHHHHHHHHhCcchHHHHHHHHHHHHHHccchHHHHhhHHHhc
Confidence            55566666777777777777777777777777777777777777777666655543

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

Probab=99.57  E-value=3e-10  Score=108.89  Aligned_cols=414  Identities=11%  Similarity=0.066  Sum_probs=233.2

Q ss_pred             cCCChhHHHHHhccCCC---CCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhccCChHHHHHH
Q 005329          155 KLGKIELGCRVFDEMPL---RNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSGALNFGREI  231 (702)
Q Consensus       155 ~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~  231 (702)
                      ..+++..|.++|+....   .+...|---+..=.++.....|..++++.+..=+..|..-| -.+..=-..|++..|.++
T Consensus        85 sq~e~~RARSv~ERALdvd~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVdqlWy-KY~ymEE~LgNi~gaRqi  163 (677)
T KOG1915|consen   85 SQKEIQRARSVFERALDVDYRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVDQLWY-KYIYMEEMLGNIAGARQI  163 (677)
T ss_pred             hHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHHHHHH-HHHHHHHHhcccHHHHHH
Confidence            34667778888887763   55666777777888889999999999988764333333222 222233356889999999


Q ss_pred             HHHHHHhCCCCchhHHHHHHHHhhhCCChHHHHHHHhccC--CCCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC
Q 005329          232 HTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMS--TRDVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPN  309 (702)
Q Consensus       232 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~  309 (702)
                      |+.-.+-  .|+...|.+.|+.=.+-..++.|..++++..  .|++.+|--..+.=.+.|....+..+|....+.  -.|
T Consensus       164 ferW~~w--~P~eqaW~sfI~fElRykeieraR~IYerfV~~HP~v~~wikyarFE~k~g~~~~aR~VyerAie~--~~~  239 (677)
T KOG1915|consen  164 FERWMEW--EPDEQAWLSFIKFELRYKEIERARSIYERFVLVHPKVSNWIKYARFEEKHGNVALARSVYERAIEF--LGD  239 (677)
T ss_pred             HHHHHcC--CCcHHHHHHHHHHHHHhhHHHHHHHHHHHHheecccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH--hhh
Confidence            9888764  7899999999999888899999999998764  688888888888888889999999888887664  123


Q ss_pred             hhhHHHHHHHH----HccCchHHHHHHHHHHHHhCCCC-chHHHHHHHHHHHhcCCHHHHHHHH--------hcCCCC--
Q 005329          310 EYTFAAIISAS----ANLARIQWGEQLHAHVLRLGLVD-SLSVANSIMAMYSKCGQLTSTSIVF--------HGMIRR--  374 (702)
Q Consensus       310 ~~t~~~ll~~~----~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~--------~~~~~~--  374 (702)
                      ...-..+..++    .+...++.|.-+|+..++.-... ....|..+...--+-|+-....+..        +.+...  
T Consensus       240 d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v~~np  319 (677)
T KOG1915|consen  240 DEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEVSKNP  319 (677)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHHHHhCC
Confidence            33333333333    34567778888888777753221 2445555555555556654443332        222222  


Q ss_pred             -ChhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHH-------HHHHHHHH---HcccCcHHHHHHHHHHHHHhCCC
Q 005329          375 -DIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEF-------AFASVLSV---CGNMAILEQGKQIHAHVMSIGLE  443 (702)
Q Consensus       375 -~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~-------~~~~ll~~---~~~~~~~~~a~~~~~~~~~~~~~  443 (702)
                       |-.+|-..+..-...|+.+...++|+..+.. ++|-..       .|.-+=-+   -....+++.+.++++..++ -++
T Consensus       320 ~nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l~-lIP  397 (677)
T KOG1915|consen  320 YNYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACLD-LIP  397 (677)
T ss_pred             CCchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHh-hcC
Confidence             3345555666666678888888888877764 444221       11111111   1234555666666655555 222


Q ss_pred             CChhHHHHHHHHH----HhcCCHHHHHHHHhhCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHH
Q 005329          444 RTAMIKSALINMY----SKCGSIKEASQIFYETE--SDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMG  517 (702)
Q Consensus       444 ~~~~~~~~li~~~----~~~g~~~~A~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~  517 (702)
                      ....+|.-+--+|    .++.++..|.+++....  -|-..+|...|..-.+.++++.+..++++.++-+ +.|..+|..
T Consensus       398 HkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~cPK~KlFk~YIelElqL~efDRcRkLYEkfle~~-Pe~c~~W~k  476 (677)
T KOG1915|consen  398 HKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIGKCPKDKLFKGYIELELQLREFDRCRKLYEKFLEFS-PENCYAWSK  476 (677)
T ss_pred             cccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-hHhhHHHHH
Confidence            2333333322222    23444444444444332  2333444444444444444444444444444422 223334443


Q ss_pred             HHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCC
Q 005329          518 VLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPH  576 (702)
Q Consensus       518 ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  576 (702)
                      ....=...|+.+.|..+|.-+++...+......|-+.|+.=...|.+++|..+++++..
T Consensus       477 yaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~  535 (677)
T KOG1915|consen  477 YAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLD  535 (677)
T ss_pred             HHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHH
Confidence            33333344444444444444443322222233333333333444444444444444443

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

Probab=99.56  E-value=5.2e-10  Score=107.30  Aligned_cols=438  Identities=10%  Similarity=0.051  Sum_probs=321.9

Q ss_pred             CCCHHHHHHHHHHhhccCCchhhhHHHHHHHHhcCCCchhHHHHHHHhhhcCCChhHHHHHhccCCC--CCc-chHHHHH
Q 005329          105 NMDPFILSLALKACALNVNVNYGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKIELGCRVFDEMPL--RNV-VSWTAII  181 (702)
Q Consensus       105 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~-~~~~~li  181 (702)
                      +.+...|....+--...+++..|..+|+.++.-. ..+...|-..+.+=.+...+..|..+|+....  |-+ ..|..-+
T Consensus        70 R~~~~~WikYaqwEesq~e~~RARSv~ERALdvd-~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVdqlWyKY~  148 (677)
T KOG1915|consen   70 RLNMQVWIKYAQWEESQKEIQRARSVFERALDVD-YRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVDQLWYKYI  148 (677)
T ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHhcc-cccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHHHHHHHHH
Confidence            4555566666666667888999999999998766 55667777778888889999999999997652  222 2455445


Q ss_pred             HHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhhhCCChH
Q 005329          182 TGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLD  261 (702)
Q Consensus       182 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  261 (702)
                      -.=-..|+...|.++|++..+  ..|+...+.+.|+.=.+.+.++.|..+++..+-.  .|++..|-.....=-+.|.+.
T Consensus       149 ymEE~LgNi~gaRqiferW~~--w~P~eqaW~sfI~fElRykeieraR~IYerfV~~--HP~v~~wikyarFE~k~g~~~  224 (677)
T KOG1915|consen  149 YMEEMLGNIAGARQIFERWME--WEPDEQAWLSFIKFELRYKEIERARSIYERFVLV--HPKVSNWIKYARFEEKHGNVA  224 (677)
T ss_pred             HHHHHhcccHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhee--cccHHHHHHHHHHHHhcCcHH
Confidence            444567999999999999877  6899999999999999999999999999998865  699999999899889999999


Q ss_pred             HHHHHHhccCCC------CcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC---hhhHHHHHHHHHccCchHHHHHH
Q 005329          262 YSLRLFERMSTR------DVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPN---EYTFAAIISASANLARIQWGEQL  332 (702)
Q Consensus       262 ~A~~~~~~~~~~------~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~---~~t~~~ll~~~~~~~~~~~a~~~  332 (702)
                      .|..+|+...+-      +...+.+...-=.++..++.|.-+|+-..+.  -|.   ...|......--+-|+....+..
T Consensus       225 ~aR~VyerAie~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~--~pk~raeeL~k~~~~fEKqfGd~~gIEd~  302 (677)
T KOG1915|consen  225 LARSVYERAIEFLGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDH--IPKGRAEELYKKYTAFEKQFGDKEGIEDA  302 (677)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--cCcccHHHHHHHHHHHHHHhcchhhhHHH
Confidence            999999876531      2334555555455667788888888887775  333   34455555544556666555554


Q ss_pred             HHH--------HHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHhcCCCC--C---hhhHHHHHH--------HHHcCCC
Q 005329          333 HAH--------VLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIRR--D---IISWSTIIG--------GYSQGGY  391 (702)
Q Consensus       333 ~~~--------~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~--~---~~~~~~li~--------~~~~~g~  391 (702)
                      ...        +++. -+.|-.+|--.++.-...|+.+...++|+..+..  .   -..|.-.|-        .=....+
T Consensus       303 Iv~KRk~qYE~~v~~-np~nYDsWfdylrL~e~~g~~~~Ire~yErAIanvpp~~ekr~W~RYIYLWinYalyeEle~ed  381 (677)
T KOG1915|consen  303 IVGKRKFQYEKEVSK-NPYNYDSWFDYLRLEESVGDKDRIRETYERAIANVPPASEKRYWRRYIYLWINYALYEELEAED  381 (677)
T ss_pred             HhhhhhhHHHHHHHh-CCCCchHHHHHHHHHHhcCCHHHHHHHHHHHHccCCchhHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence            322        2222 2456667777788888889999999999988432  1   112222221        1134688


Q ss_pred             hHHHHHHHHHHHHCCCCCCHHHHHHHHHHHc----ccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHH
Q 005329          392 EEEAFEYLALMRREGPRPNEFAFASVLSVCG----NMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQ  467 (702)
Q Consensus       392 ~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  467 (702)
                      .+.+.++|+...+. ++...+||..+=-.++    +..++..|.+++..++  |..|-..+|...|..-.+.++++.+..
T Consensus       382 ~ertr~vyq~~l~l-IPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AI--G~cPK~KlFk~YIelElqL~efDRcRk  458 (677)
T KOG1915|consen  382 VERTRQVYQACLDL-IPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAI--GKCPKDKLFKGYIELELQLREFDRCRK  458 (677)
T ss_pred             HHHHHHHHHHHHhh-cCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHh--ccCCchhHHHHHHHHHHHHhhHHHHHH
Confidence            99999999998883 4556667776544443    5678889999888765  677888999999999999999999999


Q ss_pred             HHhhCCC---CCHHHHHHHHHHHHHcCChHHHHHHHHHchhCC-CCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhC
Q 005329          468 IFYETES---DDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVG-LRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYG  543 (702)
Q Consensus       468 ~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~  543 (702)
                      +|++..+   .+..+|......-...|+.+.|..+|+-.++.. +......+...|.-=...|.++.|..+|+.+.+.  
T Consensus       459 LYEkfle~~Pe~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~r--  536 (677)
T KOG1915|consen  459 LYEKFLEFSPENCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDR--  536 (677)
T ss_pred             HHHHHHhcChHhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHh--
Confidence            9998774   366788888888888999999999999888642 1122345666666666789999999999999865  


Q ss_pred             CCCChhhHHHHHH
Q 005329          544 FVPSKEHYGCMID  556 (702)
Q Consensus       544 ~~p~~~~~~~l~~  556 (702)
                       .+...+|-.+..
T Consensus       537 -t~h~kvWisFA~  548 (677)
T KOG1915|consen  537 -TQHVKVWISFAK  548 (677)
T ss_pred             -cccchHHHhHHH
Confidence             455556655544

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

Probab=99.56  E-value=6.9e-13  Score=132.61  Aligned_cols=247  Identities=15%  Similarity=0.134  Sum_probs=161.3

Q ss_pred             ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCC--CCChhHHHHHHHHHHhcCCHHHHHHH
Q 005329          391 YEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGL--ERTAMIKSALINMYSKCGSIKEASQI  468 (702)
Q Consensus       391 ~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~  468 (702)
                      +..+|+..|.....+ ..-.......+..+|...+++++++++|+.+.+...  -.+..+|.+.+-.+-+.-.+.---+-
T Consensus       334 ~~~~A~~~~~klp~h-~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~Laq~  412 (638)
T KOG1126|consen  334 NCREALNLFEKLPSH-HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLAQD  412 (638)
T ss_pred             HHHHHHHHHHhhHHh-cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHHHH
Confidence            356777777775443 222224455566777777888888888877776432  12455666555444332222211111


Q ss_pred             HhhCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC
Q 005329          469 FYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRP-DSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS  547 (702)
Q Consensus       469 ~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~  547 (702)
                      +-.+-+..+.+|-++..+|.-.++.+.|++.|++.++  +.| ...+|+.+..-+.....+|.|...|+..+   ++.|.
T Consensus       413 Li~~~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQ--ldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al---~~~~r  487 (638)
T KOG1126|consen  413 LIDTDPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQ--LDPRFAYAYTLLGHESIATEEFDKAMKSFRKAL---GVDPR  487 (638)
T ss_pred             HHhhCCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhc--cCCccchhhhhcCChhhhhHHHHhHHHHHHhhh---cCCch
Confidence            2222234567788888888878888888888877776  355 45677777777777777888888777665   33333


Q ss_pred             -hhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHH
Q 005329          548 -KEHYGCMIDLLCRAGRLSDAENMIENMPH-QK-DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIY  624 (702)
Q Consensus       548 -~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~  624 (702)
                       -..|..|+-.|.++++++.|+-.|+++.. .| +......++..+.+.|+.++|++++++++.++|.|+-.-+..+.++
T Consensus       488 hYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~~~~il  567 (638)
T KOG1126|consen  488 HYNAWYGLGTVYLKQEKLEFAEFHFQKAVEINPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYHRASIL  567 (638)
T ss_pred             hhHHHHhhhhheeccchhhHHHHHHHhhhcCCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHHHHHHH
Confidence             23333456677788888888888877776 33 5556666777777778888888888888888888887777788888


Q ss_pred             HhcCChHHHHHHHHHHHhC
Q 005329          625 AAKGRWREAAEVRKMMRSK  643 (702)
Q Consensus       625 ~~~g~~~~A~~~~~~~~~~  643 (702)
                      ...+++++|...++++++.
T Consensus       568 ~~~~~~~eal~~LEeLk~~  586 (638)
T KOG1126|consen  568 FSLGRYVEALQELEELKEL  586 (638)
T ss_pred             HhhcchHHHHHHHHHHHHh
Confidence            8888888888888777664

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.55  E-value=6.6e-12  Score=128.36  Aligned_cols=275  Identities=12%  Similarity=0.059  Sum_probs=181.0

Q ss_pred             cCCHHHHHHHHhcCCCC--Chh-hHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHH--HHHHHHcccCcHHHHHH
Q 005329          358 CGQLTSTSIVFHGMIRR--DII-SWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFA--SVLSVCGNMAILEQGKQ  432 (702)
Q Consensus       358 ~g~~~~a~~~~~~~~~~--~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~--~ll~~~~~~~~~~~a~~  432 (702)
                      .|+++.|++.+....+.  ++. .|.....+..+.|+++.|.+.+.++.+.  .|+.....  .....+...|+.+.|..
T Consensus        97 eGd~~~A~k~l~~~~~~~~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~Al~  174 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHAEQPVVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAARH  174 (398)
T ss_pred             CCCHHHHHHHHHHHHhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHHHH
Confidence            46666666665554332  112 2222233335667777777777777653  33332222  22445566677777777


Q ss_pred             HHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCCC---CH--------HHHHHHHHHHHHcCChHHHHHHHH
Q 005329          433 IHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETESD---DI--------VSWTAMINGYAEHGYSQEAIHLFE  501 (702)
Q Consensus       433 ~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---~~--------~~~~~li~~~~~~g~~~~A~~~~~  501 (702)
                      .++.+.+.. +.++.....+...|.+.|++++|.+++..+.+.   +.        .+|..++.......+.+...++++
T Consensus       175 ~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~  253 (398)
T PRK10747        175 GVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWK  253 (398)
T ss_pred             HHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            777766655 334556666777777777777777777766532   11        133333444444555666677777


Q ss_pred             HchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CC-C
Q 005329          502 KVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPH-QK-D  579 (702)
Q Consensus       502 ~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p-~  579 (702)
                      .+... .+.++.....+..++...|+.++|.+.+++..++   .|+....  ++.+....++.+++.+.+++..+ .| +
T Consensus       254 ~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~---~~~~~l~--~l~~~l~~~~~~~al~~~e~~lk~~P~~  327 (398)
T PRK10747        254 NQSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR---QYDERLV--LLIPRLKTNNPEQLEKVLRQQIKQHGDT  327 (398)
T ss_pred             hCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc---CCCHHHH--HHHhhccCCChHHHHHHHHHHHhhCCCC
Confidence            76543 3456677888888888999999999998887643   4554322  23333455888899988888777 45 4


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 005329          580 DVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRS  642 (702)
Q Consensus       580 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  642 (702)
                      +..+.+++..|...+++++|.+.|+++++..| +...+..++.++.+.|+.++|.+++++...
T Consensus       328 ~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P-~~~~~~~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        328 PLLWSTLGQLLMKHGEWQEASLAFRAALKQRP-DAYDYAWLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            55677888899999999999999999999988 456677899999999999999998887654

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

Probab=99.53  E-value=1.1e-08  Score=102.04  Aligned_cols=532  Identities=10%  Similarity=0.091  Sum_probs=293.6

Q ss_pred             hHHHHHHHHHcCCChhHHHHHHHHhhhCCCCCCCHHHHHHHHHHhhccCCchhhhHHHHHHHHhcCCCchhHHHHHHHhh
Q 005329           74 SWTTLISGYVKAMDSIEALALFSRVWVEPQMNMDPFILSLALKACALNVNVNYGESLHGYTVKTGFVNSVFVGSALLDMY  153 (702)
Q Consensus        74 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  153 (702)
                      .|-.-++.+.++|+.-.....|++.+..-.+......|...++.....+-++.+..++++.++..    +..-+.-|..+
T Consensus       104 Iwl~Ylq~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~~----P~~~eeyie~L  179 (835)
T KOG2047|consen  104 IWLDYLQFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKVA----PEAREEYIEYL  179 (835)
T ss_pred             HHHHHHHHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhcC----HHHHHHHHHHH
Confidence            56666666777777777777777776554444445567777777777777777777777766543    33355666677


Q ss_pred             hcCCChhHHHHHhccCCC----------CCcchHHHHHHHHHhCCChH---HHHHHHHHHHHCCCCCChh--hHHHHHHH
Q 005329          154 TKLGKIELGCRVFDEMPL----------RNVVSWTAIITGLVRAGHNK---EGLIYFAEMWRSKEQGDSY--TFAIVLKA  218 (702)
Q Consensus       154 ~~~g~~~~A~~~~~~~~~----------~~~~~~~~li~~~~~~~~~~---~a~~~~~~m~~~~~~p~~~--~~~~ll~~  218 (702)
                      ++.+++++|.+.+..+..          .+-..|+.+-...+++-+.-   ..-.+++.+..  .-+|..  .+++|.+.
T Consensus       180 ~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~--rftDq~g~Lw~SLAdY  257 (835)
T KOG2047|consen  180 AKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIR--RFTDQLGFLWCSLADY  257 (835)
T ss_pred             HhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhcc--cCcHHHHHHHHHHHHH
Confidence            777777777777766542          12334555554444443222   22233333322  233433  45666666


Q ss_pred             HhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhhhCCChHHHHHHHhccC---CCCcchHHHHHHHHHhcCChhHHH
Q 005329          219 SADSGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMS---TRDVISWTTIITSYVQMGEEENAF  295 (702)
Q Consensus       219 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~a~  295 (702)
                      |.+.|.++.|..+|++..+.  ..+..-|+.+.+.|+....-.-+..+=  +.   ..|..          ..-+++-.+
T Consensus       258 YIr~g~~ekarDvyeeai~~--v~tvrDFt~ifd~Ya~FEE~~~~~~me--~a~~~~~n~e----------d~~dl~~~~  323 (835)
T KOG2047|consen  258 YIRSGLFEKARDVYEEAIQT--VMTVRDFTQIFDAYAQFEESCVAAKME--LADEESGNEE----------DDVDLELHM  323 (835)
T ss_pred             HHHhhhhHHHHHHHHHHHHh--heehhhHHHHHHHHHHHHHHHHHHHHh--hhhhcccChh----------hhhhHHHHH
Confidence            77777777777777766655  333444444555554322111111110  00   00000          001222333


Q ss_pred             HHHHHHHHCC--------CCCChhhHHHHHH-HHHccCchHHHHHHHHHHHHhCCCC------chHHHHHHHHHHHhcCC
Q 005329          296 DAFVRMQESD--------VKPNEYTFAAIIS-ASANLARIQWGEQLHAHVLRLGLVD------SLSVANSIMAMYSKCGQ  360 (702)
Q Consensus       296 ~~~~~m~~~g--------~~p~~~t~~~ll~-~~~~~~~~~~a~~~~~~~~~~~~~~------~~~~~~~l~~~~~~~g~  360 (702)
                      ..|+.+...+        +..|+......++ .-...|+..+....|.++.+. +.|      -...|..+.+.|-..|+
T Consensus       324 a~~e~lm~rr~~~lNsVlLRQn~~nV~eW~kRV~l~e~~~~~~i~tyteAv~~-vdP~ka~Gs~~~Lw~~faklYe~~~~  402 (835)
T KOG2047|consen  324 ARFESLMNRRPLLLNSVLLRQNPHNVEEWHKRVKLYEGNAAEQINTYTEAVKT-VDPKKAVGSPGTLWVEFAKLYENNGD  402 (835)
T ss_pred             HHHHHHHhccchHHHHHHHhcCCccHHHHHhhhhhhcCChHHHHHHHHHHHHc-cCcccCCCChhhHHHHHHHHHHhcCc
Confidence            3344433321        0111111111111 122345566666667666653 112      23457778888888888


Q ss_pred             HHHHHHHHhcCCCCCh-------hhHHHHHHHHHcCCChHHHHHHHHHHHHCCC----------CC-------CHHHHHH
Q 005329          361 LTSTSIVFHGMIRRDI-------ISWSTIIGGYSQGGYEEEAFEYLALMRREGP----------RP-------NEFAFAS  416 (702)
Q Consensus       361 ~~~a~~~~~~~~~~~~-------~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~----------~p-------~~~~~~~  416 (702)
                      ++.|..+|++..+-+-       .+|......=.+..+++.|+++++.....--          .|       +...|..
T Consensus       403 l~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~  482 (835)
T KOG2047|consen  403 LDDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSM  482 (835)
T ss_pred             HHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHH
Confidence            8888888888755422       2455555555566778888887776643211          11       1122333


Q ss_pred             HHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCC----CCH-HHHHHHHHHHHH--
Q 005329          417 VLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETES----DDI-VSWTAMINGYAE--  489 (702)
Q Consensus       417 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~----~~~-~~~~~li~~~~~--  489 (702)
                      .++.--..|-++....+++.+++..+.....+.| ....+-...-++++.++|++-..    |++ ..|+..+.-+.+  
T Consensus       483 y~DleEs~gtfestk~vYdriidLriaTPqii~N-yAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~ry  561 (835)
T KOG2047|consen  483 YADLEESLGTFESTKAVYDRIIDLRIATPQIIIN-YAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRY  561 (835)
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHHhcCCHHHHHH-HHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHh
Confidence            3444445577888888888888877654333333 33344456678899999987653    454 477777666654  


Q ss_pred             -cCChHHHHHHHHHchhCCCCCCHHHHHHHHHH--HhccCcHHHHHHHHHHhHHhhCCCCC--hhhHHHHHHHHHhcCCH
Q 005329          490 -HGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTA--CSHAGLVDLGFHYFNLMSDKYGFVPS--KEHYGCMIDLLCRAGRL  564 (702)
Q Consensus       490 -~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~--~~~~g~~~~A~~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~  564 (702)
                       ....+.|..+|++..+ |++|...-+.-|+.+  =.+.|....|+.+++++..  ++++.  ...|+..|.-....=-.
T Consensus       562 gg~klEraRdLFEqaL~-~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat~--~v~~a~~l~myni~I~kaae~yGv  638 (835)
T KOG2047|consen  562 GGTKLERARDLFEQALD-GCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERATS--AVKEAQRLDMYNIYIKKAAEIYGV  638 (835)
T ss_pred             cCCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh--cCCHHHHHHHHHHHHHHHHHHhCC
Confidence             2468899999999998 778766433333332  2456888899999998754  34443  55666665433322222


Q ss_pred             HHHHHHHHhCCC-CCCHHH---HHHHHHHHHhcCCHHHHHHHHHHHHHhC-CC-CchhHHHHHHHHHhcCCh
Q 005329          565 SDAENMIENMPH-QKDDVV---WSTLLRACMVQGDVNCGRHTAEKILELH-PS-CAGTHITLANIYAAKGRW  630 (702)
Q Consensus       565 ~~A~~~~~~~~~-~p~~~~---~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~-~~~~~~~l~~~~~~~g~~  630 (702)
                      ..-..+|+++.+ -|+..+   .......-.+.|..+.|..+|...-++. |. +...|...-.--.+.|+-
T Consensus       639 ~~TR~iYekaIe~Lp~~~~r~mclrFAdlEtklGEidRARaIya~~sq~~dPr~~~~fW~twk~FEvrHGne  710 (835)
T KOG2047|consen  639 PRTREIYEKAIESLPDSKAREMCLRFADLETKLGEIDRARAIYAHGSQICDPRVTTEFWDTWKEFEVRHGNE  710 (835)
T ss_pred             cccHHHHHHHHHhCChHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhhhcCCCcCChHHHHHHHHHHHhcCCH
Confidence            223334444333 133222   2223334456777777777777777664 32 344555555555666663

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

Probab=99.52  E-value=1.8e-10  Score=110.27  Aligned_cols=254  Identities=10%  Similarity=0.066  Sum_probs=195.5

Q ss_pred             HHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCC--CChhHHHHHHHHHHhcC
Q 005329          383 IGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLE--RTAMIKSALINMYSKCG  460 (702)
Q Consensus       383 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~li~~~~~~g  460 (702)
                      ..++......+++..-.......|+.-+...-+....+.-...+++.|+.+|+++.+..+-  .+..+|+.++-.-....
T Consensus       234 ~~a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~s  313 (559)
T KOG1155|consen  234 KKAYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKS  313 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhH
Confidence            3445555566777777777777776655555555555556677888888888888876432  14556655543322222


Q ss_pred             CHH-HHHHHHhhCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHh
Q 005329          461 SIK-EASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDS-VTFMGVLTACSHAGLVDLGFHYFNLM  538 (702)
Q Consensus       461 ~~~-~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~g~~~~A~~~~~~~  538 (702)
                      ++. -|..++ .+.+-.+.|..++.+-|.-.++.++|...|++..+.  .|.. ..|+.+..-|....+...|++-|+.+
T Consensus       314 kLs~LA~~v~-~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkL--Np~~~~aWTLmGHEyvEmKNt~AAi~sYRrA  390 (559)
T KOG1155|consen  314 KLSYLAQNVS-NIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKL--NPKYLSAWTLMGHEYVEMKNTHAAIESYRRA  390 (559)
T ss_pred             HHHHHHHHHH-HhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhc--CcchhHHHHHhhHHHHHhcccHHHHHHHHHH
Confidence            222 122222 233334556667778888889999999999999874  5654 57888888899999999999999999


Q ss_pred             HHhhCCCC-ChhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCch
Q 005329          539 SDKYGFVP-SKEHYGCMIDLLCRAGRLSDAENMIENMPH-QK-DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAG  615 (702)
Q Consensus       539 ~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~  615 (702)
                      +   .+.| |-..|-.|+++|.-.+...-|+-+|+++.. +| |...|.+|+..|.+.++.++|+..|++++..+..+..
T Consensus       391 v---di~p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~~  467 (559)
T KOG1155|consen  391 V---DINPRDYRAWYGLGQAYEIMKMHFYALYYFQKALELKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEGS  467 (559)
T ss_pred             H---hcCchhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccccchH
Confidence            8   4566 588899999999999999999999999988 44 7889999999999999999999999999999988999


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHh
Q 005329          616 THITLANIYAAKGRWREAAEVRKMMRS  642 (702)
Q Consensus       616 ~~~~l~~~~~~~g~~~~A~~~~~~~~~  642 (702)
                      .+..|+.+|.+.++.++|..++++.++
T Consensus       468 ~l~~LakLye~l~d~~eAa~~yek~v~  494 (559)
T KOG1155|consen  468 ALVRLAKLYEELKDLNEAAQYYEKYVE  494 (559)
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            999999999999999999999998876

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

Probab=99.51  E-value=4.3e-11  Score=114.43  Aligned_cols=194  Identities=16%  Similarity=0.183  Sum_probs=165.3

Q ss_pred             ChhHHHHHHHHHHhcCCHHHHHHHHhhCCC---CCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHH
Q 005329          445 TAMIKSALINMYSKCGSIKEASQIFYETES---DDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTA  521 (702)
Q Consensus       445 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~  521 (702)
                      .+.+...+.+-|+-.++.++|...|++..+   .-...|+.+..-|...++...|++-++..++-. +-|...|-.|.++
T Consensus       329 R~ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~-p~DyRAWYGLGQa  407 (559)
T KOG1155|consen  329 RPETCCIIANYYSLRSEHEKAVMYFKRALKLNPKYLSAWTLMGHEYVEMKNTHAAIESYRRAVDIN-PRDYRAWYGLGQA  407 (559)
T ss_pred             CccceeeehhHHHHHHhHHHHHHHHHHHHhcCcchhHHHHHhhHHHHHhcccHHHHHHHHHHHhcC-chhHHHHhhhhHH
Confidence            345666677888888999999999998775   345689999999999999999999999999742 4477899999999


Q ss_pred             HhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHH
Q 005329          522 CSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNC  598 (702)
Q Consensus       522 ~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~  598 (702)
                      |...+...=|+-+|+++.   .++|+ ...|.+|+++|.+.++.++|++.|.+...  +.+...+..|+..+-+.++.++
T Consensus       408 Yeim~Mh~YaLyYfqkA~---~~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~~~l~~LakLye~l~d~~e  484 (559)
T KOG1155|consen  408 YEIMKMHFYALYYFQKAL---ELKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEGSALVRLAKLYEELKDLNE  484 (559)
T ss_pred             HHHhcchHHHHHHHHHHH---hcCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHhHHH
Confidence            999999999999999887   56775 89999999999999999999999999877  4456899999999999999999


Q ss_pred             HHHHHHHHHH-------hCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 005329          599 GRHTAEKILE-------LHPSCAGTHITLANIYAAKGRWREAAEVRKMMRS  642 (702)
Q Consensus       599 A~~~~~~~~~-------~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  642 (702)
                      |...|++-++       .+|....+...|+.-+.+.+++++|..+......
T Consensus       485 Aa~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~~~  535 (559)
T KOG1155|consen  485 AAQYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYYATLVLK  535 (559)
T ss_pred             HHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHHHHHHhc
Confidence            9999999988       3455556666788889999999999988776654

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

Probab=99.49  E-value=1.4e-13  Score=134.42  Aligned_cols=254  Identities=14%  Similarity=0.090  Sum_probs=117.2

Q ss_pred             HHHHHHcccCcHHHHHHHHHHHHHhC-CCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCCC---CHHHHHHHHHHHHHcC
Q 005329          416 SVLSVCGNMAILEQGKQIHAHVMSIG-LERTAMIKSALINMYSKCGSIKEASQIFYETESD---DIVSWTAMINGYAEHG  491 (702)
Q Consensus       416 ~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g  491 (702)
                      .+...+.+.|+++.|.+++....... .+.+...+..+.......++.+.|...++++...   ++..+..++.. ...+
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~~~~~~~~l~~l-~~~~   91 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKANPQDYERLIQL-LQDG   91 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-cccc
Confidence            44677888999999999996655544 4556667777778888899999999999998853   34566677766 6899


Q ss_pred             ChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHH
Q 005329          492 YSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMI  571 (702)
Q Consensus       492 ~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~  571 (702)
                      ++++|.+++++..+.  .+++..+..++..+...++++++.++++.+......+++...|..+...+.+.|+.++|.+.+
T Consensus        92 ~~~~A~~~~~~~~~~--~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~  169 (280)
T PF13429_consen   92 DPEEALKLAEKAYER--DGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDY  169 (280)
T ss_dssp             ----------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHH
T ss_pred             ccccccccccccccc--ccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            999999999887654  356667778888899999999999999998755344567888999999999999999999999


Q ss_pred             HhCCC-CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhCCCccCC
Q 005329          572 ENMPH-QK-DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKGVIKEP  649 (702)
Q Consensus       572 ~~~~~-~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~  649 (702)
                      +++.. .| +......++..+...|+.+++.++++...+..|.++..+..++.+|...|+.++|..++++..+.      
T Consensus       170 ~~al~~~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~------  243 (280)
T PF13429_consen  170 RKALELDPDDPDARNALAWLLIDMGDYDEAREALKRLLKAAPDDPDLWDALAAAYLQLGRYEEALEYLEKALKL------  243 (280)
T ss_dssp             HHHHHH-TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHH------
T ss_pred             HHHHHcCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHHHHHHHHHHHhccccccccccccccccccc------
Confidence            99988 56 57788999999999999999999999999999999999999999999999999999999998763      


Q ss_pred             eeeEEEECCEEEEEEcCCCCCCChhHHHHHHHHHHHHhcCCCCCCcccc
Q 005329          650 GWSRIKVKDQVSAFVSSDRRHSQGEDIYRMLDLLASRESDIDDLDSLVH  698 (702)
Q Consensus       650 ~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~l~~l~~~~~~~~~~~~~~~  698 (702)
                                          +|.+..+...+..+....|+...+..+..
T Consensus       244 --------------------~p~d~~~~~~~a~~l~~~g~~~~A~~~~~  272 (280)
T PF13429_consen  244 --------------------NPDDPLWLLAYADALEQAGRKDEALRLRR  272 (280)
T ss_dssp             --------------------STT-HHHHHHHHHHHT-------------
T ss_pred             --------------------ccccccccccccccccccccccccccccc
Confidence                                57788888888888888888777666553

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

Probab=99.48  E-value=1.2e-10  Score=114.42  Aligned_cols=259  Identities=12%  Similarity=0.064  Sum_probs=175.7

Q ss_pred             HHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHh
Q 005329          379 WSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSK  458 (702)
Q Consensus       379 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  458 (702)
                      ......-+...+++.+..++++...+.. ++....+..-|.++...|+..+-..+-..+++. .+..+.+|-++.--|.-
T Consensus       247 l~~~ad~~y~~c~f~~c~kit~~lle~d-pfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~-yP~~a~sW~aVg~YYl~  324 (611)
T KOG1173|consen  247 LAEKADRLYYGCRFKECLKITEELLEKD-PFHLPCLPLHIACLYELGKSNKLFLLSHKLVDL-YPSKALSWFAVGCYYLM  324 (611)
T ss_pred             HHHHHHHHHHcChHHHHHHHhHHHHhhC-CCCcchHHHHHHHHHHhcccchHHHHHHHHHHh-CCCCCcchhhHHHHHHH
Confidence            3334444555666666666666665542 333333433444555555555444444444433 23345566666666777


Q ss_pred             cCCHHHHHHHHhhCCC---CCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHH
Q 005329          459 CGSIKEASQIFYETES---DDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYF  535 (702)
Q Consensus       459 ~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~  535 (702)
                      .|+.++|.+.|.+...   .-...|-.+..+|.-.|..++|+..+...-+. ++-....+--+.--|.+.++...|.++|
T Consensus       325 i~k~seARry~SKat~lD~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl-~~G~hlP~LYlgmey~~t~n~kLAe~Ff  403 (611)
T KOG1173|consen  325 IGKYSEARRYFSKATTLDPTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARL-MPGCHLPSLYLGMEYMRTNNLKLAEKFF  403 (611)
T ss_pred             hcCcHHHHHHHHHHhhcCccccHHHHHHhHHhhhcchHHHHHHHHHHHHHh-ccCCcchHHHHHHHHHHhccHHHHHHHH
Confidence            7888888888877553   23457888888888888888888877665542 1222222333444577788888888888


Q ss_pred             HHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC--------CC-CHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 005329          536 NLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH--------QK-DDVVWSTLLRACMVQGDVNCGRHTAEK  605 (702)
Q Consensus       536 ~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--------~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~  605 (702)
                      .++.   ++.|+ +..++-+.-.....+.+.+|..+|+....        ++ -.++++.|+.+|++.+++++|+..+++
T Consensus       404 ~~A~---ai~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~  480 (611)
T KOG1173|consen  404 KQAL---AIAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQK  480 (611)
T ss_pred             HHHH---hcCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHH
Confidence            8776   66675 66677777777778888888888877653        12 345678888888889999999999999


Q ss_pred             HHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 005329          606 ILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSK  643 (702)
Q Consensus       606 ~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  643 (702)
                      ++.+.|.++.++..++.+|.-.|+++.|++.|.+....
T Consensus       481 aL~l~~k~~~~~asig~iy~llgnld~Aid~fhKaL~l  518 (611)
T KOG1173|consen  481 ALLLSPKDASTHASIGYIYHLLGNLDKAIDHFHKALAL  518 (611)
T ss_pred             HHHcCCCchhHHHHHHHHHHHhcChHHHHHHHHHHHhc
Confidence            99988988999999999999999999998888887653

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.48  E-value=4.7e-11  Score=122.17  Aligned_cols=285  Identities=10%  Similarity=-0.007  Sum_probs=183.7

Q ss_pred             cCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCchHHHHHHHHHHHHhCCCCchHHH--HHHHHHHHhcCCHHHHH
Q 005329          288 MGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVA--NSIMAMYSKCGQLTSTS  365 (702)
Q Consensus       288 ~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~--~~l~~~~~~~g~~~~a~  365 (702)
                      .|+++.|.+.+....+.+-. ....|.....+..+.|+++.+...+..+.+.  .|+....  ......+...|+++.|.
T Consensus        97 eGd~~~A~k~l~~~~~~~~~-p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~Al  173 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHAEQ-PVVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAAR  173 (398)
T ss_pred             CCCHHHHHHHHHHHHhcccc-hHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHHH
Confidence            45555555555443332100 1111222223335555566666665555443  2222211  12244555666666666


Q ss_pred             HHHhcCCC---CChhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCC
Q 005329          366 IVFHGMIR---RDIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGL  442 (702)
Q Consensus       366 ~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  442 (702)
                      ..++.+.+   .+......+...|.+.|++++|.+++..+.+.+..++ .....+-.                       
T Consensus       174 ~~l~~~~~~~P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~-~~~~~l~~-----------------------  229 (398)
T PRK10747        174 HGVDKLLEVAPRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDE-EHRAMLEQ-----------------------  229 (398)
T ss_pred             HHHHHHHhcCCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCH-HHHHHHHH-----------------------
Confidence            66665532   2445666667777777777777777777776654322 11111100                       


Q ss_pred             CCChhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHH
Q 005329          443 ERTAMIKSALINMYSKCGSIKEASQIFYETE---SDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVL  519 (702)
Q Consensus       443 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll  519 (702)
                          ..|..++.......+.+...++++.++   ..++.....+...+...|+.++|.+++++..+.  +|+....  ++
T Consensus       230 ----~a~~~l~~~~~~~~~~~~l~~~w~~lp~~~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l~--~l  301 (398)
T PRK10747        230 ----QAWIGLMDQAMADQGSEGLKRWWKNQSRKTRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERLV--LL  301 (398)
T ss_pred             ----HHHHHHHHHHHHhcCHHHHHHHHHhCCHHHhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHH--HH
Confidence                011122222333345566666666665   357788888999999999999999999988873  5555322  33


Q ss_pred             HHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CCCHHHHHHHHHHHHhcCCHH
Q 005329          520 TACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH-QKDDVVWSTLLRACMVQGDVN  597 (702)
Q Consensus       520 ~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~  597 (702)
                      .+....++.+++.+..+...++   .|+ ...+.++...+.+.|++++|.+.|+.+.. .|+...+..+...+.+.|+.+
T Consensus       302 ~~~l~~~~~~~al~~~e~~lk~---~P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~~~~~~~La~~~~~~g~~~  378 (398)
T PRK10747        302 IPRLKTNNPEQLEKVLRQQIKQ---HGDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQRPDAYDYAWLADALDRLHKPE  378 (398)
T ss_pred             HhhccCCChHHHHHHHHHHHhh---CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCHH
Confidence            4445669999999999998865   555 66788999999999999999999999988 799999999999999999999


Q ss_pred             HHHHHHHHHHHhC
Q 005329          598 CGRHTAEKILELH  610 (702)
Q Consensus       598 ~A~~~~~~~~~~~  610 (702)
                      +|.+++++.+.+-
T Consensus       379 ~A~~~~~~~l~~~  391 (398)
T PRK10747        379 EAAAMRRDGLMLT  391 (398)
T ss_pred             HHHHHHHHHHhhh
Confidence            9999999998764

>TIGR00540 hemY_coli hemY protein

Probab=99.47  E-value=1.6e-10  Score=119.05  Aligned_cols=117  Identities=9%  Similarity=0.013  Sum_probs=55.8

Q ss_pred             hcCChhHHHHHHHHHHHCCCCCChhhH-HHHHHHHHccCchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHH
Q 005329          287 QMGEEENAFDAFVRMQESDVKPNEYTF-AAIISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTS  365 (702)
Q Consensus       287 ~~g~~~~a~~~~~~m~~~g~~p~~~t~-~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  365 (702)
                      ..|+++.|.+.+.+..+.  .|++..+ -....+....|+.+.+.+.+....+....+...+.......+...|+++.|.
T Consensus        96 ~~g~~~~A~~~l~~~~~~--~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~Al  173 (409)
T TIGR00540        96 AEGDYAKAEKLIAKNADH--AAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAAR  173 (409)
T ss_pred             hCCCHHHHHHHHHHHhhc--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHHH
Confidence            457777777777665543  3433222 2333445555666666666666554332222222222344444455555555


Q ss_pred             HHHhcCCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHC
Q 005329          366 IVFHGMIR--R-DIISWSTIIGGYSQGGYEEEAFEYLALMRRE  405 (702)
Q Consensus       366 ~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  405 (702)
                      ..++.+.+  | +...+..+...+.+.|++++|.+.+..+.+.
T Consensus       174 ~~l~~l~~~~P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~  216 (409)
T TIGR00540       174 HGVDKLLEMAPRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKA  216 (409)
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHc
Confidence            44444422  1 3334444444444555555555555444444

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=99.47  E-value=6.6e-11  Score=121.81  Aligned_cols=128  Identities=13%  Similarity=0.029  Sum_probs=80.4

Q ss_pred             CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhh---HHHHHHHHHhcCCHHHHHHHHHhCCC-CCC-H--HHH
Q 005329          511 DSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEH---YGCMIDLLCRAGRLSDAENMIENMPH-QKD-D--VVW  583 (702)
Q Consensus       511 ~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~---~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~-~--~~~  583 (702)
                      +...+..+...+...|+.++|.+.+++..++   .|+...   .....-.....++.+.+.+.++...+ .|+ +  ...
T Consensus       262 ~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~---~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~p~~~~~~ll  338 (409)
T TIGR00540       262 NIALKIALAEHLIDCDDHDSAQEIIFDGLKK---LGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKNVDDKPKCCIN  338 (409)
T ss_pred             CHHHHHHHHHHHHHCCChHHHHHHHHHHHhh---CCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHhCCCChhHHHH
Confidence            5556666666677777777777777776643   344321   11111112234566667777766655 343 3  455


Q ss_pred             HHHHHHHHhcCCHHHHHHHHH--HHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 005329          584 STLLRACMVQGDVNCGRHTAE--KILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRS  642 (702)
Q Consensus       584 ~~l~~~~~~~g~~~~A~~~~~--~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  642 (702)
                      .+++..|.+.|++++|.+.|+  .+++..| ++..+..++.++.+.|+.++|.+++++...
T Consensus       339 ~sLg~l~~~~~~~~~A~~~le~a~a~~~~p-~~~~~~~La~ll~~~g~~~~A~~~~~~~l~  398 (409)
T TIGR00540       339 RALGQLLMKHGEFIEAADAFKNVAACKEQL-DANDLAMAADAFDQAGDKAEAAAMRQDSLG  398 (409)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHhHHhhcCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            677777888888888888888  4666667 444466888888888888888887776543

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.

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.42  E-value=4.2e-11  Score=114.18  Aligned_cols=198  Identities=15%  Similarity=0.106  Sum_probs=165.8

Q ss_pred             ChhHHHHHHHHHHhcCCHHHHHHHHhhCCC---CCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHH
Q 005329          445 TAMIKSALINMYSKCGSIKEASQIFYETES---DDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTA  521 (702)
Q Consensus       445 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~  521 (702)
                      ....+..+...+...|++++|.+.+++..+   .+...+..+...+...|++++|.+.+++..+.. +.+...+..+...
T Consensus        30 ~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~  108 (234)
T TIGR02521        30 AAKIRVQLALGYLEQGDLEVAKENLDKALEHDPDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTF  108 (234)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHH
Confidence            345666778888899999999999987652   356788888999999999999999999988753 4455677888888


Q ss_pred             HhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCC-C-CCHHHHHHHHHHHHhcCCHHHH
Q 005329          522 CSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPH-Q-KDDVVWSTLLRACMVQGDVNCG  599 (702)
Q Consensus       522 ~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~-p~~~~~~~l~~~~~~~g~~~~A  599 (702)
                      +...|++++|.+.++.+............+..+..++...|++++|...+++... . .+...+..+...+...|++++|
T Consensus       109 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A  188 (234)
T TIGR02521       109 LCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQRPESLLELAELYYLRGQYKDA  188 (234)
T ss_pred             HHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCChHHHHHHHHHHHHcCCHHHH
Confidence            9999999999999999876422222356777888999999999999999999876 3 3567888899999999999999


Q ss_pred             HHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 005329          600 RHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSK  643 (702)
Q Consensus       600 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  643 (702)
                      ...++++++..|.++..+..++.++...|+.++|..+.+.+...
T Consensus       189 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  232 (234)
T TIGR02521       189 RAYLERYQQTYNQTAESLWLGIRIARALGDVAAAQRYGAQLQKL  232 (234)
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhh
Confidence            99999999999988999999999999999999999998887653

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.

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

Probab=99.42  E-value=1.1e-09  Score=103.39  Aligned_cols=287  Identities=13%  Similarity=0.042  Sum_probs=178.8

Q ss_pred             cCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHH
Q 005329          288 MGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIV  367 (702)
Q Consensus       288 ~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  367 (702)
                      .|+|.+|.+...+-.+.+-.| ...|..-..+....|+.+.+..++.++-+.--.++..+.-+........|+.+.|..-
T Consensus        97 eG~~~qAEkl~~rnae~~e~p-~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~  175 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQP-VLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAAREN  175 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcch-HHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHH
Confidence            477777777777765554222 3334444555666777777777777776654455556666666666777777777666


Q ss_pred             HhcC---CCCChhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCC
Q 005329          368 FHGM---IRRDIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLER  444 (702)
Q Consensus       368 ~~~~---~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  444 (702)
                      .+++   ...+.........+|.+.|++.....++..|.+.|.-.+...-..                            
T Consensus       176 v~~ll~~~pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~l----------------------------  227 (400)
T COG3071         176 VDQLLEMTPRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARL----------------------------  227 (400)
T ss_pred             HHHHHHhCcCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHH----------------------------
Confidence            6554   334566777777888888888888888888887775444321110                            


Q ss_pred             ChhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHH
Q 005329          445 TAMIKSALINMYSKCGSIKEASQIFYETE---SDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTA  521 (702)
Q Consensus       445 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~  521 (702)
                      ...++..+++-....+..+.-...++..+   +.++..-.+++.-+.+.|+.++|.++.++..+.+..|+.    ...-.
T Consensus       228 e~~a~~glL~q~~~~~~~~gL~~~W~~~pr~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L----~~~~~  303 (400)
T COG3071         228 EQQAWEGLLQQARDDNGSEGLKTWWKNQPRKLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRL----CRLIP  303 (400)
T ss_pred             HHHHHHHHHHHHhccccchHHHHHHHhccHHhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhH----HHHHh
Confidence            01122223333333333344444555554   245666666777777788888888887777776666662    12233


Q ss_pred             HhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CCCHHHHHHHHHHHHhcCCHHHHH
Q 005329          522 CSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPH-QKDDVVWSTLLRACMVQGDVNCGR  600 (702)
Q Consensus       522 ~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~A~  600 (702)
                      +.+-++...-++..+...+..+-.  +..+.+|+..|.+.+.|.+|.+.|+...+ +|+..+|+-+..++.+.|+..+|.
T Consensus       304 ~l~~~d~~~l~k~~e~~l~~h~~~--p~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~s~~~~~~la~~~~~~g~~~~A~  381 (400)
T COG3071         304 RLRPGDPEPLIKAAEKWLKQHPED--PLLLSTLGRLALKNKLWGKASEALEAALKLRPSASDYAELADALDQLGEPEEAE  381 (400)
T ss_pred             hcCCCCchHHHHHHHHHHHhCCCC--hhHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCChhhHHHHHHHHHHcCChHHHH
Confidence            556666666666666555443333  36667777777777777777777776665 677777777777777777777777


Q ss_pred             HHHHHHHHh
Q 005329          601 HTAEKILEL  609 (702)
Q Consensus       601 ~~~~~~~~~  609 (702)
                      ++.++.+-+
T Consensus       382 ~~r~e~L~~  390 (400)
T COG3071         382 QVRREALLL  390 (400)
T ss_pred             HHHHHHHHH
Confidence            777776643

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

Probab=99.40  E-value=1e-07  Score=95.35  Aligned_cols=491  Identities=13%  Similarity=0.097  Sum_probs=312.9

Q ss_pred             chhHHHHHHHhhhcCCChhHHHHHhccCC-----CCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHH
Q 005329          142 SVFVGSALLDMYTKLGKIELGCRVFDEMP-----LRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVL  216 (702)
Q Consensus       142 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~-----~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll  216 (702)
                      -+..|-.-+....++|++......|+...     ......|...+...-..+-++-++.+|++.++-    ++..-..-|
T Consensus       101 mpRIwl~Ylq~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~----~P~~~eeyi  176 (835)
T KOG2047|consen  101 MPRIWLDYLQFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKV----APEAREEYI  176 (835)
T ss_pred             CCHHHHHHHHHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhc----CHHHHHHHH
Confidence            45667777777888999999988888654     245567988899888999999999999998653    334466677


Q ss_pred             HHHhccCChHHHHHHHHHHHHhC------CCCchhHHHHHHHHhhhCCCh---HHHHHHHhccCCC--C--cchHHHHHH
Q 005329          217 KASADSGALNFGREIHTIMLKRG------FDVVSFVANSLATMYSKCGKL---DYSLRLFERMSTR--D--VISWTTIIT  283 (702)
Q Consensus       217 ~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~li~~~~~~g~~---~~A~~~~~~~~~~--~--~~~~~~li~  283 (702)
                      ..++..+++++|.+.+...+...      .+.+...|..+.+..++.-+.   -....+++.+..+  |  ...|++|.+
T Consensus       177 e~L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~rftDq~g~Lw~SLAd  256 (835)
T KOG2047|consen  177 EYLAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRRFTDQLGFLWCSLAD  256 (835)
T ss_pred             HHHHhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhcccCcHHHHHHHHHHHH
Confidence            88889999999999988776532      255666777766666654332   2344555555432  2  356999999


Q ss_pred             HHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCc----------------------hHHHHHHHHHHHHhCC
Q 005329          284 SYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLAR----------------------IQWGEQLHAHVLRLGL  341 (702)
Q Consensus       284 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~----------------------~~~a~~~~~~~~~~~~  341 (702)
                      -|++.|.+++|.++|++....  ..+..-|..+.++|+.-..                      ++....-|+.+...+.
T Consensus       257 YYIr~g~~ekarDvyeeai~~--v~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~rr~  334 (835)
T KOG2047|consen  257 YYIRSGLFEKARDVYEEAIQT--VMTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFESLMNRRP  334 (835)
T ss_pred             HHHHhhhhHHHHHHHHHHHHh--heehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhccc
Confidence            999999999999999988765  2344455555555543211                      1222222333222210


Q ss_pred             -----------CCchHHHHHHHHHHHhcCCHHHHHHHHhcCCC---C------ChhhHHHHHHHHHcCCChHHHHHHHHH
Q 005329          342 -----------VDSLSVANSIMAMYSKCGQLTSTSIVFHGMIR---R------DIISWSTIIGGYSQGGYEEEAFEYLAL  401 (702)
Q Consensus       342 -----------~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~------~~~~~~~li~~~~~~g~~~~a~~~~~~  401 (702)
                                 +.+...|..-  .-+..|+..+....|.+.+.   |      -...|..+...|-..|+.+.|..+|++
T Consensus       335 ~~lNsVlLRQn~~nV~eW~kR--V~l~e~~~~~~i~tyteAv~~vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifek  412 (835)
T KOG2047|consen  335 LLLNSVLLRQNPHNVEEWHKR--VKLYEGNAAEQINTYTEAVKTVDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEK  412 (835)
T ss_pred             hHHHHHHHhcCCccHHHHHhh--hhhhcCChHHHHHHHHHHHHccCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHH
Confidence                       1111111111  11223555555555555421   1      223677888888889999999999988


Q ss_pred             HHHCCCCCC---HHHHHHHHHHHcccCcHHHHHHHHHHHHHhCC-----------C------CChhHHHHHHHHHHhcCC
Q 005329          402 MRREGPRPN---EFAFASVLSVCGNMAILEQGKQIHAHVMSIGL-----------E------RTAMIKSALINMYSKCGS  461 (702)
Q Consensus       402 m~~~g~~p~---~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-----------~------~~~~~~~~li~~~~~~g~  461 (702)
                      ..+-..+.-   ..+|..-...-.+..+++.|..+.+.+.....           +      .+..+|..+++..-..|-
T Consensus       413 a~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gt  492 (835)
T KOG2047|consen  413 ATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESLGT  492 (835)
T ss_pred             hhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhcc
Confidence            866433221   12333333344455677777777666543211           1      134455556666667788


Q ss_pred             HHHHHHHHhhCCC---CCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCH-HHHHHHHHHHhc---cCcHHHHHHH
Q 005329          462 IKEASQIFYETES---DDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDS-VTFMGVLTACSH---AGLVDLGFHY  534 (702)
Q Consensus       462 ~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~---~g~~~~A~~~  534 (702)
                      ++....+|+++..   ..+...-.....+-.+.-++++.+.|++-+..=-.|+. ..|+..+.-+.+   ..+.+.|..+
T Consensus       493 festk~vYdriidLriaTPqii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEraRdL  572 (835)
T KOG2047|consen  493 FESTKAVYDRIIDLRIATPQIIINYAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLERARDL  572 (835)
T ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHHHHHH
Confidence            8888888887764   23333333333445667789999999887765334554 356666655532   3478999999


Q ss_pred             HHHhHHhhCCCCC--hhhHHHHHHHHHhcCCHHHHHHHHHhCCCC--C--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 005329          535 FNLMSDKYGFVPS--KEHYGCMIDLLCRAGRLSDAENMIENMPHQ--K--DDVVWSTLLRACMVQGDVNCGRHTAEKILE  608 (702)
Q Consensus       535 ~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--p--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  608 (702)
                      |+++.+  +.+|.  ...|-.....=.+.|-...|..+++++...  +  ....|+..+.--...=-.....++|+++++
T Consensus       573 FEqaL~--~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat~~v~~a~~l~myni~I~kaae~yGv~~TR~iYekaIe  650 (835)
T KOG2047|consen  573 FEQALD--GCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERATSAVKEAQRLDMYNIYIKKAAEIYGVPRTREIYEKAIE  650 (835)
T ss_pred             HHHHHh--cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhCCcccHHHHHHHHH
Confidence            999986  56665  233333344445678889999999998773  2  234666666544433344566789999999


Q ss_pred             hCCCCch--hHHHHHHHHHhcCChHHHHHHHHHHHh
Q 005329          609 LHPSCAG--THITLANIYAAKGRWREAAEVRKMMRS  642 (702)
Q Consensus       609 ~~p~~~~--~~~~l~~~~~~~g~~~~A~~~~~~~~~  642 (702)
                      .-|++-.  .....+..-.+.|..+.|..++....+
T Consensus       651 ~Lp~~~~r~mclrFAdlEtklGEidRARaIya~~sq  686 (835)
T KOG2047|consen  651 SLPDSKAREMCLRFADLETKLGEIDRARAIYAHGSQ  686 (835)
T ss_pred             hCChHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhhh
Confidence            9886543  344457777888999999998876654

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

Probab=99.40  E-value=6.4e-10  Score=101.71  Aligned_cols=308  Identities=13%  Similarity=0.155  Sum_probs=160.5

Q ss_pred             hcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCchHHHHHHHHHHHHhC-CCCchHHHHHHHHHHHhcCCHHHHH
Q 005329          287 QMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLG-LVDSLSVANSIMAMYSKCGQLTSTS  365 (702)
Q Consensus       287 ~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~a~  365 (702)
                      -+++.++|.+.|-+|.+.. +-+..+-.+|.+.|.+.|..+.|++++..+.+.. ...+..                   
T Consensus        47 Ls~Q~dKAvdlF~e~l~~d-~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr-------------------  106 (389)
T COG2956          47 LSNQPDKAVDLFLEMLQED-PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQR-------------------  106 (389)
T ss_pred             hhcCcchHHHHHHHHHhcC-chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHH-------------------
Confidence            3567777777777777632 1222233345555666666666666666555431 111000                   


Q ss_pred             HHHhcCCCCChhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCC
Q 005329          366 IVFHGMIRRDIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERT  445 (702)
Q Consensus       366 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~  445 (702)
                                ..+.-.|..-|...|-+|.|..+|..+.+.|.. -......++..|-...++++|.++-..+.+.+..+.
T Consensus       107 ----------~lAl~qL~~Dym~aGl~DRAE~~f~~L~de~ef-a~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~  175 (389)
T COG2956         107 ----------LLALQQLGRDYMAAGLLDRAEDIFNQLVDEGEF-AEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTY  175 (389)
T ss_pred             ----------HHHHHHHHHHHHHhhhhhHHHHHHHHHhcchhh-hHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccc
Confidence                      112223444455555555555555555443211 112233333334444444444444333333322211


Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHH-HHHHHHHHHhc
Q 005329          446 AMIKSALINMYSKCGSIKEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSV-TFMGVLTACSH  524 (702)
Q Consensus       446 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-~~~~ll~~~~~  524 (702)
                      ..   .+..                        .|.-+...+....+.+.|..++++..+.  .|+.+ .-..+.+....
T Consensus       176 ~~---eIAq------------------------fyCELAq~~~~~~~~d~A~~~l~kAlqa--~~~cvRAsi~lG~v~~~  226 (389)
T COG2956         176 RV---EIAQ------------------------FYCELAQQALASSDVDRARELLKKALQA--DKKCVRASIILGRVELA  226 (389)
T ss_pred             hh---HHHH------------------------HHHHHHHHHhhhhhHHHHHHHHHHHHhh--CccceehhhhhhHHHHh
Confidence            00   0111                        1223444444555666666666666553  23332 22334455566


Q ss_pred             cCcHHHHHHHHHHhHHhhCCCCC--hhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CCCHHHHHHHHHHHHhcCCHHHHHH
Q 005329          525 AGLVDLGFHYFNLMSDKYGFVPS--KEHYGCMIDLLCRAGRLSDAENMIENMPH-QKDDVVWSTLLRACMVQGDVNCGRH  601 (702)
Q Consensus       525 ~g~~~~A~~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~A~~  601 (702)
                      .|+++.|.+.++...+.   .|+  ..+...|..+|...|+.++...++.++.. .+....-..+........-.+.|..
T Consensus       227 ~g~y~~AV~~~e~v~eQ---n~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~~g~~~~l~l~~lie~~~G~~~Aq~  303 (389)
T COG2956         227 KGDYQKAVEALERVLEQ---NPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETNTGADAELMLADLIELQEGIDAAQA  303 (389)
T ss_pred             ccchHHHHHHHHHHHHh---ChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHccCCccHHHHHHHHHHHhhChHHHHH
Confidence            67777777777766654   343  55666667777777777777777766655 4444455555555444555566677


Q ss_pred             HHHHHHHhCCCCchhHHHHHHHHH--hcCChHHHHHHHHHHHhCCCccCCeeeEEEEC
Q 005329          602 TAEKILELHPSCAGTHITLANIYA--AKGRWREAAEVRKMMRSKGVIKEPGWSRIKVK  657 (702)
Q Consensus       602 ~~~~~~~~~p~~~~~~~~l~~~~~--~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~  657 (702)
                      .+.+-+...|.-...|..+..-+.  .-|++.+....++.|....++..|.+.....+
T Consensus       304 ~l~~Ql~r~Pt~~gf~rl~~~~l~daeeg~~k~sL~~lr~mvge~l~~~~~YRC~~CG  361 (389)
T COG2956         304 YLTRQLRRKPTMRGFHRLMDYHLADAEEGRAKESLDLLRDMVGEQLRRKPRYRCQNCG  361 (389)
T ss_pred             HHHHHHhhCCcHHHHHHHHHhhhccccccchhhhHHHHHHHHHHHHhhcCCceecccC
Confidence            777777777744444444333333  23567888888888888777777766555443

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

Probab=99.36  E-value=7.2e-09  Score=102.13  Aligned_cols=279  Identities=9%  Similarity=0.047  Sum_probs=177.3

Q ss_pred             chHHHHHHHHHHHhcCCHHHHHHHHhcCCCCC---hhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 005329          344 SLSVANSIMAMYSKCGQLTSTSIVFHGMIRRD---IISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSV  420 (702)
Q Consensus       344 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~  420 (702)
                      +..+.....+-+...+++.+..++++.+.+.|   ...+..-|.++...|+..+-..+=.+|.+. .+-...+|-++.--
T Consensus       243 ~~dll~~~ad~~y~~c~f~~c~kit~~lle~dpfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~-yP~~a~sW~aVg~Y  321 (611)
T KOG1173|consen  243 NLDLLAEKADRLYYGCRFKECLKITEELLEKDPFHLPCLPLHIACLYELGKSNKLFLLSHKLVDL-YPSKALSWFAVGCY  321 (611)
T ss_pred             cHHHHHHHHHHHHHcChHHHHHHHhHHHHhhCCCCcchHHHHHHHHHHhcccchHHHHHHHHHHh-CCCCCcchhhHHHH
Confidence            33333344444445555555555555543322   223333344555555555555555555543 22233455555555


Q ss_pred             HcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCC---CCHHHHHHHHHHHHHcCChHHHH
Q 005329          421 CGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETES---DDIVSWTAMINGYAEHGYSQEAI  497 (702)
Q Consensus       421 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~  497 (702)
                      |...|+.++|++.+.......... ...|-.+...|.-.|..++|...+....+   .....+--+.--|.+.++...|.
T Consensus       322 Yl~i~k~seARry~SKat~lD~~f-gpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G~hlP~LYlgmey~~t~n~kLAe  400 (611)
T KOG1173|consen  322 YLMIGKYSEARRYFSKATTLDPTF-GPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCHLPSLYLGMEYMRTNNLKLAE  400 (611)
T ss_pred             HHHhcCcHHHHHHHHHHhhcCccc-cHHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCcchHHHHHHHHHHhccHHHHH
Confidence            555566666666665554332111 22445566666677777777666654321   11111122344577788888898


Q ss_pred             HHHHHchhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhh-CCC----CChhhHHHHHHHHHhcCCHHHHHHHH
Q 005329          498 HLFEKVPMVGLRP-DSVTFMGVLTACSHAGLVDLGFHYFNLMSDKY-GFV----PSKEHYGCMIDLLCRAGRLSDAENMI  571 (702)
Q Consensus       498 ~~~~~m~~~g~~p-~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~-~~~----p~~~~~~~l~~~~~~~g~~~~A~~~~  571 (702)
                      ++|.+...  +.| |+..++-+.-.....+.+.+|..+|+...... .+.    -...+++.|+.+|.+.+.+++|+..+
T Consensus       401 ~Ff~~A~a--i~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~  478 (611)
T KOG1173|consen  401 KFFKQALA--IAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYY  478 (611)
T ss_pred             HHHHHHHh--cCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHH
Confidence            88888775  444 56677777666667888899998888776321 111    13456888999999999999999999


Q ss_pred             HhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHh
Q 005329          572 ENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAA  626 (702)
Q Consensus       572 ~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~  626 (702)
                      +....  +.+..++.+++..|...|+++.|.+.|.+++.+.|++..+-..|..+...
T Consensus       479 q~aL~l~~k~~~~~asig~iy~llgnld~Aid~fhKaL~l~p~n~~~~~lL~~aie~  535 (611)
T KOG1173|consen  479 QKALLLSPKDASTHASIGYIYHLLGNLDKAIDHFHKALALKPDNIFISELLKLAIED  535 (611)
T ss_pred             HHHHHcCCCchhHHHHHHHHHHHhcChHHHHHHHHHHHhcCCccHHHHHHHHHHHHh
Confidence            99877  56888999999999999999999999999999999998877777765544

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

Probab=99.36  E-value=2.1e-09  Score=98.35  Aligned_cols=287  Identities=14%  Similarity=0.152  Sum_probs=198.7

Q ss_pred             CCChHHHHHHHhccCCCCcchHH---HHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCchHHHHHHH
Q 005329          257 CGKLDYSLRLFERMSTRDVISWT---TIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLH  333 (702)
Q Consensus       257 ~g~~~~A~~~~~~~~~~~~~~~~---~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~  333 (702)
                      +.+.++|.++|-+|.+.|..++.   +|.+.|-+.|..|.|+++-+.+.++   ||. |+..=+.+.             
T Consensus        48 s~Q~dKAvdlF~e~l~~d~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~s---pdl-T~~qr~lAl-------------  110 (389)
T COG2956          48 SNQPDKAVDLFLEMLQEDPETFEAHLTLGNLFRSRGEVDRAIRIHQTLLES---PDL-TFEQRLLAL-------------  110 (389)
T ss_pred             hcCcchHHHHHHHHHhcCchhhHHHHHHHHHHHhcchHHHHHHHHHHHhcC---CCC-chHHHHHHH-------------
Confidence            46889999999999877766654   5778899999999999999998874   432 332222111             


Q ss_pred             HHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHhcCCCCC---hhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCC
Q 005329          334 AHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIRRD---IISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPN  410 (702)
Q Consensus       334 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~  410 (702)
                                     -.|..-|...|-+|.|+.+|..+.+.+   ..+...|+..|-+..++++|+++-+++.+.+..+.
T Consensus       111 ---------------~qL~~Dym~aGl~DRAE~~f~~L~de~efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~  175 (389)
T COG2956         111 ---------------QQLGRDYMAAGLLDRAEDIFNQLVDEGEFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTY  175 (389)
T ss_pred             ---------------HHHHHHHHHhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccc
Confidence                           114445666777777777777776532   34667789999999999999999999988665544


Q ss_pred             HHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCCCC---HHHHHHHHHHH
Q 005329          411 EFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETESDD---IVSWTAMINGY  487 (702)
Q Consensus       411 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~li~~~  487 (702)
                      ..-..                               ..|..|...+....+++.|..++.+..+.|   +..--.+...+
T Consensus       176 ~~eIA-------------------------------qfyCELAq~~~~~~~~d~A~~~l~kAlqa~~~cvRAsi~lG~v~  224 (389)
T COG2956         176 RVEIA-------------------------------QFYCELAQQALASSDVDRARELLKKALQADKKCVRASIILGRVE  224 (389)
T ss_pred             hhHHH-------------------------------HHHHHHHHHHhhhhhHHHHHHHHHHHHhhCccceehhhhhhHHH
Confidence            33221                               123445556666677777777777665432   33344566778


Q ss_pred             HHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHH
Q 005329          488 AEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDA  567 (702)
Q Consensus       488 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A  567 (702)
                      ...|+++.|++.++...+.+..--+.+...|..+|...|+.++....+..+.+.   .+....-..+.+.-....-.+.|
T Consensus       225 ~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~---~~g~~~~l~l~~lie~~~G~~~A  301 (389)
T COG2956         225 LAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMET---NTGADAELMLADLIELQEGIDAA  301 (389)
T ss_pred             HhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHc---cCCccHHHHHHHHHHHhhChHHH
Confidence            888999999999988887643333457778888999999999999998888754   45555555566655555555666


Q ss_pred             HHHH-HhCCCCCCHHHHHHHHHHHH---hcCCHHHHHHHHHHHHHh
Q 005329          568 ENMI-ENMPHQKDDVVWSTLLRACM---VQGDVNCGRHTAEKILEL  609 (702)
Q Consensus       568 ~~~~-~~~~~~p~~~~~~~l~~~~~---~~g~~~~A~~~~~~~~~~  609 (702)
                      ..++ +.+..+|+...+..++..-.   ..|...+....+++++..
T Consensus       302 q~~l~~Ql~r~Pt~~gf~rl~~~~l~daeeg~~k~sL~~lr~mvge  347 (389)
T COG2956         302 QAYLTRQLRRKPTMRGFHRLMDYHLADAEEGRAKESLDLLRDMVGE  347 (389)
T ss_pred             HHHHHHHHhhCCcHHHHHHHHHhhhccccccchhhhHHHHHHHHHH
Confidence            5554 45555899988888888765   344556666666766653

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

Probab=99.36  E-value=1.5e-09  Score=104.83  Aligned_cols=335  Identities=10%  Similarity=-0.037  Sum_probs=193.8

Q ss_pred             HHHHHHHcCCChhHHHHHHHHhhhCCCCCCC-HHHHHHHHHHhhccCCchhhhHHHHHHHHhcCCCc-hhHHHHHHHhhh
Q 005329           77 TLISGYVKAMDSIEALALFSRVWVEPQMNMD-PFILSLALKACALNVNVNYGESLHGYTVKTGFVNS-VFVGSALLDMYT  154 (702)
Q Consensus        77 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~  154 (702)
                      ....-|.++|.+++|+..|.+.+   .+.|+ +.-|.....+|...|+++...+.-...++.+  |+ +.++....+++-
T Consensus       120 ~~GN~~f~~kkY~eAIkyY~~AI---~l~p~epiFYsNraAcY~~lgd~~~Vied~TkALEl~--P~Y~KAl~RRA~A~E  194 (606)
T KOG0547|consen  120 TKGNKFFRNKKYDEAIKYYTQAI---ELCPDEPIFYSNRAACYESLGDWEKVIEDCTKALELN--PDYVKALLRRASAHE  194 (606)
T ss_pred             hhhhhhhhcccHHHHHHHHHHHH---hcCCCCchhhhhHHHHHHHHhhHHHHHHHHHHHhhcC--cHHHHHHHHHHHHHH
Confidence            34456788999999999999998   45777 7778888888999999998888777666654  44 345666667777


Q ss_pred             cCCChhHHHHHhccCCCCCcchHHHHHHHHHhCCChHHHHHHHH--------H-HHHC--CCCCChhhHHHHHHHHhccC
Q 005329          155 KLGKIELGCRVFDEMPLRNVVSWTAIITGLVRAGHNKEGLIYFA--------E-MWRS--KEQGDSYTFAIVLKASADSG  223 (702)
Q Consensus       155 ~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~--------~-m~~~--~~~p~~~~~~~ll~~~~~~~  223 (702)
                      ..|++++|..-.         |-.+++.++..+.-.--+.+++.        + |.++  .+-|+.....+.+..+-..-
T Consensus       195 ~lg~~~eal~D~---------tv~ci~~~F~n~s~~~~~eR~Lkk~a~~ka~e~~k~nr~p~lPS~~fi~syf~sF~~~~  265 (606)
T KOG0547|consen  195 QLGKFDEALFDV---------TVLCILEGFQNASIEPMAERVLKKQAMKKAKEKLKENRPPVLPSATFIASYFGSFHADP  265 (606)
T ss_pred             hhccHHHHHHhh---------hHHHHhhhcccchhHHHHHHHHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHhhccccc
Confidence            788888876532         22222222222211111112221        1 2212  23455554444444332110


Q ss_pred             ChHHHHHHHHHHHHhCCCCchhHHHHHHHHh----hh-CCChHHHHHHHhccC-----CC-----Cc------chHHHHH
Q 005329          224 ALNFGREIHTIMLKRGFDVVSFVANSLATMY----SK-CGKLDYSLRLFERMS-----TR-----DV------ISWTTII  282 (702)
Q Consensus       224 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~----~~-~g~~~~A~~~~~~~~-----~~-----~~------~~~~~li  282 (702)
                      .            .....+.......+..++    .. ...+..|...+.+-.     .+     |.      .+...-.
T Consensus       266 ~------------~~~~~~~~ksDa~l~~~l~~l~~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~le~~A~al~~~g  333 (606)
T KOG0547|consen  266 K------------PLFDNKSDKSDAALAEALEALEKGLEEGYLKAYDKATEECLGSESSLSVNEIDAELEYMAEALLLRG  333 (606)
T ss_pred             c------------ccccCCCccchhhHHHHHHHHHhhCchhHHHHHHHHHHHhhhhhhhccccccchhHHHHHHHHHHhh
Confidence            0            000000000111111111    10 001222222221110     01     11      1111111


Q ss_pred             HHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHH
Q 005329          283 TSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLT  362 (702)
Q Consensus       283 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  362 (702)
                      ..+.-.|+.-.|..-|+..+.....++. .|.-+...|....+.++..+.|....+.+ +.++.+|..-..++.-.++++
T Consensus       334 tF~fL~g~~~~a~~d~~~~I~l~~~~~~-lyI~~a~~y~d~~~~~~~~~~F~~A~~ld-p~n~dvYyHRgQm~flL~q~e  411 (606)
T KOG0547|consen  334 TFHFLKGDSLGAQEDFDAAIKLDPAFNS-LYIKRAAAYADENQSEKMWKDFNKAEDLD-PENPDVYYHRGQMRFLLQQYE  411 (606)
T ss_pred             hhhhhcCCchhhhhhHHHHHhcCcccch-HHHHHHHHHhhhhccHHHHHHHHHHHhcC-CCCCchhHhHHHHHHHHHHHH
Confidence            2234467888888888888876433222 26667777888888888888888888776 445566666667777778888


Q ss_pred             HHHHHHhcCCCC---ChhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHH
Q 005329          363 STSIVFHGMIRR---DIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMS  439 (702)
Q Consensus       363 ~a~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  439 (702)
                      .|..-|++.+.-   ++..|..+.-+.-+.+++++++..|++..+. ++--+..|+.....+...++++.|.+.++..++
T Consensus       412 ~A~aDF~Kai~L~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~  490 (606)
T KOG0547|consen  412 EAIADFQKAISLDPENAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIE  490 (606)
T ss_pred             HHHHHHHHHhhcChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHh
Confidence            888888877543   4456666666666778888888888887765 444455677777777777777777777777765


Q ss_pred             h
Q 005329          440 I  440 (702)
Q Consensus       440 ~  440 (702)
                      .
T Consensus       491 L  491 (606)
T KOG0547|consen  491 L  491 (606)
T ss_pred             h
Confidence            4

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

Probab=99.35  E-value=1.9e-09  Score=101.90  Aligned_cols=277  Identities=15%  Similarity=0.135  Sum_probs=183.2

Q ss_pred             cCCHHHHHHHHhcCCCC---ChhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHH
Q 005329          358 CGQLTSTSIVFHGMIRR---DIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIH  434 (702)
Q Consensus       358 ~g~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~  434 (702)
                      .|++.+|++...+-.+.   ....|..-+.+--+.|+.+.+-.++.+..+.--.++.....+........|+.+.|..-.
T Consensus        97 eG~~~qAEkl~~rnae~~e~p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~v  176 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQPVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAARENV  176 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcchHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHHH
Confidence            34555555554443221   222333333444455666666666666655322334444444445555566666666655


Q ss_pred             HHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCCC-----------CHHHHHHHHHHHHHcCChHHHHHHHHHc
Q 005329          435 AHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETESD-----------DIVSWTAMINGYAEHGYSQEAIHLFEKV  503 (702)
Q Consensus       435 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-----------~~~~~~~li~~~~~~g~~~~A~~~~~~m  503 (702)
                      ..+.+.+.. .+.......++|.+.|++.....++.++.+.           ...+|+.++.-....+..+.-...|+..
T Consensus       177 ~~ll~~~pr-~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~~  255 (400)
T COG3071         177 DQLLEMTPR-HPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKNQ  255 (400)
T ss_pred             HHHHHhCcC-ChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHhc
Confidence            555554422 3444555666677777777777666666542           1236777777666666666666677776


Q ss_pred             hhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHH
Q 005329          504 PMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDV  581 (702)
Q Consensus       504 ~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~  581 (702)
                      ... .+-++..-.+++.-+.+.|+.++|.++..+..++ +.+|+   ...++ ...+-++.+.-.+..+...+  +.++.
T Consensus       256 pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~-~~D~~---L~~~~-~~l~~~d~~~l~k~~e~~l~~h~~~p~  329 (400)
T COG3071         256 PRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKR-QWDPR---LCRLI-PRLRPGDPEPLIKAAEKWLKQHPEDPL  329 (400)
T ss_pred             cHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHh-ccChh---HHHHH-hhcCCCCchHHHHHHHHHHHhCCCChh
Confidence            653 4556666777888889999999999999988877 66665   22222 33455666655555555444  23457


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 005329          582 VWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRS  642 (702)
Q Consensus       582 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  642 (702)
                      .+.+|+..|.+++.+.+|.+.++.+++..| +...|..++.++.+.|+.++|.+.+++...
T Consensus       330 L~~tLG~L~~k~~~w~kA~~~leaAl~~~~-s~~~~~~la~~~~~~g~~~~A~~~r~e~L~  389 (400)
T COG3071         330 LLSTLGRLALKNKLWGKASEALEAALKLRP-SASDYAELADALDQLGEPEEAEQVRREALL  389 (400)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHhcCC-ChhhHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence            889999999999999999999999999999 899999999999999999999999988764

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.35  E-value=2e-08  Score=102.76  Aligned_cols=398  Identities=14%  Similarity=0.106  Sum_probs=262.1

Q ss_pred             hCCCCchhHHHHHHHHhhhCCChHHHHHHHhccCC---CCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHH
Q 005329          238 RGFDVVSFVANSLATMYSKCGKLDYSLRLFERMST---RDVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFA  314 (702)
Q Consensus       238 ~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~  314 (702)
                      ..+.-|..+|..|.-+...+|+++.+-+.|++...   .....|+.+...|...|.-..|..+++.-....-.|+..+-.
T Consensus       317 ~~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~~  396 (799)
T KOG4162|consen  317 KKFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSFGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISVL  396 (799)
T ss_pred             hhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchHH
Confidence            34566888899999999999999999999998763   245679999999999999999999998876543335444443


Q ss_pred             HHHHH-H-HccCchHHHHHHHHHHHHh--CC--CCchHHHHHHHHHHHhc-----------CCHHHHHHHHhcCCCC---
Q 005329          315 AIISA-S-ANLARIQWGEQLHAHVLRL--GL--VDSLSVANSIMAMYSKC-----------GQLTSTSIVFHGMIRR---  374 (702)
Q Consensus       315 ~ll~~-~-~~~~~~~~a~~~~~~~~~~--~~--~~~~~~~~~l~~~~~~~-----------g~~~~a~~~~~~~~~~---  374 (702)
                      .++.. | -+.+..+++..+-..+.+.  +.  ......+..+.-+|...           ....++...+++..+.   
T Consensus       397 Lmasklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d~~  476 (799)
T KOG4162|consen  397 LMASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFDPT  476 (799)
T ss_pred             HHHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcCCC
Confidence            33333 3 2456677777666666552  11  12334455555555432           1134556666666332   


Q ss_pred             ChhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHH-hCCCCChhHHHHHH
Q 005329          375 DIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMS-IGLERTAMIKSALI  453 (702)
Q Consensus       375 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~li  453 (702)
                      |..+.-.+.--|+..++.+.|++..++..+.+..-+...+..+.-.+...+++..|+.+.+.... .|.+...  ...-+
T Consensus       477 dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~~~N~~l--~~~~~  554 (799)
T KOG4162|consen  477 DPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGDNHVL--MDGKI  554 (799)
T ss_pred             CchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhhhhh--chhhh
Confidence            33333345556777889999999999999887777888888888888889999999998776654 2221110  01111


Q ss_pred             HHHHhcCCHHHHHHH-------Hh-------------------hCC----CC--CHHHHHHHHHHHHHcCChHHHHHHHH
Q 005329          454 NMYSKCGSIKEASQI-------FY-------------------ETE----SD--DIVSWTAMINGYAEHGYSQEAIHLFE  501 (702)
Q Consensus       454 ~~~~~~g~~~~A~~~-------~~-------------------~~~----~~--~~~~~~~li~~~~~~g~~~~A~~~~~  501 (702)
                      ..-..-++.+++...       |+                   .+.    ++  .+.++..+..-...  +...+..-. 
T Consensus       555 ~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~--~~~~~~se~-  631 (799)
T KOG4162|consen  555 HIELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVAS--QLKSAGSEL-  631 (799)
T ss_pred             hhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHh--hhhhccccc-
Confidence            111223444444332       22                   111    00  11122222211111  111110000 


Q ss_pred             HchhCCCCCCHH--------HHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHH
Q 005329          502 KVPMVGLRPDSV--------TFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIE  572 (702)
Q Consensus       502 ~m~~~g~~p~~~--------~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~  572 (702)
                      .+......|...        .|......+...+..++|...+.++.   ++.|- ...|.-.+..+...|.+++|.+.|.
T Consensus       632 ~Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~---~~~~l~~~~~~~~G~~~~~~~~~~EA~~af~  708 (799)
T KOG4162|consen  632 KLPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEAS---KIDPLSASVYYLRGLLLEVKGQLEEAKEAFL  708 (799)
T ss_pred             ccCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHH---hcchhhHHHHHHhhHHHHHHHhhHHHHHHHH
Confidence            022222223221        23445556778888899988887775   34554 7777777888999999999999999


Q ss_pred             hCCC-CC-CHHHHHHHHHHHHhcCCHHHHHH--HHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 005329          573 NMPH-QK-DDVVWSTLLRACMVQGDVNCGRH--TAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSK  643 (702)
Q Consensus       573 ~~~~-~p-~~~~~~~l~~~~~~~g~~~~A~~--~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  643 (702)
                      .... .| ++.+..+++..+.+.|+...|..  ++..+++.+|.++..|..||.++.+.|+.++|.+.|....+.
T Consensus       709 ~Al~ldP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qL  783 (799)
T KOG4162|consen  709 VALALDPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVFKKLGDSKQAAECFQAALQL  783 (799)
T ss_pred             HHHhcCCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHccchHHHHHHHHHHHhh
Confidence            8877 45 56788999999999999888888  999999999999999999999999999999999999988763

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.35  E-value=7.2e-07  Score=93.74  Aligned_cols=583  Identities=12%  Similarity=0.094  Sum_probs=325.9

Q ss_pred             hhccCcccccccc--ccCcccCchhhhhHHHHHHccCChHHHHHHhhcCC-CCCcchHHHHHHHHHcCCChhHHHHHHHH
Q 005329           21 CTERRPLLLFQGT--QLPVYVSTPEVNSQLKHLVKSGYLHDARKMFDTMT-QRDEISWTTLISGYVKAMDSIEALALFSR   97 (702)
Q Consensus        21 ~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~~~~~ll~~~~~~~~~~~a~~~~~~   97 (702)
                      |-++.+++...+.  .+..+.-..+.+..+..|+..|.++++.-...+.- +||   |-.+++...+ -.++.+.++...
T Consensus       459 SEELGDlVK~~d~~lAL~iYlrAnvp~KVi~cfAE~Gqf~KiilY~kKvGyTPd---ymflLq~l~r-~sPD~~~qFa~~  534 (1666)
T KOG0985|consen  459 SEELGDLVKPYDTTLALSIYLRANVPAKVIQCFAETGQFKKIILYAKKVGYTPD---YMFLLQQLKR-SSPDQALQFAMM  534 (1666)
T ss_pred             hHHhcCccccCCchHHHHHHHHcCCcHHHHHHHHHhcchhHHHHHHHHcCCCcc---HHHHHHHHHc-cChhHHHHHHHH
Confidence            3344555544443  33445566667888999999999999887776653 344   5566666655 578888888877


Q ss_pred             hhhCCCCCCCHHHHHHHHHHhhccCCchhhhH-------------------HHHHHHHhcC----------CCchhHHHH
Q 005329           98 VWVEPQMNMDPFILSLALKACALNVNVNYGES-------------------LHGYTVKTGF----------VNSVFVGSA  148 (702)
Q Consensus        98 ~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~-------------------~~~~~~~~~~----------~~~~~~~~~  148 (702)
                      +.+..+   ...-.+.+...+...+....+..                   +++.-...++          ..+.+.+..
T Consensus       535 l~Q~~~---~~~die~I~DlFme~N~iQq~TSFLLdaLK~~~Pd~g~LQTrLLE~NL~~aPqVADAILgN~mFtHyDra~  611 (1666)
T KOG0985|consen  535 LVQDEE---PLADIEQIVDLFMELNLIQQCTSFLLDALKLNSPDEGHLQTRLLEMNLVHAPQVADAILGNDMFTHYDRAE  611 (1666)
T ss_pred             hhccCC---CcccHHHHHHHHHHHHhhhhhHHHHHHHhcCCChhhhhHHHHHHHHHhccchHHHHHHHhccccccccHHH
Confidence            776533   22223333333333222222222                   2222111111          111223566


Q ss_pred             HHHhhhcCCChhHHHHHhccCCC--CCcchHH----HHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhcc
Q 005329          149 LLDMYTKLGKIELGCRVFDEMPL--RNVVSWT----AIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADS  222 (702)
Q Consensus       149 li~~~~~~g~~~~A~~~~~~~~~--~~~~~~~----~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~  222 (702)
                      +.+.|.+.|-...|++.+..+..  +.++.-+    .-+-.|...-.++.+.+.++.|...++.-|..+...+..-|...
T Consensus       612 IAqLCEKAGL~qraLehytDl~DIKR~vVhth~L~pEwLv~yFg~lsve~s~eclkaml~~NirqNlQi~VQvatky~eq  691 (1666)
T KOG0985|consen  612 IAQLCEKAGLLQRALEHYTDLYDIKRVVVHTHLLNPEWLVNYFGSLSVEDSLECLKAMLSANIRQNLQIVVQVATKYHEQ  691 (1666)
T ss_pred             HHHHHHhcchHHHHHHhcccHHHHHHHHHHhccCCHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            67778888988889888887651  2111111    11234555567888888899988887777777766666656555


Q ss_pred             CChHHHHHHHHHHHHh-----------CCCCchhHHHHHHHHhhhCCChHHHHHHHhccCC-------------------
Q 005329          223 GALNFGREIHTIMLKR-----------GFDVVSFVANSLATMYSKCGKLDYSLRLFERMST-------------------  272 (702)
Q Consensus       223 ~~~~~a~~~~~~~~~~-----------~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-------------------  272 (702)
                      =-.+...++|+....-           ++..|+.+.-..|.+.++.|++.+.+++.++-.-                   
T Consensus       692 lg~~~li~lFE~fks~eGL~yfLgSivn~seDpevh~KYIqAA~kt~QikEvERicresn~YdpErvKNfLkeAkL~Dql  771 (1666)
T KOG0985|consen  692 LGAQALIELFESFKSYEGLYYFLGSIVNFSEDPEVHFKYIQAACKTGQIKEVERICRESNCYDPERVKNFLKEAKLTDQL  771 (1666)
T ss_pred             hCHHHHHHHHHhhccchhHHHHHHHHhccccCchHHHHHHHHHHhhccHHHHHHHHhccccCCHHHHHHHHHhccccccC
Confidence            5555666666665542           2455666667788888999988888887764320                   


Q ss_pred             C------------CcchH------HHHHHHHHhc----------------------------------------------
Q 005329          273 R------------DVISW------TTIITSYVQM----------------------------------------------  288 (702)
Q Consensus       273 ~------------~~~~~------~~li~~~~~~----------------------------------------------  288 (702)
                      |            |.+.|      ...|..|.+.                                              
T Consensus       772 PLiiVCDRf~fVhdlvlYLyrnn~~kyIE~yVQkvNps~~p~VvG~LLD~dC~E~~ik~Li~~v~gq~~~deLv~EvEkR  851 (1666)
T KOG0985|consen  772 PLIIVCDRFDFVHDLVLYLYRNNLQKYIEIYVQKVNPSRTPQVVGALLDVDCSEDFIKNLILSVRGQFPVDELVEEVEKR  851 (1666)
T ss_pred             ceEEEecccccHHHHHHHHHHhhHHHHHHHHHhhcCCcccchhhhhhhcCCCcHHHHHHHHHHHhccCChHHHHHHHHhh
Confidence            0            11111      1122233332                                              


Q ss_pred             CChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCc-hHHHH---------HHHHHHHHh-----------C-------
Q 005329          289 GEEENAFDAFVRMQESDVKPNEYTFAAIISASANLAR-IQWGE---------QLHAHVLRL-----------G-------  340 (702)
Q Consensus       289 g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~-~~~a~---------~~~~~~~~~-----------~-------  340 (702)
                      ++..--..+++.....| ..|..|++.+...|...++ ++.-.         -+-+...+.           |       
T Consensus       852 NRLklLlp~LE~~i~eG-~~d~a~hnAlaKIyIDSNNnPE~fLkeN~yYDs~vVGkYCEKRDP~lA~vaYerGqcD~elI  930 (1666)
T KOG0985|consen  852 NRLKLLLPWLESLIQEG-SQDPATHNALAKIYIDSNNNPERFLKENPYYDSKVVGKYCEKRDPHLACVAYERGQCDLELI  930 (1666)
T ss_pred             hhHHHHHHHHHHHHhcc-CcchHHHhhhhheeecCCCChHHhcccCCcchhhHHhhhhcccCCceEEEeecccCCcHHHH
Confidence            22222333334444444 2455556555555443332 11110         000000000           0       


Q ss_pred             -CCCchHHHHHHHHHHHhcCCHHHHHHHHhcC-----------------CCCChhhHHHHHHHHHcCCChHHHHHHHHHH
Q 005329          341 -LVDSLSVANSIMAMYSKCGQLTSTSIVFHGM-----------------IRRDIISWSTIIGGYSQGGYEEEAFEYLALM  402 (702)
Q Consensus       341 -~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~-----------------~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  402 (702)
                       +....+.|....+.+.+..+.+-=.+++.+-                 ...|+...+..+.++...+-+.+-++++++.
T Consensus       931 ~vcNeNSlfK~~aRYlv~R~D~~LW~~VL~e~n~~rRqLiDqVv~tal~E~~dPe~vS~tVkAfMtadLp~eLIELLEKI 1010 (1666)
T KOG0985|consen  931 NVCNENSLFKSQARYLVERSDPDLWAKVLNEENPYRRQLIDQVVQTALPETQDPEEVSVTVKAFMTADLPNELIELLEKI 1010 (1666)
T ss_pred             HhcCchhHHHHHHHHHHhccChHHHHHHHhccChHHHHHHHHHHHhcCCccCChHHHHHHHHHHHhcCCcHHHHHHHHHH
Confidence             0111223333333344444433322332111                 1114445556667777777777777777776


Q ss_pred             HHCCCC--CCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCC-------
Q 005329          403 RREGPR--PNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETE-------  473 (702)
Q Consensus       403 ~~~g~~--p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~-------  473 (702)
                      .-.+..  -+...-+.++-. +-..+...+.+..+.+..... |+      +.......+-+++|..+|++..       
T Consensus      1011 vL~~S~Fse~~nLQnLLiLt-Aikad~trVm~YI~rLdnyDa-~~------ia~iai~~~LyEEAF~ifkkf~~n~~A~~ 1082 (1666)
T KOG0985|consen 1011 VLDNSVFSENRNLQNLLILT-AIKADRTRVMEYINRLDNYDA-PD------IAEIAIENQLYEEAFAIFKKFDMNVSAIQ 1082 (1666)
T ss_pred             hcCCcccccchhhhhhHHHH-HhhcChHHHHHHHHHhccCCc-hh------HHHHHhhhhHHHHHHHHHHHhcccHHHHH
Confidence            532211  111111111111 111222222222222222111 00      1112222233344444443321       


Q ss_pred             ------------------CCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHH
Q 005329          474 ------------------SDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYF  535 (702)
Q Consensus       474 ------------------~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~  535 (702)
                                        -..+..|..+..+-.+.|...+|++-|=+      .-|+..|..++..+.+.|.+++-..++
T Consensus      1083 VLie~i~~ldRA~efAe~~n~p~vWsqlakAQL~~~~v~dAieSyik------adDps~y~eVi~~a~~~~~~edLv~yL 1156 (1666)
T KOG0985|consen 1083 VLIENIGSLDRAYEFAERCNEPAVWSQLAKAQLQGGLVKDAIESYIK------ADDPSNYLEVIDVASRTGKYEDLVKYL 1156 (1666)
T ss_pred             HHHHHhhhHHHHHHHHHhhCChHHHHHHHHHHHhcCchHHHHHHHHh------cCCcHHHHHHHHHHHhcCcHHHHHHHH
Confidence                              02456799999999999999999988744      236678999999999999999999999


Q ss_pred             HHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCch
Q 005329          536 NLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPHQKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAG  615 (702)
Q Consensus       536 ~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~  615 (702)
                      ....++ .-+|.+.  +.|+-+|++.++..+-++++.    -|+..-...+++-|...|.++.|.-+|.        +.+
T Consensus      1157 ~MaRkk-~~E~~id--~eLi~AyAkt~rl~elE~fi~----gpN~A~i~~vGdrcf~~~~y~aAkl~y~--------~vS 1221 (1666)
T KOG0985|consen 1157 LMARKK-VREPYID--SELIFAYAKTNRLTELEEFIA----GPNVANIQQVGDRCFEEKMYEAAKLLYS--------NVS 1221 (1666)
T ss_pred             HHHHHh-hcCccch--HHHHHHHHHhchHHHHHHHhc----CCCchhHHHHhHHHhhhhhhHHHHHHHH--------Hhh
Confidence            888666 5566554  568999999999988776653    5788888889999999999998888776        455


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHH
Q 005329          616 THITLANIYAAKGRWREAAEVRKMM  640 (702)
Q Consensus       616 ~~~~l~~~~~~~g~~~~A~~~~~~~  640 (702)
                      .|..|+..+...|.+..|...-.++
T Consensus      1222 N~a~La~TLV~LgeyQ~AVD~aRKA 1246 (1666)
T KOG0985|consen 1222 NFAKLASTLVYLGEYQGAVDAARKA 1246 (1666)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            6777888888888887776554443

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.33  E-value=5.3e-10  Score=113.58  Aligned_cols=231  Identities=16%  Similarity=0.204  Sum_probs=170.1

Q ss_pred             HHHHHHHHHHcccCcHHHHHHHHHHHHHh-----CC-CCC-hhHHHHHHHHHHhcCCHHHHHHHHhhCCC----------
Q 005329          412 FAFASVLSVCGNMAILEQGKQIHAHVMSI-----GL-ERT-AMIKSALINMYSKCGSIKEASQIFYETES----------  474 (702)
Q Consensus       412 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----~~-~~~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~----------  474 (702)
                      .+...+...|...|+++.|..+++...+.     |. .|. ..+.+.+...|...+++.+|..+|+++..          
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            35555667777777777777777666553     21 111 12334467788888888888888887652          


Q ss_pred             C-CHHHHHHHHHHHHHcCChHHHHHHHHHchh-----CCCC-CCH-HHHHHHHHHHhccCcHHHHHHHHHHhHHhhC--C
Q 005329          475 D-DIVSWTAMINGYAEHGYSQEAIHLFEKVPM-----VGLR-PDS-VTFMGVLTACSHAGLVDLGFHYFNLMSDKYG--F  544 (702)
Q Consensus       475 ~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~g~~-p~~-~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~--~  544 (702)
                      | -..+++.|..+|.+.|++++|...+++..+     .|.. |.. ..++.+...|...+.+++|..++....+.+.  .
T Consensus       280 ~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~  359 (508)
T KOG1840|consen  280 PAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAP  359 (508)
T ss_pred             HHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhc
Confidence            1 234778888889999999988877776543     1222 222 2466777788999999999999988765543  2


Q ss_pred             CCC----hhhHHHHHHHHHhcCCHHHHHHHHHhCCC-------C--C-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh-
Q 005329          545 VPS----KEHYGCMIDLLCRAGRLSDAENMIENMPH-------Q--K-DDVVWSTLLRACMVQGDVNCGRHTAEKILEL-  609 (702)
Q Consensus       545 ~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-------~--p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-  609 (702)
                      .++    ..+++.|...|...|++++|.++++++..       +  + ....++.+...|.+.+++.+|.++|.+...+ 
T Consensus       360 g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~  439 (508)
T KOG1840|consen  360 GEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIM  439 (508)
T ss_pred             cccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHH
Confidence            222    56789999999999999999999998765       1  1 2457788999999999999999999988764 


Q ss_pred             ---CCC---CchhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 005329          610 ---HPS---CAGTHITLANIYAAKGRWREAAEVRKMMRS  642 (702)
Q Consensus       610 ---~p~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  642 (702)
                         +|+   -..+|.+|+.+|.++|++++|.++.+.+..
T Consensus       440 ~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~~  478 (508)
T KOG1840|consen  440 KLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVLN  478 (508)
T ss_pred             HHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence               344   456888999999999999999999988763

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.33  E-value=6.8e-09  Score=96.07  Aligned_cols=233  Identities=9%  Similarity=0.005  Sum_probs=108.3

Q ss_pred             hhcCCChhHHHHHhccCC---CCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhccCChHHHH
Q 005329          153 YTKLGKIELGCRVFDEMP---LRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSGALNFGR  229 (702)
Q Consensus       153 ~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~  229 (702)
                      +.+.|++++|...+..+.   .++...+--|.-.+.-.|.+.+|..+-...     +-++-.-..++...-+.++-++-.
T Consensus        67 ~fhLgdY~~Al~~Y~~~~~~~~~~~el~vnLAcc~FyLg~Y~eA~~~~~ka-----~k~pL~~RLlfhlahklndEk~~~  141 (557)
T KOG3785|consen   67 YFHLGDYEEALNVYTFLMNKDDAPAELGVNLACCKFYLGQYIEAKSIAEKA-----PKTPLCIRLLFHLAHKLNDEKRIL  141 (557)
T ss_pred             HHhhccHHHHHHHHHHHhccCCCCcccchhHHHHHHHHHHHHHHHHHHhhC-----CCChHHHHHHHHHHHHhCcHHHHH
Confidence            345555555555554433   233344444444444445555555444332     112222222333333444444444


Q ss_pred             HHHHHHHHhCCCCchhHHHHHHHHhhhCCChHHHHHHHhccCC--CCcchHHHH-HHHHHhcCChhHHHHHHHHHHHCCC
Q 005329          230 EIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMST--RDVISWTTI-ITSYVQMGEEENAFDAFVRMQESDV  306 (702)
Q Consensus       230 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~l-i~~~~~~g~~~~a~~~~~~m~~~g~  306 (702)
                      .+.+.+.+.     ..-.-+|.+..-..-.+++|.+++.++..  |+-...|.. .-+|.+..-++-+.+++.--...  
T Consensus       142 ~fh~~LqD~-----~EdqLSLAsvhYmR~HYQeAIdvYkrvL~dn~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q--  214 (557)
T KOG3785|consen  142 TFHSSLQDT-----LEDQLSLASVHYMRMHYQEAIDVYKRVLQDNPEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQ--  214 (557)
T ss_pred             HHHHHHhhh-----HHHHHhHHHHHHHHHHHHHHHHHHHHHHhcChhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHh--
Confidence            444433321     11122333333333456777777776653  333344443 34566777777777777666554  


Q ss_pred             CCCh-hhHHHHHHHHHccCchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhc-----CCHHHHHHHHhcCCCCChhhHH
Q 005329          307 KPNE-YTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKC-----GQLTSTSIVFHGMIRRDIISWS  380 (702)
Q Consensus       307 ~p~~-~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----g~~~~a~~~~~~~~~~~~~~~~  380 (702)
                      .||+ ...+.......+.=+-..+++-.+.+.+.+-..    | -.+.-.++.     .+-+.|+.++-.+...=+.+--
T Consensus       215 ~pdStiA~NLkacn~fRl~ngr~ae~E~k~ladN~~~~----~-~f~~~l~rHNLVvFrngEgALqVLP~L~~~IPEARl  289 (557)
T KOG3785|consen  215 FPDSTIAKNLKACNLFRLINGRTAEDEKKELADNIDQE----Y-PFIEYLCRHNLVVFRNGEGALQVLPSLMKHIPEARL  289 (557)
T ss_pred             CCCcHHHHHHHHHHHhhhhccchhHHHHHHHHhccccc----c-hhHHHHHHcCeEEEeCCccHHHhchHHHhhChHhhh
Confidence            3333 333333333333323333333333333322111    0 011222222     2335566665554433333444


Q ss_pred             HHHHHHHcCCChHHHHHHHHHH
Q 005329          381 TIIGGYSQGGYEEEAFEYLALM  402 (702)
Q Consensus       381 ~li~~~~~~g~~~~a~~~~~~m  402 (702)
                      .|+--|.+++++.+|..+.+++
T Consensus       290 NL~iYyL~q~dVqeA~~L~Kdl  311 (557)
T KOG3785|consen  290 NLIIYYLNQNDVQEAISLCKDL  311 (557)
T ss_pred             hheeeecccccHHHHHHHHhhc
Confidence            5666678888888888887765

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.33  E-value=2.1e-08  Score=102.62  Aligned_cols=308  Identities=13%  Similarity=0.034  Sum_probs=192.6

Q ss_pred             hHHHHHHHHHHHCC-CCCChhhHHHHHHHHHccCchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHhc
Q 005329          292 ENAFDAFVRMQESD-VKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHG  370 (702)
Q Consensus       292 ~~a~~~~~~m~~~g-~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  370 (702)
                      .++++.+++..+.+ -.|+...|..  --++..++++.|.+..++..+.+-..+...|..|.-.+...+++.+|+.+.+.
T Consensus       461 ~kslqale~av~~d~~dp~~if~la--lq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~  538 (799)
T KOG4162|consen  461 KKSLQALEEAVQFDPTDPLVIFYLA--LQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDA  538 (799)
T ss_pred             HHHHHHHHHHHhcCCCCchHHHHHH--HHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHH
Confidence            46777777776654 2333333333  34566778888888888888887777888888888888888888888888776


Q ss_pred             CCCCChhhHH---HHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHH--hCCCCC
Q 005329          371 MIRRDIISWS---TIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMS--IGLERT  445 (702)
Q Consensus       371 ~~~~~~~~~~---~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~--~~~~~~  445 (702)
                      ....-...++   .-+..-..-++.++++.....+..-  --+...+..       .++-....+....+.-  ......
T Consensus       539 al~E~~~N~~l~~~~~~i~~~~~~~e~~l~t~~~~L~~--we~~~~~q~-------~~~~g~~~~lk~~l~la~~q~~~a  609 (799)
T KOG4162|consen  539 ALEEFGDNHVLMDGKIHIELTFNDREEALDTCIHKLAL--WEAEYGVQQ-------TLDEGKLLRLKAGLHLALSQPTDA  609 (799)
T ss_pred             HHHHhhhhhhhchhhhhhhhhcccHHHHHHHHHHHHHH--HHhhhhHhh-------hhhhhhhhhhhcccccCccccccc
Confidence            5332111111   1122222346666666666555431  000000000       0111111111111110  011112


Q ss_pred             hhHHHHHHHHHH---hcCCHHHHHHHHhhCCCCC------HHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHH
Q 005329          446 AMIKSALINMYS---KCGSIKEASQIFYETESDD------IVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFM  516 (702)
Q Consensus       446 ~~~~~~li~~~~---~~g~~~~A~~~~~~~~~~~------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~  516 (702)
                      +.++..+.....   +.-..+..+..+...+.|+      ...|......+.+.+..++|...+.+.... .+.....|.
T Consensus       610 ~s~sr~ls~l~a~~~~~~~se~~Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~-~~l~~~~~~  688 (799)
T KOG4162|consen  610 ISTSRYLSSLVASQLKSAGSELKLPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKI-DPLSASVYY  688 (799)
T ss_pred             chhhHHHHHHHHhhhhhcccccccCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhc-chhhHHHHH
Confidence            222322222211   1111112222222222233      235667778888999999999888887753 233456777


Q ss_pred             HHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHH--HHHhCCC--CCCHHHHHHHHHHHH
Q 005329          517 GVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAEN--MIENMPH--QKDDVVWSTLLRACM  591 (702)
Q Consensus       517 ~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~--~~~~~~~--~p~~~~~~~l~~~~~  591 (702)
                      .....+...|...+|.+.|....   -+.|+ +.+..++..++.+.|+..-|..  ++.++.+  +.+...|..++..+.
T Consensus       689 ~~G~~~~~~~~~~EA~~af~~Al---~ldP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v~k  765 (799)
T KOG4162|consen  689 LRGLLLEVKGQLEEAKEAFLVAL---ALDPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVFK  765 (799)
T ss_pred             HhhHHHHHHHhhHHHHHHHHHHH---hcCCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHHH
Confidence            77778888999999999999887   67887 8889999999999998877777  8998887  446889999999999


Q ss_pred             hcCCHHHHHHHHHHHHHhCCCCc
Q 005329          592 VQGDVNCGRHTAEKILELHPSCA  614 (702)
Q Consensus       592 ~~g~~~~A~~~~~~~~~~~p~~~  614 (702)
                      +.|+.+.|.+.|..++++.+.+|
T Consensus       766 ~~Gd~~~Aaecf~aa~qLe~S~P  788 (799)
T KOG4162|consen  766 KLGDSKQAAECFQAALQLEESNP  788 (799)
T ss_pred             HccchHHHHHHHHHHHhhccCCC
Confidence            99999999999999999987665

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.31  E-value=2.4e-08  Score=94.50  Aligned_cols=305  Identities=10%  Similarity=-0.032  Sum_probs=200.4

Q ss_pred             CCChhhHHHHHHHHHc--cCchHHHHHHHHHHHH-hCCCCchHHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhh---HH
Q 005329          307 KPNEYTFAAIISASAN--LARIQWGEQLHAHVLR-LGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIRRDIIS---WS  380 (702)
Q Consensus       307 ~p~~~t~~~ll~~~~~--~~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~---~~  380 (702)
                      .|...+....+.+++.  .++-..+...+-.+.. .-++.+......+.+.+...|+.++|+..|++...-|+.+   ..
T Consensus       191 ~~~~dwls~wika~Aq~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~dpy~i~~MD  270 (564)
T KOG1174|consen  191 PDHFDWLSKWIKALAQMFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCANPDNVEAMD  270 (564)
T ss_pred             CCCccHHHHHHHHHHHHHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCChhhhhhHH
Confidence            4444455555555433  3444444444444433 3356677888888999999999999999998874443332   22


Q ss_pred             HHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcC
Q 005329          381 TIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCG  460 (702)
Q Consensus       381 ~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  460 (702)
                      .....+.+.|+.++...+...+....- -....|-.-........+++.|..+-+..++.... +...+-.-...+...|
T Consensus       271 ~Ya~LL~~eg~~e~~~~L~~~Lf~~~~-~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~~r-~~~alilKG~lL~~~~  348 (564)
T KOG1174|consen  271 LYAVLLGQEGGCEQDSALMDYLFAKVK-YTASHWFVHAQLLYDEKKFERALNFVEKCIDSEPR-NHEALILKGRLLIALE  348 (564)
T ss_pred             HHHHHHHhccCHhhHHHHHHHHHhhhh-cchhhhhhhhhhhhhhhhHHHHHHHHHHHhccCcc-cchHHHhccHHHHhcc
Confidence            233445677888887777777654321 11122222223334556777777777777665432 3333434455667788


Q ss_pred             CHHHHHHHHhhCC--C-CCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHH-HHH-hccCcHHHHHHHH
Q 005329          461 SIKEASQIFYETE--S-DDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVL-TAC-SHAGLVDLGFHYF  535 (702)
Q Consensus       461 ~~~~A~~~~~~~~--~-~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll-~~~-~~~g~~~~A~~~~  535 (702)
                      ++++|.-.|+...  . -+..+|..|+.+|...|++.+|.-+-+..... ++.+..+...+. ..| .....-++|..++
T Consensus       349 R~~~A~IaFR~Aq~Lap~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~  427 (564)
T KOG1174|consen  349 RHTQAVIAFRTAQMLAPYRLEIYRGLFHSYLAQKRFKEANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKFA  427 (564)
T ss_pred             chHHHHHHHHHHHhcchhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHHH
Confidence            8888888887654  2 47788888888888888888887776665543 344455555442 233 2334457788888


Q ss_pred             HHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCC
Q 005329          536 NLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH-QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSC  613 (702)
Q Consensus       536 ~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~  613 (702)
                      +...   .+.|+ ....+.+...+...|..++++.++++... .||....+.|++.+...+.+.+|.+.|..++.++|++
T Consensus       428 ek~L---~~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~dP~~  504 (564)
T KOG1174|consen  428 EKSL---KINPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLIIFPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQDPKS  504 (564)
T ss_pred             Hhhh---ccCCccHHHHHHHHHHHHhhCccchHHHHHHHHHhhccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCccc
Confidence            8765   56777 66777788888888888888888888776 6888888888888888888888888888888888866


Q ss_pred             chhH
Q 005329          614 AGTH  617 (702)
Q Consensus       614 ~~~~  617 (702)
                      ..+.
T Consensus       505 ~~sl  508 (564)
T KOG1174|consen  505 KRTL  508 (564)
T ss_pred             hHHH
Confidence            5443

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=99.28  E-value=8.2e-10  Score=96.47  Aligned_cols=163  Identities=17%  Similarity=0.181  Sum_probs=144.4

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHH
Q 005329          479 SWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDL  557 (702)
Q Consensus       479 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~  557 (702)
                      +...|.-.|...|++..|..-+++..+.. +-+..++..+...|.+.|..+.|.+.|+++.   .+.|+ ..+.|.....
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAl---sl~p~~GdVLNNYG~F  112 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKAL---SLAPNNGDVLNNYGAF  112 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHH---hcCCCccchhhhhhHH
Confidence            45567788999999999999999999853 3345688889999999999999999999987   45776 8888999999


Q ss_pred             HHhcCCHHHHHHHHHhCCCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHH
Q 005329          558 LCRAGRLSDAENMIENMPHQKD----DVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREA  633 (702)
Q Consensus       558 ~~~~g~~~~A~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A  633 (702)
                      +|..|++++|...|+++...|.    ..+|..++....+.|+.+.|.+.+++.++.+|+++.....++....+.|++-.|
T Consensus       113 LC~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~~~~~~l~~a~~~~~~~~y~~A  192 (250)
T COG3063         113 LCAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQFPPALLELARLHYKAGDYAPA  192 (250)
T ss_pred             HHhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcCCChHHHHHHHHHHhcccchHH
Confidence            9999999999999999988653    568888998889999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhCCC
Q 005329          634 AEVRKMMRSKGV  645 (702)
Q Consensus       634 ~~~~~~~~~~~~  645 (702)
                      ..+++.....+.
T Consensus       193 r~~~~~~~~~~~  204 (250)
T COG3063         193 RLYLERYQQRGG  204 (250)
T ss_pred             HHHHHHHHhccc
Confidence            999999877654

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.28  E-value=1.5e-10  Score=105.55  Aligned_cols=192  Identities=14%  Similarity=0.087  Sum_probs=148.6

Q ss_pred             HHHHHHHhcCCHHHHHHHHhhCCC--C-CHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCc
Q 005329          451 ALINMYSKCGSIKEASQIFYETES--D-DIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGL  527 (702)
Q Consensus       451 ~li~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~  527 (702)
                      .|-..|.+..++..|+.+|.+..+  | |+.....+...+-..++.++|.++|+...+.. +.+......+...|...++
T Consensus       261 lLskvY~ridQP~~AL~~~~~gld~fP~~VT~l~g~ARi~eam~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~  339 (478)
T KOG1129|consen  261 LLSKVYQRIDQPERALLVIGEGLDSFPFDVTYLLGQARIHEAMEQQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNN  339 (478)
T ss_pred             HHHHHHHHhccHHHHHHHHhhhhhcCCchhhhhhhhHHHHHHHHhHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCC
Confidence            344555666666666666665442  2 33344456667777788888888888877642 3344566666677778888


Q ss_pred             HHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCC---CC--CHHHHHHHHHHHHhcCCHHHHHHH
Q 005329          528 VDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPH---QK--DDVVWSTLLRACMVQGDVNCGRHT  602 (702)
Q Consensus       528 ~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~p--~~~~~~~l~~~~~~~g~~~~A~~~  602 (702)
                      .+.|..+|+++.+- |+. +++.|+.+.-+|.-.+++|-++..|+++..   +|  ....|-.+.......||+..|.+.
T Consensus       340 PE~AlryYRRiLqm-G~~-speLf~NigLCC~yaqQ~D~~L~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rc  417 (478)
T KOG1129|consen  340 PEMALRYYRRILQM-GAQ-SPELFCNIGLCCLYAQQIDLVLPSFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRC  417 (478)
T ss_pred             hHHHHHHHHHHHHh-cCC-ChHHHhhHHHHHHhhcchhhhHHHHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHH
Confidence            89999999888776 643 678888888888888889888888888766   34  356899999999999999999999


Q ss_pred             HHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 005329          603 AEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKGV  645 (702)
Q Consensus       603 ~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  645 (702)
                      |+-++..+|++.+.+++|+-+-.+.|+.++|..++..+....+
T Consensus       418 frlaL~~d~~h~ealnNLavL~~r~G~i~~Arsll~~A~s~~P  460 (478)
T KOG1129|consen  418 FRLALTSDAQHGEALNNLAVLAARSGDILGARSLLNAAKSVMP  460 (478)
T ss_pred             HHHHhccCcchHHHHHhHHHHHhhcCchHHHHHHHHHhhhhCc
Confidence            9999999999999999999999999999999999998876543

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.27  E-value=1.8e-07  Score=92.91  Aligned_cols=432  Identities=11%  Similarity=0.098  Sum_probs=262.5

Q ss_pred             HHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHH--HHHHhh--h
Q 005329          181 ITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSGALNFGREIHTIMLKRGFDVVSFVANS--LATMYS--K  256 (702)
Q Consensus       181 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~--li~~~~--~  256 (702)
                      +..+..+|++++|.....++...+ +-|...+..=+-++.+.+.+++|..+.+.-..      ..+++.  +=.+||  +
T Consensus        19 ln~~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~------~~~~~~~~fEKAYc~Yr   91 (652)
T KOG2376|consen   19 LNRHGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKKNGA------LLVINSFFFEKAYCEYR   91 (652)
T ss_pred             HHHhccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHhcch------hhhcchhhHHHHHHHHH
Confidence            556677899999999999998765 44555666677778888999998855543211      112222  345555  7


Q ss_pred             CCChHHHHHHHhccCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC-hhhHHHHHHHHHccCchHHHHHHHHH
Q 005329          257 CGKLDYSLRLFERMSTRDVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPN-EYTFAAIISASANLARIQWGEQLHAH  335 (702)
Q Consensus       257 ~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~t~~~ll~~~~~~~~~~~a~~~~~~  335 (702)
                      .+..++|...++.....+..+...-...+-+.|++++|+++|+.+.+.+..-- ...-..++.+-..    ..+    ..
T Consensus        92 lnk~Dealk~~~~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~----l~~----~~  163 (652)
T KOG2376|consen   92 LNKLDEALKTLKGLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAA----LQV----QL  163 (652)
T ss_pred             cccHHHHHHHHhcccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHh----hhH----HH
Confidence            89999999999966655655666667788899999999999999988763221 1111222221111    011    01


Q ss_pred             HHHhCCCCc---hHHHHHHHHHHHhcCCHHHHHHHHhcC--------CCCCh----------hhHHHHHHHHHcCCChHH
Q 005329          336 VLRLGLVDS---LSVANSIMAMYSKCGQLTSTSIVFHGM--------IRRDI----------ISWSTIIGGYSQGGYEEE  394 (702)
Q Consensus       336 ~~~~~~~~~---~~~~~~l~~~~~~~g~~~~a~~~~~~~--------~~~~~----------~~~~~li~~~~~~g~~~~  394 (702)
                      +......|+   ...|| ....++..|++.+|+++++..        .+.|.          ..--.|.-.+...|+..+
T Consensus       164 ~q~v~~v~e~syel~yN-~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~e  242 (652)
T KOG2376|consen  164 LQSVPEVPEDSYELLYN-TACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAE  242 (652)
T ss_pred             HHhccCCCcchHHHHHH-HHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHH
Confidence            222222332   12333 334567789999999999876        22111          122345566778999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHH----HHHHHHHcccCcHHH--HHHHHHH-----------HHHhCCCCChhHHHHHHHHHH
Q 005329          395 AFEYLALMRREGPRPNEFAF----ASVLSVCGNMAILEQ--GKQIHAH-----------VMSIGLERTAMIKSALINMYS  457 (702)
Q Consensus       395 a~~~~~~m~~~g~~p~~~~~----~~ll~~~~~~~~~~~--a~~~~~~-----------~~~~~~~~~~~~~~~li~~~~  457 (702)
                      |..++...++.. .+|....    |.++ ++....++-.  ....++.           +....-......-+.++.+| 
T Consensus       243 a~~iy~~~i~~~-~~D~~~~Av~~NNLv-a~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~-  319 (652)
T KOG2376|consen  243 ASSIYVDIIKRN-PADEPSLAVAVNNLV-ALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLALF-  319 (652)
T ss_pred             HHHHHHHHHHhc-CCCchHHHHHhcchh-hhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH-
Confidence            999999998875 3343222    2222 2222111111  1111111           11000000111112233333 


Q ss_pred             hcCCHHHHHHHHhhCCCCC-HHHHHHHHHHH--HHcCChHHHHHHHHHchhCCCCCCH--HHHHHHHHHHhccCcHHHHH
Q 005329          458 KCGSIKEASQIFYETESDD-IVSWTAMINGY--AEHGYSQEAIHLFEKVPMVGLRPDS--VTFMGVLTACSHAGLVDLGF  532 (702)
Q Consensus       458 ~~g~~~~A~~~~~~~~~~~-~~~~~~li~~~--~~~g~~~~A~~~~~~m~~~g~~p~~--~~~~~ll~~~~~~g~~~~A~  532 (702)
                       .+..+.+.++-...+... ...+.+++...  ++...+.++.+++...-+.  .|..  ...-..+.-....|+++.|.
T Consensus       320 -tnk~~q~r~~~a~lp~~~p~~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~--~p~~s~~v~L~~aQl~is~gn~~~A~  396 (652)
T KOG2376|consen  320 -TNKMDQVRELSASLPGMSPESLFPILLQEATKVREKKHKKAIELLLQFADG--HPEKSKVVLLLRAQLKISQGNPEVAL  396 (652)
T ss_pred             -hhhHHHHHHHHHhCCccCchHHHHHHHHHHHHHHHHHHhhhHHHHHHHhcc--CCchhHHHHHHHHHHHHhcCCHHHHH
Confidence             355666777666666432 23344444332  2333577888888777654  3443  34445556667899999999


Q ss_pred             HHHH--------HhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCC-----CCCHH----HHHHHHHHHHhcCC
Q 005329          533 HYFN--------LMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPH-----QKDDV----VWSTLLRACMVQGD  595 (702)
Q Consensus       533 ~~~~--------~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~p~~~----~~~~l~~~~~~~g~  595 (702)
                      +++.        .+.   .+.-.+.+..+++..+.+.++-+.|..++.++..     .+...    ++..+...-.++|+
T Consensus       397 ~il~~~~~~~~ss~~---~~~~~P~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~  473 (652)
T KOG2376|consen  397 EILSLFLESWKSSIL---EAKHLPGTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGN  473 (652)
T ss_pred             HHHHHHhhhhhhhhh---hhccChhHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCc
Confidence            9998        443   2333466777888889988887777777766544     22222    34444444558899


Q ss_pred             HHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHH
Q 005329          596 VNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRK  638 (702)
Q Consensus       596 ~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~  638 (702)
                      -++|...++++++.+|++......++.+|++. +.+.|..+-+
T Consensus       474 ~~ea~s~leel~k~n~~d~~~l~~lV~a~~~~-d~eka~~l~k  515 (652)
T KOG2376|consen  474 EEEASSLLEELVKFNPNDTDLLVQLVTAYARL-DPEKAESLSK  515 (652)
T ss_pred             hHHHHHHHHHHHHhCCchHHHHHHHHHHHHhc-CHHHHHHHhh
Confidence            99999999999999999999999999999876 4566655443

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=99.26  E-value=5.2e-07  Score=91.60  Aligned_cols=499  Identities=14%  Similarity=0.110  Sum_probs=287.7

Q ss_pred             HHcCCChhHHHHHHHHhhhCCCCCCCHH-HHHHHHHHh-------------hccCCchhhhHHHHHHH-------Hhc-C
Q 005329           82 YVKAMDSIEALALFSRVWVEPQMNMDPF-ILSLALKAC-------------ALNVNVNYGESLHGYTV-------KTG-F  139 (702)
Q Consensus        82 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~~ll~~~-------------~~~~~~~~a~~~~~~~~-------~~~-~  139 (702)
                      -...|+++.|..+++..    ...|+.. .|..+....             +.-|++..++.+++...       +.| -
T Consensus       454 aid~~df~ra~afles~----~~~~da~amw~~laelale~~nl~iaercfaai~dvak~r~lhd~~eiadeas~~~ggd  529 (1636)
T KOG3616|consen  454 AIDDGDFDRATAFLESL----EMGPDAEAMWIRLAELALEAGNLFIAERCFAAIGDVAKARFLHDILEIADEASIEIGGD  529 (1636)
T ss_pred             ccccCchHHHHHHHHhh----ccCccHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhCCC
Confidence            45678899999888877    3456655 455554443             34444555554444322       111 1


Q ss_pred             CCchhHHHHHHHhhhcCCChhHHHHHhccCCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHH
Q 005329          140 VNSVFVGSALLDMYTKLGKIELGCRVFDEMPLRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKAS  219 (702)
Q Consensus       140 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~  219 (702)
                      -.+.+-..+++..+  ..++.+|+.+|-+-.     .-..-|..|....+|++++.+-+..   |.+.-...-.+.++++
T Consensus       530 gt~fykvra~lail--~kkfk~ae~ifleqn-----~te~aigmy~~lhkwde~i~lae~~---~~p~~eklk~sy~q~l  599 (1636)
T KOG3616|consen  530 GTDFYKVRAMLAIL--EKKFKEAEMIFLEQN-----ATEEAIGMYQELHKWDEAIALAEAK---GHPALEKLKRSYLQAL  599 (1636)
T ss_pred             CchHHHHHHHHHHH--HhhhhHHHHHHHhcc-----cHHHHHHHHHHHHhHHHHHHHHHhc---CChHHHHHHHHHHHHH
Confidence            11222223333333  356778888775422     2334567777778888888775542   2222222334456666


Q ss_pred             hccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhhhCCChHHHHHHHhcc--CCCCcchHHHHHHHHHhcCChhHHHHH
Q 005329          220 ADSGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERM--STRDVISWTTIITSYVQMGEEENAFDA  297 (702)
Q Consensus       220 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~li~~~~~~g~~~~a~~~  297 (702)
                      ...|+-+.|-++-.        .+-. --+-|..|.+.|....|.+....=  ...|......+..++.+..-+++|-++
T Consensus       600 ~dt~qd~ka~elk~--------sdgd-~laaiqlyika~~p~~a~~~a~n~~~l~~de~il~~ia~alik~elydkagdl  670 (1636)
T KOG3616|consen  600 MDTGQDEKAAELKE--------SDGD-GLAAIQLYIKAGKPAKAARAALNDEELLADEEILEHIAAALIKGELYDKAGDL  670 (1636)
T ss_pred             HhcCchhhhhhhcc--------ccCc-cHHHHHHHHHcCCchHHHHhhcCHHHhhccHHHHHHHHHHHHhhHHHHhhhhH
Confidence            66777666655421        1111 234567788888877776654221  122333344444444444334444444


Q ss_pred             HHHHHHC---------C-------------CCCChhhHH-HHHHHHHccCchHHHHHHHHHHHHhCCCCchHHHHHHHHH
Q 005329          298 FVRMQES---------D-------------VKPNEYTFA-AIISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAM  354 (702)
Q Consensus       298 ~~~m~~~---------g-------------~~p~~~t~~-~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  354 (702)
                      |+++..-         |             ++...++.. ..-..+...|+++.|..-|-+..         .....+.+
T Consensus       671 feki~d~dkale~fkkgdaf~kaielarfafp~evv~lee~wg~hl~~~~q~daainhfiea~---------~~~kaiea  741 (1636)
T KOG3616|consen  671 FEKIHDFDKALECFKKGDAFGKAIELARFAFPEEVVKLEEAWGDHLEQIGQLDAAINHFIEAN---------CLIKAIEA  741 (1636)
T ss_pred             HHHhhCHHHHHHHHHcccHHHHHHHHHHhhCcHHHhhHHHHHhHHHHHHHhHHHHHHHHHHhh---------hHHHHHHH
Confidence            4333210         0             010111110 11112223344444433332221         11223445


Q ss_pred             HHhcCCHHHHHHHHhcCCCCChh--hHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHH
Q 005329          355 YSKCGQLTSTSIVFHGMIRRDII--SWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQ  432 (702)
Q Consensus       355 ~~~~g~~~~a~~~~~~~~~~~~~--~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~  432 (702)
                      .....++.+|+.+++.+...++.  -|..+...|+..|+++.|.++|.+.-         .++-.|..|.+.|+++.|.+
T Consensus       742 ai~akew~kai~ildniqdqk~~s~yy~~iadhyan~~dfe~ae~lf~e~~---------~~~dai~my~k~~kw~da~k  812 (1636)
T KOG3616|consen  742 AIGAKEWKKAISILDNIQDQKTASGYYGEIADHYANKGDFEIAEELFTEAD---------LFKDAIDMYGKAGKWEDAFK  812 (1636)
T ss_pred             HhhhhhhhhhHhHHHHhhhhccccccchHHHHHhccchhHHHHHHHHHhcc---------hhHHHHHHHhccccHHHHHH
Confidence            56677888888888888766543  46777888999999999999887642         24556778889999998887


Q ss_pred             HHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCH
Q 005329          433 IHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDS  512 (702)
Q Consensus       433 ~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  512 (702)
                      +-.+.  +|.......|-+-..-+-+.|++.+|.++|-.+..|+.     -|..|-+.|..++.+++.++-     .|+.
T Consensus       813 la~e~--~~~e~t~~~yiakaedldehgkf~eaeqlyiti~~p~~-----aiqmydk~~~~ddmirlv~k~-----h~d~  880 (1636)
T KOG3616|consen  813 LAEEC--HGPEATISLYIAKAEDLDEHGKFAEAEQLYITIGEPDK-----AIQMYDKHGLDDDMIRLVEKH-----HGDH  880 (1636)
T ss_pred             HHHHh--cCchhHHHHHHHhHHhHHhhcchhhhhheeEEccCchH-----HHHHHHhhCcchHHHHHHHHh-----Chhh
Confidence            75543  35556667777777777888999999999988888875     356788999999998888763     3443


Q ss_pred             --HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCC----CCCHHHHH--
Q 005329          513 --VTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPH----QKDDVVWS--  584 (702)
Q Consensus       513 --~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~p~~~~~~--  584 (702)
                        .|...+..-+...|+...|.+.|-+..          -|.+-+++|-..+.|++|.++-+.---    +.-...|.  
T Consensus       881 l~dt~~~f~~e~e~~g~lkaae~~flea~----------d~kaavnmyk~s~lw~dayriaktegg~n~~k~v~flwaks  950 (1636)
T KOG3616|consen  881 LHDTHKHFAKELEAEGDLKAAEEHFLEAG----------DFKAAVNMYKASELWEDAYRIAKTEGGANAEKHVAFLWAKS  950 (1636)
T ss_pred             hhHHHHHHHHHHHhccChhHHHHHHHhhh----------hHHHHHHHhhhhhhHHHHHHHHhccccccHHHHHHHHHHHh
Confidence              466667777888899999888776653          245567777778888888777654221    00011111  


Q ss_pred             ----HHHHHHHhcCCHHHHHHH------HHHHHH-----hCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 005329          585 ----TLLRACMVQGDVNCGRHT------AEKILE-----LHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSK  643 (702)
Q Consensus       585 ----~l~~~~~~~g~~~~A~~~------~~~~~~-----~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  643 (702)
                          .....+-++|-.+.|+..      |+-+++     .....+..+..++.-+...|++++|-+.+-+..+.
T Consensus       951 iggdaavkllnk~gll~~~id~a~d~~afd~afdlari~~k~k~~~vhlk~a~~ledegk~edaskhyveaikl 1024 (1636)
T KOG3616|consen  951 IGGDAAVKLLNKHGLLEAAIDFAADNCAFDFAFDLARIAAKDKMGEVHLKLAMFLEDEGKFEDASKHYVEAIKL 1024 (1636)
T ss_pred             hCcHHHHHHHHhhhhHHHHhhhhhcccchhhHHHHHHHhhhccCccchhHHhhhhhhccchhhhhHhhHHHhhc
Confidence                112222334433333322      111222     12335677888888899999999998777666553

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.24  E-value=1.7e-10  Score=105.29  Aligned_cols=235  Identities=13%  Similarity=0.107  Sum_probs=166.5

Q ss_pred             HHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCC
Q 005329          382 IIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGS  461 (702)
Q Consensus       382 li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  461 (702)
                      +.++|.+.|.+.+|.+-|+.-.+.  .|-..||..+-.+|.+...+..|..++.+-.+. .+.+.....-+...+-..++
T Consensus       229 ~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~-fP~~VT~l~g~ARi~eam~~  305 (478)
T KOG1129|consen  229 MGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS-FPFDVTYLLGQARIHEAMEQ  305 (478)
T ss_pred             HHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc-CCchhhhhhhhHHHHHHHHh
Confidence            344444444444444444443332  223333333444444444444444444433332 11222222334556666778


Q ss_pred             HHHHHHHHhhCCC---CCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHh
Q 005329          462 IKEASQIFYETES---DDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLM  538 (702)
Q Consensus       462 ~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~  538 (702)
                      .++|.++|+...+   .++....++...|.-.++++-|+.+|+++.+.|+ -++..|+.+.-+|...+++|.++.-|.+.
T Consensus       306 ~~~a~~lYk~vlk~~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~-~speLf~NigLCC~yaqQ~D~~L~sf~RA  384 (478)
T KOG1129|consen  306 QEDALQLYKLVLKLHPINVEAIACIAVGYFYDNNPEMALRYYRRILQMGA-QSPELFCNIGLCCLYAQQIDLVLPSFQRA  384 (478)
T ss_pred             HHHHHHHHHHHHhcCCccceeeeeeeeccccCCChHHHHHHHHHHHHhcC-CChHHHhhHHHHHHhhcchhhhHHHHHHH
Confidence            8888888887664   4666777778888999999999999999999984 56788999999999999999999999988


Q ss_pred             HHhhCCCCC--hhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCc
Q 005329          539 SDKYGFVPS--KEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCA  614 (702)
Q Consensus       539 ~~~~~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~  614 (702)
                      ... --.|+  ..+|..|....+..|++.-|.+.|+-...  ......++.|.-.-.+.|++++|..+++.+....|.-.
T Consensus       385 lst-at~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~h~ealnNLavL~~r~G~i~~Arsll~~A~s~~P~m~  463 (478)
T KOG1129|consen  385 LST-ATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQHGEALNNLAVLAARSGDILGARSLLNAAKSVMPDMA  463 (478)
T ss_pred             Hhh-ccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcchHHHHHhHHHHHhhcCchHHHHHHHHHhhhhCcccc
Confidence            765 44455  67888999999999999999999998877  34577999999999999999999999999999999766


Q ss_pred             hhHHHHH
Q 005329          615 GTHITLA  621 (702)
Q Consensus       615 ~~~~~l~  621 (702)
                      +...+++
T Consensus       464 E~~~Nl~  470 (478)
T KOG1129|consen  464 EVTTNLQ  470 (478)
T ss_pred             cccccee
Confidence            6555443

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.23  E-value=3.9e-07  Score=86.54  Aligned_cols=400  Identities=14%  Similarity=0.074  Sum_probs=254.2

Q ss_pred             HHHHHHHHhhhCCChHHHHHHHhccCCCC-cchHHHHHHHHHhcCC-hhHHHHHHHHHHHCCCCCChhhHHHHHHHHHcc
Q 005329          246 VANSLATMYSKCGKLDYSLRLFERMSTRD-VISWTTIITSYVQMGE-EENAFDAFVRMQESDVKPNEYTFAAIISASANL  323 (702)
Q Consensus       246 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~li~~~~~~g~-~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~  323 (702)
                      .-...+..|...++.+.|.....+.+..- ..--|.|+.-+-+.|. -.++.--+.+....- +   ... ..|.+..+.
T Consensus        99 ~~r~~aecy~~~~n~~~Ai~~l~~~p~t~r~p~inlMla~l~~~g~r~~~~vl~ykevvrec-p---~aL-~~i~~ll~l  173 (564)
T KOG1174|consen   99 QRRRAAECYRQIGNTDMAIETLLQVPPTLRSPRINLMLARLQHHGSRHKEAVLAYKEVIREC-P---MAL-QVIEALLEL  173 (564)
T ss_pred             HHHHHHHHHHHHccchHHHHHHhcCCccccchhHHHHHHHHHhccccccHHHHhhhHHHHhc-c---hHH-HHHHHHHHH
Confidence            33455666777788888888888877543 3333334433333332 222222222222210 0   011 111111111


Q ss_pred             CchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHh--cCCHHHHHHHHhcC-----CCCChhhHHHHHHHHHcCCChHHHH
Q 005329          324 ARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSK--CGQLTSTSIVFHGM-----IRRDIISWSTIIGGYSQGGYEEEAF  396 (702)
Q Consensus       324 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~g~~~~a~~~~~~~-----~~~~~~~~~~li~~~~~~g~~~~a~  396 (702)
                      + +..++..-..|-...++|.......-+.++..  .++-..|...+-.+     .+.|+.....+...+...|+.++|.
T Consensus       174 ~-v~g~e~~S~~m~~~~~~~~~dwls~wika~Aq~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~  252 (564)
T KOG1174|consen  174 G-VNGNEINSLVMHAATVPDHFDWLSKWIKALAQMFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAE  252 (564)
T ss_pred             h-hcchhhhhhhhhheecCCCccHHHHHHHHHHHHHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHH
Confidence            0 11111111122223334433333333333333  34444444333222     3447888899999999999999999


Q ss_pred             HHHHHHHHCCCCCCHHH----HHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhC
Q 005329          397 EYLALMRREGPRPNEFA----FASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYET  472 (702)
Q Consensus       397 ~~~~~m~~~g~~p~~~~----~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~  472 (702)
                      ..|++...  +.|+..+    |..+   +.+.|+.+....+...+....- .+...|-.-.......++++.|+.+-++.
T Consensus       253 ~~Fe~~~~--~dpy~i~~MD~Ya~L---L~~eg~~e~~~~L~~~Lf~~~~-~ta~~wfV~~~~l~~~K~~~rAL~~~eK~  326 (564)
T KOG1174|consen  253 DIFSSTLC--ANPDNVEAMDLYAVL---LGQEGGCEQDSALMDYLFAKVK-YTASHWFVHAQLLYDEKKFERALNFVEKC  326 (564)
T ss_pred             HHHHHHhh--CChhhhhhHHHHHHH---HHhccCHhhHHHHHHHHHhhhh-cchhhhhhhhhhhhhhhhHHHHHHHHHHH
Confidence            99998865  4454432    3333   3567788877777666554321 11112222233344567888888888776


Q ss_pred             CC---CCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCCh
Q 005329          473 ES---DDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRP-DSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSK  548 (702)
Q Consensus       473 ~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~  548 (702)
                      ..   .++..+-.-...+...|++++|.-.|+..+.  +.| +...|..|+.+|...|++.+|.-+-+...+.  +..+.
T Consensus       327 I~~~~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~--Lap~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~--~~~sA  402 (564)
T KOG1174|consen  327 IDSEPRNHEALILKGRLLIALERHTQAVIAFRTAQM--LAPYRLEIYRGLFHSYLAQKRFKEANALANWTIRL--FQNSA  402 (564)
T ss_pred             hccCcccchHHHhccHHHHhccchHHHHHHHHHHHh--cchhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHH--hhcch
Confidence            53   4556666666788899999999999999886  344 6689999999999999999998887776543  33345


Q ss_pred             hhHHHHH-HHHH-hcCCHHHHHHHHHhCCC-CCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHH
Q 005329          549 EHYGCMI-DLLC-RAGRLSDAENMIENMPH-QKD-DVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIY  624 (702)
Q Consensus       549 ~~~~~l~-~~~~-~~g~~~~A~~~~~~~~~-~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~  624 (702)
                      .+...+. ..+. ...--++|.+++++... .|+ ....+.+...|...|.++.++.++++.+...| |...+..|++++
T Consensus       403 ~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~~~-D~~LH~~Lgd~~  481 (564)
T KOG1174|consen  403 RSLTLFGTLVLFPDPRMREKAKKFAEKSLKINPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLIIFP-DVNLHNHLGDIM  481 (564)
T ss_pred             hhhhhhcceeeccCchhHHHHHHHHHhhhccCCccHHHHHHHHHHHHhhCccchHHHHHHHHHhhcc-ccHHHHHHHHHH
Confidence            5555442 2222 22334889999999887 565 55778888889999999999999999999999 778999999999


Q ss_pred             HhcCChHHHHHHHHHHHhCCCccCCeeeEEEECCEEEEEEcCCCCCCChhHHHHHHHHHHHHhc
Q 005329          625 AAKGRWREAAEVRKMMRSKGVIKEPGWSRIKVKDQVSAFVSSDRRHSQGEDIYRMLDLLASRES  688 (702)
Q Consensus       625 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~l~~l~~~~~  688 (702)
                      ...+.+.+|.+.|..+..                          .+|++.....-+..+++...
T Consensus       482 ~A~Ne~Q~am~~y~~ALr--------------------------~dP~~~~sl~Gl~~lEK~~~  519 (564)
T KOG1174|consen  482 RAQNEPQKAMEYYYKALR--------------------------QDPKSKRTLRGLRLLEKSDD  519 (564)
T ss_pred             HHhhhHHHHHHHHHHHHh--------------------------cCccchHHHHHHHHHHhccC
Confidence            999999999999998765                          35788888888888888776

>PF13041 PPR_2: PPR repeat family

Probab=99.23  E-value=2.2e-11  Score=82.72  Aligned_cols=50  Identities=32%  Similarity=0.577  Sum_probs=44.7

Q ss_pred             CCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhc
Q 005329          172 RNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASAD  221 (702)
Q Consensus       172 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~  221 (702)
                      ||+.+||++|.+|++.|++++|.++|++|.+.|++||..||+.+|++|++
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            78889999999999999999999999999999999999999999988874

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.20  E-value=6.7e-07  Score=83.18  Aligned_cols=129  Identities=11%  Similarity=0.080  Sum_probs=56.1

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhH-HHHHHHH
Q 005329          480 WTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHY-GCMIDLL  558 (702)
Q Consensus       480 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~-~~l~~~~  558 (702)
                      ..++.+.+.-..++++++..+..+..--..-|...| .+..+.+..|.+.+|.++|-.+... .++ |..+| ..|.++|
T Consensus       362 RQsmAs~fFL~~qFddVl~YlnSi~sYF~NdD~Fn~-N~AQAk~atgny~eaEelf~~is~~-~ik-n~~~Y~s~LArCy  438 (557)
T KOG3785|consen  362 RQSMASYFFLSFQFDDVLTYLNSIESYFTNDDDFNL-NLAQAKLATGNYVEAEELFIRISGP-EIK-NKILYKSMLARCY  438 (557)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcchhhh-HHHHHHHHhcChHHHHHHHhhhcCh-hhh-hhHHHHHHHHHHH
Confidence            334444444444555555555444432111122222 2444555555555555555544311 111 22222 2344455


Q ss_pred             HhcCCHHHHHHHHHhCCCCCCHHHH-HHHHHHHHhcCCHHHHHHHHHHHHHhCC
Q 005329          559 CRAGRLSDAENMIENMPHQKDDVVW-STLLRACMVQGDVNCGRHTAEKILELHP  611 (702)
Q Consensus       559 ~~~g~~~~A~~~~~~~~~~p~~~~~-~~l~~~~~~~g~~~~A~~~~~~~~~~~p  611 (702)
                      .+.|+.+-|++++-++..+.+..+. ..+..-|.+.+.+=-|-..|..+-.++|
T Consensus       439 i~nkkP~lAW~~~lk~~t~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lDP  492 (557)
T KOG3785|consen  439 IRNKKPQLAWDMMLKTNTPSERFSLLQLIANDCYKANEFYYAAKAFDELEILDP  492 (557)
T ss_pred             HhcCCchHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccCC
Confidence            5555555555555544432222222 2223335555555555555555444444

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.19  E-value=2.6e-09  Score=104.52  Aligned_cols=188  Identities=16%  Similarity=0.124  Sum_probs=97.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhCC---CCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCC-HHHHHHHHHHHhc
Q 005329          449 KSALINMYSKCGSIKEASQIFYETE---SDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPD-SVTFMGVLTACSH  524 (702)
Q Consensus       449 ~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~  524 (702)
                      +..+...|...|+.++|...|++..   ..+...|+.+...+...|++++|...|++..+.  .|+ ..++..+..++..
T Consensus        67 ~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l--~P~~~~a~~~lg~~l~~  144 (296)
T PRK11189         67 HYERGVLYDSLGLRALARNDFSQALALRPDMADAYNYLGIYLTQAGNFDAAYEAFDSVLEL--DPTYNYAYLNRGIALYY  144 (296)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHH
Confidence            3444455556666666666665543   234556666666666666666666666666652  343 3455556666666


Q ss_pred             cCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 005329          525 AGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPHQKDDVVWSTLLRACMVQGDVNCGRHTAE  604 (702)
Q Consensus       525 ~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~  604 (702)
                      .|++++|.+.|+...+.   .|+..........+...+++++|...|++....-+...|. ........|+...+ +.++
T Consensus       145 ~g~~~eA~~~~~~al~~---~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~~~~~~~~-~~~~~~~lg~~~~~-~~~~  219 (296)
T PRK11189        145 GGRYELAQDDLLAFYQD---DPNDPYRALWLYLAESKLDPKQAKENLKQRYEKLDKEQWG-WNIVEFYLGKISEE-TLME  219 (296)
T ss_pred             CCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHccCCHHHHHHHHHHHHhhCCccccH-HHHHHHHccCCCHH-HHHH
Confidence            66666666666666533   4442211122222334556666666665433211111121 11222223433322 1222


Q ss_pred             HHH-------HhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 005329          605 KIL-------ELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSK  643 (702)
Q Consensus       605 ~~~-------~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  643 (702)
                      .+.       ++.|..+..|..++.++.+.|++++|+..|+++.+.
T Consensus       220 ~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~  265 (296)
T PRK11189        220 RLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALAN  265 (296)
T ss_pred             HHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            222       344555566677777777777777777777666654

>PF13041 PPR_2: PPR repeat family

Probab=99.19  E-value=4.1e-11  Score=81.37  Aligned_cols=50  Identities=30%  Similarity=0.660  Sum_probs=45.5

Q ss_pred             CCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHc
Q 005329          273 RDVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASAN  322 (702)
Q Consensus       273 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~  322 (702)
                      ||+.+||++|.+|++.|++++|+++|++|.+.|+.||..||+.++++|++
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            68889999999999999999999999999999999999999999998874

>PRK12370 invasion protein regulator; Provisional

Probab=99.17  E-value=9.1e-09  Score=110.23  Aligned_cols=245  Identities=10%  Similarity=0.030  Sum_probs=170.5

Q ss_pred             ChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHc---------ccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcC
Q 005329          391 YEEEAFEYLALMRREGPRPNEF-AFASVLSVCG---------NMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCG  460 (702)
Q Consensus       391 ~~~~a~~~~~~m~~~g~~p~~~-~~~~ll~~~~---------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  460 (702)
                      ..++|...|++..+.  .|+.. .+..+..++.         ..++.+.|...++.+.+... .+...+..+...+...|
T Consensus       276 ~~~~A~~~~~~Al~l--dP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ldP-~~~~a~~~lg~~~~~~g  352 (553)
T PRK12370        276 SLQQALKLLTQCVNM--SPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELDH-NNPQALGLLGLINTIHS  352 (553)
T ss_pred             HHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHcc
Confidence            345677777777653  34332 3333322221         23457778888887777653 35566677778888899


Q ss_pred             CHHHHHHHHhhCCC---CCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCH-HHHHHHHHHHhccCcHHHHHHHHH
Q 005329          461 SIKEASQIFYETES---DDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDS-VTFMGVLTACSHAGLVDLGFHYFN  536 (702)
Q Consensus       461 ~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~g~~~~A~~~~~  536 (702)
                      ++++|...|++..+   .+...+..+..++...|++++|+..+++..+.  .|+. ..+..++..+...|++++|...++
T Consensus       353 ~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l--~P~~~~~~~~~~~~~~~~g~~eeA~~~~~  430 (553)
T PRK12370        353 EYIVGSLLFKQANLLSPISADIKYYYGWNLFMAGQLEEALQTINECLKL--DPTRAAAGITKLWITYYHTGIDDAIRLGD  430 (553)
T ss_pred             CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCChhhHHHHHHHHHhccCHHHHHHHHH
Confidence            99999999988653   35668888899999999999999999999875  4543 233344445666899999999999


Q ss_pred             HhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCC
Q 005329          537 LMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH-QKDD-VVWSTLLRACMVQGDVNCGRHTAEKILELHPSC  613 (702)
Q Consensus       537 ~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~  613 (702)
                      ++...  ..|+ +..+..+..++...|++++|...++++.. .|+. ..++.+...+...|  +.|...++++++..-..
T Consensus       431 ~~l~~--~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~~~~~  506 (553)
T PRK12370        431 ELRSQ--HLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEITGLIAVNLLYAEYCQNS--ERALPTIREFLESEQRI  506 (553)
T ss_pred             HHHHh--ccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccchhHHHHHHHHHHHhccH--HHHHHHHHHHHHHhhHh
Confidence            88754  2354 55677788899999999999999998766 4443 34555666667777  47888888877754333


Q ss_pred             chhHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 005329          614 AGTHITLANIYAAKGRWREAAEVRKMMRSKGV  645 (702)
Q Consensus       614 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  645 (702)
                      +.....+..+|.-.|+.+.+..+ +++.+.+.
T Consensus       507 ~~~~~~~~~~~~~~g~~~~~~~~-~~~~~~~~  537 (553)
T PRK12370        507 DNNPGLLPLVLVAHGEAIAEKMW-NKFKNEDN  537 (553)
T ss_pred             hcCchHHHHHHHHHhhhHHHHHH-HHhhccch
Confidence            33333377778888888888766 78777653

>PRK12370 invasion protein regulator; Provisional

Probab=99.16  E-value=4.2e-09  Score=112.81  Aligned_cols=211  Identities=12%  Similarity=0.045  Sum_probs=165.7

Q ss_pred             CcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHH---------hcCCHHHHHHHHhhCCC---CCHHHHHHHHHHHHHcCC
Q 005329          425 AILEQGKQIHAHVMSIGLERTAMIKSALINMYS---------KCGSIKEASQIFYETES---DDIVSWTAMINGYAEHGY  492 (702)
Q Consensus       425 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~---------~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~  492 (702)
                      ++.+.|...+++..+.... +...+..+..+|.         ..+++++|...+++..+   .+...+..+...+...|+
T Consensus       275 ~~~~~A~~~~~~Al~ldP~-~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ldP~~~~a~~~lg~~~~~~g~  353 (553)
T PRK12370        275 YSLQQALKLLTQCVNMSPN-SIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELDHNNPQALGLLGLINTIHSE  353 (553)
T ss_pred             HHHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHccC
Confidence            3567888888888876432 3445555555443         23458899999998763   467788889899999999


Q ss_pred             hHHHHHHHHHchhCCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCCh-hhHHHHHHHHHhcCCHHHHHHH
Q 005329          493 SQEAIHLFEKVPMVGLRPD-SVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSK-EHYGCMIDLLCRAGRLSDAENM  570 (702)
Q Consensus       493 ~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~  570 (702)
                      +++|...|++..+.  .|+ ...+..+...+...|++++|...++++.+   +.|+. ..+..++..+...|++++|...
T Consensus       354 ~~~A~~~~~~Al~l--~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~---l~P~~~~~~~~~~~~~~~~g~~eeA~~~  428 (553)
T PRK12370        354 YIVGSLLFKQANLL--SPISADIKYYYGWNLFMAGQLEEALQTINECLK---LDPTRAAAGITKLWITYYHTGIDDAIRL  428 (553)
T ss_pred             HHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh---cCCCChhhHHHHHHHHHhccCHHHHHHH
Confidence            99999999999985  454 56788888899999999999999999974   46763 3334455567778999999999


Q ss_pred             HHhCCC--CCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 005329          571 IENMPH--QKD-DVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSK  643 (702)
Q Consensus       571 ~~~~~~--~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  643 (702)
                      ++++..  +|+ +..+..+..++...|++++|.+.++++....|.+......++..|...|  ++|...++++.+.
T Consensus       429 ~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~  502 (553)
T PRK12370        429 GDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEITGLIAVNLLYAEYCQNS--ERALPTIREFLES  502 (553)
T ss_pred             HHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccchhHHHHHHHHHHHhccH--HHHHHHHHHHHHH
Confidence            998765  353 4557778888889999999999999998888988888899999999888  4888888877653

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.16  E-value=4.2e-06  Score=88.22  Aligned_cols=127  Identities=13%  Similarity=0.086  Sum_probs=81.6

Q ss_pred             chhhhhHHHHHHccCChHHHHHHhhcCCCC-------CcchHHHHHHHHHcCCChhHHHHHHHHhhhCCCCCCCHHHHHH
Q 005329           41 TPEVNSQLKHLVKSGYLHDARKMFDTMTQR-------DEISWTTLISGYVKAMDSIEALALFSRVWVEPQMNMDPFILSL  113 (702)
Q Consensus        41 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-------~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  113 (702)
                      ..-+..+.+.+.|.|-+..|++.|..+..-       +.-.-..++ .|.-.-.++.+.+.+..|... +++.|-.+...
T Consensus       606 HyDra~IAqLCEKAGL~qraLehytDl~DIKR~vVhth~L~pEwLv-~yFg~lsve~s~eclkaml~~-NirqNlQi~VQ  683 (1666)
T KOG0985|consen  606 HYDRAEIAQLCEKAGLLQRALEHYTDLYDIKRVVVHTHLLNPEWLV-NYFGSLSVEDSLECLKAMLSA-NIRQNLQIVVQ  683 (1666)
T ss_pred             cccHHHHHHHHHhcchHHHHHHhcccHHHHHHHHHHhccCCHHHHH-HHHHhcCHHHHHHHHHHHHHH-HHHhhhHHHHH
Confidence            344667888888999999999888776431       111111222 233333677788888888766 56666666665


Q ss_pred             HHHHhhccCCchhhhHHHHHHHH-----------hcCCCchhHHHHHHHhhhcCCChhHHHHHhccC
Q 005329          114 ALKACALNVNVNYGESLHGYTVK-----------TGFVNSVFVGSALLDMYTKLGKIELGCRVFDEM  169 (702)
Q Consensus       114 ll~~~~~~~~~~~a~~~~~~~~~-----------~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~  169 (702)
                      +...|...-..+...++|+....           -++.-|+.+.-..|.+.++.|++.+.+++.++-
T Consensus       684 vatky~eqlg~~~li~lFE~fks~eGL~yfLgSivn~seDpevh~KYIqAA~kt~QikEvERicres  750 (1666)
T KOG0985|consen  684 VATKYHEQLGAQALIELFESFKSYEGLYYFLGSIVNFSEDPEVHFKYIQAACKTGQIKEVERICRES  750 (1666)
T ss_pred             HHHHHHHHhCHHHHHHHHHhhccchhHHHHHHHHhccccCchHHHHHHHHHHhhccHHHHHHHHhcc
Confidence            55555544444444555554332           134567777778899999999999999987765

>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=99.15  E-value=4.6e-07  Score=93.76  Aligned_cols=46  Identities=24%  Similarity=0.325  Sum_probs=41.7

Q ss_pred             CCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHH
Q 005329          594 GDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKM  639 (702)
Q Consensus       594 g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  639 (702)
                      .=.++|.+.++-+.+..|++..+|..-..+|.+.|++--|.+.+.+
T Consensus       471 dPLe~A~kfl~pL~~~a~~~~et~~laFeVy~Rk~K~LLaLqaL~k  516 (517)
T PF12569_consen  471 DPLEEAMKFLKPLLELAPDNIETHLLAFEVYLRKGKYLLALQALKK  516 (517)
T ss_pred             cHHHHHHHHHHHHHHhCccchhhHHHHhHHHHhcCcHHHHHHHHHh
Confidence            3478899999999999999999999999999999999999887764

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 [], [].

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.15  E-value=1.2e-08  Score=97.11  Aligned_cols=197  Identities=18%  Similarity=0.186  Sum_probs=123.8

Q ss_pred             hhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHH
Q 005329          376 IISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINM  455 (702)
Q Consensus       376 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  455 (702)
                      ...+..+...+...|++++|...+++..+.. +.+...+..                                   +...
T Consensus        31 ~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~-----------------------------------la~~   74 (234)
T TIGR02521        31 AKIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLA-----------------------------------LALY   74 (234)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHH-----------------------------------HHHH
Confidence            3456666777777777777777777765532 112333333                                   4444


Q ss_pred             HHhcCCHHHHHHHHhhCC---CCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCC-CHHHHHHHHHHHhccCcHHHH
Q 005329          456 YSKCGSIKEASQIFYETE---SDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRP-DSVTFMGVLTACSHAGLVDLG  531 (702)
Q Consensus       456 ~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~g~~~~A  531 (702)
                      +...|++++|.+.+++..   +.+...+..+...+...|++++|.+.+++.......| ....+..+...+...|++++|
T Consensus        75 ~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  154 (234)
T TIGR02521        75 YQQLGELEKAEDSFRRALTLNPNNGDVLNNYGTFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKA  154 (234)
T ss_pred             HHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHH
Confidence            444555555555554433   2234455566666677777777777777766532222 234555666677778888888


Q ss_pred             HHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 005329          532 FHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILE  608 (702)
Q Consensus       532 ~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  608 (702)
                      .+.+++....   .|+ ...+..+...+...|++++|...+++...  +++...+..++..+...|+.+.|....+.+..
T Consensus       155 ~~~~~~~~~~---~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       155 EKYLTRALQI---DPQRPESLLELAELYYLRGQYKDARAYLERYQQTYNQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHHHHHHHh---CcCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            8888877643   343 55677777788888888888888777655  33455666677777788888888887777766


Q ss_pred             hCC
Q 005329          609 LHP  611 (702)
Q Consensus       609 ~~p  611 (702)
                      ..|
T Consensus       232 ~~~  234 (234)
T TIGR02521       232 LFP  234 (234)
T ss_pred             hCc
Confidence            543

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.

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=99.14  E-value=5e-07  Score=95.07  Aligned_cols=564  Identities=12%  Similarity=0.039  Sum_probs=276.0

Q ss_pred             chhhhhHHHHHHccCChHHHHHHhhcCCCC---CcchHHHHHHHHHcCCChhHHHHHHHHhhhCCCCCCCHHHHHHHHHH
Q 005329           41 TPEVNSQLKHLVKSGYLHDARKMFDTMTQR---DEISWTTLISGYVKAMDSIEALALFSRVWVEPQMNMDPFILSLALKA  117 (702)
Q Consensus        41 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~  117 (702)
                      .+.|..|-..|....+...|.++|++..+-   +..++......|++..+++.|..+.-..-+......-...|....-.
T Consensus       492 apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLDatdaeaaaa~adtyae~~~we~a~~I~l~~~qka~a~~~k~nW~~rG~y  571 (1238)
T KOG1127|consen  492 APAFAFLGQIYRDSDDMKRAKKCFDKAFELDATDAEAAAASADTYAEESTWEEAFEICLRAAQKAPAFACKENWVQRGPY  571 (1238)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCchhhhhHHHHHHHhhccccHHHHHHHHHHHhhhchHHHHHhhhhhcccc
Confidence            456777777777777777888888877664   45567777777888888888887743333221111122233333444


Q ss_pred             hhccCCchhhhHHHHHHHHhcCCCchhHHHHHHHhhhcCCChhHHHHHhccCCCCCcchHHHH---HHHHHhCCChHHHH
Q 005329          118 CALNVNVNYGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKIELGCRVFDEMPLRNVVSWTAI---ITGLVRAGHNKEGL  194 (702)
Q Consensus       118 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l---i~~~~~~~~~~~a~  194 (702)
                      +-..++...+..-|+...+.. +.|...|..+..+|.++|++..|.++|.+...-++.++..-   .-.-+..|.+.+++
T Consensus       572 yLea~n~h~aV~~fQsALR~d-PkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~LrP~s~y~~fk~A~~ecd~GkYkeal  650 (1238)
T KOG1127|consen  572 YLEAHNLHGAVCEFQSALRTD-PKDYNLWLGLGEAYPESGRYSHALKVFTKASLLRPLSKYGRFKEAVMECDNGKYKEAL  650 (1238)
T ss_pred             ccCccchhhHHHHHHHHhcCC-chhHHHHHHHHHHHHhcCceehHHHhhhhhHhcCcHhHHHHHHHHHHHHHhhhHHHHH
Confidence            556667777777777666654 45677888888888888888888888877654333322221   12234567777777


Q ss_pred             HHHHHHHHC------CCCCChhhHHHHHHHHhccCChHHHHHHHHHHHH-------hCCCCchhHHHHHHHHhhhCCChH
Q 005329          195 IYFAEMWRS------KEQGDSYTFAIVLKASADSGALNFGREIHTIMLK-------RGFDVVSFVANSLATMYSKCGKLD  261 (702)
Q Consensus       195 ~~~~~m~~~------~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~li~~~~~~g~~~  261 (702)
                      ..+......      +..--..++..+...+...|-...+..+++.-++       .....+...|-.+          .
T Consensus       651 d~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~~~l~h~~~~~~~~Wi~a----------s  720 (1238)
T KOG1127|consen  651 DALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIESFIVSLIHSLQSDRLQWIVA----------S  720 (1238)
T ss_pred             HHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHhhhhhHHHHHHH----------h
Confidence            777665431      1111222333333333333333333333332222       1111111111111          1


Q ss_pred             HHHHHHhccCCCCcch--HHHHHHH-HHhcCCh---h---HHHHHHHHHHHCCCCCChhhHHHHHHHHHc----cC----
Q 005329          262 YSLRLFERMSTRDVIS--WTTIITS-YVQMGEE---E---NAFDAFVRMQESDVKPNEYTFAAIISASAN----LA----  324 (702)
Q Consensus       262 ~A~~~~~~~~~~~~~~--~~~li~~-~~~~g~~---~---~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~----~~----  324 (702)
                      .|..+|-... ||.+.  +..++.. .-..+..   +   -+.+.+-.-..  ...++.++..+...+.+    .+    
T Consensus       721 dac~~f~q~e-~~~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~hls--l~~~~~~WyNLGinylr~f~~l~et~~  797 (1238)
T KOG1127|consen  721 DACYIFSQEE-PSIVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIAHLS--LAIHMYPWYNLGINYLRYFLLLGETMK  797 (1238)
T ss_pred             HHHHHHHHhc-ccchHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhHHHH--HhhccchHHHHhHHHHHHHHHcCCcch
Confidence            2233333333 33211  1111111 1111211   1   11111111111  11223344333333222    11    


Q ss_pred             chHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHhcC---CCCChhhHHHHHHHHHcCCChHHHHHHHHH
Q 005329          325 RIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGM---IRRDIISWSTIIGGYSQGGYEEEAFEYLAL  401 (702)
Q Consensus       325 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~---~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  401 (702)
                      +...|..-+...++.. ..+..+||.|.-. ...|++.-+...|-.-   .+.+..+|..+...+.+..+++.|...|..
T Consensus       798 ~~~~Ai~c~KkaV~L~-ann~~~WnaLGVl-sg~gnva~aQHCfIks~~sep~~~~~W~NlgvL~l~n~d~E~A~~af~~  875 (1238)
T KOG1127|consen  798 DACTAIRCCKKAVSLC-ANNEGLWNALGVL-SGIGNVACAQHCFIKSRFSEPTCHCQWLNLGVLVLENQDFEHAEPAFSS  875 (1238)
T ss_pred             hHHHHHHHHHHHHHHh-hccHHHHHHHHHh-hccchhhhhhhhhhhhhhccccchhheeccceeEEecccHHHhhHHHHh
Confidence            1223444444444332 2344556655444 4456666666666443   223556777777777778888888888877


Q ss_pred             HHHCCCCC-CHHHHHHHHHHHcccCcHHHHHHHHHHH--H--HhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCC--
Q 005329          402 MRREGPRP-NEFAFASVLSVCGNMAILEQGKQIHAHV--M--SIGLERTAMIKSALINMYSKCGSIKEASQIFYETES--  474 (702)
Q Consensus       402 m~~~g~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~--~--~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--  474 (702)
                      .+..  .| |...+..........|+.-+...+|..-  .  ..|-.+....+-+-.......|+.++-+..-+++..  
T Consensus       876 ~qSL--dP~nl~~WlG~Ali~eavG~ii~~~~lfaHs~el~~~~gka~~f~Yw~c~te~h~~Ng~~e~~I~t~~ki~sAs  953 (1238)
T KOG1127|consen  876 VQSL--DPLNLVQWLGEALIPEAVGRIIERLILFAHSDELCSKEGKAKKFQYWLCATEIHLQNGNIEESINTARKISSAS  953 (1238)
T ss_pred             hhhc--CchhhHHHHHHHHhHHHHHHHHHHHHHHHhhHHhhccccccchhhHHHHHHHHHHhccchHHHHHHhhhhhhhH
Confidence            7653  33 3333433333333445555555555442  1  122333333333333444555665555444444331  


Q ss_pred             -----------CCHHHHHHHHHHHHHcCChHHHHHHHHHchhC-CCCCCHHHHHH----HHHHHhccCcHHHHHHHHHHh
Q 005329          475 -----------DDIVSWTAMINGYAEHGYSQEAIHLFEKVPMV-GLRPDSVTFMG----VLTACSHAGLVDLGFHYFNLM  538 (702)
Q Consensus       475 -----------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-g~~p~~~~~~~----ll~~~~~~g~~~~A~~~~~~~  538 (702)
                                 .+...|.+.....-+.+.+..|.++..+.+.. ..+-+..+|+.    +.+.++..|.++.|..-+...
T Consensus       954 ~al~~yf~~~p~~~fAy~~~gstlEhL~ey~~a~ela~RliglLe~k~d~sqynvak~~~gRL~lslgefe~A~~a~~~~ 1033 (1238)
T KOG1127|consen  954 LALSYYFLGHPQLCFAYAANGSTLEHLEEYRAALELATRLIGLLELKLDESQYNVAKPDAGRLELSLGEFESAKKASWKE 1033 (1238)
T ss_pred             HHHHHHHhcCcchhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhcchhhHhhhhccc
Confidence                       23456666666666666666666666554310 01233344442    222234445555444333222


Q ss_pred             HHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCC----CCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCC
Q 005329          539 SDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPH----QKD-DVVWSTLLRACMVQGDVNCGRHTAEKILELHPSC  613 (702)
Q Consensus       539 ~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~  613 (702)
                      ..    ..+...-..=+. ..-.|+++++.+.|+++..    ..+ ......++......+..+.|...+-+...+.|.+
T Consensus      1034 ~~----evdEdi~gt~l~-lFfkndf~~sl~~fe~aLsis~se~d~vvLl~kva~~~g~~~~k~~A~~lLfe~~~ls~~~ 1108 (1238)
T KOG1127|consen 1034 WM----EVDEDIRGTDLT-LFFKNDFFSSLEFFEQALSISNSESDKVVLLCKVAVCMGLARQKNDAQFLLFEVKSLSKVQ 1108 (1238)
T ss_pred             ch----hHHHHHhhhhHH-HHHHhHHHHHHHHHHHHhhhcccccchhhhhHHHHHHHhhcccchHHHHHHHHHHHhCccc
Confidence            10    011111111111 1235677777777777655    222 2334445555556677777777777777777666


Q ss_pred             chhHHHHHHHHHhc
Q 005329          614 AGTHITLANIYAAK  627 (702)
Q Consensus       614 ~~~~~~l~~~~~~~  627 (702)
                      ......|+-++.-.
T Consensus      1109 ~~sll~L~A~~ild 1122 (1238)
T KOG1127|consen 1109 ASSLLPLPAVYILD 1122 (1238)
T ss_pred             hhhHHHHHHHHHHh
Confidence            66666665554433

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=99.12  E-value=2.7e-06  Score=85.87  Aligned_cols=446  Identities=12%  Similarity=0.078  Sum_probs=226.0

Q ss_pred             CCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhhhCCChHHHHHH
Q 005329          187 AGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRL  266 (702)
Q Consensus       187 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  266 (702)
                      .+++...+++.+.+.+ +.+-...|.....-.+...|+.++|........+.. .-+.+.|..+.-.+-...++++|.+.
T Consensus        20 ~kQYkkgLK~~~~iL~-k~~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d-~~S~vCwHv~gl~~R~dK~Y~eaiKc   97 (700)
T KOG1156|consen   20 TKQYKKGLKLIKQILK-KFPEHGESLAMKGLTLNCLGKKEEAYELVRLGLRND-LKSHVCWHVLGLLQRSDKKYDEAIKC   97 (700)
T ss_pred             HHHHHhHHHHHHHHHH-hCCccchhHHhccchhhcccchHHHHHHHHHHhccC-cccchhHHHHHHHHhhhhhHHHHHHH
Confidence            3455555555555544 122222333333333444556666655555544432 23344555555555555566666666


Q ss_pred             HhccCC---CCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCchHHHHHHHHHHHHhCC-C
Q 005329          267 FERMST---RDVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGL-V  342 (702)
Q Consensus       267 ~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~  342 (702)
                      |.....   .|...|.-+.-.-++.++++.....-..+.+.. +-....|..+..+..-.|+...|..+.++..+... .
T Consensus        98 y~nAl~~~~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~-~~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~  176 (700)
T KOG1156|consen   98 YRNALKIEKDNLQILRDLSLLQIQMRDYEGYLETRNQLLQLR-PSQRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTS  176 (700)
T ss_pred             HHHHHhcCCCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhh-hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccC
Confidence            655432   233444444444445555555555555544431 12233444455555556666666666666655432 3


Q ss_pred             CchHHHHHH------HHHHHhcCCHHHHHHHHhcCCCC--Chh-hHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHH
Q 005329          343 DSLSVANSI------MAMYSKCGQLTSTSIVFHGMIRR--DII-SWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFA  413 (702)
Q Consensus       343 ~~~~~~~~l------~~~~~~~g~~~~a~~~~~~~~~~--~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~  413 (702)
                      |+...+...      .....+.|.++.|.+.+......  |-. .-..-...+.+.+++++|..++..+..  ..||..-
T Consensus       177 ~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~--rnPdn~~  254 (700)
T KOG1156|consen  177 PSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQIVDKLAFEETKADLLMKLGQLEEAVKVYRRLLE--RNPDNLD  254 (700)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhHHHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHh--hCchhHH
Confidence            333333221      12234456666666666554332  111 223344556667777777777777766  3566665


Q ss_pred             HHHHHHHHc-cc-CcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHH-HHHHhh-CCCCCHHHHHHHHHHHHH
Q 005329          414 FASVLSVCG-NM-AILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEA-SQIFYE-TESDDIVSWTAMINGYAE  489 (702)
Q Consensus       414 ~~~ll~~~~-~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A-~~~~~~-~~~~~~~~~~~li~~~~~  489 (702)
                      |.-.+..+. +. +..+....++....+.-........  +--......++.+. -.++.. |.+.-+..+..+.+.|-.
T Consensus       255 Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y~r~e~p~R--lplsvl~~eel~~~vdkyL~~~l~Kg~p~vf~dl~SLyk~  332 (700)
T KOG1156|consen  255 YYEGLEKALGKIKDMLEALKALYAILSEKYPRHECPRR--LPLSVLNGEELKEIVDKYLRPLLSKGVPSVFKDLRSLYKD  332 (700)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhhcCcccccchh--ccHHHhCcchhHHHHHHHHHHHhhcCCCchhhhhHHHHhc
Confidence            555444333 22 2222222444443332111000000  00000011112111 112221 112112223333333222


Q ss_pred             cCChHH----HHHHHHHchhCC----------CCCCHH--HHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHH
Q 005329          490 HGYSQE----AIHLFEKVPMVG----------LRPDSV--TFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYG  552 (702)
Q Consensus       490 ~g~~~~----A~~~~~~m~~~g----------~~p~~~--~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~  552 (702)
                      ....+-    +.++...+...|          =+|...  ++..++..+-..|+++.|..+++...   +-.|+ ++.|.
T Consensus       333 p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt~y~laqh~D~~g~~~~A~~yId~AI---dHTPTliEly~  409 (700)
T KOG1156|consen  333 PEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAI---DHTPTLIELYL  409 (700)
T ss_pred             hhHhHHHHHHHHHHHhhcccccCCCcccccccCCchHHHHHHHHHHHHHHHcccHHHHHHHHHHHh---ccCchHHHHHH
Confidence            111110    111111111111          144443  45556777888999999999999887   55787 77777


Q ss_pred             HHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCC------c-hhHHH--HH
Q 005329          553 CMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSC------A-GTHIT--LA  621 (702)
Q Consensus       553 ~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~------~-~~~~~--l~  621 (702)
                      .=.+.+...|.+++|..++++...  .||...-.--+.-..+.++.++|.++..+--..+-+-      . -.|..  =+
T Consensus       410 ~KaRI~kH~G~l~eAa~~l~ea~elD~aDR~INsKcAKYmLrAn~i~eA~~~~skFTr~~~~~~~~L~~mqcmWf~~E~g  489 (700)
T KOG1156|consen  410 VKARIFKHAGLLDEAAAWLDEAQELDTADRAINSKCAKYMLRANEIEEAEEVLSKFTREGFGAVNNLAEMQCMWFQLEDG  489 (700)
T ss_pred             HHHHHHHhcCChHHHHHHHHHHHhccchhHHHHHHHHHHHHHccccHHHHHHHHHhhhcccchhhhHHHhhhHHHhHhhh
Confidence            778889999999999999999877  4555444455566678889999988887765544211      0 12332  36


Q ss_pred             HHHHhcCChHHHHHHHHHHHh
Q 005329          622 NIYAAKGRWREAAEVRKMMRS  642 (702)
Q Consensus       622 ~~~~~~g~~~~A~~~~~~~~~  642 (702)
                      .+|.++|++-+|++=+..+.+
T Consensus       490 ~ay~r~~k~g~ALKkfh~i~k  510 (700)
T KOG1156|consen  490 EAYLRQNKLGLALKKFHEIEK  510 (700)
T ss_pred             HHHHHHHHHHHHHHHHhhHHH
Confidence            778899999888776655543

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=99.09  E-value=1.9e-05  Score=80.63  Aligned_cols=193  Identities=12%  Similarity=0.069  Sum_probs=136.2

Q ss_pred             HHHHHccCChHHHHHHhhcCCCCCcc--hHHHHHHHHHcCCChhHHHHHHHHhhhCCCCCCCHHHHHHHHHHhhccCCch
Q 005329           48 LKHLVKSGYLHDARKMFDTMTQRDEI--SWTTLISGYVKAMDSIEALALFSRVWVEPQMNMDPFILSLALKACALNVNVN  125 (702)
Q Consensus        48 ~~~~~~~g~~~~A~~~~~~~~~~~~~--~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~  125 (702)
                      +.+-.....|.+|+.+++.+...+..  .|..+..-|+..|+++.|.++|-+.    +      .++-.+..|.+.|+++
T Consensus       739 ieaai~akew~kai~ildniqdqk~~s~yy~~iadhyan~~dfe~ae~lf~e~----~------~~~dai~my~k~~kw~  808 (1636)
T KOG3616|consen  739 IEAAIGAKEWKKAISILDNIQDQKTASGYYGEIADHYANKGDFEIAEELFTEA----D------LFKDAIDMYGKAGKWE  808 (1636)
T ss_pred             HHHHhhhhhhhhhHhHHHHhhhhccccccchHHHHHhccchhHHHHHHHHHhc----c------hhHHHHHHHhccccHH
Confidence            34445666778888888877655433  4677777888888888888888765    2      3445667788888888


Q ss_pred             hhhHHHHHHHHhcCCCchhHHHHHHHhhhcCCChhHHHHHhccCCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCC
Q 005329          126 YGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKIELGCRVFDEMPLRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKE  205 (702)
Q Consensus       126 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~  205 (702)
                      .|.++-++.  .|.......|-+-..-+-+.|++.+|++++-.+..|+.     -|..|-+.|..+..+++.++-..   
T Consensus       809 da~kla~e~--~~~e~t~~~yiakaedldehgkf~eaeqlyiti~~p~~-----aiqmydk~~~~ddmirlv~k~h~---  878 (1636)
T KOG3616|consen  809 DAFKLAEEC--HGPEATISLYIAKAEDLDEHGKFAEAEQLYITIGEPDK-----AIQMYDKHGLDDDMIRLVEKHHG---  878 (1636)
T ss_pred             HHHHHHHHh--cCchhHHHHHHHhHHhHHhhcchhhhhheeEEccCchH-----HHHHHHhhCcchHHHHHHHHhCh---
Confidence            887776554  45455566666666677788899999998888888774     47788888888888888776421   


Q ss_pred             CCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhhhCCChHHHHHHHhc
Q 005329          206 QGDSYTFAIVLKASADSGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFER  269 (702)
Q Consensus       206 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  269 (702)
                      ..-..|...+..-+-..|++..|+.-|-+..         -|.+-+++|-..+.+++|.++-+.
T Consensus       879 d~l~dt~~~f~~e~e~~g~lkaae~~flea~---------d~kaavnmyk~s~lw~dayriakt  933 (1636)
T KOG3616|consen  879 DHLHDTHKHFAKELEAEGDLKAAEEHFLEAG---------DFKAAVNMYKASELWEDAYRIAKT  933 (1636)
T ss_pred             hhhhHHHHHHHHHHHhccChhHHHHHHHhhh---------hHHHHHHHhhhhhhHHHHHHHHhc
Confidence            1123466667777888888888887664432         245667777777888887777654

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.08  E-value=7.4e-08  Score=98.19  Aligned_cols=200  Identities=12%  Similarity=0.125  Sum_probs=118.3

Q ss_pred             HHHHHHHcCCChHHHHHHHHHHHH-----CC-CCCC-HHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHH
Q 005329          381 TIIGGYSQGGYEEEAFEYLALMRR-----EG-PRPN-EFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALI  453 (702)
Q Consensus       381 ~li~~~~~~g~~~~a~~~~~~m~~-----~g-~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  453 (702)
                      .+...|...+++++|..+|+++..     .| ..|. ..++..|-.+|.+.|++++|...++.+.+.             
T Consensus       246 ~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I-------------  312 (508)
T KOG1840|consen  246 ILALVYRSLGKYDEAVNLYEEALTIREEVFGEDHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEI-------------  312 (508)
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHH-------------
Confidence            345556666666666666666643     11 1121 124445555666777777776665554331             


Q ss_pred             HHHHhcCCHHHHHHHHhhCC---CCCH-HHHHHHHHHHHHcCChHHHHHHHHHchh---CCCCCCH----HHHHHHHHHH
Q 005329          454 NMYSKCGSIKEASQIFYETE---SDDI-VSWTAMINGYAEHGYSQEAIHLFEKVPM---VGLRPDS----VTFMGVLTAC  522 (702)
Q Consensus       454 ~~~~~~g~~~~A~~~~~~~~---~~~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~---~g~~p~~----~~~~~ll~~~  522 (702)
                                     ++...   .+.+ ..++.++..+...+++++|..++++..+   .-+.++.    .+++.|...|
T Consensus       313 ---------------~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~  377 (508)
T KOG1840|consen  313 ---------------YEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAELY  377 (508)
T ss_pred             ---------------HHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHH
Confidence                           11100   1111 1233444555556666666655554332   1122222    3677777888


Q ss_pred             hccCcHHHHHHHHHHhHHhh----C-CCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC--------CCC-HHHHHHHH
Q 005329          523 SHAGLVDLGFHYFNLMSDKY----G-FVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH--------QKD-DVVWSTLL  587 (702)
Q Consensus       523 ~~~g~~~~A~~~~~~~~~~~----~-~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--------~p~-~~~~~~l~  587 (702)
                      ...|++++|.++|++++...    + ..+. ...++.|...|.+.+++.+|..+|.+...        .|+ ..+|..|+
T Consensus       378 ~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~  457 (508)
T KOG1840|consen  378 LKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNLA  457 (508)
T ss_pred             HHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHHHHH
Confidence            88888888888887776542    1 1222 44566777788888888888877776543        233 45888899


Q ss_pred             HHHHhcCCHHHHHHHHHHHHH
Q 005329          588 RACMVQGDVNCGRHTAEKILE  608 (702)
Q Consensus       588 ~~~~~~g~~~~A~~~~~~~~~  608 (702)
                      ..|...|+++.|+++.+++..
T Consensus       458 ~~Y~~~g~~e~a~~~~~~~~~  478 (508)
T KOG1840|consen  458 ALYRAQGNYEAAEELEEKVLN  478 (508)
T ss_pred             HHHHHcccHHHHHHHHHHHHH
Confidence            999999999999999888874

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=99.08  E-value=1e-05  Score=83.66  Aligned_cols=232  Identities=14%  Similarity=0.059  Sum_probs=131.4

Q ss_pred             HHHHHccCChHHHHHHhhcCCCCCcchHHHHHHHHHcCCChhHHHHHHHHhhhCCCC--------CCCHHHHHHHHHHhh
Q 005329           48 LKHLVKSGYLHDARKMFDTMTQRDEISWTTLISGYVKAMDSIEALALFSRVWVEPQM--------NMDPFILSLALKACA  119 (702)
Q Consensus        48 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--------~~~~~~~~~ll~~~~  119 (702)
                      .+.|+-.|+.+.|.+...-+..  -..|..|.+.|.+..+.+-|.--+-.|....|.        .|+ .+-..+.-...
T Consensus       735 FSfyvtiG~MD~AfksI~~IkS--~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~-e~eakvAvLAi  811 (1416)
T KOG3617|consen  735 FSFYVTIGSMDAAFKSIQFIKS--DSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE-EDEAKVAVLAI  811 (1416)
T ss_pred             eeEEEEeccHHHHHHHHHHHhh--hHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc-chhhHHHHHHH
Confidence            4456777888888777665543  357888888888888777776655555322111        111 11122222334


Q ss_pred             ccCCchhhhHHHHHHHHhcCCCchhHHHHHHHhhhcCCChhHHHHHhccCCCC-CcchHHHHHHHHHhCCChHHHHHHHH
Q 005329          120 LNVNVNYGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKIELGCRVFDEMPLR-NVVSWTAIITGLVRAGHNKEGLIYFA  198 (702)
Q Consensus       120 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~  198 (702)
                      ..|.+++|+.++.+-.+..         .|=..|...|.+++|.++-+.-.+- =..||.--...+-..++.+.|++.|+
T Consensus       812 eLgMlEeA~~lYr~ckR~D---------LlNKlyQs~g~w~eA~eiAE~~DRiHLr~Tyy~yA~~Lear~Di~~AleyyE  882 (1416)
T KOG3617|consen  812 ELGMLEEALILYRQCKRYD---------LLNKLYQSQGMWSEAFEIAETKDRIHLRNTYYNYAKYLEARRDIEAALEYYE  882 (1416)
T ss_pred             HHhhHHHHHHHHHHHHHHH---------HHHHHHHhcccHHHHHHHHhhccceehhhhHHHHHHHHHhhccHHHHHHHHH
Confidence            5678888888888766543         3445677788899988887653321 11245555555666678888888877


Q ss_pred             HHH----------HCC---------CCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhhhCCC
Q 005329          199 EMW----------RSK---------EQGDSYTFAIVLKASADSGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGK  259 (702)
Q Consensus       199 ~m~----------~~~---------~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  259 (702)
                      +..          ...         -..|...|.=-...+-..|+.+.|..+|....+         |-++++..|-.|+
T Consensus       883 K~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D---------~fs~VrI~C~qGk  953 (1416)
T KOG3617|consen  883 KAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD---------YFSMVRIKCIQGK  953 (1416)
T ss_pred             hcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh---------hhhheeeEeeccC
Confidence            631          110         001111111111222234555555555544432         2345555555666


Q ss_pred             hHHHHHHHhccCCCCcchHHHHHHHHHhcCChhHHHHHHHHHH
Q 005329          260 LDYSLRLFERMSTRDVISWTTIITSYVQMGEEENAFDAFVRMQ  302 (702)
Q Consensus       260 ~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  302 (702)
                      .++|-++-++-  .|..+.-.|.+.|-..|++.+|..+|.+.+
T Consensus       954 ~~kAa~iA~es--gd~AAcYhlaR~YEn~g~v~~Av~FfTrAq  994 (1416)
T KOG3617|consen  954 TDKAARIAEES--GDKAACYHLARMYENDGDVVKAVKFFTRAQ  994 (1416)
T ss_pred             chHHHHHHHhc--ccHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence            66666665543  244555556666666777777776666543

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.07  E-value=9.4e-08  Score=93.57  Aligned_cols=232  Identities=8%  Similarity=-0.030  Sum_probs=151.3

Q ss_pred             CChHHHHHHHHHHHHCC-CCCC--HHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHH
Q 005329          390 GYEEEAFEYLALMRREG-PRPN--EFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEAS  466 (702)
Q Consensus       390 g~~~~a~~~~~~m~~~g-~~p~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~  466 (702)
                      +..+.++.-+.++.... ..|+  ...|......+...|+.+.|...+....+... .+...|+.+...+...|++++|.
T Consensus        40 ~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P-~~~~a~~~lg~~~~~~g~~~~A~  118 (296)
T PRK11189         40 LQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRP-DMADAYNYLGIYLTQAGNFDAAY  118 (296)
T ss_pred             hHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHCCCHHHHH
Confidence            34455666666655432 1222  23344455566667777777777777766542 34667777888888899999999


Q ss_pred             HHHhhCCC---CCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhC
Q 005329          467 QIFYETES---DDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYG  543 (702)
Q Consensus       467 ~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~  543 (702)
                      ..|++..+   .+..+|..+..++...|++++|++.|++..+.  .|+..........+...++.++|.+.|......  
T Consensus       119 ~~~~~Al~l~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~--~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~--  194 (296)
T PRK11189        119 EAFDSVLELDPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQD--DPNDPYRALWLYLAESKLDPKQAKENLKQRYEK--  194 (296)
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHccCCHHHHHHHHHHHHhh--
Confidence            88887753   35678888889999999999999999998874  454432222222345677899999999776533  


Q ss_pred             CCCChhhHHHHHHHHHhcCCHHH--HHHHHHhCCC------CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCC-CCc
Q 005329          544 FVPSKEHYGCMIDLLCRAGRLSD--AENMIENMPH------QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHP-SCA  614 (702)
Q Consensus       544 ~~p~~~~~~~l~~~~~~~g~~~~--A~~~~~~~~~------~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~  614 (702)
                      ..|+...+ .++..  ..|+..+  +.+.+.+...      +....+|..++..+...|++++|+..|+++++.+| +..
T Consensus       195 ~~~~~~~~-~~~~~--~lg~~~~~~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~~~~~  271 (296)
T PRK11189        195 LDKEQWGW-NIVEF--YLGKISEETLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNVYNFV  271 (296)
T ss_pred             CCccccHH-HHHHH--HccCCCHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCchHH
Confidence            33433222 23333  3454433  3333333222      12346899999999999999999999999999996 555


Q ss_pred             hhHHHHHHHHHhcCC
Q 005329          615 GTHITLANIYAAKGR  629 (702)
Q Consensus       615 ~~~~~l~~~~~~~g~  629 (702)
                      +....++......++
T Consensus       272 e~~~~~~e~~~~~~~  286 (296)
T PRK11189        272 EHRYALLELALLGQD  286 (296)
T ss_pred             HHHHHHHHHHHHHhh
Confidence            555556655544433

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=99.02  E-value=3.9e-06  Score=84.70  Aligned_cols=415  Identities=11%  Similarity=0.054  Sum_probs=263.7

Q ss_pred             ccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhhhCCChHHHHHHHhccCC---CCcchHHHHHHHHHhcCChhHHHHH
Q 005329          221 DSGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMST---RDVISWTTIITSYVQMGEEENAFDA  297 (702)
Q Consensus       221 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~  297 (702)
                      ..+++....+..+.+++. .+....+.....-.+...|+-++|....+.-..   .+.+.|..+.-.+-...++++|+..
T Consensus        19 E~kQYkkgLK~~~~iL~k-~~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d~~S~vCwHv~gl~~R~dK~Y~eaiKc   97 (700)
T KOG1156|consen   19 ETKQYKKGLKLIKQILKK-FPEHGESLAMKGLTLNCLGKKEEAYELVRLGLRNDLKSHVCWHVLGLLQRSDKKYDEAIKC   97 (700)
T ss_pred             HHHHHHhHHHHHHHHHHh-CCccchhHHhccchhhcccchHHHHHHHHHHhccCcccchhHHHHHHHHhhhhhHHHHHHH
Confidence            456777788888888773 344445555555566778999999888876654   3667899988888888999999999


Q ss_pred             HHHHHHCCCCCChhhHHHHHHHHHccCchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHhcCCC----
Q 005329          298 FVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIR----  373 (702)
Q Consensus       298 ~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~----  373 (702)
                      |......+ +-|...+.-+--.-++.++++..........+.. +.....|..+..++.-.|+...|..+.+...+    
T Consensus        98 y~nAl~~~-~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~-~~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~  175 (700)
T KOG1156|consen   98 YRNALKIE-KDNLQILRDLSLLQIQMRDYEGYLETRNQLLQLR-PSQRASWIGFAVAQHLLGEYKMALEILEEFEKTQNT  175 (700)
T ss_pred             HHHHHhcC-CCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhh-hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence            99988764 3455556555555566777777766666665542 33445677777888888888888888776522    


Q ss_pred             -CChhhHHHH------HHHHHcCCChHHHHHHHHHHHHCCCCCCHHHH-HHHHHHHcccCcHHHHHHHHHHHHHhCCCCC
Q 005329          374 -RDIISWSTI------IGGYSQGGYEEEAFEYLALMRREGPRPNEFAF-ASVLSVCGNMAILEQGKQIHAHVMSIGLERT  445 (702)
Q Consensus       374 -~~~~~~~~l------i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~-~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~  445 (702)
                       ++...+...      .....+.|..++|++.+..-...  ..|...+ .+-...+.+.+++++|..++..++..+  ||
T Consensus       176 ~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~--i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~rn--Pd  251 (700)
T KOG1156|consen  176 SPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQ--IVDKLAFEETKADLLMKLGQLEEAVKVYRRLLERN--PD  251 (700)
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhH--HHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhhC--ch
Confidence             233333222      23455678888888777655332  2222222 223345667788999999888888764  33


Q ss_pred             hh-HHHHHHHHHHhcCCHHHHH-HHHhhCCCC--C-HHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHH
Q 005329          446 AM-IKSALINMYSKCGSIKEAS-QIFYETESD--D-IVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLT  520 (702)
Q Consensus       446 ~~-~~~~li~~~~~~g~~~~A~-~~~~~~~~~--~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~  520 (702)
                      .. .|-.+..++++-.+.-++. .+|....+.  - ...-..=++......-.+..-.++..+.+.|+++--..+.++-.
T Consensus       252 n~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y~r~e~p~Rlplsvl~~eel~~~vdkyL~~~l~Kg~p~vf~dl~SLyk  331 (700)
T KOG1156|consen  252 NLDYYEGLEKALGKIKDMLEALKALYAILSEKYPRHECPRRLPLSVLNGEELKEIVDKYLRPLLSKGVPSVFKDLRSLYK  331 (700)
T ss_pred             hHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcCcccccchhccHHHhCcchhHHHHHHHHHHHhhcCCCchhhhhHHHHh
Confidence            33 3444445554333333333 566554421  0 00000001111112223334456677777787664444433322


Q ss_pred             HHhccCcHH----HHHHHHHHhHHhh--------C-CCCChh--hHHHHHHHHHhcCCHHHHHHHHHhCCC-CCCH-HHH
Q 005329          521 ACSHAGLVD----LGFHYFNLMSDKY--------G-FVPSKE--HYGCMIDLLCRAGRLSDAENMIENMPH-QKDD-VVW  583 (702)
Q Consensus       521 ~~~~~g~~~----~A~~~~~~~~~~~--------~-~~p~~~--~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~~-~~~  583 (702)
                         .-...+    .+..+...+....        . -+|...  ++..++..+-+.|+++.|..+++.+.. .|+. ..|
T Consensus       332 ---~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt~y~laqh~D~~g~~~~A~~yId~AIdHTPTliEly  408 (700)
T KOG1156|consen  332 ---DPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAIDHTPTLIELY  408 (700)
T ss_pred             ---chhHhHHHHHHHHHHHhhcccccCCCcccccccCCchHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCchHHHHH
Confidence               211111    1222222221110        0 134433  344677889999999999999999988 5653 466


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 005329          584 STLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKGV  645 (702)
Q Consensus       584 ~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  645 (702)
                      ..-.+.+...|+.++|...++++.+++-.|...-..-+.-..+.++.++|.++..+....|.
T Consensus       409 ~~KaRI~kH~G~l~eAa~~l~ea~elD~aDR~INsKcAKYmLrAn~i~eA~~~~skFTr~~~  470 (700)
T KOG1156|consen  409 LVKARIFKHAGLLDEAAAWLDEAQELDTADRAINSKCAKYMLRANEIEEAEEVLSKFTREGF  470 (700)
T ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhccchhHHHHHHHHHHHHHccccHHHHHHHHHhhhccc
Confidence            66778889999999999999999999977888887888888999999999999988877764

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.99  E-value=2.8e-07  Score=90.84  Aligned_cols=86  Identities=9%  Similarity=-0.001  Sum_probs=49.3

Q ss_pred             HHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCc-hhHHHHHHHHhhhCCChH
Q 005329          183 GLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSGALNFGREIHTIMLKRGFDVV-SFVANSLATMYSKCGKLD  261 (702)
Q Consensus       183 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~  261 (702)
                      +.+..|+++.|+..|.+.+... ++|..-|..=..+++..|++++|.+=-.+-++.  .|+ ..-|+....++.-.|+++
T Consensus        11 aa~s~~d~~~ai~~~t~ai~l~-p~nhvlySnrsaa~a~~~~~~~al~da~k~~~l--~p~w~kgy~r~Gaa~~~lg~~~   87 (539)
T KOG0548|consen   11 AAFSSGDFETAIRLFTEAIMLS-PTNHVLYSNRSAAYASLGSYEKALKDATKTRRL--NPDWAKGYSRKGAALFGLGDYE   87 (539)
T ss_pred             hhcccccHHHHHHHHHHHHccC-CCccchhcchHHHHHHHhhHHHHHHHHHHHHhc--CCchhhHHHHhHHHHHhcccHH
Confidence            3445667777777776665543 235556666666666666666665544444443  233 344555555555566666


Q ss_pred             HHHHHHhccC
Q 005329          262 YSLRLFERMS  271 (702)
Q Consensus       262 ~A~~~~~~~~  271 (702)
                      +|...|.+-.
T Consensus        88 eA~~ay~~GL   97 (539)
T KOG0548|consen   88 EAILAYSEGL   97 (539)
T ss_pred             HHHHHHHHHh
Confidence            6666665544

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.99  E-value=4e-06  Score=88.59  Aligned_cols=563  Identities=12%  Similarity=0.034  Sum_probs=315.5

Q ss_pred             hHHHHHHhhcCCCCCcc---hHHHHHHHHHcCCChhHHHHHHHHhhhCCCCCCCHHHHHHHHHHhhccCCchhhhHHHHH
Q 005329           57 LHDARKMFDTMTQRDEI---SWTTLISGYVKAMDSIEALALFSRVWVEPQMNMDPFILSLALKACALNVNVNYGESLHGY  133 (702)
Q Consensus        57 ~~~A~~~~~~~~~~~~~---~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~  133 (702)
                      ...|...|-+..+.|+.   .|..|...|..--+...|..-|++..+-.  ..+......+...+++..+++.|..+.-.
T Consensus       474 ~~~al~ali~alrld~~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLD--atdaeaaaa~adtyae~~~we~a~~I~l~  551 (1238)
T KOG1127|consen  474 SALALHALIRALRLDVSLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELD--ATDAEAAAASADTYAEESTWEEAFEICLR  551 (1238)
T ss_pred             HHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC--chhhhhHHHHHHHhhccccHHHHHHHHHH
Confidence            55566666555554433   57777777776667778888888887543  45566777888888888888888887322


Q ss_pred             HHHhc-CCCchhHHHHHHHhhhcCCChhHHHHHhccCC---CCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCh
Q 005329          134 TVKTG-FVNSVFVGSALLDMYTKLGKIELGCRVFDEMP---LRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDS  209 (702)
Q Consensus       134 ~~~~~-~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~  209 (702)
                      ..+.. ...-...|..+--.|.+.++...|+.-|+...   +.|...|..|..+|.+.|++..|+++|.+...  +.|+.
T Consensus       552 ~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~dPkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~--LrP~s  629 (1238)
T KOG1127|consen  552 AAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTDPKDYNLWLGLGEAYPESGRYSHALKVFTKASL--LRPLS  629 (1238)
T ss_pred             HhhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCCchhHHHHHHHHHHHHhcCceehHHHhhhhhHh--cCcHh
Confidence            22211 01111223333345667788888888887655   34667888888999999999999999988755  34443


Q ss_pred             hhHHHHHHH--HhccCChHHHHHHHHHHHHhC------CCCchhHHHHHHHHhhhCCChHHHHHHHhccCC---------
Q 005329          210 YTFAIVLKA--SADSGALNFGREIHTIMLKRG------FDVVSFVANSLATMYSKCGKLDYSLRLFERMST---------  272 (702)
Q Consensus       210 ~~~~~ll~~--~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---------  272 (702)
                       +|.....+  -+..|.+.++...+......-      ...-..++-.+...+.-.|-...|..+|+...+         
T Consensus       630 -~y~~fk~A~~ecd~GkYkeald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~~~l~h~  708 (1238)
T KOG1127|consen  630 -KYGRFKEAVMECDNGKYKEALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIESFIVSLIHS  708 (1238)
T ss_pred             -HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHh
Confidence             33333332  356788888888887776531      001111222222222222323333333332211         


Q ss_pred             --CCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCch---H---HHHHHHHHHHHhCCCCc
Q 005329          273 --RDVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARI---Q---WGEQLHAHVLRLGLVDS  344 (702)
Q Consensus       273 --~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~---~---~a~~~~~~~~~~~~~~~  344 (702)
                        .+...|-.+-          .|..+|-... .. .|+......+..-.-..+..   +   .+.+.+-.-.  .+..+
T Consensus       709 ~~~~~~~Wi~as----------dac~~f~q~e-~~-~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~hl--sl~~~  774 (1238)
T KOG1127|consen  709 LQSDRLQWIVAS----------DACYIFSQEE-PS-IVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIAHL--SLAIH  774 (1238)
T ss_pred             hhhhHHHHHHHh----------HHHHHHHHhc-cc-chHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhHHH--HHhhc
Confidence              1112222211          2223333322 11 22222222222212222222   1   1111111111  11222


Q ss_pred             hHHHHHHHHHHHh----cC----CHHHHHHHHhcCCC---CChhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHH
Q 005329          345 LSVANSIMAMYSK----CG----QLTSTSIVFHGMIR---RDIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFA  413 (702)
Q Consensus       345 ~~~~~~l~~~~~~----~g----~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~  413 (702)
                      ...|..++..|.+    .|    +...|+..+...++   .+...||.|.-. ...|.+.-+...|-+-.... +....+
T Consensus       775 ~~~WyNLGinylr~f~~l~et~~~~~~Ai~c~KkaV~L~ann~~~WnaLGVl-sg~gnva~aQHCfIks~~se-p~~~~~  852 (1238)
T KOG1127|consen  775 MYPWYNLGINYLRYFLLLGETMKDACTAIRCCKKAVSLCANNEGLWNALGVL-SGIGNVACAQHCFIKSRFSE-PTCHCQ  852 (1238)
T ss_pred             cchHHHHhHHHHHHHHHcCCcchhHHHHHHHHHHHHHHhhccHHHHHHHHHh-hccchhhhhhhhhhhhhhcc-ccchhh
Confidence            3333334333333    22    23467777776643   366678776655 66688888888776665542 335557


Q ss_pred             HHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhh-----CCC---CCHHHHHHHHH
Q 005329          414 FASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYE-----TES---DDIVSWTAMIN  485 (702)
Q Consensus       414 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~-----~~~---~~~~~~~~li~  485 (702)
                      |..+--.+....+++.|...|.......+. +..-+--........|+.-++..+|.-     +.+   ++..-|-+-..
T Consensus       853 W~NlgvL~l~n~d~E~A~~af~~~qSLdP~-nl~~WlG~Ali~eavG~ii~~~~lfaHs~el~~~~gka~~f~Yw~c~te  931 (1238)
T KOG1127|consen  853 WLNLGVLVLENQDFEHAEPAFSSVQSLDPL-NLVQWLGEALIPEAVGRIIERLILFAHSDELCSKEGKAKKFQYWLCATE  931 (1238)
T ss_pred             eeccceeEEecccHHHhhHHHHhhhhcCch-hhHHHHHHHHhHHHHHHHHHHHHHHHhhHHhhccccccchhhHHHHHHH
Confidence            777777788889999999999888765422 222222222223346777777777764     111   34444544444


Q ss_pred             HHHHcCChHHHHHHHHHchhC---------CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHH----
Q 005329          486 GYAEHGYSQEAIHLFEKVPMV---------GLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYG----  552 (702)
Q Consensus       486 ~~~~~g~~~~A~~~~~~m~~~---------g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~----  552 (702)
                      ....+|+.++-+...+++-..         |.+.+...|........+.+.+..|.+...+...-...+.+...|+    
T Consensus       932 ~h~~Ng~~e~~I~t~~ki~sAs~al~~yf~~~p~~~fAy~~~gstlEhL~ey~~a~ela~RliglLe~k~d~sqynvak~ 1011 (1238)
T KOG1127|consen  932 IHLQNGNIEESINTARKISSASLALSYYFLGHPQLCFAYAANGSTLEHLEEYRAALELATRLIGLLELKLDESQYNVAKP 1011 (1238)
T ss_pred             HHHhccchHHHHHHhhhhhhhHHHHHHHHhcCcchhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhh
Confidence            556666666555444443321         2333446777777777777877777777666543323344555555    


Q ss_pred             HHHHHHHhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCch---hHHHHHHHHHhcCC
Q 005329          553 CMIDLLCRAGRLSDAENMIENMPHQKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAG---THITLANIYAAKGR  629 (702)
Q Consensus       553 ~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~---~~~~l~~~~~~~g~  629 (702)
                      .+.+.++..|.++.|..-+......-+..+..+-+.. .-.|+++++.+.|++++.+...+..   ....+++....++.
T Consensus      1012 ~~gRL~lslgefe~A~~a~~~~~~evdEdi~gt~l~l-Ffkndf~~sl~~fe~aLsis~se~d~vvLl~kva~~~g~~~~ 1090 (1238)
T KOG1127|consen 1012 DAGRLELSLGEFESAKKASWKEWMEVDEDIRGTDLTL-FFKNDFFSSLEFFEQALSISNSESDKVVLLCKVAVCMGLARQ 1090 (1238)
T ss_pred             hhhhhhhhhcchhhHhhhhcccchhHHHHHhhhhHHH-HHHhHHHHHHHHHHHHhhhcccccchhhhhHHHHHHHhhccc
Confidence            3456677889999887776655443333333333322 4578999999999999988644433   44556667777888


Q ss_pred             hHHHHHHHHHHHh
Q 005329          630 WREAAEVRKMMRS  642 (702)
Q Consensus       630 ~~~A~~~~~~~~~  642 (702)
                      .+.|...+-+...
T Consensus      1091 k~~A~~lLfe~~~ 1103 (1238)
T KOG1127|consen 1091 KNDAQFLLFEVKS 1103 (1238)
T ss_pred             chHHHHHHHHHHH
Confidence            8888887666654

>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=98.98  E-value=4.6e-08  Score=94.11  Aligned_cols=156  Identities=13%  Similarity=0.161  Sum_probs=110.0

Q ss_pred             HHHHHhcCCHHHHHHHHhhCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhc----cCcH
Q 005329          453 INMYSKCGSIKEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSH----AGLV  528 (702)
Q Consensus       453 i~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~----~g~~  528 (702)
                      ...+...|++++|++++...  .+.......+..|.+.++++.|.+.++.|.+.  ..|. +...+..++..    .+.+
T Consensus       109 A~i~~~~~~~~~AL~~l~~~--~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~--~eD~-~l~qLa~awv~l~~g~e~~  183 (290)
T PF04733_consen  109 ATILFHEGDYEEALKLLHKG--GSLELLALAVQILLKMNRPDLAEKELKNMQQI--DEDS-ILTQLAEAWVNLATGGEKY  183 (290)
T ss_dssp             HHHHCCCCHHHHHHCCCTTT--TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCC--SCCH-HHHHHHHHHHHHHHTTTCC
T ss_pred             HHHHHHcCCHHHHHHHHHcc--CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcH-HHHHHHHHHHHHHhCchhH
Confidence            34556678888888777665  45666677788888899999999999888863  3443 33334444322    2368


Q ss_pred             HHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCH-HHHHHHHHH
Q 005329          529 DLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDV-NCGRHTAEK  605 (702)
Q Consensus       529 ~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~-~~A~~~~~~  605 (702)
                      .+|..+|+++.++  ..+++.+.+.+..+....|++++|.+++++...  +.++.++..++......|+. +.+.+.+.+
T Consensus       184 ~~A~y~f~El~~~--~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~~~d~LaNliv~~~~~gk~~~~~~~~l~q  261 (290)
T PF04733_consen  184 QDAFYIFEELSDK--FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPNDPDTLANLIVCSLHLGKPTEAAERYLSQ  261 (290)
T ss_dssp             CHHHHHHHHHHCC--S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CCHHHHHHHHHHHHHHTT-TCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhc--cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHhCCChhHHHHHHHH
Confidence            8899999988654  456778888888888889999999988888766  34566777777777777776 677788888


Q ss_pred             HHHhCCCCch
Q 005329          606 ILELHPSCAG  615 (702)
Q Consensus       606 ~~~~~p~~~~  615 (702)
                      +...+|+++.
T Consensus       262 L~~~~p~h~~  271 (290)
T PF04733_consen  262 LKQSNPNHPL  271 (290)
T ss_dssp             CHHHTTTSHH
T ss_pred             HHHhCCCChH
Confidence            8888887654

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.

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.98  E-value=3e-05  Score=77.69  Aligned_cols=118  Identities=13%  Similarity=0.058  Sum_probs=61.8

Q ss_pred             HHHHHcCCChhHHHHHHHHhhhCCCCCCCHHHHHHHHHHhhccCCchhhhHHHHHHHHhcCCCchhHHHHH--HHhhh--
Q 005329           79 ISGYVKAMDSIEALALFSRVWVEPQMNMDPFILSLALKACALNVNVNYGESLHGYTVKTGFVNSVFVGSAL--LDMYT--  154 (702)
Q Consensus        79 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l--i~~~~--  154 (702)
                      +..+...|++++|...-.++....  +.+...+..-+-+..+.+.+++|..+.+.   .+   -..+++..  =.+||  
T Consensus        19 ln~~~~~~e~e~a~k~~~Kil~~~--pdd~~a~~cKvValIq~~ky~~ALk~ikk---~~---~~~~~~~~~fEKAYc~Y   90 (652)
T KOG2376|consen   19 LNRHGKNGEYEEAVKTANKILSIV--PDDEDAIRCKVVALIQLDKYEDALKLIKK---NG---ALLVINSFFFEKAYCEY   90 (652)
T ss_pred             HHHhccchHHHHHHHHHHHHHhcC--CCcHhhHhhhHhhhhhhhHHHHHHHHHHh---cc---hhhhcchhhHHHHHHHH
Confidence            344556667777777777776431  44444555555556666666666533222   11   11111111  23333  


Q ss_pred             cCCChhHHHHHhccCCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCC
Q 005329          155 KLGKIELGCRVFDEMPLRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSK  204 (702)
Q Consensus       155 ~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~  204 (702)
                      +.+..++|...++...+.+..+-..=...+.+.|++++|+++|+.+.+++
T Consensus        91 rlnk~Dealk~~~~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~  140 (652)
T KOG2376|consen   91 RLNKLDEALKTLKGLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNN  140 (652)
T ss_pred             HcccHHHHHHHHhcccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            55666666666664443343344444555666666666666666665543

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.97  E-value=6.9e-07  Score=88.17  Aligned_cols=166  Identities=13%  Similarity=0.064  Sum_probs=116.6

Q ss_pred             HHHHHHhcCCHHHHHHHHhhCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHH-HHHHHHHHHhccCcHHH
Q 005329          452 LINMYSKCGSIKEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSV-TFMGVLTACSHAGLVDL  530 (702)
Q Consensus       452 li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~g~~~~  530 (702)
                      +..+|.+.++.+.|...|++...+...     -....+....+++....+...-  +.|... -...-...+.+.|++..
T Consensus       304 ~g~a~~k~~~~~~ai~~~~kaLte~Rt-----~~~ls~lk~~Ek~~k~~e~~a~--~~pe~A~e~r~kGne~Fk~gdy~~  376 (539)
T KOG0548|consen  304 LGNAYTKREDYEGAIKYYQKALTEHRT-----PDLLSKLKEAEKALKEAERKAY--INPEKAEEEREKGNEAFKKGDYPE  376 (539)
T ss_pred             hhhhhhhHHhHHHHHHHHHHHhhhhcC-----HHHHHHHHHHHHHHHHHHHHHh--hChhHHHHHHHHHHHHHhccCHHH
Confidence            444666778888888888775421110     1112233345555555544332  234331 22233666788999999


Q ss_pred             HHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC-C-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 005329          531 GFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH-Q-KDDVVWSTLLRACMVQGDVNCGRHTAEKIL  607 (702)
Q Consensus       531 A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~-p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  607 (702)
                      |+..|.+++.+   .|+ ...|..-.-+|.+.|.+..|+.-.+...+ . +....|..-+.++....+++.|.+.|++.+
T Consensus       377 Av~~YteAIkr---~P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p~~~kgy~RKg~al~~mk~ydkAleay~eal  453 (539)
T KOG0548|consen  377 AVKHYTEAIKR---DPEDARLYSNRAACYLKLGEYPEALKDAKKCIELDPNFIKAYLRKGAALRAMKEYDKALEAYQEAL  453 (539)
T ss_pred             HHHHHHHHHhc---CCchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999998865   465 88899999999999999999988777766 3 445577777777778889999999999999


Q ss_pred             HhCCCCchhHHHHHHHHHhc
Q 005329          608 ELHPSCAGTHITLANIYAAK  627 (702)
Q Consensus       608 ~~~p~~~~~~~~l~~~~~~~  627 (702)
                      +.+|++......+..+...+
T Consensus       454 e~dp~~~e~~~~~~rc~~a~  473 (539)
T KOG0548|consen  454 ELDPSNAEAIDGYRRCVEAQ  473 (539)
T ss_pred             hcCchhHHHHHHHHHHHHHh
Confidence            99999988888888877764

>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=98.97  E-value=3.2e-08  Score=95.20  Aligned_cols=192  Identities=14%  Similarity=0.050  Sum_probs=132.9

Q ss_pred             CCChhHHHHHHHHHHhcCCHHHHHHHHhhCC-CC----CHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHH
Q 005329          443 ERTAMIKSALINMYSKCGSIKEASQIFYETE-SD----DIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMG  517 (702)
Q Consensus       443 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~-~~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~  517 (702)
                      .|.......+...+...++-+.+..-+++.. ++    +..........+...|++++|++++.+.      .+......
T Consensus        63 ~~~l~av~~la~y~~~~~~~e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~------~~lE~~al  136 (290)
T PF04733_consen   63 SPELQAVRLLAEYLSSPSDKESALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG------GSLELLAL  136 (290)
T ss_dssp             SCCCHHHHHHHHHHCTSTTHHCHHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT------TCHHHHHH
T ss_pred             ChhHHHHHHHHHHHhCccchHHHHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc------CcccHHHH
Confidence            3444444444443433345555555554433 22    2222223334566679999999888653      34566677


Q ss_pred             HHHHHhccCcHHHHHHHHHHhHHhhCCCCChhh---HHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHh
Q 005329          518 VLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEH---YGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMV  592 (702)
Q Consensus       518 ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~---~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~  592 (702)
                      .+..+.+.++++.|.+.++.|.   .+..|...   ..+.+..+.-.+.+.+|.-+|+++..  .+++.+.+.++.++..
T Consensus       137 ~Vqi~L~~~R~dlA~k~l~~~~---~~~eD~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~~~~t~~~lng~A~~~l~  213 (290)
T PF04733_consen  137 AVQILLKMNRPDLAEKELKNMQ---QIDEDSILTQLAEAWVNLATGGEKYQDAFYIFEELSDKFGSTPKLLNGLAVCHLQ  213 (290)
T ss_dssp             HHHHHHHTT-HHHHHHHHHHHH---CCSCCHHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCCS--SHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHH---hcCCcHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhccCCCHHHHHHHHHHHHH
Confidence            8889999999999999999996   34555222   22333333334479999999999877  4678888999999999


Q ss_pred             cCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCCh-HHHHHHHHHHHhC
Q 005329          593 QGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRW-REAAEVRKMMRSK  643 (702)
Q Consensus       593 ~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~-~~A~~~~~~~~~~  643 (702)
                      .|++++|+++++++++.+|.++.+..+++-+....|+. +.+.+++..+...
T Consensus       214 ~~~~~eAe~~L~~al~~~~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~  265 (290)
T PF04733_consen  214 LGHYEEAEELLEEALEKDPNDPDTLANLIVCSLHLGKPTEAAERYLSQLKQS  265 (290)
T ss_dssp             CT-HHHHHHHHHHHCCC-CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHH
T ss_pred             hCCHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHhCCChhHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999998 6677888888764

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.

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.97  E-value=1e-05  Score=83.67  Aligned_cols=266  Identities=11%  Similarity=0.048  Sum_probs=149.9

Q ss_pred             HhhcCCCCCcchHHHHHH--HHHcCCChhHHHHHHHHhhhCCCCCCCHHHHHHHHHHhhccCCchhhhHHHHHHHHhc--
Q 005329           63 MFDTMTQRDEISWTTLIS--GYVKAMDSIEALALFSRVWVEPQMNMDPFILSLALKACALNVNVNYGESLHGYTVKTG--  138 (702)
Q Consensus        63 ~~~~~~~~~~~~~~~ll~--~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~--  138 (702)
                      -|-....-|..|-..++.  .|..-|+.+.|.+-.+-+.       +...|..+.+.|.+.++++-|+-.+..|....  
T Consensus       717 dFvgle~Cd~~TRkaml~FSfyvtiG~MD~AfksI~~Ik-------S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRga  789 (1416)
T KOG3617|consen  717 DFVGLENCDESTRKAMLDFSFYVTIGSMDAAFKSIQFIK-------SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGA  789 (1416)
T ss_pred             HhcCccccCHHHHHhhhceeEEEEeccHHHHHHHHHHHh-------hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhH
Confidence            333334447777777775  3778899999988877665       33689999999999999888888777765321  


Q ss_pred             ------CCCchhHHHHHHHhhhcCCChhHHHHHhccCCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhH
Q 005329          139 ------FVNSVFVGSALLDMYTKLGKIELGCRVFDEMPLRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTF  212 (702)
Q Consensus       139 ------~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~  212 (702)
                            .+.+..+-....-.....|.+++|..++.+-.+     |..|=..|-..|.+++|.++-+.--+  +. =..||
T Consensus       790 RAlR~a~q~~~e~eakvAvLAieLgMlEeA~~lYr~ckR-----~DLlNKlyQs~g~w~eA~eiAE~~DR--iH-Lr~Ty  861 (1416)
T KOG3617|consen  790 RALRRAQQNGEEDEAKVAVLAIELGMLEEALILYRQCKR-----YDLLNKLYQSQGMWSEAFEIAETKDR--IH-LRNTY  861 (1416)
T ss_pred             HHHHHHHhCCcchhhHHHHHHHHHhhHHHHHHHHHHHHH-----HHHHHHHHHhcccHHHHHHHHhhccc--ee-hhhhH
Confidence                  111111111122223455777777777765442     44555666667777777777665322  11 12344


Q ss_pred             HHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhhhCCChHHHHHHHhccCCCCcchHHHHHHHHHhcCChh
Q 005329          213 AIVLKASADSGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMSTRDVISWTTIITSYVQMGEEE  292 (702)
Q Consensus       213 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~  292 (702)
                      ..-...+-..++.+.|.+.|++.-.    +--.++..|.      .++.......+.+.++..  |.=....+-..|+.+
T Consensus       862 y~yA~~Lear~Di~~AleyyEK~~~----hafev~rmL~------e~p~~~e~Yv~~~~d~~L--~~WWgqYlES~Gemd  929 (1416)
T KOG3617|consen  862 YNYAKYLEARRDIEAALEYYEKAGV----HAFEVFRMLK------EYPKQIEQYVRRKRDESL--YSWWGQYLESVGEMD  929 (1416)
T ss_pred             HHHHHHHHhhccHHHHHHHHHhcCC----hHHHHHHHHH------hChHHHHHHHHhccchHH--HHHHHHHHhcccchH
Confidence            4445555566777777777764321    1111111111      123334444454444432  222333344567777


Q ss_pred             HHHHHHHHHHHCCCCCChhhHHHHHHHHHccCchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHhc
Q 005329          293 NAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHG  370 (702)
Q Consensus       293 ~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  370 (702)
                      .|+.+|...+.         |-++++..|-.|+.++|-++-++-      -|....-.+.+.|-..|++.+|..+|.+
T Consensus       930 aAl~~Y~~A~D---------~fs~VrI~C~qGk~~kAa~iA~es------gd~AAcYhlaR~YEn~g~v~~Av~FfTr  992 (1416)
T KOG3617|consen  930 AALSFYSSAKD---------YFSMVRIKCIQGKTDKAARIAEES------GDKAACYHLARMYENDGDVVKAVKFFTR  992 (1416)
T ss_pred             HHHHHHHHhhh---------hhhheeeEeeccCchHHHHHHHhc------ccHHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence            77777766554         344555556667777666665432      1233333456666666666666666654

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=98.97  E-value=1.6e-07  Score=82.45  Aligned_cols=190  Identities=13%  Similarity=0.071  Sum_probs=152.7

Q ss_pred             HHHHHHHhcCCHHHHHHHHhhCCCC---CHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCC-CHHHHHHHHHHHhccC
Q 005329          451 ALINMYSKCGSIKEASQIFYETESD---DIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRP-DSVTFMGVLTACSHAG  526 (702)
Q Consensus       451 ~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~g  526 (702)
                      .|.-.|...|+...|..-+++..+.   +..+|..+...|.+.|..+.|.+.|++..+.  .| +....|....-+|..|
T Consensus        40 qLal~YL~~gd~~~A~~nlekAL~~DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl--~p~~GdVLNNYG~FLC~qg  117 (250)
T COG3063          40 QLALGYLQQGDYAQAKKNLEKALEHDPSYYLAHLVRAHYYQKLGENDLADESYRKALSL--APNNGDVLNNYGAFLCAQG  117 (250)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChhhHHHHHHHHHhc--CCCccchhhhhhHHHHhCC
Confidence            3666788888888888888887743   4467888888899999999999999988874  45 4467788888888889


Q ss_pred             cHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CC-CHHHHHHHHHHHHhcCCHHHHHHHHH
Q 005329          527 LVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPH-QK-DDVVWSTLLRACMVQGDVNCGRHTAE  604 (702)
Q Consensus       527 ~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p-~~~~~~~l~~~~~~~g~~~~A~~~~~  604 (702)
                      .+++|.+.|+.+.......--..+|..++-+..+.|+.+.|...|++... .| .+.+...+.......|++..|...++
T Consensus       118 ~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~~~~~~l~~a~~~~~~~~y~~Ar~~~~  197 (250)
T COG3063         118 RPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQFPPALLELARLHYKAGDYAPARLYLE  197 (250)
T ss_pred             ChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcCCChHHHHHHHHHHhcccchHHHHHHH
Confidence            99999999998876532222377888888888899999999999988877 33 46677888888889999999999999


Q ss_pred             HHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 005329          605 KILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRS  642 (702)
Q Consensus       605 ~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  642 (702)
                      +...-.+.+...+...+.+-.+.|+-+.|-++=..+..
T Consensus       198 ~~~~~~~~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r  235 (250)
T COG3063         198 RYQQRGGAQAESLLLGIRIAKRLGDRAAAQRYQAQLQR  235 (250)
T ss_pred             HHHhcccccHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            98888887888888888888889998888777666554

>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=98.94  E-value=1.1e-06  Score=91.10  Aligned_cols=126  Identities=17%  Similarity=0.188  Sum_probs=95.8

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC-C-CCHHHHHHHHHHH
Q 005329          514 TFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH-Q-KDDVVWSTLLRAC  590 (702)
Q Consensus       514 ~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~-p~~~~~~~l~~~~  590 (702)
                      ++..+...|...|++++|++++++.++.   .|+ ++.|..-++.|-+.|++++|.+.++.+.. . .|...-+-....+
T Consensus       196 ~~~~lAqhyd~~g~~~~Al~~Id~aI~h---tPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~~DRyiNsK~aKy~  272 (517)
T PF12569_consen  196 TLYFLAQHYDYLGDYEKALEYIDKAIEH---TPTLVELYMTKARILKHAGDLKEAAEAMDEARELDLADRYINSKCAKYL  272 (517)
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHhc---CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCChhhHHHHHHHHHHH
Confidence            4455666778899999999999988854   787 88888889999999999999999988877 3 3455555566677


Q ss_pred             HhcCCHHHHHHHHHHHHHhC--CCC-------chhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 005329          591 MVQGDVNCGRHTAEKILELH--PSC-------AGTHITLANIYAAKGRWREAAEVRKMMRS  642 (702)
Q Consensus       591 ~~~g~~~~A~~~~~~~~~~~--p~~-------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  642 (702)
                      .+.|+.++|+.++..-...+  |..       .....-.+.+|.+.|++..|++.+..+.+
T Consensus       273 LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v~k  333 (517)
T PF12569_consen  273 LRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFHAVLK  333 (517)
T ss_pred             HHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            79999999999888765544  211       12233468889999999999888776654

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 [], [].

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.93  E-value=3.1e-08  Score=98.29  Aligned_cols=195  Identities=12%  Similarity=0.063  Sum_probs=144.2

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCC--------CCHHHH
Q 005329          447 MIKSALINMYSKCGSIKEASQIFYETE---SDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLR--------PDSVTF  515 (702)
Q Consensus       447 ~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~--------p~~~~~  515 (702)
                      ..|..|.......++-..|+..+++..   ..|......|...|...|.-..|+..++.-+....+        ++...-
T Consensus       320 eAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~NleaLmaLAVSytNeg~q~~Al~~L~~Wi~~~p~y~~l~~a~~~~~~~  399 (579)
T KOG1125|consen  320 EAWQKLGITQAENENEQNAISALRRCLELDPTNLEALMALAVSYTNEGLQNQALKMLDKWIRNKPKYVHLVSAGENEDFE  399 (579)
T ss_pred             HHHHHhhhHhhhccchHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCccchhccccCcccccc
Confidence            334444444445555555555555544   245666777777888888888888888776543210        000000


Q ss_pred             HHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CC-CHHHHHHHHHHHHhc
Q 005329          516 MGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPH-QK-DDVVWSTLLRACMVQ  593 (702)
Q Consensus       516 ~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p-~~~~~~~l~~~~~~~  593 (702)
                      ..  ..+..........++|-.+....+..+|+.++..|.-.|.-.|++++|.+.|+.+.. +| |...||.|+..+...
T Consensus       400 ~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiDcf~~AL~v~Pnd~~lWNRLGAtLAN~  477 (579)
T KOG1125|consen  400 NT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVDCFEAALQVKPNDYLLWNRLGATLANG  477 (579)
T ss_pred             CC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHHHHHHHHhcCCchHHHHHHhhHHhcCC
Confidence            00  122333445566777777766656668889999999999999999999999999887 55 567999999999999


Q ss_pred             CCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 005329          594 GDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSK  643 (702)
Q Consensus       594 g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  643 (702)
                      .+.++|+..|++++++.|....+.++|+-.|...|.|+||.+.|=.+...
T Consensus       478 ~~s~EAIsAY~rALqLqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~m  527 (579)
T KOG1125|consen  478 NRSEEAISAYNRALQLQPGYVRVRYNLGISCMNLGAYKEAVKHLLEALSM  527 (579)
T ss_pred             cccHHHHHHHHHHHhcCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999998777654

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.92  E-value=3.5e-06  Score=78.22  Aligned_cols=287  Identities=13%  Similarity=0.111  Sum_probs=162.4

Q ss_pred             HHHHHHhcCCHHHHHHHHhcCCCCChhhHHHH---HHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHH-HHHHHcccCc
Q 005329          351 IMAMYSKCGQLTSTSIVFHGMIRRDIISWSTI---IGGYSQGGYEEEAFEYLALMRREGPRPNEFAFAS-VLSVCGNMAI  426 (702)
Q Consensus       351 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l---i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~-ll~~~~~~~~  426 (702)
                      +...+...|++.+|+.-|...++-|+..|.++   ...|...|+...|+.-+....+  .+||...-.. -...+.+.|.
T Consensus        44 lGk~lla~~Q~sDALt~yHaAve~dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVle--lKpDF~~ARiQRg~vllK~Ge  121 (504)
T KOG0624|consen   44 LGKELLARGQLSDALTHYHAAVEGDPNNYQAIFRRATVYLAMGKSKAALQDLSRVLE--LKPDFMAARIQRGVVLLKQGE  121 (504)
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhcCCccchhhHHHHHh--cCccHHHHHHHhchhhhhccc
Confidence            44445555666666666665555555444443   2345555555555555555554  3555432111 1123445566


Q ss_pred             HHHHHHHHHHHHHhCCCCC--hh------------HHHHHHHHHHhcCCHHHHHHHHhhCCC---CCHHHHHHHHHHHHH
Q 005329          427 LEQGKQIHAHVMSIGLERT--AM------------IKSALINMYSKCGSIKEASQIFYETES---DDIVSWTAMINGYAE  489 (702)
Q Consensus       427 ~~~a~~~~~~~~~~~~~~~--~~------------~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~  489 (702)
                      ++.|..=|+.+.++.....  ..            .....+..+...|+...|+.....+.+   -|...|..-..+|..
T Consensus       122 le~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~~Wda~l~~~Rakc~i~  201 (504)
T KOG0624|consen  122 LEQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQPWDASLRQARAKCYIA  201 (504)
T ss_pred             HHHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcCcchhHHHHHHHHHHHh
Confidence            6666666665555432111  00            011122233445666666666665542   366666666777777


Q ss_pred             cCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChh-hH---HHH---H------H
Q 005329          490 HGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKE-HY---GCM---I------D  556 (702)
Q Consensus       490 ~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~-~~---~~l---~------~  556 (702)
                      .|++..|+.=++...+.. .-+..++.-+-..+...|+.+.++...++..   .+.||.. +|   -.|   +      .
T Consensus       202 ~~e~k~AI~Dlk~askLs-~DnTe~~ykis~L~Y~vgd~~~sL~~iRECL---KldpdHK~Cf~~YKklkKv~K~les~e  277 (504)
T KOG0624|consen  202 EGEPKKAIHDLKQASKLS-QDNTEGHYKISQLLYTVGDAENSLKEIRECL---KLDPDHKLCFPFYKKLKKVVKSLESAE  277 (504)
T ss_pred             cCcHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHhhhhHHHHHHHHHHHH---ccCcchhhHHHHHHHHHHHHHHHHHHH
Confidence            777777776665555432 2233344445555566677777766666665   4566632 22   111   1      1


Q ss_pred             HHHhcCCHHHHHHHHHhCCC-CCCH-----HHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCCh
Q 005329          557 LLCRAGRLSDAENMIENMPH-QKDD-----VVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRW  630 (702)
Q Consensus       557 ~~~~~g~~~~A~~~~~~~~~-~p~~-----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  630 (702)
                      .....++|.++++-.+...+ .|..     ..+..+-..+...|++.+|++...++++.+|+|..++..-+.+|.-..+|
T Consensus       278 ~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~~d~~dv~~l~dRAeA~l~dE~Y  357 (504)
T KOG0624|consen  278 QAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLDIDPDDVQVLCDRAEAYLGDEMY  357 (504)
T ss_pred             HHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhhHHH
Confidence            23345666666666665544 4441     12233444455667888888888888888888888888888888888888


Q ss_pred             HHHHHHHHHHHhC
Q 005329          631 REAAEVRKMMRSK  643 (702)
Q Consensus       631 ~~A~~~~~~~~~~  643 (702)
                      ++|+.-|+++.+.
T Consensus       358 D~AI~dye~A~e~  370 (504)
T KOG0624|consen  358 DDAIHDYEKALEL  370 (504)
T ss_pred             HHHHHHHHHHHhc
Confidence            8888888877654

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.88  E-value=0.00023  Score=82.53  Aligned_cols=362  Identities=12%  Similarity=0.007  Sum_probs=162.7

Q ss_pred             HHHhhhCCChHHHHHHHhccCCCCcch--HHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCchHH
Q 005329          251 ATMYSKCGKLDYSLRLFERMSTRDVIS--WTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQW  328 (702)
Q Consensus       251 i~~~~~~g~~~~A~~~~~~~~~~~~~~--~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~  328 (702)
                      ...+...|++.+|..........+...  ...........|+++.+...+..+.......+..........+...|++++
T Consensus       348 a~~~~~~g~~~~Al~~a~~a~d~~~~~~ll~~~a~~l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~~~  427 (903)
T PRK04841        348 AEAWLAQGFPSEAIHHALAAGDAQLLRDILLQHGWSLFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRYSE  427 (903)
T ss_pred             HHHHHHCCCHHHHHHHHHHCCCHHHHHHHHHHhHHHHHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCHHH
Confidence            344555666666666555554332111  111122344556666666666555221111122222233334455677777


Q ss_pred             HHHHHHHHHHhCCC------Cc--hHHHHHHHHHHHhcCCHHHHHHHHhcCCC----CCh----hhHHHHHHHHHcCCCh
Q 005329          329 GEQLHAHVLRLGLV------DS--LSVANSIMAMYSKCGQLTSTSIVFHGMIR----RDI----ISWSTIIGGYSQGGYE  392 (702)
Q Consensus       329 a~~~~~~~~~~~~~------~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~----~~~----~~~~~li~~~~~~g~~  392 (702)
                      +...+......--.      +.  ......+...+...|++++|...+++...    .+.    ...+.+...+...|++
T Consensus       428 a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~  507 (903)
T PRK04841        428 VNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGEL  507 (903)
T ss_pred             HHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCH
Confidence            77777665442110      01  11112222334445555555555544321    111    1223344444455555


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCC-CChhHHHHHHHHHHhcCCHHHHHHHHhh
Q 005329          393 EEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLE-RTAMIKSALINMYSKCGSIKEASQIFYE  471 (702)
Q Consensus       393 ~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~  471 (702)
                      ++|...+.+.......                               .+.. ........+...+...|++++|...+++
T Consensus       508 ~~A~~~~~~al~~~~~-------------------------------~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~  556 (903)
T PRK04841        508 ARALAMMQQTEQMARQ-------------------------------HDVYHYALWSLLQQSEILFAQGFLQAAYETQEK  556 (903)
T ss_pred             HHHHHHHHHHHHHHhh-------------------------------hcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            5555555554321000                               0000 0011222233344444555555444433


Q ss_pred             CCC-------C----CHHHHHHHHHHHHHcCChHHHHHHHHHchhC--CCCCC--HHHHHHHHHHHhccCcHHHHHHHHH
Q 005329          472 TES-------D----DIVSWTAMINGYAEHGYSQEAIHLFEKVPMV--GLRPD--SVTFMGVLTACSHAGLVDLGFHYFN  536 (702)
Q Consensus       472 ~~~-------~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--g~~p~--~~~~~~ll~~~~~~g~~~~A~~~~~  536 (702)
                      ...       +    ....+..+...+...|++++|...+++....  ...+.  ...+..+.......|+.+.|.+.+.
T Consensus       557 al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~  636 (903)
T PRK04841        557 AFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLN  636 (903)
T ss_pred             HHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            221       0    1112333344455556666666666554431  11111  1233334445556666776666666


Q ss_pred             HhHHhhCCCCChhhH-----HHHHHHHHhcCCHHHHHHHHHhCCCC--CCH----HHHHHHHHHHHhcCCHHHHHHHHHH
Q 005329          537 LMSDKYGFVPSKEHY-----GCMIDLLCRAGRLSDAENMIENMPHQ--KDD----VVWSTLLRACMVQGDVNCGRHTAEK  605 (702)
Q Consensus       537 ~~~~~~~~~p~~~~~-----~~l~~~~~~~g~~~~A~~~~~~~~~~--p~~----~~~~~l~~~~~~~g~~~~A~~~~~~  605 (702)
                      .+............+     ......+...|+.+.|..++......  ...    ..+..+..++...|++++|...+++
T Consensus       637 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~  716 (903)
T PRK04841        637 RLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLGQFDEAEIILEE  716 (903)
T ss_pred             HHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            653321111000000     01123334466677777766555431  111    1123455556667777777777777


Q ss_pred             HHHhC------CCCchhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 005329          606 ILELH------PSCAGTHITLANIYAAKGRWREAAEVRKMMRSK  643 (702)
Q Consensus       606 ~~~~~------p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  643 (702)
                      +++..      +.....+..++.++.+.|+.++|...+.++.+.
T Consensus       717 al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~l  760 (903)
T PRK04841        717 LNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEALKL  760 (903)
T ss_pred             HHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            76642      112235556667777777777777777766653

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.87  E-value=6e-06  Score=75.21  Aligned_cols=394  Identities=10%  Similarity=0.027  Sum_probs=196.6

Q ss_pred             CCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhhhCCChHHHHHHHhccCC--CCcchHHHH-
Q 005329          205 EQGDSYTFAIVLKASADSGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMST--RDVISWTTI-  281 (702)
Q Consensus       205 ~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~l-  281 (702)
                      +..-..-+...+..+.+..+++.|.+++....+.. +.+....+.|...|-...++..|-..++++..  |...-|... 
T Consensus         6 ~~i~EGeftaviy~lI~d~ry~DaI~~l~s~~Er~-p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~P~~~qYrlY~   84 (459)
T KOG4340|consen    6 AQIPEGEFTAVVYRLIRDARYADAIQLLGSELERS-PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQLHPELEQYRLYQ   84 (459)
T ss_pred             ccCCCCchHHHHHHHHHHhhHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHHH
Confidence            33333445556666666666666666666555543 22444455555666666666666666666543  222222221 


Q ss_pred             HHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCH
Q 005329          282 ITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQL  361 (702)
Q Consensus       282 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  361 (702)
                      ..++-+.+.+..|+++...|...   |+...-..-+.+..                                 .-..+++
T Consensus        85 AQSLY~A~i~ADALrV~~~~~D~---~~L~~~~lqLqaAI---------------------------------kYse~Dl  128 (459)
T KOG4340|consen   85 AQSLYKACIYADALRVAFLLLDN---PALHSRVLQLQAAI---------------------------------KYSEGDL  128 (459)
T ss_pred             HHHHHHhcccHHHHHHHHHhcCC---HHHHHHHHHHHHHH---------------------------------hcccccC
Confidence            23444556666666666555432   11111111111110                                 1123444


Q ss_pred             HHHHHHHhcCCC-CChhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHHh
Q 005329          362 TSTSIVFHGMIR-RDIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSI  440 (702)
Q Consensus       362 ~~a~~~~~~~~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  440 (702)
                      ..+..+.++.+. .+..+.+.......+.|+++.|.+-|+...+-+---....|+..+ +..+.++.+.|.+...++++.
T Consensus       129 ~g~rsLveQlp~en~Ad~~in~gCllykegqyEaAvqkFqaAlqvsGyqpllAYniAL-aHy~~~qyasALk~iSEIieR  207 (459)
T KOG4340|consen  129 PGSRSLVEQLPSENEADGQINLGCLLYKEGQYEAAVQKFQAALQVSGYQPLLAYNLAL-AHYSSRQYASALKHISEIIER  207 (459)
T ss_pred             cchHHHHHhccCCCccchhccchheeeccccHHHHHHHHHHHHhhcCCCchhHHHHHH-HHHhhhhHHHHHHHHHHHHHh
Confidence            444444444442 233333333333344455555555554444422111223333322 222334445555544444443


Q ss_pred             CCCCC----------------------------hhHHHHHHHHHHhcCCHHHHHHHHhhCCC-----CCHHHHHHHHHHH
Q 005329          441 GLERT----------------------------AMIKSALINMYSKCGSIKEASQIFYETES-----DDIVSWTAMINGY  487 (702)
Q Consensus       441 ~~~~~----------------------------~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~~li~~~  487 (702)
                      |+...                            ...+|.-...+.+.|+++.|.+.+-+|+.     -|+++...+.-.=
T Consensus       208 G~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n  287 (459)
T KOG4340|consen  208 GIRQHPELGIGMTTEGIDVRSVGNTLVLHQSALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMN  287 (459)
T ss_pred             hhhcCCccCccceeccCchhcccchHHHHHHHHHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhc
Confidence            32110                            11222233345678999999999999985     3677766554322


Q ss_pred             HHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHH-hcCCHHH
Q 005329          488 AEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLC-RAGRLSD  566 (702)
Q Consensus       488 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~-~~g~~~~  566 (702)
                       ..+++.+..+-+.-+.+.. +-...||..++-.||+..-++.|-.++.+-....=.-.+...|+ |++++. ..-..++
T Consensus       288 -~~~~p~~g~~KLqFLL~~n-PfP~ETFANlLllyCKNeyf~lAADvLAEn~~lTyk~L~~Yly~-LLdaLIt~qT~pEe  364 (459)
T KOG4340|consen  288 -MDARPTEGFEKLQFLLQQN-PFPPETFANLLLLYCKNEYFDLAADVLAENAHLTYKFLTPYLYD-LLDALITCQTAPEE  364 (459)
T ss_pred             -ccCCccccHHHHHHHHhcC-CCChHHHHHHHHHHhhhHHHhHHHHHHhhCcchhHHHhhHHHHH-HHHHHHhCCCCHHH
Confidence             2345555555555555432 23457999999999999999988887764321100001223333 333333 3345666


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHH-HhcCC----HHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHH
Q 005329          567 AENMIENMPHQKDDVVWSTLLRAC-MVQGD----VNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMR  641 (702)
Q Consensus       567 A~~~~~~~~~~p~~~~~~~l~~~~-~~~g~----~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  641 (702)
                      |.+-++.+...-........+..- .++.+    ...+++-|++.+++.   -......+++|.+..++.-+.+.|..-.
T Consensus       365 a~KKL~~La~~l~~kLRklAi~vQe~r~~~dd~a~R~ai~~Yd~~LE~Y---LPVlMa~AkiyW~~~Dy~~vEk~Fr~Sv  441 (459)
T KOG4340|consen  365 AFKKLDGLAGMLTEKLRKLAIQVQEARHNRDDEAIRKAVNEYDETLEKY---LPVLMAQAKIYWNLEDYPMVEKIFRKSV  441 (459)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHH---HHHHHHHHHhhccccccHHHHHHHHHHH
Confidence            766655543311111111111111 12222    233445556666654   1266678899999999999999998765


Q ss_pred             h
Q 005329          642 S  642 (702)
Q Consensus       642 ~  642 (702)
                      +
T Consensus       442 e  442 (459)
T KOG4340|consen  442 E  442 (459)
T ss_pred             h
Confidence            5

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.84  E-value=3.1e-07  Score=87.31  Aligned_cols=180  Identities=14%  Similarity=0.073  Sum_probs=108.5

Q ss_pred             ChhHHHHHHHHHHhcCCHHHHHHHHhhCCC--C-CH---HHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHH----H
Q 005329          445 TAMIKSALINMYSKCGSIKEASQIFYETES--D-DI---VSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSV----T  514 (702)
Q Consensus       445 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~----~  514 (702)
                      ....+-.+...+...|++++|...|+++..  | +.   ..+..+..++...|++++|+..++++.+.  .|+..    +
T Consensus        32 ~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~a  109 (235)
T TIGR03302        32 PAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRL--HPNHPDADYA  109 (235)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--CcCCCchHHH
Confidence            344445555666666667666666665542  2 11   34555666666666666666666666653  22211    2


Q ss_pred             HHHHHHHHhcc--------CcHHHHHHHHHHhHHhhCCCCCh-hhHHHHHHHHHhcCCHHHHHHHHHhCCCCCCHHHHHH
Q 005329          515 FMGVLTACSHA--------GLVDLGFHYFNLMSDKYGFVPSK-EHYGCMIDLLCRAGRLSDAENMIENMPHQKDDVVWST  585 (702)
Q Consensus       515 ~~~ll~~~~~~--------g~~~~A~~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~  585 (702)
                      +..+..++...        |+.+.|.+.|+.+...   .|+. ..+..+.....    .....           ......
T Consensus       110 ~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~---~p~~~~~~~a~~~~~~----~~~~~-----------~~~~~~  171 (235)
T TIGR03302       110 YYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR---YPNSEYAPDAKKRMDY----LRNRL-----------AGKELY  171 (235)
T ss_pred             HHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH---CCCChhHHHHHHHHHH----HHHHH-----------HHHHHH
Confidence            33333344332        5566666666666543   3432 12211111100    00000           001124


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHhCCCC---chhHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 005329          586 LLRACMVQGDVNCGRHTAEKILELHPSC---AGTHITLANIYAAKGRWREAAEVRKMMRSKG  644 (702)
Q Consensus       586 l~~~~~~~g~~~~A~~~~~~~~~~~p~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  644 (702)
                      +...+...|++++|+..++++++..|++   +..+..++.++.+.|++++|..+++.+....
T Consensus       172 ~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~  233 (235)
T TIGR03302       172 VARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANY  233 (235)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            5667889999999999999999997765   4789999999999999999999999887654

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).

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=98.82  E-value=9.5e-06  Score=82.73  Aligned_cols=257  Identities=12%  Similarity=0.005  Sum_probs=152.1

Q ss_pred             HHHHcCCChHHHHHHHHHHHHCCCCCCHH-HHHH---HHHHHcccCcHHHHHHHHHHHHHhCCCC-ChhHHHHHHHHHHh
Q 005329          384 GGYSQGGYEEEAFEYLALMRREGPRPNEF-AFAS---VLSVCGNMAILEQGKQIHAHVMSIGLER-TAMIKSALINMYSK  458 (702)
Q Consensus       384 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~-~~~~---ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~~~  458 (702)
                      ..+...|++++|.+.+++..+.  .|+.. .+..   ........+..+.+.+.+..  .....| .......+...+..
T Consensus        51 ~~~~~~g~~~~A~~~~~~~l~~--~P~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~~~~~~a~~~~~  126 (355)
T cd05804          51 LSAWIAGDLPKALALLEQLLDD--YPRDLLALKLHLGAFGLGDFSGMRDHVARVLPL--WAPENPDYWYLLGMLAFGLEE  126 (355)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHH--CCCcHHHHHHhHHHHHhcccccCchhHHHHHhc--cCcCCCCcHHHHHHHHHHHHH
Confidence            3455677888888888777664  23322 2221   11111223444444444433  111222 23344455667788


Q ss_pred             cCCHHHHHHHHhhCCC---CCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCC-CCCH--HHHHHHHHHHhccCcHHHHH
Q 005329          459 CGSIKEASQIFYETES---DDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGL-RPDS--VTFMGVLTACSHAGLVDLGF  532 (702)
Q Consensus       459 ~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~--~~~~~ll~~~~~~g~~~~A~  532 (702)
                      .|++++|...+++..+   .+...+..+..++...|++++|...+++.....- .|+.  ..|..+...+...|++++|.
T Consensus       127 ~G~~~~A~~~~~~al~~~p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~  206 (355)
T cd05804         127 AGQYDRAEEAARRALELNPDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAAL  206 (355)
T ss_pred             cCCHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHH
Confidence            8888888888887653   3566777888888889999999999888775421 1232  23556777788889999999


Q ss_pred             HHHHHhHHhhCCCCChhhH-H--HHHHHHHhcCCHHHHHHH---HHhCCCC-C---CHHHHHHHHHHHHhcCCHHHHHHH
Q 005329          533 HYFNLMSDKYGFVPSKEHY-G--CMIDLLCRAGRLSDAENM---IENMPHQ-K---DDVVWSTLLRACMVQGDVNCGRHT  602 (702)
Q Consensus       533 ~~~~~~~~~~~~~p~~~~~-~--~l~~~~~~~g~~~~A~~~---~~~~~~~-p---~~~~~~~l~~~~~~~g~~~~A~~~  602 (702)
                      .+++.+.......+..... +  .+...+...|..+.+.++   ....... |   ..........++...|+.+.|...
T Consensus       207 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~  286 (355)
T cd05804         207 AIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKL  286 (355)
T ss_pred             HHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHH
Confidence            9998875321111111111 1  223333444433322222   1111111 1   112223456667788999999999


Q ss_pred             HHHHHHhCCC---------CchhHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 005329          603 AEKILELHPS---------CAGTHITLANIYAAKGRWREAAEVRKMMRSKG  644 (702)
Q Consensus       603 ~~~~~~~~p~---------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  644 (702)
                      ++.+....-.         ........+.++...|++++|.+.+......+
T Consensus       287 L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~~L~~al~~a  337 (355)
T cd05804         287 LAALKGRASSADDNKQPARDVGLPLAEALYAFAEGNYATALELLGPVRDDL  337 (355)
T ss_pred             HHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence            9888764311         34556678888999999999999999887643

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.

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.81  E-value=4.2e-07  Score=82.57  Aligned_cols=147  Identities=11%  Similarity=0.097  Sum_probs=113.7

Q ss_pred             HHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcC
Q 005329          484 INGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAG  562 (702)
Q Consensus       484 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g  562 (702)
                      +..|...|+++.+....+.+..    |.        ..+...++.+++...++...+.   .|+ ...|..+...|...|
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~----~~--------~~~~~~~~~~~~i~~l~~~L~~---~P~~~~~w~~Lg~~~~~~g   87 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLAD----PL--------HQFASQQTPEAQLQALQDKIRA---NPQNSEQWALLGEYYLWRN   87 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhC----cc--------ccccCchhHHHHHHHHHHHHHH---CCCCHHHHHHHHHHHHHCC
Confidence            3457778887776544433221    11        0122356677777777777644   554 888999999999999


Q ss_pred             CHHHHHHHHHhCCC--CCCHHHHHHHHHHH-HhcCC--HHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHH
Q 005329          563 RLSDAENMIENMPH--QKDDVVWSTLLRAC-MVQGD--VNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVR  637 (702)
Q Consensus       563 ~~~~A~~~~~~~~~--~p~~~~~~~l~~~~-~~~g~--~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~  637 (702)
                      ++++|...|++...  +.+...+..+..++ ...|+  .++|.++++++++.+|+++..+..++..+.+.|++++|+..|
T Consensus        88 ~~~~A~~a~~~Al~l~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~  167 (198)
T PRK10370         88 DYDNALLAYRQALQLRGENAELYAALATVLYYQAGQHMTPQTREMIDKALALDANEVTALMLLASDAFMQADYAQAIELW  167 (198)
T ss_pred             CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHH
Confidence            99999999999877  44677888888864 67777  599999999999999999999999999999999999999999


Q ss_pred             HHHHhCCC
Q 005329          638 KMMRSKGV  645 (702)
Q Consensus       638 ~~~~~~~~  645 (702)
                      +++.+...
T Consensus       168 ~~aL~l~~  175 (198)
T PRK10370        168 QKVLDLNS  175 (198)
T ss_pred             HHHHhhCC
Confidence            99987543

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.78  E-value=8.3e-08  Score=82.38  Aligned_cols=93  Identities=12%  Similarity=-0.116  Sum_probs=70.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcC
Q 005329          551 YGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKG  628 (702)
Q Consensus       551 ~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  628 (702)
                      +..+...+...|++++|...|+.+..  +.+...|..++.++...|++++|...|+++++++|+++..+..++.++...|
T Consensus        27 ~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~~~~a~~~lg~~l~~~g  106 (144)
T PRK15359         27 VYASGYASWQEGDYSRAVIDFSWLVMAQPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDASHPEPVYQTGVCLKMMG  106 (144)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHcC
Confidence            44566677777777777777777665  3456677777777778888888888888888888878888888888888888


Q ss_pred             ChHHHHHHHHHHHhC
Q 005329          629 RWREAAEVRKMMRSK  643 (702)
Q Consensus       629 ~~~~A~~~~~~~~~~  643 (702)
                      ++++|+..+++..+.
T Consensus       107 ~~~eAi~~~~~Al~~  121 (144)
T PRK15359        107 EPGLAREAFQTAIKM  121 (144)
T ss_pred             CHHHHHHHHHHHHHh
Confidence            888888877777664

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.73  E-value=2.1e-07  Score=79.91  Aligned_cols=122  Identities=9%  Similarity=-0.025  Sum_probs=101.9

Q ss_pred             HHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC
Q 005329          498 HLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH  576 (702)
Q Consensus       498 ~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  576 (702)
                      .++++..+  +.|+.  +..+...+...|++++|...|+.+..   +.|+ ...|..+..++.+.|++++|...|+++..
T Consensus        14 ~~~~~al~--~~p~~--~~~~g~~~~~~g~~~~A~~~~~~al~---~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~   86 (144)
T PRK15359         14 DILKQLLS--VDPET--VYASGYASWQEGDYSRAVIDFSWLVM---AQPWSWRAHIALAGTWMMLKEYTTAINFYGHALM   86 (144)
T ss_pred             HHHHHHHH--cCHHH--HHHHHHHHHHcCCHHHHHHHHHHHHH---cCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            34555554  34553  44567778899999999999999874   4665 88889999999999999999999999887


Q ss_pred             --CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHh
Q 005329          577 --QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAA  626 (702)
Q Consensus       577 --~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~  626 (702)
                        +.+...+..++.++...|++++|+..++++++..|+++..+...+.+...
T Consensus        87 l~p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~~p~~~~~~~~~~~~~~~  138 (144)
T PRK15359         87 LDASHPEPVYQTGVCLKMMGEPGLAREAFQTAIKMSYADASWSEIRQNAQIM  138 (144)
T ss_pred             cCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHH
Confidence              45778999999999999999999999999999999999999888876544

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.69  E-value=4e-05  Score=71.42  Aligned_cols=311  Identities=14%  Similarity=0.095  Sum_probs=158.0

Q ss_pred             HHHHHhhhCCChHHHHHHHhccCCCCcchHHHHH---HHHHhcCChhHHHHHHHHHHHCCCCCChhhHH-HHHHHHHccC
Q 005329          249 SLATMYSKCGKLDYSLRLFERMSTRDVISWTTII---TSYVQMGEEENAFDAFVRMQESDVKPNEYTFA-AIISASANLA  324 (702)
Q Consensus       249 ~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li---~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~-~ll~~~~~~~  324 (702)
                      -+...+...|++..|+.-|....+-|+..|.++.   ..|...|+...|+.=+.+..+.  +||-..-. .-...+.+.|
T Consensus        43 ElGk~lla~~Q~sDALt~yHaAve~dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlel--KpDF~~ARiQRg~vllK~G  120 (504)
T KOG0624|consen   43 ELGKELLARGQLSDALTHYHAAVEGDPNNYQAIFRRATVYLAMGKSKAALQDLSRVLEL--KPDFMAARIQRGVVLLKQG  120 (504)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhcCCccchhhHHHHHhc--CccHHHHHHHhchhhhhcc
Confidence            3455566677888888888777777777777765   3677788888888777777664  55532211 1112344556


Q ss_pred             chHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhhHHHHHHHHHcCCChHHHHHHHHHHHH
Q 005329          325 RIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIRRDIISWSTIIGGYSQGGYEEEAFEYLALMRR  404 (702)
Q Consensus       325 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  404 (702)
                      .++.|+.=|+.+++.......     ...++.+.--.++-            ......+..+...|+...|+.....+.+
T Consensus       121 ele~A~~DF~~vl~~~~s~~~-----~~eaqskl~~~~e~------------~~l~~ql~s~~~~GD~~~ai~~i~~llE  183 (504)
T KOG0624|consen  121 ELEQAEADFDQVLQHEPSNGL-----VLEAQSKLALIQEH------------WVLVQQLKSASGSGDCQNAIEMITHLLE  183 (504)
T ss_pred             cHHHHHHHHHHHHhcCCCcch-----hHHHHHHHHhHHHH------------HHHHHHHHHHhcCCchhhHHHHHHHHHh
Confidence            666666666665554321100     00001000000000            0111223333444555555555555544


Q ss_pred             CCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCHHHHHHHH
Q 005329          405 EGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETESDDIVSWTAMI  484 (702)
Q Consensus       405 ~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li  484 (702)
                      - ...|...+..-..+|...|++..|+.=+..+-+..                                ..+.....-+-
T Consensus       184 i-~~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs--------------------------------~DnTe~~ykis  230 (504)
T KOG0624|consen  184 I-QPWDASLRQARAKCYIAEGEPKKAIHDLKQASKLS--------------------------------QDNTEGHYKIS  230 (504)
T ss_pred             c-CcchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhcc--------------------------------ccchHHHHHHH
Confidence            2 12233333333333333343333333332222222                                23333333334


Q ss_pred             HHHHHcCChHHHHHHHHHchhCCCCCCHHH----HHHH---------HHHHhccCcHHHHHHHHHHhHHhhCCCCC----
Q 005329          485 NGYAEHGYSQEAIHLFEKVPMVGLRPDSVT----FMGV---------LTACSHAGLVDLGFHYFNLMSDKYGFVPS----  547 (702)
Q Consensus       485 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~----~~~l---------l~~~~~~g~~~~A~~~~~~~~~~~~~~p~----  547 (702)
                      ..+...|+.+.++...++..+  +.||...    |..+         +......+.|.++.+..+...+.   .|.    
T Consensus       231 ~L~Y~vgd~~~sL~~iRECLK--ldpdHK~Cf~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~---ep~~~~i  305 (504)
T KOG0624|consen  231 QLLYTVGDAENSLKEIRECLK--LDPDHKLCFPFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKN---EPEETMI  305 (504)
T ss_pred             HHHHhhhhHHHHHHHHHHHHc--cCcchhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhc---CCcccce
Confidence            444444444444444444433  2344321    1000         11123445566666666655533   444    


Q ss_pred             -hhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchh
Q 005329          548 -KEHYGCMIDLLCRAGRLSDAENMIENMPH-QKD-DVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGT  616 (702)
Q Consensus       548 -~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~  616 (702)
                       ...+..+-.++...|++-+|++...+... .|+ ..++..-..+|.....++.|+.-|+++.+.+|+|..+
T Consensus       306 r~~~~r~~c~C~~~d~~~~eAiqqC~evL~~d~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e~n~sn~~~  377 (504)
T KOG0624|consen  306 RYNGFRVLCTCYREDEQFGEAIQQCKEVLDIDPDDVQVLCDRAEAYLGDEMYDDAIHDYEKALELNESNTRA  377 (504)
T ss_pred             eeeeeheeeecccccCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCcccHHH
Confidence             22334455666677777888777777666 443 6677777777777778888888888888887766543

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.68  E-value=1.4e-06  Score=93.85  Aligned_cols=189  Identities=10%  Similarity=0.041  Sum_probs=120.4

Q ss_pred             HHHHHHHHHcccCcHHHH-HHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCHHHHHHHHHHHH
Q 005329          413 AFASVLSVCGNMAILEQG-KQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETE---SDDIVSWTAMINGYA  488 (702)
Q Consensus       413 ~~~~ll~~~~~~~~~~~a-~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~  488 (702)
                      ....+=.+.+..|..+++ .++++++.+            ++....+.....+++.-.....   ..++..+..|.....
T Consensus        30 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~La~i~~   97 (694)
T PRK15179         30 ILDLLEAALAEPGESEEAGRELLQQARQ------------VLERHAAVHKPAAALPELLDYVRRYPHTELFQVLVARALE   97 (694)
T ss_pred             HHhHHHHHhcCcccchhHHHHHHHHHHH------------HHHHhhhhcchHhhHHHHHHHHHhccccHHHHHHHHHHHH
Confidence            333333455666666655 445555543            3333333333222222222111   134667777777778


Q ss_pred             HcCChHHHHHHHHHchhCCCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHH
Q 005329          489 EHGYSQEAIHLFEKVPMVGLRPDS-VTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSD  566 (702)
Q Consensus       489 ~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~  566 (702)
                      +.|++++|..+++...+  +.|+. .....+...+.+.+++++|...+++...   ..|+ ......+..++.+.|++++
T Consensus        98 ~~g~~~ea~~~l~~~~~--~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~---~~p~~~~~~~~~a~~l~~~g~~~~  172 (694)
T PRK15179         98 AAHRSDEGLAVWRGIHQ--RFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFS---GGSSSAREILLEAKSWDEIGQSEQ  172 (694)
T ss_pred             HcCCcHHHHHHHHHHHh--hCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhh---cCCCCHHHHHHHHHHHHHhcchHH
Confidence            88888888888887776  45655 4566677777788888888888777764   3565 5666677777788888888


Q ss_pred             HHHHHHhCCC-CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHH
Q 005329          567 AENMIENMPH-QK-DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHI  618 (702)
Q Consensus       567 A~~~~~~~~~-~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~  618 (702)
                      |..+|+++.. .| +..++..+..++...|+.++|...|+++++...+....|.
T Consensus       173 A~~~y~~~~~~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~~~~~~~~~  226 (694)
T PRK15179        173 ADACFERLSRQHPEFENGYVGWAQSLTRRGALWRARDVLQAGLDAIGDGARKLT  226 (694)
T ss_pred             HHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhCcchHHHH
Confidence            8888887775 33 3567777777778888888888888888777644444443

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.65  E-value=3.2e-06  Score=76.24  Aligned_cols=125  Identities=17%  Similarity=0.143  Sum_probs=67.4

Q ss_pred             HHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhc
Q 005329          516 MGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQ  593 (702)
Q Consensus       516 ~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~  593 (702)
                      ..+-..+...|+-+....+.......  -.-+......++....+.|++.+|+..+++...  ++|...|+.++.+|.+.
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~--~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~p~d~~~~~~lgaaldq~  147 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIA--YPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLAPTDWEAWNLLGAALDQL  147 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhcc--CcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccCCCChhhhhHHHHHHHHc
Confidence            33444444455555444444443211  111233444455555566666666666655554  44555666666666666


Q ss_pred             CCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 005329          594 GDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRS  642 (702)
Q Consensus       594 g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  642 (702)
                      |+++.|...|.+++++.|+++.++.+|+..|.-.|+++.|..++.....
T Consensus       148 Gr~~~Ar~ay~qAl~L~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l  196 (257)
T COG5010         148 GRFDEARRAYRQALELAPNEPSIANNLGMSLLLRGDLEDAETLLLPAYL  196 (257)
T ss_pred             cChhHHHHHHHHHHHhccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHh
Confidence            6666666666666666666666666666666666666666666555544

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=98.62  E-value=0.00012  Score=74.76  Aligned_cols=196  Identities=10%  Similarity=-0.024  Sum_probs=107.6

Q ss_pred             hHHHHHHHHHcCCChhHHHHHHHHhhhCCCCCCCHHHHHH-HHHHhhccCCchhhhHHHHHHHHhcCCCchhHHH---HH
Q 005329           74 SWTTLISGYVKAMDSIEALALFSRVWVEPQMNMDPFILSL-ALKACALNVNVNYGESLHGYTVKTGFVNSVFVGS---AL  149 (702)
Q Consensus        74 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~-ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~---~l  149 (702)
                      .|..+...+...|+++++...+.+..+.....++...... ....+...|+++.|...++..++.. +.+...+.   ..
T Consensus         8 a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~~~~~   86 (355)
T cd05804           8 GHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDY-PRDLLALKLHLGA   86 (355)
T ss_pred             HHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHhHHH
Confidence            3444455555566666665555555433222223222211 1233445667777777777766654 22333333   11


Q ss_pred             HHhhhcCCChhHHHHHhccCCCCCc---chHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhccCChH
Q 005329          150 LDMYTKLGKIELGCRVFDEMPLRNV---VSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSGALN  226 (702)
Q Consensus       150 i~~~~~~g~~~~A~~~~~~~~~~~~---~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~  226 (702)
                      .......+..+.+.+.++.....+.   .....+...+...|++++|.+.+++..+.. +.+...+..+...+...|+++
T Consensus        87 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g~~~  165 (355)
T cd05804          87 FGLGDFSGMRDHVARVLPLWAPENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQGRFK  165 (355)
T ss_pred             HHhcccccCchhHHHHHhccCcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHH
Confidence            1222234555556665554322222   223334456677788888888888877653 334455666667777778888


Q ss_pred             HHHHHHHHHHHhCC-CCch--hHHHHHHHHhhhCCChHHHHHHHhccC
Q 005329          227 FGREIHTIMLKRGF-DVVS--FVANSLATMYSKCGKLDYSLRLFERMS  271 (702)
Q Consensus       227 ~a~~~~~~~~~~~~-~~~~--~~~~~li~~~~~~g~~~~A~~~~~~~~  271 (702)
                      +|...++...+... .++.  ..|..+...+...|++++|..++++..
T Consensus       166 eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~  213 (355)
T cd05804         166 EGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHI  213 (355)
T ss_pred             HHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHh
Confidence            88888777776432 1222  233456677777777777777777754

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.

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.62  E-value=4.4e-06  Score=91.29  Aligned_cols=222  Identities=13%  Similarity=0.145  Sum_probs=178.6

Q ss_pred             ChhHHHHHHHHHHhcCCHHHHHHHHhhCCCC--------CHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHH
Q 005329          445 TAMIKSALINMYSKCGSIKEASQIFYETESD--------DIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFM  516 (702)
Q Consensus       445 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~--------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~  516 (702)
                      +...|-..|......++.++|.+++++..+.        -...|.++++.-...|.-+...++|+++.+.  .-....|.
T Consensus      1457 SSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqy--cd~~~V~~ 1534 (1710)
T KOG1070|consen 1457 SSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQY--CDAYTVHL 1534 (1710)
T ss_pred             cchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHh--cchHHHHH
Confidence            4445566677777888888888888876531        2357888888888888888889999998863  23345788


Q ss_pred             HHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CC---CHHHHHHHHHHHHh
Q 005329          517 GVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPH-QK---DDVVWSTLLRACMV  592 (702)
Q Consensus       517 ~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p---~~~~~~~l~~~~~~  592 (702)
                      .|...|.+.+++++|.++++.|.++++  -....|..+++.+.+..+-+.|..++.++.. -|   ......-.+..-.+
T Consensus      1535 ~L~~iy~k~ek~~~A~ell~~m~KKF~--q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLEFk 1612 (1710)
T KOG1070|consen 1535 KLLGIYEKSEKNDEADELLRLMLKKFG--QTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLEFK 1612 (1710)
T ss_pred             HHHHHHHHhhcchhHHHHHHHHHHHhc--chhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHhh
Confidence            899999999999999999999999876  5678899999999999999999999998877 23   45566677777889


Q ss_pred             cCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhCCCccCCeeeEEEECCEEEEEEcCCCCCCC
Q 005329          593 QGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKGVIKEPGWSRIKVKDQVSAFVSSDRRHSQ  672 (702)
Q Consensus       593 ~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~  672 (702)
                      .|+.+++..+|+-.+...|.....|..+++.-.+.|+.+.++.+|+++...++.+-                       +
T Consensus      1613 ~GDaeRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~k-----------------------k 1669 (1710)
T KOG1070|consen 1613 YGDAERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIK-----------------------K 1669 (1710)
T ss_pred             cCCchhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChh-----------------------H
Confidence            99999999999999999999999999999999999999999999999998776431                       3


Q ss_pred             hhHHHHHHHHHHHHhcCCCCC
Q 005329          673 GEDIYRMLDLLASRESDIDDL  693 (702)
Q Consensus       673 ~~~~~~~l~~l~~~~~~~~~~  693 (702)
                      ....|.+|-..++..|+..+.
T Consensus      1670 mKfffKkwLeyEk~~Gde~~v 1690 (1710)
T KOG1070|consen 1670 MKFFFKKWLEYEKSHGDEKNV 1690 (1710)
T ss_pred             hHHHHHHHHHHHHhcCchhhH
Confidence            445566777766666665443

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.61  E-value=6.9e-06  Score=74.83  Aligned_cols=294  Identities=13%  Similarity=0.099  Sum_probs=158.0

Q ss_pred             CCCCChhhHHHHHHHHHccCchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHhcCCC--CChhhHHH-
Q 005329          305 DVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIR--RDIISWST-  381 (702)
Q Consensus       305 g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--~~~~~~~~-  381 (702)
                      |+....--+.+++..+.+..+++.+++++..-.+.. +.+....+.|..+|-...++..|-..++++..  |...-|.. 
T Consensus         5 g~~i~EGeftaviy~lI~d~ry~DaI~~l~s~~Er~-p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~P~~~qYrlY   83 (459)
T KOG4340|consen    5 GAQIPEGEFTAVVYRLIRDARYADAIQLLGSELERS-PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQLHPELEQYRLY   83 (459)
T ss_pred             cccCCCCchHHHHHHHHHHhhHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHH
Confidence            444444445666666666667777776666555443 22445556666666666666666666666532  22222211 


Q ss_pred             HHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCC
Q 005329          382 IIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGS  461 (702)
Q Consensus       382 li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  461 (702)
                      -...+-+.+.+.+|+.+...|...   |+...-..-+.+.                                 .....++
T Consensus        84 ~AQSLY~A~i~ADALrV~~~~~D~---~~L~~~~lqLqaA---------------------------------IkYse~D  127 (459)
T KOG4340|consen   84 QAQSLYKACIYADALRVAFLLLDN---PALHSRVLQLQAA---------------------------------IKYSEGD  127 (459)
T ss_pred             HHHHHHHhcccHHHHHHHHHhcCC---HHHHHHHHHHHHH---------------------------------Hhccccc
Confidence            133444556666666666655431   2111111101100                                 1112345


Q ss_pred             HHHHHHHHhhCC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHH
Q 005329          462 IKEASQIFYETE-SDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSD  540 (702)
Q Consensus       462 ~~~A~~~~~~~~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~  540 (702)
                      +..+..+.++.+ +.+..+.+.......+.|+++.|.+-|+...+-|--.....|+..+ +..+.|+++.|..+..++++
T Consensus       128 l~g~rsLveQlp~en~Ad~~in~gCllykegqyEaAvqkFqaAlqvsGyqpllAYniAL-aHy~~~qyasALk~iSEIie  206 (459)
T KOG4340|consen  128 LPGSRSLVEQLPSENEADGQINLGCLLYKEGQYEAAVQKFQAALQVSGYQPLLAYNLAL-AHYSSRQYASALKHISEIIE  206 (459)
T ss_pred             CcchHHHHHhccCCCccchhccchheeeccccHHHHHHHHHHHHhhcCCCchhHHHHHH-HHHhhhhHHHHHHHHHHHHH
Confidence            555555555555 2444444444455556666666666666555432222223444332 33445566666666666555


Q ss_pred             hhCCCC-------------Ch--------hhHHHHH-------HHHHhcCCHHHHHHHHHhCCC----CCCHHHHHHHHH
Q 005329          541 KYGFVP-------------SK--------EHYGCMI-------DLLCRAGRLSDAENMIENMPH----QKDDVVWSTLLR  588 (702)
Q Consensus       541 ~~~~~p-------------~~--------~~~~~l~-------~~~~~~g~~~~A~~~~~~~~~----~p~~~~~~~l~~  588 (702)
                      + |++.             |+        ..-+.++       ..+.+.|+++.|.+.+.+|.-    .-|+.|...+.-
T Consensus       207 R-G~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al  285 (459)
T KOG4340|consen  207 R-GIRQHPELGIGMTTEGIDVRSVGNTLVLHQSALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQAL  285 (459)
T ss_pred             h-hhhcCCccCccceeccCchhcccchHHHHHHHHHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHH
Confidence            4 3321             10        1112222       234577888888888888764    346666655433


Q ss_pred             HHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHH
Q 005329          589 ACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRK  638 (702)
Q Consensus       589 ~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~  638 (702)
                      . -..+++....+-++-+++++|--++++.++..+|++..-++-|..++-
T Consensus       286 ~-n~~~~p~~g~~KLqFLL~~nPfP~ETFANlLllyCKNeyf~lAADvLA  334 (459)
T KOG4340|consen  286 M-NMDARPTEGFEKLQFLLQQNPFPPETFANLLLLYCKNEYFDLAADVLA  334 (459)
T ss_pred             h-cccCCccccHHHHHHHHhcCCCChHHHHHHHHHHhhhHHHhHHHHHHh
Confidence            2 234556666777777788888777888888888888888877776654

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.59  E-value=2e-06  Score=88.07  Aligned_cols=184  Identities=9%  Similarity=-0.015  Sum_probs=98.2

Q ss_pred             HHHHHHHHhcCCHHHHHHHHhhCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCc
Q 005329          450 SALINMYSKCGSIKEASQIFYETE--SDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGL  527 (702)
Q Consensus       450 ~~li~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~  527 (702)
                      ...|.+|...|+..+|..+..+-.  +|++..|..+.+......-+++|+++.+.....       .-..+.....+.++
T Consensus       428 ~~vi~CY~~lg~~~kaeei~~q~lek~~d~~lyc~LGDv~~d~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~  500 (777)
T KOG1128|consen  428 DPVILCYLLLGQHGKAEEINRQELEKDPDPRLYCLLGDVLHDPSLYEKAWELSNYISAR-------AQRSLALLILSNKD  500 (777)
T ss_pred             HHHHHHHHHhcccchHHHHHHHHhcCCCcchhHHHhhhhccChHHHHHHHHHhhhhhHH-------HHHhhccccccchh
Confidence            334445555554444444433322  234444444444444444444444444332211       00011111122455


Q ss_pred             HHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CC-CHHHHHHHHHHHHhcCCHHHHHHHHH
Q 005329          528 VDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH-QK-DDVVWSTLLRACMVQGDVNCGRHTAE  604 (702)
Q Consensus       528 ~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p-~~~~~~~l~~~~~~~g~~~~A~~~~~  604 (702)
                      +.++.+.|+.-.   .+.|- ..+|-.+..+..+.+++..|.+.|..... .| +...||++..+|.+.|+-.+|...++
T Consensus       501 fs~~~~hle~sl---~~nplq~~~wf~~G~~ALqlek~q~av~aF~rcvtL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~  577 (777)
T KOG1128|consen  501 FSEADKHLERSL---EINPLQLGTWFGLGCAALQLEKEQAAVKAFHRCVTLEPDNAEAWNNLSTAYIRLKKKKRAFRKLK  577 (777)
T ss_pred             HHHHHHHHHHHh---hcCccchhHHHhccHHHHHHhhhHHHHHHHHHHhhcCCCchhhhhhhhHHHHHHhhhHHHHHHHH
Confidence            555555555433   22332 55566666666666677776666666655 33 45567777777777777777777777


Q ss_pred             HHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 005329          605 KILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSK  643 (702)
Q Consensus       605 ~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  643 (702)
                      ++++-+-++...|.+...+..+-|.+++|++.++++.+.
T Consensus       578 EAlKcn~~~w~iWENymlvsvdvge~eda~~A~~rll~~  616 (777)
T KOG1128|consen  578 EALKCNYQHWQIWENYMLVSVDVGEFEDAIKAYHRLLDL  616 (777)
T ss_pred             HHhhcCCCCCeeeechhhhhhhcccHHHHHHHHHHHHHh
Confidence            777666666666666666666777777777766666554

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.59  E-value=1.3e-06  Score=73.37  Aligned_cols=96  Identities=11%  Similarity=0.009  Sum_probs=86.9

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHH
Q 005329          548 KEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYA  625 (702)
Q Consensus       548 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  625 (702)
                      ....-.+...+...|++++|.++|+-...  +-+...|-.|+..|...|++++|+..|.++..++|+++.++.+++.++.
T Consensus        35 l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~ddp~~~~~ag~c~L  114 (157)
T PRK15363         35 LNTLYRYAMQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKIDAPQAPWAAAECYL  114 (157)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHHH
Confidence            45555677788899999999999998876  4467789999999999999999999999999999999999999999999


Q ss_pred             hcCChHHHHHHHHHHHhC
Q 005329          626 AKGRWREAAEVRKMMRSK  643 (702)
Q Consensus       626 ~~g~~~~A~~~~~~~~~~  643 (702)
                      ..|+.++|.+.|+.....
T Consensus       115 ~lG~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        115 ACDNVCYAIKALKAVVRI  132 (157)
T ss_pred             HcCCHHHHHHHHHHHHHH
Confidence            999999999999988764

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.58  E-value=4.6e-06  Score=75.80  Aligned_cols=154  Identities=11%  Similarity=0.116  Sum_probs=118.7

Q ss_pred             HHHHHhcCCHHHHHHHHhhCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHH
Q 005329          453 INMYSKCGSIKEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGF  532 (702)
Q Consensus       453 i~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~  532 (702)
                      +..|...|+++.+....+.+..+.        ..+...++.++++..+++..+.. +.|...|..+...|...|+++.|.
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~~~--------~~~~~~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A~   93 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLADPL--------HQFASQQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNAL   93 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhCcc--------ccccCchhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHH
Confidence            446778888877765554433221        01223566788888888877653 556778999999999999999999


Q ss_pred             HHHHHhHHhhCCCCC-hhhHHHHHHHH-HhcCC--HHHHHHHHHhCCC-CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 005329          533 HYFNLMSDKYGFVPS-KEHYGCMIDLL-CRAGR--LSDAENMIENMPH-QK-DDVVWSTLLRACMVQGDVNCGRHTAEKI  606 (702)
Q Consensus       533 ~~~~~~~~~~~~~p~-~~~~~~l~~~~-~~~g~--~~~A~~~~~~~~~-~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~  606 (702)
                      ..|++..+   +.|+ ...+..+..++ ...|+  .++|.+++++... .| +..++..++..+...|++++|+..|+++
T Consensus        94 ~a~~~Al~---l~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~~a  170 (198)
T PRK10370         94 LAYRQALQ---LRGENAELYAALATVLYYQAGQHMTPQTREMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQKV  170 (198)
T ss_pred             HHHHHHHH---hCCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            99999874   4675 78888888864 67777  5999999999988 44 6778899999999999999999999999


Q ss_pred             HHhCCCCchhHH
Q 005329          607 LELHPSCAGTHI  618 (702)
Q Consensus       607 ~~~~p~~~~~~~  618 (702)
                      +++.|.+..-+.
T Consensus       171 L~l~~~~~~r~~  182 (198)
T PRK10370        171 LDLNSPRVNRTQ  182 (198)
T ss_pred             HhhCCCCccHHH
Confidence            999987665443

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.54  E-value=1e-06  Score=75.36  Aligned_cols=102  Identities=15%  Similarity=0.148  Sum_probs=81.8

Q ss_pred             CCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHH
Q 005329          543 GFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHIT  619 (702)
Q Consensus       543 ~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~  619 (702)
                      ...|+ ......++..+...|++++|...++.+..  +.+...|..++..+...|++++|...++++++.+|.++..+..
T Consensus        11 ~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~   90 (135)
T TIGR02552        11 GLDSEQLEQIYALAYNLYQQGRYDEALKLFQLLAAYDPYNSRYWLGLAACCQMLKEYEEAIDAYALAAALDPDDPRPYFH   90 (135)
T ss_pred             cCChhhHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCChHHHHH
Confidence            34554 45566677778888888888888888765  3466778888888888888999999999888888888888888


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCC
Q 005329          620 LANIYAAKGRWREAAEVRKMMRSKG  644 (702)
Q Consensus       620 l~~~~~~~g~~~~A~~~~~~~~~~~  644 (702)
                      ++.+|...|++++|...+++..+..
T Consensus        91 la~~~~~~g~~~~A~~~~~~al~~~  115 (135)
T TIGR02552        91 AAECLLALGEPESALKALDLAIEIC  115 (135)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhc
Confidence            9999999999999999888887653

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.54  E-value=6.4e-06  Score=84.44  Aligned_cols=196  Identities=16%  Similarity=0.138  Sum_probs=145.0

Q ss_pred             CCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHH
Q 005329          441 GLERTAMIKSALINMYSKCGSIKEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLT  520 (702)
Q Consensus       441 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~  520 (702)
                      +.+|-...-..+...+...|-...|..+|++.     ..|...|.+|...|+..+|..+..+..+  -+||+..|..+.+
T Consensus       393 ~lpp~Wq~q~~laell~slGitksAl~I~Erl-----emw~~vi~CY~~lg~~~kaeei~~q~le--k~~d~~lyc~LGD  465 (777)
T KOG1128|consen  393 HLPPIWQLQRLLAELLLSLGITKSALVIFERL-----EMWDPVILCYLLLGQHGKAEEINRQELE--KDPDPRLYCLLGD  465 (777)
T ss_pred             CCCCcchHHHHHHHHHHHcchHHHHHHHHHhH-----HHHHHHHHHHHHhcccchHHHHHHHHhc--CCCcchhHHHhhh
Confidence            34555555566777888888888888888764     4666777788888888888888777766  3778888888888


Q ss_pred             HHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHH
Q 005329          521 ACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNC  598 (702)
Q Consensus       521 ~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~  598 (702)
                      ......-+++|+++++....+        .-..+.....+.++++++.+.|+.-..  +-...+|-.++.+..+.+++..
T Consensus       466 v~~d~s~yEkawElsn~~sar--------A~r~~~~~~~~~~~fs~~~~hle~sl~~nplq~~~wf~~G~~ALqlek~q~  537 (777)
T KOG1128|consen  466 VLHDPSLYEKAWELSNYISAR--------AQRSLALLILSNKDFSEADKHLERSLEINPLQLGTWFGLGCAALQLEKEQA  537 (777)
T ss_pred             hccChHHHHHHHHHhhhhhHH--------HHHhhccccccchhHHHHHHHHHHHhhcCccchhHHHhccHHHHHHhhhHH
Confidence            777777788888888765332        122233334457888888888877665  3356688888888888888888


Q ss_pred             HHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhCCCccCCee
Q 005329          599 GRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKGVIKEPGW  651 (702)
Q Consensus       599 A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  651 (702)
                      |...|...+.++|++...|+++..+|.+.|+..+|...+++..+-...+-..|
T Consensus       538 av~aF~rcvtL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~~~w~iW  590 (777)
T KOG1128|consen  538 AVKAFHRCVTLEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNYQHWQIW  590 (777)
T ss_pred             HHHHHHHHhhcCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCCCCCeee
Confidence            88888888888888888888888888888888888888888877664443333

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.49  E-value=1.9e-05  Score=71.38  Aligned_cols=159  Identities=12%  Similarity=0.122  Sum_probs=130.0

Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHH
Q 005329          476 DIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMI  555 (702)
Q Consensus       476 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~  555 (702)
                      |... ..+...+...|+-+....+..+.... .+-|......++....+.|++..|...+.+...  .-++|...|+.+.
T Consensus        66 d~~i-~~~a~a~~~~G~a~~~l~~~~~~~~~-~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~--l~p~d~~~~~~lg  141 (257)
T COG5010          66 DLSI-AKLATALYLRGDADSSLAVLQKSAIA-YPKDRELLAAQGKNQIRNGNFGEAVSVLRKAAR--LAPTDWEAWNLLG  141 (257)
T ss_pred             hHHH-HHHHHHHHhcccccchHHHHhhhhcc-CcccHHHHHHHHHHHHHhcchHHHHHHHHHHhc--cCCCChhhhhHHH
Confidence            4444 55667778888888888877775532 233445566688888999999999999999874  2355699999999


Q ss_pred             HHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHH
Q 005329          556 DLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREA  633 (702)
Q Consensus       556 ~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A  633 (702)
                      -+|.+.|++++|..-|.+..+  ..++...+.++..+.-.|+.+.|+.++..+....+.+..+-.+|+.+....|++++|
T Consensus       142 aaldq~Gr~~~Ar~ay~qAl~L~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~ad~~v~~NLAl~~~~~g~~~~A  221 (257)
T COG5010         142 AALDQLGRFDEARRAYRQALELAPNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAADSRVRQNLALVVGLQGDFREA  221 (257)
T ss_pred             HHHHHccChhHHHHHHHHHHHhccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCCchHHHHHHHHHHhhcCChHHH
Confidence            999999999999999988877  446778899999999999999999999999999998999999999999999999999


Q ss_pred             HHHHH
Q 005329          634 AEVRK  638 (702)
Q Consensus       634 ~~~~~  638 (702)
                      ..+..
T Consensus       222 ~~i~~  226 (257)
T COG5010         222 EDIAV  226 (257)
T ss_pred             Hhhcc
Confidence            87654

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.49  E-value=0.002  Score=64.45  Aligned_cols=149  Identities=15%  Similarity=0.103  Sum_probs=82.3

Q ss_pred             hHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCC-ChhHHHHHHHHHHhcCCHHHHHHHHh
Q 005329          392 EEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLER-TAMIKSALINMYSKCGSIKEASQIFY  470 (702)
Q Consensus       392 ~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~  470 (702)
                      .+.....++++...-..--+.+|...++...+..-++.|+.+|.++.+.+..+ ++.++++++..|| +++..-|.++|+
T Consensus       347 ~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~c-skD~~~AfrIFe  425 (656)
T KOG1914|consen  347 EKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYC-SKDKETAFRIFE  425 (656)
T ss_pred             hhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHh-cCChhHHHHHHH
Confidence            44444555554442222222345555555556666666666666666665555 5666666666555 355666666666


Q ss_pred             hCCC---CCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCH--HHHHHHHHHHhccCcHHHHHHHHHHhHHh
Q 005329          471 ETES---DDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDS--VTFMGVLTACSHAGLVDLGFHYFNLMSDK  541 (702)
Q Consensus       471 ~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~~~~~ll~~~~~~g~~~~A~~~~~~~~~~  541 (702)
                      .-.+   .++.--...++-+...|+-..+..+|++....++.|+.  ..|..++.-=+.-|+...+.++-+++...
T Consensus       426 LGLkkf~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~a  501 (656)
T KOG1914|consen  426 LGLKKFGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFTA  501 (656)
T ss_pred             HHHHhcCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHHh
Confidence            4332   23333344555556666666666666666665555544  35666666556666666666665555443

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.47  E-value=0.0034  Score=66.71  Aligned_cols=159  Identities=12%  Similarity=0.011  Sum_probs=96.7

Q ss_pred             HHHHHHHHHHHcCChHH---HHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHH
Q 005329          479 SWTAMINGYAEHGYSQE---AIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMI  555 (702)
Q Consensus       479 ~~~~li~~~~~~g~~~~---A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~  555 (702)
                      +-+.|+..+.+.++...   |+-+++.-.... +-|..+-..++..|+..|-+..|.++|+.+--+ .+..|...|. +.
T Consensus       438 av~~Lid~~rktnd~~~l~eaI~LLE~glt~s-~hnf~~KLlLiriY~~lGa~p~a~~~y~tLdIK-~IQ~DTlgh~-~~  514 (932)
T KOG2053|consen  438 AVNHLIDLWRKTNDLTDLFEAITLLENGLTKS-PHNFQTKLLLIRIYSYLGAFPDAYELYKTLDIK-NIQTDTLGHL-IF  514 (932)
T ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHHHhhcC-CccHHHHHHHHHHHHHhcCChhHHHHHHhcchH-HhhhccchHH-HH
Confidence            45677888888887663   444555444332 335556677889999999999999999998666 6666644442 34


Q ss_pred             HHHHhcCCHHHHHHHHHhCCC--C-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCC----CCchhHHHHHHHHHhcC
Q 005329          556 DLLCRAGRLSDAENMIENMPH--Q-KDDVVWSTLLRACMVQGDVNCGRHTAEKILELHP----SCAGTHITLANIYAAKG  628 (702)
Q Consensus       556 ~~~~~~g~~~~A~~~~~~~~~--~-p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p----~~~~~~~~l~~~~~~~g  628 (702)
                      ..+...|++..+...+.....  . .-..+-..+..+ .+.|.+....+...-=-.+.-    .-..+-......+...+
T Consensus       515 ~~~~t~g~~~~~s~~~~~~lkfy~~~~kE~~eyI~~A-Yr~g~ySkI~em~~fr~rL~~S~q~~a~~VE~~~l~ll~~~~  593 (932)
T KOG2053|consen  515 RRAETSGRSSFASNTFNEHLKFYDSSLKETPEYIALA-YRRGAYSKIPEMLAFRDRLMHSLQKWACRVENLQLSLLCNAD  593 (932)
T ss_pred             HHHHhcccchhHHHHHHHHHHHHhhhhhhhHHHHHHH-HHcCchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence            556667788877777766544  1 111222223333 466766655554432222221    11233445666677788


Q ss_pred             ChHHHHHHHHHHH
Q 005329          629 RWREAAEVRKMMR  641 (702)
Q Consensus       629 ~~~~A~~~~~~~~  641 (702)
                      +.++-...++.|.
T Consensus       594 ~~~q~~~~~~~~~  606 (932)
T KOG2053|consen  594 RGTQLLKLLESMK  606 (932)
T ss_pred             cHHHHHHHHhccc
Confidence            8888888877775

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.47  E-value=0.00036  Score=80.98  Aligned_cols=56  Identities=14%  Similarity=0.076  Sum_probs=27.5

Q ss_pred             HHHHcccCcHHHHHHHHHHHHHh----CCCC-ChhHHHHHHHHHHhcCCHHHHHHHHhhCC
Q 005329          418 LSVCGNMAILEQGKQIHAHVMSI----GLER-TAMIKSALINMYSKCGSIKEASQIFYETE  473 (702)
Q Consensus       418 l~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~  473 (702)
                      ..++...|+.+.|...++.+...    |... ...+...+..++.+.|+.++|...+.+..
T Consensus       698 a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al  758 (903)
T PRK04841        698 ARAQILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEAL  758 (903)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            33444445555555554444332    1111 12234445556666677766666666544

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.47  E-value=0.00012  Score=66.18  Aligned_cols=153  Identities=16%  Similarity=0.178  Sum_probs=71.3

Q ss_pred             HHHhcCCHHHHHHHHhhCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhc----cCcHHH
Q 005329          455 MYSKCGSIKEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSH----AGLVDL  530 (702)
Q Consensus       455 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~----~g~~~~  530 (702)
                      .|+..|++++|++......  +....-.=+..+.+..+.+-|.+.+++|.+-   -+..|.+.|..++.+    .+.+..
T Consensus       117 i~~~~~~~deAl~~~~~~~--~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~i---ded~tLtQLA~awv~la~ggek~qd  191 (299)
T KOG3081|consen  117 IYMHDGDFDEALKALHLGE--NLEAAALNVQILLKMHRFDLAEKELKKMQQI---DEDATLTQLAQAWVKLATGGEKIQD  191 (299)
T ss_pred             HhhcCCChHHHHHHHhccc--hHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc---chHHHHHHHHHHHHHHhccchhhhh
Confidence            4555556666655555422  1122111223334445556666666666531   233444444444332    234555


Q ss_pred             HHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCH-HHHHHHHHHHH
Q 005329          531 GFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDV-NCGRHTAEKIL  607 (702)
Q Consensus       531 A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~-~~A~~~~~~~~  607 (702)
                      |.-+|++|.++  ..|+..+.+....++...|++++|..+++++..  ..++.+...++..-...|+. +-..+.+.++.
T Consensus       192 AfyifeE~s~k--~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~dpetL~Nliv~a~~~Gkd~~~~~r~l~QLk  269 (299)
T KOG3081|consen  192 AFYIFEELSEK--TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAKDPETLANLIVLALHLGKDAEVTERNLSQLK  269 (299)
T ss_pred             HHHHHHHHhcc--cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCCChHHHHHHHHHHH
Confidence            55555555432  345555555555555555555555555555544  22344444444443444432 33334444444


Q ss_pred             HhCCCCc
Q 005329          608 ELHPSCA  614 (702)
Q Consensus       608 ~~~p~~~  614 (702)
                      ..+|.++
T Consensus       270 ~~~p~h~  276 (299)
T KOG3081|consen  270 LSHPEHP  276 (299)
T ss_pred             hcCCcch
Confidence            4555443

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.46  E-value=9e-06  Score=81.26  Aligned_cols=251  Identities=14%  Similarity=0.095  Sum_probs=162.0

Q ss_pred             HHHhcCCHHHHHHHHhcCCCC---ChhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHcccCcHHH
Q 005329          354 MYSKCGQLTSTSIVFHGMIRR---DIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPN-EFAFASVLSVCGNMAILEQ  429 (702)
Q Consensus       354 ~~~~~g~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~~~~~~  429 (702)
                      -+.+.|++.+|.-.|+..+..   +..+|--|.......++-..|+..+++..+  +.|+ ......|.-.|...|.-..
T Consensus       294 ~lm~nG~L~~A~LafEAAVkqdP~haeAW~~LG~~qaENE~E~~ai~AL~rcl~--LdP~NleaLmaLAVSytNeg~q~~  371 (579)
T KOG1125|consen  294 NLMKNGDLSEAALAFEAAVKQDPQHAEAWQKLGITQAENENEQNAISALRRCLE--LDPTNLEALMALAVSYTNEGLQNQ  371 (579)
T ss_pred             HHHhcCCchHHHHHHHHHHhhChHHHHHHHHhhhHhhhccchHHHHHHHHHHHh--cCCccHHHHHHHHHHHhhhhhHHH
Confidence            356777888888888777554   445777777777777777778777777766  3443 3344445555555565555


Q ss_pred             HHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHc-hhCCC
Q 005329          430 GKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKV-PMVGL  508 (702)
Q Consensus       430 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m-~~~g~  508 (702)
                      |...++.-+...++--          +....             .++...-+.  ..+..........++|-++ .+.+.
T Consensus       372 Al~~L~~Wi~~~p~y~----------~l~~a-------------~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~  426 (579)
T KOG1125|consen  372 ALKMLDKWIRNKPKYV----------HLVSA-------------GENEDFENT--KSFLDSSHLAHIQELFLEAARQLPT  426 (579)
T ss_pred             HHHHHHHHHHhCccch----------hcccc-------------CccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCC
Confidence            5555554444332100          00000             000000000  0111111223334444443 44554


Q ss_pred             CCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CCC-HHHHHH
Q 005329          509 RPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH-QKD-DVVWST  585 (702)
Q Consensus       509 ~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~-~~~~~~  585 (702)
                      .+|+.....|.-.|--.|.+++|+..|+.+.   .++|+ ..+||.|.-.++...+.++|+..|+++.. +|. ..++..
T Consensus       427 ~~DpdvQ~~LGVLy~ls~efdraiDcf~~AL---~v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yVR~RyN  503 (579)
T KOG1125|consen  427 KIDPDVQSGLGVLYNLSGEFDRAVDCFEAAL---QVKPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYVRVRYN  503 (579)
T ss_pred             CCChhHHhhhHHHHhcchHHHHHHHHHHHHH---hcCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCeeeeehh
Confidence            5777777777777888999999999999887   45776 78899999999999999999999999988 665 458888


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHhCCCC----------chhHHHHHHHHHhcCChHHHH
Q 005329          586 LLRACMVQGDVNCGRHTAEKILELHPSC----------AGTHITLANIYAAKGRWREAA  634 (702)
Q Consensus       586 l~~~~~~~g~~~~A~~~~~~~~~~~p~~----------~~~~~~l~~~~~~~g~~~~A~  634 (702)
                      |+-.|...|.+++|...|-.++.+.+.+          -.+|.+|=.++.-.++.+-+.
T Consensus       504 lgIS~mNlG~ykEA~~hlL~AL~mq~ks~~~~~~~~~se~iw~tLR~als~~~~~D~l~  562 (579)
T KOG1125|consen  504 LGISCMNLGAYKEAVKHLLEALSMQRKSRNHNKAPMASENIWQTLRLALSAMNRSDLLQ  562 (579)
T ss_pred             hhhhhhhhhhHHHHHHHHHHHHHhhhcccccccCCcchHHHHHHHHHHHHHcCCchHHH
Confidence            9999999999999999999998876441          136666666666666665443

>PF12854 PPR_1: PPR repeat

Probab=98.45  E-value=2.3e-07  Score=56.22  Aligned_cols=32  Identities=31%  Similarity=0.545  Sum_probs=19.2

Q ss_pred             CCCCchhHHHHHHHHhhhCCChHHHHHHHhcc
Q 005329          239 GFDVVSFVANSLATMYSKCGKLDYSLRLFERM  270 (702)
Q Consensus       239 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~  270 (702)
                      |+.||..+|++||++|++.|++++|.++|++|
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            45566666666666666666666666666555

>PF12854 PPR_1: PPR repeat

Probab=98.44  E-value=1.9e-07  Score=56.62  Aligned_cols=33  Identities=33%  Similarity=0.556  Sum_probs=23.8

Q ss_pred             cCCCchhHHHHHHHhhhcCCChhHHHHHhccCC
Q 005329          138 GFVNSVFVGSALLDMYTKLGKIELGCRVFDEMP  170 (702)
Q Consensus       138 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~  170 (702)
                      |+.||..+||+||.+|++.|++++|.++|++|+
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            566777777777777777777777777777663

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.43  E-value=3.2e-05  Score=83.53  Aligned_cols=130  Identities=12%  Similarity=0.101  Sum_probs=91.3

Q ss_pred             CCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCC--C-CHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCH-HHHHH
Q 005329          442 LERTAMIKSALINMYSKCGSIKEASQIFYETES--D-DIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDS-VTFMG  517 (702)
Q Consensus       442 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~  517 (702)
                      ...+...+..|.......|.+++|..+++...+  | +...+..++.++.+.+++++|+..+++....  .|+. .....
T Consensus        82 ~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~--~p~~~~~~~~  159 (694)
T PRK15179         82 YPHTELFQVLVARALEAAHRSDEGLAVWRGIHQRFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSG--GSSSAREILL  159 (694)
T ss_pred             ccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhc--CCCCHHHHHH
Confidence            344566666777777777888888887777653  3 4556667777777788888888877777764  4544 45556


Q ss_pred             HHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC
Q 005329          518 VLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH  576 (702)
Q Consensus       518 ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  576 (702)
                      +..++...|++++|.++|+++...   .|+ ...+..+..++...|+.++|...|++...
T Consensus       160 ~a~~l~~~g~~~~A~~~y~~~~~~---~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~  216 (694)
T PRK15179        160 EAKSWDEIGQSEQADACFERLSRQ---HPEFENGYVGWAQSLTRRGALWRARDVLQAGLD  216 (694)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHhc---CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            666677778888888888877642   344 66777777777778888888887777765

>PLN02789 farnesyltranstransferase

Probab=98.42  E-value=8.6e-05  Score=72.66  Aligned_cols=177  Identities=8%  Similarity=0.031  Sum_probs=114.3

Q ss_pred             CHHHHHHHHhhCCC---CCHHHHHHHHHHHHHcCCh--HHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHH
Q 005329          461 SIKEASQIFYETES---DDIVSWTAMINGYAEHGYS--QEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYF  535 (702)
Q Consensus       461 ~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~--~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~  535 (702)
                      ++++++..++++.+   .+..+|+-....+.+.|+.  ++++.+++++.+.. +-|..+|+.....+...|+++++++.+
T Consensus        87 ~l~eeL~~~~~~i~~npknyqaW~~R~~~l~~l~~~~~~~el~~~~kal~~d-pkNy~AW~~R~w~l~~l~~~~eeL~~~  165 (320)
T PLN02789         87 DLEEELDFAEDVAEDNPKNYQIWHHRRWLAEKLGPDAANKELEFTRKILSLD-AKNYHAWSHRQWVLRTLGGWEDELEYC  165 (320)
T ss_pred             hHHHHHHHHHHHHHHCCcchHHhHHHHHHHHHcCchhhHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhhhHHHHHHHH
Confidence            34555555554432   2334555444444445542  56777777777642 335567777777777778888888888


Q ss_pred             HHhHHhhCCCC-ChhhHHHHHHHHHhc---CCH----HHHHHHHHhCCC--CCCHHHHHHHHHHHHhc----CCHHHHHH
Q 005329          536 NLMSDKYGFVP-SKEHYGCMIDLLCRA---GRL----SDAENMIENMPH--QKDDVVWSTLLRACMVQ----GDVNCGRH  601 (702)
Q Consensus       536 ~~~~~~~~~~p-~~~~~~~l~~~~~~~---g~~----~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~----g~~~~A~~  601 (702)
                      +++++.   .| +...|+....++.+.   |..    ++++.+..++..  +.+...|+-+...+...    ++..+|.+
T Consensus       166 ~~~I~~---d~~N~sAW~~R~~vl~~~~~l~~~~~~~e~el~y~~~aI~~~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~  242 (320)
T PLN02789        166 HQLLEE---DVRNNSAWNQRYFVITRSPLLGGLEAMRDSELKYTIDAILANPRNESPWRYLRGLFKDDKEALVSDPEVSS  242 (320)
T ss_pred             HHHHHH---CCCchhHHHHHHHHHHhccccccccccHHHHHHHHHHHHHhCCCCcCHHHHHHHHHhcCCcccccchhHHH
Confidence            888754   33 355566555554443   222    456666655554  34567888887777763    44567888


Q ss_pred             HHHHHHHhCCCCchhHHHHHHHHHhcC------------------ChHHHHHHHHHHH
Q 005329          602 TAEKILELHPSCAGTHITLANIYAAKG------------------RWREAAEVRKMMR  641 (702)
Q Consensus       602 ~~~~~~~~~p~~~~~~~~l~~~~~~~g------------------~~~~A~~~~~~~~  641 (702)
                      .+.++++.+|+++..+..|+++|....                  ..++|.++++.+.
T Consensus       243 ~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~l~  300 (320)
T PLN02789        243 VCLEVLSKDSNHVFALSDLLDLLCEGLQPTAEFRDTVDTLAEELSDSTLAQAVCSELE  300 (320)
T ss_pred             HHHHhhcccCCcHHHHHHHHHHHHhhhccchhhhhhhhccccccccHHHHHHHHHHHH
Confidence            888888888989999999999998643                  2366777777773

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.42  E-value=5.8e-05  Score=74.32  Aligned_cols=116  Identities=17%  Similarity=0.149  Sum_probs=53.2

Q ss_pred             cCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CCC-HHHHHHHHHHHHhcCCHHHHHH
Q 005329          525 AGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH-QKD-DVVWSTLLRACMVQGDVNCGRH  601 (702)
Q Consensus       525 ~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~-~~~~~~l~~~~~~~g~~~~A~~  601 (702)
                      .|+++.|+..++.+...   .|+ +.......+.+.+.|+.++|.+.++++.. .|+ ...+..+..++.+.|+..+|+.
T Consensus       319 ~~~~d~A~~~l~~L~~~---~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~P~~~~l~~~~a~all~~g~~~eai~  395 (484)
T COG4783         319 AGQYDEALKLLQPLIAA---QPDNPYYLELAGDILLEANKAKEAIERLKKALALDPNSPLLQLNLAQALLKGGKPQEAIR  395 (484)
T ss_pred             hcccchHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHhcCChHHHHH
Confidence            34444444444444322   232 23333334444444444444444444444 333 3333444444444444444444


Q ss_pred             HHHHHHHhCCCCchhHHHHHHHHHh-----------------cCChHHHHHHHHHHHhC
Q 005329          602 TAEKILELHPSCAGTHITLANIYAA-----------------KGRWREAAEVRKMMRSK  643 (702)
Q Consensus       602 ~~~~~~~~~p~~~~~~~~l~~~~~~-----------------~g~~~~A~~~~~~~~~~  643 (702)
                      .++.....+|+++..|..|+.+|..                 .|+|++|+..+....++
T Consensus       396 ~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~~A~AE~~~~~G~~~~A~~~l~~A~~~  454 (484)
T COG4783         396 ILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALLARAEGYALAGRLEQAIIFLMRASQQ  454 (484)
T ss_pred             HHHHHhhcCCCCchHHHHHHHHHHHhCchHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh
Confidence            4444444444444444444444444                 45555665555555543

>PLN02789 farnesyltranstransferase

Probab=98.40  E-value=3.1e-05  Score=75.68  Aligned_cols=185  Identities=10%  Similarity=0.050  Sum_probs=137.2

Q ss_pred             HHhcCCHHHHHHHHhhCCC---CCHHHHHHHHHHHHHcC-ChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCc--HH
Q 005329          456 YSKCGSIKEASQIFYETES---DDIVSWTAMINGYAEHG-YSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGL--VD  529 (702)
Q Consensus       456 ~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g-~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~--~~  529 (702)
                      +...++.++|+....++..   .+..+|+....++...| ++++++..++++.+.. +-+..+|+.-...+.+.|.  .+
T Consensus        47 l~~~e~serAL~lt~~aI~lnP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~n-pknyqaW~~R~~~l~~l~~~~~~  125 (320)
T PLN02789         47 YASDERSPRALDLTADVIRLNPGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDN-PKNYQIWHHRRWLAEKLGPDAAN  125 (320)
T ss_pred             HHcCCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHC-CcchHHhHHHHHHHHHcCchhhH
Confidence            3445677778777777653   24456666666677777 6799999999998753 3344566655444555555  36


Q ss_pred             HHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhc---CC----HHHH
Q 005329          530 LGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQ---GD----VNCG  599 (702)
Q Consensus       530 ~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~---g~----~~~A  599 (702)
                      .+.++++.+.+.   .|. ..+|+....++.+.|+++++++.++++.+  ..+..+|+.....+.+.   |.    .+.+
T Consensus       126 ~el~~~~kal~~---dpkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~N~sAW~~R~~vl~~~~~l~~~~~~~e~e  202 (320)
T PLN02789        126 KELEFTRKILSL---DAKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVRNNSAWNQRYFVITRSPLLGGLEAMRDSE  202 (320)
T ss_pred             HHHHHHHHHHHh---CcccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCchhHHHHHHHHHHhccccccccccHHHH
Confidence            788889888743   564 78888888899999999999999999987  45677888877776554   22    3578


Q ss_pred             HHHHHHHHHhCCCCchhHHHHHHHHHhc----CChHHHHHHHHHHHhCC
Q 005329          600 RHTAEKILELHPSCAGTHITLANIYAAK----GRWREAAEVRKMMRSKG  644 (702)
Q Consensus       600 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~----g~~~~A~~~~~~~~~~~  644 (702)
                      +....++++.+|+|..+|..+..++...    ++..+|.+...+..+.+
T Consensus       203 l~y~~~aI~~~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~  251 (320)
T PLN02789        203 LKYTIDAILANPRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKD  251 (320)
T ss_pred             HHHHHHHHHhCCCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhccc
Confidence            8888999999999999999999999883    45677888887766543

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.40  E-value=1.6e-05  Score=75.51  Aligned_cols=183  Identities=12%  Similarity=-0.016  Sum_probs=129.6

Q ss_pred             CCCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCC--ChhHHHHHHHHHHhcCCHHHHHHHHhhCCC--C-CH---HH
Q 005329          408 RPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLER--TAMIKSALINMYSKCGSIKEASQIFYETES--D-DI---VS  479 (702)
Q Consensus       408 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~~---~~  479 (702)
                      ......+......+...|+++.|...++.+.......  ....+..+..++.+.|++++|...|+++.+  | +.   .+
T Consensus        30 ~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a  109 (235)
T TIGR03302        30 EWPAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYA  109 (235)
T ss_pred             cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHH
Confidence            3455667777788899999999999999998765322  124567788999999999999999998763  2 22   24


Q ss_pred             HHHHHHHHHHc--------CChHHHHHHHHHchhCCCCCCHH-HHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhh
Q 005329          480 WTAMINGYAEH--------GYSQEAIHLFEKVPMVGLRPDSV-TFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEH  550 (702)
Q Consensus       480 ~~~li~~~~~~--------g~~~~A~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~  550 (702)
                      +..+..++...        |++++|.+.|+++...  .|+.. ....+.....    .      .... .        ..
T Consensus       110 ~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~~~~----~------~~~~-~--------~~  168 (235)
T TIGR03302       110 YYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR--YPNSEYAPDAKKRMDY----L------RNRL-A--------GK  168 (235)
T ss_pred             HHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH--CCCChhHHHHHHHHHH----H------HHHH-H--------HH
Confidence            55666666654        7889999999999874  45542 2222211100    0      0000 0        11


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhCCC-CC----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCC
Q 005329          551 YGCMIDLLCRAGRLSDAENMIENMPH-QK----DDVVWSTLLRACMVQGDVNCGRHTAEKILELHP  611 (702)
Q Consensus       551 ~~~l~~~~~~~g~~~~A~~~~~~~~~-~p----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p  611 (702)
                      ...+...+.+.|++++|...+++... .|    ....+..++.++...|++++|...++.+....|
T Consensus       169 ~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~~  234 (235)
T TIGR03302       169 ELYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANYP  234 (235)
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            23566778899999999999988766 23    346888999999999999999999888877666

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).

>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=98.39  E-value=6.1e-06  Score=82.13  Aligned_cols=123  Identities=15%  Similarity=0.107  Sum_probs=104.7

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CC-CHHHHHHHHHHHH
Q 005329          514 TFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPH-QK-DDVVWSTLLRACM  591 (702)
Q Consensus       514 ~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p-~~~~~~~l~~~~~  591 (702)
                      ....|+..+...++++.|+++|+++.+.   .|+  ....|++.+...++-.+|.+++.+... .| +...+......|.
T Consensus       171 Lv~~Ll~~l~~t~~~~~ai~lle~L~~~---~pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~p~d~~LL~~Qa~fLl  245 (395)
T PF09295_consen  171 LVDTLLKYLSLTQRYDEAIELLEKLRER---DPE--VAVLLARVYLLMNEEVEAIRLLNEALKENPQDSELLNLQAEFLL  245 (395)
T ss_pred             HHHHHHHHHhhcccHHHHHHHHHHHHhc---CCc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            3455667777788999999999999755   355  455688888888999999999988877 34 6667777778899


Q ss_pred             hcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHH
Q 005329          592 VQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMR  641 (702)
Q Consensus       592 ~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  641 (702)
                      ..++++.|+.+.+++++..|.+..+|..|+.+|...|++++|+-.++.+.
T Consensus       246 ~k~~~~lAL~iAk~av~lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  246 SKKKYELALEIAKKAVELSPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             hcCCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            99999999999999999999999999999999999999999999998775

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.35  E-value=3.3e-05  Score=69.15  Aligned_cols=161  Identities=14%  Similarity=0.149  Sum_probs=95.1

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHH-HHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHH
Q 005329          480 WTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSV-TFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDL  557 (702)
Q Consensus       480 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~  557 (702)
                      |..++-+....|+.+.|...++++... + |.+. .-..-.--+...|.+++|+++|+.+.++   +|+ ..++-.=+-+
T Consensus        55 ~EqV~IAAld~~~~~lAq~C~~~L~~~-f-p~S~RV~~lkam~lEa~~~~~~A~e~y~~lL~d---dpt~~v~~KRKlAi  129 (289)
T KOG3060|consen   55 YEQVFIAALDTGRDDLAQKCINQLRDR-F-PGSKRVGKLKAMLLEATGNYKEAIEYYESLLED---DPTDTVIRKRKLAI  129 (289)
T ss_pred             HHHHHHHHHHhcchHHHHHHHHHHHHh-C-CCChhHHHHHHHHHHHhhchhhHHHHHHHHhcc---CcchhHHHHHHHHH
Confidence            334444555566666777766666654 2 3332 2111112234456677777777776654   343 4455444455


Q ss_pred             HHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcC---ChHH
Q 005329          558 LCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKG---RWRE  632 (702)
Q Consensus       558 ~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g---~~~~  632 (702)
                      .-..|+--+|++-+.+..+  ..|...|.-+...|...|+++.|.-.+++++=..|-++-.+..++.++...|   +.+-
T Consensus       130 lka~GK~l~aIk~ln~YL~~F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll~~P~n~l~f~rlae~~Yt~gg~eN~~~  209 (289)
T KOG3060|consen  130 LKAQGKNLEAIKELNEYLDKFMNDQEAWHELAEIYLSEGDFEKAAFCLEELLLIQPFNPLYFQRLAEVLYTQGGAENLEL  209 (289)
T ss_pred             HHHcCCcHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHH
Confidence            5556666666665555544  3566677777777777777777777777777777777777777777766555   4445


Q ss_pred             HHHHHHHHHhCCC
Q 005329          633 AAEVRKMMRSKGV  645 (702)
Q Consensus       633 A~~~~~~~~~~~~  645 (702)
                      |.+++.+..+...
T Consensus       210 arkyy~~alkl~~  222 (289)
T KOG3060|consen  210 ARKYYERALKLNP  222 (289)
T ss_pred             HHHHHHHHHHhCh
Confidence            6666666666444

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.29  E-value=0.00016  Score=65.36  Aligned_cols=150  Identities=11%  Similarity=0.042  Sum_probs=117.1

Q ss_pred             HHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHH---
Q 005329          483 MINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLC---  559 (702)
Q Consensus       483 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~---  559 (702)
                      -...|+..|++++|++......    ..+  ....=...+.+..+++.|.+.++.|.+-   . +..+.+.|..++.   
T Consensus       114 aa~i~~~~~~~deAl~~~~~~~----~lE--~~Al~VqI~lk~~r~d~A~~~lk~mq~i---d-ed~tLtQLA~awv~la  183 (299)
T KOG3081|consen  114 AAIIYMHDGDFDEALKALHLGE----NLE--AAALNVQILLKMHRFDLAEKELKKMQQI---D-EDATLTQLAQAWVKLA  183 (299)
T ss_pred             hhHHhhcCCChHHHHHHHhccc----hHH--HHHHHHHHHHHHHHHHHHHHHHHHHHcc---c-hHHHHHHHHHHHHHHh
Confidence            3456889999999999987722    222  2222334456778899999999999632   2 4556665655554   


Q ss_pred             -hcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHH-H
Q 005329          560 -RAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAA-E  635 (702)
Q Consensus       560 -~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~-~  635 (702)
                       -.+.+.+|.-+|+++..  +|.+.+.+..+.++...|++++|+.+++.++..++++++++.+++-+-...|+-.++. +
T Consensus       184 ~ggek~qdAfyifeE~s~k~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~dpetL~Nliv~a~~~Gkd~~~~~r  263 (299)
T KOG3081|consen  184 TGGEKIQDAFYIFEELSEKTPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAKDPETLANLIVLALHLGKDAEVTER  263 (299)
T ss_pred             ccchhhhhHHHHHHHHhcccCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCCChHHHHH
Confidence             45678999999999988  6889999999999999999999999999999999999999999999988999887653 4


Q ss_pred             HHHHHHh
Q 005329          636 VRKMMRS  642 (702)
Q Consensus       636 ~~~~~~~  642 (702)
                      .+..+..
T Consensus       264 ~l~QLk~  270 (299)
T KOG3081|consen  264 NLSQLKL  270 (299)
T ss_pred             HHHHHHh
Confidence            5555544

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.27  E-value=9.6e-05  Score=72.83  Aligned_cols=125  Identities=14%  Similarity=0.080  Sum_probs=82.8

Q ss_pred             HHHHHHHHcCChHHHHHHHHHchhCCCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHH
Q 005329          482 AMINGYAEHGYSQEAIHLFEKVPMVGLRPDS-VTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLC  559 (702)
Q Consensus       482 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~  559 (702)
                      .....+...|++++|+..++.++..  .|+. .........+...++.++|.+.++++..   ..|+ ....-.+..+|.
T Consensus       311 G~A~~~~~~~~~d~A~~~l~~L~~~--~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~---l~P~~~~l~~~~a~all  385 (484)
T COG4783         311 GRALQTYLAGQYDEALKLLQPLIAA--QPDNPYYLELAGDILLEANKAKEAIERLKKALA---LDPNSPLLQLNLAQALL  385 (484)
T ss_pred             HHHHHHHHhcccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHh---cCCCccHHHHHHHHHHH
Confidence            3334455667777777777777654  3444 3444445566777777777777777763   3666 445556677777


Q ss_pred             hcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCC
Q 005329          560 RAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHP  611 (702)
Q Consensus       560 ~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p  611 (702)
                      +.|++.+|+.++++...  +.++..|..|..+|...|+..++....-+...+.-
T Consensus       386 ~~g~~~eai~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~~A~AE~~~~~G  439 (484)
T COG4783         386 KGGKPQEAIRILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALLARAEGYALAG  439 (484)
T ss_pred             hcCChHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCchHHHHHHHHHHHHhCC
Confidence            77777777777777665  34566777777777777777777777776666654

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.26  E-value=0.00017  Score=79.39  Aligned_cols=220  Identities=13%  Similarity=0.170  Sum_probs=159.5

Q ss_pred             HHHHHHHHHcccCcHHHHHHHHHHHHHh-CCCC---ChhHHHHHHHHHHhcCCHHHHHHHHhhCCCC-C-HHHHHHHHHH
Q 005329          413 AFASVLSVCGNMAILEQGKQIHAHVMSI-GLER---TAMIKSALINMYSKCGSIKEASQIFYETESD-D-IVSWTAMING  486 (702)
Q Consensus       413 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-~-~~~~~~li~~  486 (702)
                      .|...|.-....++.+.|+++.+++... ++.-   -..+|.++++....-|.-+...++|+++.+- | -..|..|...
T Consensus      1460 ~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqycd~~~V~~~L~~i 1539 (1710)
T KOG1070|consen 1460 LWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYCDAYTVHLKLLGI 1539 (1710)
T ss_pred             HHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhcchHHHHHHHHHH
Confidence            4555555566667777777776666542 1111   1335666666666677778888888887752 3 3578888999


Q ss_pred             HHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC---hhhHHHHHHHHHhcCC
Q 005329          487 YAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS---KEHYGCMIDLLCRAGR  563 (702)
Q Consensus       487 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~---~~~~~~l~~~~~~~g~  563 (702)
                      |.+.+++++|.++++.|.+. +.-....|..++..+.+.++-+.|..++.++.+.   -|.   .......+..-.+.|+
T Consensus      1540 y~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~---lPk~eHv~~IskfAqLEFk~GD 1615 (1710)
T KOG1070|consen 1540 YEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKS---LPKQEHVEFISKFAQLEFKYGD 1615 (1710)
T ss_pred             HHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhh---cchhhhHHHHHHHHHHHhhcCC
Confidence            99999999999999999875 4556678888999999999999999999988754   454   4445556667778999


Q ss_pred             HHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC--CCCchhHHHHHHHHHhc-CChHHHHHH
Q 005329          564 LSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELH--PSCAGTHITLANIYAAK-GRWREAAEV  636 (702)
Q Consensus       564 ~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--p~~~~~~~~l~~~~~~~-g~~~~A~~~  636 (702)
                      .+.+..+|+....  +.....|+..+..-.++|+.+-+..+|++++.+.  |.....++..=.-|.++ |+-+.+..+
T Consensus      1616 aeRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde~~vE~V 1693 (1710)
T KOG1070|consen 1616 AERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDEKNVEYV 1693 (1710)
T ss_pred             chhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCchhhHHHH
Confidence            9999999998877  4577899999999999999999999999999986  54444444433334443 554444333

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.26  E-value=1.9e-05  Score=67.44  Aligned_cols=114  Identities=9%  Similarity=0.073  Sum_probs=90.5

Q ss_pred             HHHHchhCCCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCC-ChhhHHHHHHHHHhcCCHHHHHHHHHhCCC
Q 005329          499 LFEKVPMVGLRPDS-VTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVP-SKEHYGCMIDLLCRAGRLSDAENMIENMPH  576 (702)
Q Consensus       499 ~~~~m~~~g~~p~~-~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  576 (702)
                      .+++...  ..|+. .....+...+...|++++|.+.|+.+...   .| +...+..+...+.+.|++++|..+++....
T Consensus         5 ~~~~~l~--~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~---~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~   79 (135)
T TIGR02552         5 TLKDLLG--LDSEQLEQIYALAYNLYQQGRYDEALKLFQLLAAY---DPYNSRYWLGLAACCQMLKEYEEAIDAYALAAA   79 (135)
T ss_pred             hHHHHHc--CChhhHHHHHHHHHHHHHcccHHHHHHHHHHHHHh---CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3445554  34543 45666777788899999999999988754   34 478888899999999999999999988765


Q ss_pred             --CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhH
Q 005329          577 --QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTH  617 (702)
Q Consensus       577 --~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~  617 (702)
                        +.+...+..+...+...|+++.|...++++++.+|++....
T Consensus        80 ~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~  122 (135)
T TIGR02552        80 LDPDDPRPYFHAAECLLALGEPESALKALDLAIEICGENPEYS  122 (135)
T ss_pred             cCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHH
Confidence              45677888889999999999999999999999999776643

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.25  E-value=0.0002  Score=78.25  Aligned_cols=146  Identities=12%  Similarity=0.036  Sum_probs=75.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhCCC---CCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhcc
Q 005329          449 KSALINMYSKCGSIKEASQIFYETES---DDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHA  525 (702)
Q Consensus       449 ~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~  525 (702)
                      +..+..+|-+.|+.++|..+|+++.+   .|+.+.|.+.-.|... +.++|.+++.+....               +...
T Consensus       119 l~~LA~~Ydk~g~~~ka~~~yer~L~~D~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~---------------~i~~  182 (906)
T PRK14720        119 LRTLAEAYAKLNENKKLKGVWERLVKADRDNPEIVKKLATSYEEE-DKEKAITYLKKAIYR---------------FIKK  182 (906)
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHh-hHHHHHHHHHHHHHH---------------HHhh
Confidence            33445555555555555555554442   2444555555555555 555555555544432               3333


Q ss_pred             CcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 005329          526 GLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPHQKDDVVWSTLLRACMVQGDVNCGRHTAE  604 (702)
Q Consensus       526 g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~  604 (702)
                      +++..+.++|.++...   .|+ ...+..+.+.....-..            ..-..++.-+-..|...++++.+..+++
T Consensus       183 kq~~~~~e~W~k~~~~---~~~d~d~f~~i~~ki~~~~~~------------~~~~~~~~~l~~~y~~~~~~~~~i~iLK  247 (906)
T PRK14720        183 KQYVGIEEIWSKLVHY---NSDDFDFFLRIERKVLGHREF------------TRLVGLLEDLYEPYKALEDWDEVIYILK  247 (906)
T ss_pred             hcchHHHHHHHHHHhc---CcccchHHHHHHHHHHhhhcc------------chhHHHHHHHHHHHhhhhhhhHHHHHHH
Confidence            4455555555555422   232 22222222211111011            1122344445556667777888888888


Q ss_pred             HHHHhCCCCchhHHHHHHHHH
Q 005329          605 KILELHPSCAGTHITLANIYA  625 (702)
Q Consensus       605 ~~~~~~p~~~~~~~~l~~~~~  625 (702)
                      .+++.+|.|.....-++.+|.
T Consensus       248 ~iL~~~~~n~~a~~~l~~~y~  268 (906)
T PRK14720        248 KILEHDNKNNKAREELIRFYK  268 (906)
T ss_pred             HHHhcCCcchhhHHHHHHHHH
Confidence            888888888777777777776

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.21  E-value=3.9e-05  Score=66.18  Aligned_cols=115  Identities=19%  Similarity=0.140  Sum_probs=63.4

Q ss_pred             cCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CCCH----HHHHHHHHHHHhcCCHHH
Q 005329          525 AGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH-QKDD----VVWSTLLRACMVQGDVNC  598 (702)
Q Consensus       525 ~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~~----~~~~~l~~~~~~~g~~~~  598 (702)
                      .++...+.+.++.+...++-.|- ....-.+...+...|++++|...|+.... .|+.    .....|...+...|++++
T Consensus        24 ~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d~  103 (145)
T PF09976_consen   24 AGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYDE  103 (145)
T ss_pred             CCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHH
Confidence            55556666666666544211110 22223344556666666666666666555 2222    233445556666677777


Q ss_pred             HHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHH
Q 005329          599 GRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMM  640 (702)
Q Consensus       599 A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  640 (702)
                      |+..++.. ...+..+..+..+|++|.+.|++++|...|++.
T Consensus       104 Al~~L~~~-~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen  104 ALATLQQI-PDEAFKALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHHhc-cCcchHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            76666552 223334556666777777777777777776653

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.21  E-value=1.3e-05  Score=73.76  Aligned_cols=98  Identities=15%  Similarity=0.099  Sum_probs=65.1

Q ss_pred             HHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CC-CHHHHHHHHHHHHhcCCHH
Q 005329          521 ACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH-QK-DDVVWSTLLRACMVQGDVN  597 (702)
Q Consensus       521 ~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p-~~~~~~~l~~~~~~~g~~~  597 (702)
                      -..+.+++.+|+..|.+++   .+.|+ ...|..=..+|.+.|.++.|++-.+.... .| ...+|..|+.+|...|+++
T Consensus        90 ~~m~~~~Y~eAv~kY~~AI---~l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~yskay~RLG~A~~~~gk~~  166 (304)
T KOG0553|consen   90 KLMKNKDYQEAVDKYTEAI---ELDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPHYSKAYGRLGLAYLALGKYE  166 (304)
T ss_pred             HHHHhhhHHHHHHHHHHHH---hcCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChHHHHHHHHHHHHHHccCcHH
Confidence            3455667777777777766   45664 55555566677777777777777776665 33 3457777777777777777


Q ss_pred             HHHHHHHHHHHhCCCCchhHHHHH
Q 005329          598 CGRHTAEKILELHPSCAGTHITLA  621 (702)
Q Consensus       598 ~A~~~~~~~~~~~p~~~~~~~~l~  621 (702)
                      +|++.|+++++++|++......|-
T Consensus       167 ~A~~aykKaLeldP~Ne~~K~nL~  190 (304)
T KOG0553|consen  167 EAIEAYKKALELDPDNESYKSNLK  190 (304)
T ss_pred             HHHHHHHhhhccCCCcHHHHHHHH
Confidence            777777777777776665544443

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.19  E-value=0.00012  Score=65.61  Aligned_cols=150  Identities=22%  Similarity=0.216  Sum_probs=120.4

Q ss_pred             CChHHHHHHHHHchh---CC-CCCCHH-HHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCH
Q 005329          491 GYSQEAIHLFEKVPM---VG-LRPDSV-TFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRL  564 (702)
Q Consensus       491 g~~~~A~~~~~~m~~---~g-~~p~~~-~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~  564 (702)
                      .+.++..+++.++..   .| ..|+.. .|-.++-+....|..+.|...++.+..++   |. ..+-..-.-.+...|++
T Consensus        26 rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~f---p~S~RV~~lkam~lEa~~~~  102 (289)
T KOG3060|consen   26 RNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRF---PGSKRVGKLKAMLLEATGNY  102 (289)
T ss_pred             cCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhC---CCChhHHHHHHHHHHHhhch
Confidence            456777777766653   34 566664 46667777888999999999999997663   44 33333334456788999


Q ss_pred             HHHHHHHHhCCC-CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 005329          565 SDAENMIENMPH-QK-DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRS  642 (702)
Q Consensus       565 ~~A~~~~~~~~~-~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  642 (702)
                      ++|.++++.... .| +..++-.-+......|+.-+|++-+..-++..|.|.+.|.-|+.+|...|++++|.--++++.=
T Consensus       103 ~~A~e~y~~lL~ddpt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll  182 (289)
T KOG3060|consen  103 KEAIEYYESLLEDDPTDTVIRKRKLAILKAQGKNLEAIKELNEYLDKFMNDQEAWHELAEIYLSEGDFEKAAFCLEELLL  182 (289)
T ss_pred             hhHHHHHHHHhccCcchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHH
Confidence            999999999988 44 5667777777788899999999999999999999999999999999999999999999999875


Q ss_pred             C
Q 005329          643 K  643 (702)
Q Consensus       643 ~  643 (702)
                      .
T Consensus       183 ~  183 (289)
T KOG3060|consen  183 I  183 (289)
T ss_pred             c
Confidence            3

>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=98.19  E-value=5.3e-06  Score=61.05  Aligned_cols=65  Identities=26%  Similarity=0.283  Sum_probs=60.7

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcC-ChHHHHHHHHHHHhC
Q 005329          579 DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKG-RWREAAEVRKMMRSK  643 (702)
Q Consensus       579 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~  643 (702)
                      ++..|..++..+...|++++|+..|+++++.+|+++..+..++.+|...| ++++|++.+++..+.
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l   67 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKL   67 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHc
Confidence            46788999999999999999999999999999999999999999999999 799999999988763

...

>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=98.16  E-value=1.9e-05  Score=62.54  Aligned_cols=94  Identities=21%  Similarity=0.199  Sum_probs=79.5

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhc
Q 005329          550 HYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAK  627 (702)
Q Consensus       550 ~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~  627 (702)
                      .+..++..+...|++++|...++++..  +.+...+..++..+...|+++.|...++++.+..|.+...+..++.++...
T Consensus         2 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (100)
T cd00189           2 ALLNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKL   81 (100)
T ss_pred             HHHHHHHHHHHHhcHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHH
Confidence            355677778888999999999988765  334467778888888999999999999999999998888999999999999


Q ss_pred             CChHHHHHHHHHHHhC
Q 005329          628 GRWREAAEVRKMMRSK  643 (702)
Q Consensus       628 g~~~~A~~~~~~~~~~  643 (702)
                      |++++|...++...+.
T Consensus        82 ~~~~~a~~~~~~~~~~   97 (100)
T cd00189          82 GKYEEALEAYEKALEL   97 (100)
T ss_pred             HhHHHHHHHHHHHHcc
Confidence            9999999999887654

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=98.14  E-value=2.2e-06  Score=65.87  Aligned_cols=78  Identities=22%  Similarity=0.288  Sum_probs=59.0

Q ss_pred             cCCHHHHHHHHHhCCC-CC---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHH
Q 005329          561 AGRLSDAENMIENMPH-QK---DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEV  636 (702)
Q Consensus       561 ~g~~~~A~~~~~~~~~-~p---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~  636 (702)
                      .|++++|+.+++++.. .|   +...+..++.++.+.|++++|..++++ .+.+|.+......++.++.+.|++++|+++
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~~~~~~~~l~a~~~~~l~~y~eAi~~   80 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDPSNPDIHYLLARCLLKLGKYEEAIKA   80 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHHCHHHHHHHHHHHHHHTT-HHHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCCCCHHHHHHHHHHHHHhCCHHHHHHH
Confidence            4677788887777766 33   345566678888888888888888888 667777777888888888888999988888


Q ss_pred             HHH
Q 005329          637 RKM  639 (702)
Q Consensus       637 ~~~  639 (702)
                      +++
T Consensus        81 l~~   83 (84)
T PF12895_consen   81 LEK   83 (84)
T ss_dssp             HHH
T ss_pred             Hhc
Confidence            875

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.14  E-value=3.6e-05  Score=64.07  Aligned_cols=95  Identities=15%  Similarity=0.080  Sum_probs=63.6

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHhCCC-CCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCC---chhHHHHH
Q 005329          550 HYGCMIDLLCRAGRLSDAENMIENMPH-QKD----DVVWSTLLRACMVQGDVNCGRHTAEKILELHPSC---AGTHITLA  621 (702)
Q Consensus       550 ~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~---~~~~~~l~  621 (702)
                      ++..++..+.+.|++++|.+.|+.+.. .|+    ...+..++.++...|+++.|...+++++...|++   +..+..++
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            445556666667777777777766654 232    2355556777777777777777777777776654   45677777


Q ss_pred             HHHHhcCChHHHHHHHHHHHhCC
Q 005329          622 NIYAAKGRWREAAEVRKMMRSKG  644 (702)
Q Consensus       622 ~~~~~~g~~~~A~~~~~~~~~~~  644 (702)
                      .++.+.|++++|...++++.+..
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~~  106 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIKRY  106 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHHHC
Confidence            77777777777777777776654

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.

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=98.10  E-value=4.9e-05  Score=76.31  Aligned_cols=102  Identities=14%  Similarity=0.090  Sum_probs=64.9

Q ss_pred             HHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCC
Q 005329          519 LTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGD  595 (702)
Q Consensus       519 l~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~  595 (702)
                      ...+...|+++.|++.|+++++.   .|+ ...|..+..+|.+.|++++|+..++++..  +.+...|..++.+|...|+
T Consensus         9 a~~a~~~~~~~~Ai~~~~~Al~~---~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~~~~a~~~lg~~~~~lg~   85 (356)
T PLN03088          9 AKEAFVDDDFALAVDLYTQAIDL---DPNNAELYADRAQANIKLGNFTEAVADANKAIELDPSLAKAYLRKGTACMKLEE   85 (356)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCC
Confidence            34455666777777777766633   444 55566666667777777777777766655  2345566666666777777


Q ss_pred             HHHHHHHHHHHHHhCCCCchhHHHHHHH
Q 005329          596 VNCGRHTAEKILELHPSCAGTHITLANI  623 (702)
Q Consensus       596 ~~~A~~~~~~~~~~~p~~~~~~~~l~~~  623 (702)
                      +++|+..++++++++|+++.....+..+
T Consensus        86 ~~eA~~~~~~al~l~P~~~~~~~~l~~~  113 (356)
T PLN03088         86 YQTAKAALEKGASLAPGDSRFTKLIKEC  113 (356)
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            7777777777777777666655555443

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.10  E-value=0.00015  Score=62.62  Aligned_cols=126  Identities=14%  Similarity=0.130  Sum_probs=91.3

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCH---HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC--hhhHHH
Q 005329          479 SWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDS---VTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS--KEHYGC  553 (702)
Q Consensus       479 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~---~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~--~~~~~~  553 (702)
                      .|..++..+ ..++...+...++.+.... +.+.   .....+...+...|++++|...|+.+... .-.|+  ......
T Consensus        14 ~y~~~~~~~-~~~~~~~~~~~~~~l~~~~-~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~-~~d~~l~~~a~l~   90 (145)
T PF09976_consen   14 LYEQALQAL-QAGDPAKAEAAAEQLAKDY-PSSPYAALAALQLAKAAYEQGDYDEAKAALEKALAN-APDPELKPLARLR   90 (145)
T ss_pred             HHHHHHHHH-HCCCHHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh-CCCHHHHHHHHHH
Confidence            344455555 4788888888888888753 2231   23344556778899999999999999876 32222  234456


Q ss_pred             HHHHHHhcCCHHHHHHHHHhCCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 005329          554 MIDLLCRAGRLSDAENMIENMPHQ-KDDVVWSTLLRACMVQGDVNCGRHTAEKIL  607 (702)
Q Consensus       554 l~~~~~~~g~~~~A~~~~~~~~~~-p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  607 (702)
                      |..++...|++++|+..++..... ..+..+...+..+...|++++|...|++++
T Consensus        91 LA~~~~~~~~~d~Al~~L~~~~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~Al  145 (145)
T PF09976_consen   91 LARILLQQGQYDEALATLQQIPDEAFKALAAELLGDIYLAQGDYDEARAAYQKAL  145 (145)
T ss_pred             HHHHHHHcCCHHHHHHHHHhccCcchHHHHHHHHHHHHHHCCCHHHHHHHHHHhC
Confidence            788889999999999999886553 345577778888999999999999998763

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=98.08  E-value=8.7e-06  Score=58.97  Aligned_cols=59  Identities=25%  Similarity=0.262  Sum_probs=51.6

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 005329          586 LLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKG  644 (702)
Q Consensus       586 l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  644 (702)
                      ++..+...|++++|+..++++++.+|+++..+..++.++..+|++++|..+++++.+..
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~   61 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALELD   61 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            56678889999999999999999999999999999999999999999999999887654

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.07  E-value=2.8e-05  Score=71.71  Aligned_cols=96  Identities=16%  Similarity=0.189  Sum_probs=80.9

Q ss_pred             HHHHHcCChHHHHHHHHHchhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcC
Q 005329          485 NGYAEHGYSQEAIHLFEKVPMVGLRP-DSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAG  562 (702)
Q Consensus       485 ~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g  562 (702)
                      .-+.+.++|.+|+..|.+.++.  .| |.+-|..-..+|++.|.++.|++-.+..+   .+.|. ...|..|..+|...|
T Consensus        89 N~~m~~~~Y~eAv~kY~~AI~l--~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al---~iDp~yskay~RLG~A~~~~g  163 (304)
T KOG0553|consen   89 NKLMKNKDYQEAVDKYTEAIEL--DPTNAVYYCNRAAAYSKLGEYEDAVKDCESAL---SIDPHYSKAYGRLGLAYLALG  163 (304)
T ss_pred             HHHHHhhhHHHHHHHHHHHHhc--CCCcchHHHHHHHHHHHhcchHHHHHHHHHHH---hcChHHHHHHHHHHHHHHccC
Confidence            4577889999999999999974  55 66778888899999999999999888776   56777 889999999999999


Q ss_pred             CHHHHHHHHHhCCC-CCCHHHHHH
Q 005329          563 RLSDAENMIENMPH-QKDDVVWST  585 (702)
Q Consensus       563 ~~~~A~~~~~~~~~-~p~~~~~~~  585 (702)
                      ++++|++.|++... .|+..+|..
T Consensus       164 k~~~A~~aykKaLeldP~Ne~~K~  187 (304)
T KOG0553|consen  164 KYEEAIEAYKKALELDPDNESYKS  187 (304)
T ss_pred             cHHHHHHHHHhhhccCCCcHHHHH
Confidence            99999999999988 777665543

>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=98.06  E-value=0.00014  Score=72.57  Aligned_cols=121  Identities=18%  Similarity=0.204  Sum_probs=91.1

Q ss_pred             HHHHHHccCChHHHHHHhhcCCCCCcchHHHHHHHHHcCCChhHHHHHHHHhhhCCCCCCCHHHHHHHHHHhhccCCchh
Q 005329           47 QLKHLVKSGYLHDARKMFDTMTQRDEISWTTLISGYVKAMDSIEALALFSRVWVEPQMNMDPFILSLALKACALNVNVNY  126 (702)
Q Consensus        47 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~  126 (702)
                      |++.+...++++.|..+|+++.+.++.....+++.+...++-.+|++++.+.....  +.+...+..-.+.+...++.+.
T Consensus       175 Ll~~l~~t~~~~~ai~lle~L~~~~pev~~~LA~v~l~~~~E~~AI~ll~~aL~~~--p~d~~LL~~Qa~fLl~k~~~~l  252 (395)
T PF09295_consen  175 LLKYLSLTQRYDEAIELLEKLRERDPEVAVLLARVYLLMNEEVEAIRLLNEALKEN--PQDSELLNLQAEFLLSKKKYEL  252 (395)
T ss_pred             HHHHHhhcccHHHHHHHHHHHHhcCCcHHHHHHHHHHhcCcHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHhcCCHHH
Confidence            44555666888888888888888777777778888888888888888888887552  4455566666667777888888


Q ss_pred             hhHHHHHHHHhcCCCchhHHHHHHHhhhcCCChhHHHHHhccCC
Q 005329          127 GESLHGYTVKTGFVNSVFVGSALLDMYTKLGKIELGCRVFDEMP  170 (702)
Q Consensus       127 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~  170 (702)
                      |..+.+++.+.. +.+..+|..|..+|.+.|+++.|+-.++.++
T Consensus       253 AL~iAk~av~ls-P~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  253 ALEIAKKAVELS-PSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             HHHHHHHHHHhC-chhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            888888877764 3345578888888888888888888888776

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.04  E-value=9.4e-06  Score=50.14  Aligned_cols=35  Identities=34%  Similarity=0.555  Sum_probs=29.9

Q ss_pred             chHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCh
Q 005329          175 VSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDS  209 (702)
Q Consensus       175 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~  209 (702)
                      .+||++|.+|++.|++++|.++|.+|.+.|+.||.
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            37888999999999999999999999888888873

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.

>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=98.00  E-value=2.4e-05  Score=57.25  Aligned_cols=53  Identities=26%  Similarity=0.409  Sum_probs=47.9

Q ss_pred             HhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 005329          591 MVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSK  643 (702)
Q Consensus       591 ~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  643 (702)
                      ...|++++|++.++++++.+|++...+..++.+|.+.|++++|..+++++...
T Consensus         2 l~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~   54 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRNPDNPEARLLLAQCYLKQGQYDEAEELLERLLKQ   54 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG
T ss_pred             hhccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            46899999999999999999999999999999999999999999999887764

...

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.00  E-value=0.0042  Score=68.32  Aligned_cols=148  Identities=9%  Similarity=0.108  Sum_probs=83.5

Q ss_pred             HHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCHHHHHHHHHHHHHcCC
Q 005329          413 AFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETESDDIVSWTAMINGYAEHGY  492 (702)
Q Consensus       413 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~  492 (702)
                      .+..+..+|.+.|+.+++..+++++.+.. +.++.+.|.+...|... ++++|.+++.+.           +..|...++
T Consensus       118 Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~KA-----------V~~~i~~kq  184 (906)
T PRK14720        118 ALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYLKKA-----------IYRFIKKKQ  184 (906)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHHHHH-----------HHHHHhhhc
Confidence            45555556666666666666666666655 44566666677777766 777777665543           233566667


Q ss_pred             hHHHHHHHHHchhCCCCCCHH-HHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHH
Q 005329          493 SQEAIHLFEKVPMVGLRPDSV-TFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMI  571 (702)
Q Consensus       493 ~~~A~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~  571 (702)
                      +..+.++|.++...  .|+.. .+..+.                +.+....+..--+.++-.+...|-..++|+++..++
T Consensus       185 ~~~~~e~W~k~~~~--~~~d~d~f~~i~----------------~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~iL  246 (906)
T PRK14720        185 YVGIEEIWSKLVHY--NSDDFDFFLRIE----------------RKVLGHREFTRLVGLLEDLYEPYKALEDWDEVIYIL  246 (906)
T ss_pred             chHHHHHHHHHHhc--CcccchHHHHHH----------------HHHHhhhccchhHHHHHHHHHHHhhhhhhhHHHHHH
Confidence            77777777777753  33332 222222                222221122222344555556666667777777777


Q ss_pred             HhCCC--CCCHHHHHHHHHHHH
Q 005329          572 ENMPH--QKDDVVWSTLLRACM  591 (702)
Q Consensus       572 ~~~~~--~p~~~~~~~l~~~~~  591 (702)
                      +.+.+  +.+..+...++..|.
T Consensus       247 K~iL~~~~~n~~a~~~l~~~y~  268 (906)
T PRK14720        247 KKILEHDNKNNKAREELIRFYK  268 (906)
T ss_pred             HHHHhcCCcchhhHHHHHHHHH
Confidence            77666  334445555555554

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.00  E-value=1.2e-05  Score=49.70  Aligned_cols=35  Identities=26%  Similarity=0.565  Sum_probs=30.5

Q ss_pred             chHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCCh
Q 005329          276 ISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNE  310 (702)
Q Consensus       276 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~  310 (702)
                      .+||++|.+|++.|++++|.++|++|.+.|+.||.
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            36899999999999999999999999999988873

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.

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.97  E-value=0.00012  Score=68.04  Aligned_cols=105  Identities=22%  Similarity=0.172  Sum_probs=91.8

Q ss_pred             CC-ChhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHHhCCCCchhHH
Q 005329          545 VP-SKEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQG---DVNCGRHTAEKILELHPSCAGTHI  618 (702)
Q Consensus       545 ~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~p~~~~~~~  618 (702)
                      .| |...|..|...|...|+++.|..-|....+  .+++..+..+..++..+.   ...++..++++++..+|.|.....
T Consensus       152 nP~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~iral~  231 (287)
T COG4235         152 NPGDAEGWDLLGRAYMALGRASDALLAYRNALRLAGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPANIRALS  231 (287)
T ss_pred             CCCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHHHHH
Confidence            45 599999999999999999999999999887  567778888888765332   578999999999999999999999


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhCCCccCC
Q 005329          619 TLANIYAAKGRWREAAEVRKMMRSKGVIKEP  649 (702)
Q Consensus       619 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~  649 (702)
                      .|+..+..+|++.+|...|+.|.+..+...+
T Consensus       232 lLA~~afe~g~~~~A~~~Wq~lL~~lp~~~~  262 (287)
T COG4235         232 LLAFAAFEQGDYAEAAAAWQMLLDLLPADDP  262 (287)
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHhcCCCCCc
Confidence            9999999999999999999999987654433

>PRK15331 chaperone protein SicA; Provisional

Probab=97.97  E-value=0.00015  Score=61.31  Aligned_cols=100  Identities=10%  Similarity=0.020  Sum_probs=84.1

Q ss_pred             CCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHH
Q 005329          543 GFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHIT  619 (702)
Q Consensus       543 ~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~  619 (702)
                      |+.++ ....-....-+...|++++|..+|+-+..  .-+...|..|+..|...++++.|+..|..+..++++|+.++..
T Consensus        31 gis~~~le~iY~~Ay~~y~~Gk~~eA~~~F~~L~~~d~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~dp~p~f~  110 (165)
T PRK15331         31 GIPQDMMDGLYAHAYEFYNQGRLDEAETFFRFLCIYDFYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKNDYRPVFF  110 (165)
T ss_pred             CCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCCCccch
Confidence            44444 22233445556789999999999988765  4467788899999999999999999999999999999999999


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHh
Q 005329          620 LANIYAAKGRWREAAEVRKMMRS  642 (702)
Q Consensus       620 l~~~~~~~g~~~~A~~~~~~~~~  642 (702)
                      .+.+|...|+.++|+..|+...+
T Consensus       111 agqC~l~l~~~~~A~~~f~~a~~  133 (165)
T PRK15331        111 TGQCQLLMRKAAKARQCFELVNE  133 (165)
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHh
Confidence            99999999999999999998876

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.96  E-value=0.00016  Score=60.02  Aligned_cols=105  Identities=12%  Similarity=0.107  Sum_probs=74.6

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CCC----HHHHHHHH
Q 005329          514 TFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH-QKD----DVVWSTLL  587 (702)
Q Consensus       514 ~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~----~~~~~~l~  587 (702)
                      ++..+...+...|++++|.+.|+.+.+...-.|. ...+..++.++.+.|++++|...++.+.. .|+    ..++..++
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            4455666677778888888888877654211111 34556677888888888888888887765 333    45677778


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHhCCCCchhHH
Q 005329          588 RACMVQGDVNCGRHTAEKILELHPSCAGTHI  618 (702)
Q Consensus       588 ~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~  618 (702)
                      .++...|+.++|...++++++..|++.....
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~  114 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIKRYPGSSAAKL  114 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHHHCcCChhHHH
Confidence            8888889999999999999999887765443

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.

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=97.93  E-value=1.8e-05  Score=48.44  Aligned_cols=33  Identities=21%  Similarity=0.344  Sum_probs=25.7

Q ss_pred             chHHHHHHHHHhCCChHHHHHHHHHHHHCCCCC
Q 005329          175 VSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQG  207 (702)
Q Consensus       175 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p  207 (702)
                      .+||.+|.+|++.|+++.|.++|++|.+.|++|
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            467788888888888888888888887777766

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.93  E-value=0.00067  Score=65.35  Aligned_cols=153  Identities=13%  Similarity=0.064  Sum_probs=115.3

Q ss_pred             HHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHH--HHhccCcHHHHHHHHHHhHHhhCCCCChhhHHH---H-----
Q 005329          485 NGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLT--ACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGC---M-----  554 (702)
Q Consensus       485 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~--~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~---l-----  554 (702)
                      .++...|++++|.+.--...+.  .++. .+..+++  ++-..++.+.|...|++.+   .+.|+...-..   +     
T Consensus       177 ~cl~~~~~~~~a~~ea~~ilkl--d~~n-~~al~vrg~~~yy~~~~~ka~~hf~qal---~ldpdh~~sk~~~~~~k~le  250 (486)
T KOG0550|consen  177 ECLAFLGDYDEAQSEAIDILKL--DATN-AEALYVRGLCLYYNDNADKAINHFQQAL---RLDPDHQKSKSASMMPKKLE  250 (486)
T ss_pred             hhhhhcccchhHHHHHHHHHhc--ccch-hHHHHhcccccccccchHHHHHHHhhhh---ccChhhhhHHhHhhhHHHHH
Confidence            4566788999888876665542  2221 2223333  3346778899999999876   55776332221   1     


Q ss_pred             -----HHHHHhcCCHHHHHHHHHhCCC-C-----CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHH
Q 005329          555 -----IDLLCRAGRLSDAENMIENMPH-Q-----KDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANI  623 (702)
Q Consensus       555 -----~~~~~~~g~~~~A~~~~~~~~~-~-----p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~  623 (702)
                           .+-..+.|++.+|.+.+.+... .     |+...|.....+..+.|+..+|+.--+.+++++|.-...|..-+.+
T Consensus       251 ~~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD~syikall~ra~c  330 (486)
T KOG0550|consen  251 VKKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKIDSSYIKALLRRANC  330 (486)
T ss_pred             HHHhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcCHHHHHHHHHHHHH
Confidence                 2345688999999999999877 3     4556677777778899999999999999999999999999999999


Q ss_pred             HHhcCChHHHHHHHHHHHhC
Q 005329          624 YAAKGRWREAAEVRKMMRSK  643 (702)
Q Consensus       624 ~~~~g~~~~A~~~~~~~~~~  643 (702)
                      +...++|++|.+.++++.+.
T Consensus       331 ~l~le~~e~AV~d~~~a~q~  350 (486)
T KOG0550|consen  331 HLALEKWEEAVEDYEKAMQL  350 (486)
T ss_pred             HHHHHHHHHHHHHHHHHHhh
Confidence            99999999999999998764

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=97.90  E-value=2.1e-05  Score=48.15  Aligned_cols=33  Identities=24%  Similarity=0.557  Sum_probs=27.1

Q ss_pred             chHHHHHHHHHhcCChhHHHHHHHHHHHCCCCC
Q 005329          276 ISWTTIITSYVQMGEEENAFDAFVRMQESDVKP  308 (702)
Q Consensus       276 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  308 (702)
                      .+|+.++.+|++.|+++.|.++|++|.+.|++|
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            578888888888888888888888888888776

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.89  E-value=0.00015  Score=64.66  Aligned_cols=82  Identities=17%  Similarity=0.129  Sum_probs=65.9

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHH
Q 005329          548 KEHYGCMIDLLCRAGRLSDAENMIENMPH-QKD----DVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLAN  622 (702)
Q Consensus       548 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~  622 (702)
                      ...+..++..+...|++++|...|++... .|+    ...+..++..+...|++++|...++++++..|.++..+..++.
T Consensus        35 a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~  114 (172)
T PRK02603         35 AFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPKQPSALNNIAV  114 (172)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHH
Confidence            44566677777778888888888877654 222    3577888888999999999999999999999999999999999


Q ss_pred             HHHhcCC
Q 005329          623 IYAAKGR  629 (702)
Q Consensus       623 ~~~~~g~  629 (702)
                      +|...|+
T Consensus       115 ~~~~~g~  121 (172)
T PRK02603        115 IYHKRGE  121 (172)
T ss_pred             HHHHcCC
Confidence            9988776

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.89  E-value=0.00016  Score=72.68  Aligned_cols=102  Identities=12%  Similarity=0.053  Sum_probs=81.1

Q ss_pred             HHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhc
Q 005329          483 MINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRA  561 (702)
Q Consensus       483 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~  561 (702)
                      ....+...|++++|++.|+++++.. +-+...|..+..++...|++++|+..++.+.+   +.|+ ...|..+..+|...
T Consensus         8 ~a~~a~~~~~~~~Ai~~~~~Al~~~-P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~---l~P~~~~a~~~lg~~~~~l   83 (356)
T PLN03088          8 KAKEAFVDDDFALAVDLYTQAIDLD-PNNAELYADRAQANIKLGNFTEAVADANKAIE---LDPSLAKAYLRKGTACMKL   83 (356)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCcCCHHHHHHHHHHHHHh
Confidence            3456678899999999999998753 34566788888889999999999999999874   4665 77888899999999


Q ss_pred             CCHHHHHHHHHhCCC-CCCHHHHHHHHH
Q 005329          562 GRLSDAENMIENMPH-QKDDVVWSTLLR  588 (702)
Q Consensus       562 g~~~~A~~~~~~~~~-~p~~~~~~~l~~  588 (702)
                      |++++|...|+++.. .|+.......+.
T Consensus        84 g~~~eA~~~~~~al~l~P~~~~~~~~l~  111 (356)
T PLN03088         84 EEYQTAKAALEKGASLAPGDSRFTKLIK  111 (356)
T ss_pred             CCHHHHHHHHHHHHHhCCCCHHHHHHHH
Confidence            999999999999877 565544444433

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=97.83  E-value=0.046  Score=55.09  Aligned_cols=171  Identities=15%  Similarity=0.170  Sum_probs=124.0

Q ss_pred             HHHHHHHHhhCCC----CCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHH
Q 005329          462 IKEASQIFYETES----DDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRP-DSVTFMGVLTACSHAGLVDLGFHYFN  536 (702)
Q Consensus       462 ~~~A~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~g~~~~A~~~~~  536 (702)
                      .+.....+++...    .-..+|..+++.-.+..-...|..+|.++.+.+..+ .....++++..+| .++...|..+|+
T Consensus       347 ~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~c-skD~~~AfrIFe  425 (656)
T KOG1914|consen  347 EKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYC-SKDKETAFRIFE  425 (656)
T ss_pred             hhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHh-cCChhHHHHHHH
Confidence            3444444444432    233467778888888888999999999999988777 5567777777655 578899999999


Q ss_pred             HhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCCC-----CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCC
Q 005329          537 LMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPHQ-----KDDVVWSTLLRACMVQGDVNCGRHTAEKILELHP  611 (702)
Q Consensus       537 ~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p  611 (702)
                      .=.+++|-  ++.-....++.+...++-..|..+|++....     .....|..++.--..-|+...+..+-++.....|
T Consensus       426 LGLkkf~d--~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~af~  503 (656)
T KOG1914|consen  426 LGLKKFGD--SPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFTAFP  503 (656)
T ss_pred             HHHHhcCC--ChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHHhcc
Confidence            87776442  2444456788888999999999999998763     2457999999999999999999999999988777


Q ss_pred             CCc----hhHHHHHHHHHhcCChHHHHH
Q 005329          612 SCA----GTHITLANIYAAKGRWREAAE  635 (702)
Q Consensus       612 ~~~----~~~~~l~~~~~~~g~~~~A~~  635 (702)
                      .+.    ..-..+.+-|.=.+.+..-..
T Consensus       504 ~~qe~~~~~~~~~v~RY~~~d~~~c~~~  531 (656)
T KOG1914|consen  504 ADQEYEGNETALFVDRYGILDLYPCSLD  531 (656)
T ss_pred             hhhcCCCChHHHHHHHHhhcccccccHH
Confidence            331    233344555655555544333

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.81  E-value=0.00019  Score=63.87  Aligned_cols=93  Identities=12%  Similarity=-0.059  Sum_probs=76.6

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CC----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHH
Q 005329          548 KEHYGCMIDLLCRAGRLSDAENMIENMPH-QK----DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLAN  622 (702)
Q Consensus       548 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~  622 (702)
                      ...|..++..+...|++++|...|++... .|    ...+|..++..+...|++++|+..+++++.+.|.....+..++.
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~~~~~~~~la~  114 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERNPFLPQALNNMAV  114 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHH
Confidence            55667777888888999999998888754 22    23578889999999999999999999999999999999999999


Q ss_pred             HHH-------hcCChHHHHHHHHHH
Q 005329          623 IYA-------AKGRWREAAEVRKMM  640 (702)
Q Consensus       623 ~~~-------~~g~~~~A~~~~~~~  640 (702)
                      ++.       ..|++++|...+++.
T Consensus       115 i~~~~~~~~~~~g~~~~A~~~~~~a  139 (168)
T CHL00033        115 ICHYRGEQAIEQGDSEIAEAWFDQA  139 (168)
T ss_pred             HHHHhhHHHHHcccHHHHHHHHHHH
Confidence            998       888888666666554

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.79  E-value=8.4e-05  Score=55.30  Aligned_cols=59  Identities=22%  Similarity=0.172  Sum_probs=53.9

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 005329          587 LRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKGV  645 (702)
Q Consensus       587 ~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  645 (702)
                      ...|.+.++++.|.++++++++++|+++..+...+.++.+.|++++|.+.+++..+.++
T Consensus         2 ~~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p   60 (73)
T PF13371_consen    2 KQIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALELSP   60 (73)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCC
Confidence            45678999999999999999999999999999999999999999999999999987654

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.79  E-value=6.1e-05  Score=54.49  Aligned_cols=61  Identities=23%  Similarity=0.287  Sum_probs=51.8

Q ss_pred             HHHHHHhcCCHHHHHHHHHhCCC-CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCc
Q 005329          554 MIDLLCRAGRLSDAENMIENMPH-QK-DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCA  614 (702)
Q Consensus       554 l~~~~~~~g~~~~A~~~~~~~~~-~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~  614 (702)
                      +...+...|++++|...|+++.. .| +...|..++.++...|++++|...++++++.+|+++
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~P~~p   65 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALELDPDNP   65 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-H
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCC
Confidence            46778899999999999999887 44 577889999999999999999999999999999874

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.78  E-value=0.0033  Score=53.73  Aligned_cols=133  Identities=14%  Similarity=0.114  Sum_probs=107.3

Q ss_pred             CCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CC---CHHHH
Q 005329          508 LRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPH-QK---DDVVW  583 (702)
Q Consensus       508 ~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p---~~~~~  583 (702)
                      ..|+...-..|..+....|+..+|...|++...- -+.-|....-.+.++....+++..|...++++.+ +|   ++.+.
T Consensus        85 ~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG-~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~  163 (251)
T COG4700          85 IAPTVQNRYRLANALAELGRYHEAVPHYQQALSG-IFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGH  163 (251)
T ss_pred             hchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhcc-ccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCch
Confidence            4677777777888899999999999999988653 3344577788888899999999999999988766 32   33455


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 005329          584 STLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRS  642 (702)
Q Consensus       584 ~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  642 (702)
                      ..+...+...|++..|+..|+.++.-.| ++..-...+..+.++|+.++|..-+..+.+
T Consensus       164 Ll~aR~laa~g~~a~Aesafe~a~~~yp-g~~ar~~Y~e~La~qgr~~ea~aq~~~v~d  221 (251)
T COG4700         164 LLFARTLAAQGKYADAESAFEVAISYYP-GPQARIYYAEMLAKQGRLREANAQYVAVVD  221 (251)
T ss_pred             HHHHHHHHhcCCchhHHHHHHHHHHhCC-CHHHHHHHHHHHHHhcchhHHHHHHHHHHH
Confidence            5678889999999999999999999988 788888888999999999998776666554

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.75  E-value=0.00083  Score=59.93  Aligned_cols=129  Identities=13%  Similarity=0.153  Sum_probs=77.4

Q ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCC--HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHH
Q 005329          477 IVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPD--SVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGC  553 (702)
Q Consensus       477 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~--~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~  553 (702)
                      ...+..+...+...|++++|...|++..+....++  ...+..+...+.+.|++++|...+++..+.   .|+ ...+..
T Consensus        35 a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~  111 (172)
T PRK02603         35 AFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALEL---NPKQPSALNN  111 (172)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CcccHHHHHH
Confidence            34566666667777777777777777665332222  245666666667777777777777766532   443 445555


Q ss_pred             HHHHHHhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCC
Q 005329          554 MIDLLCRAGRLSDAENMIENMPHQKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGR  629 (702)
Q Consensus       554 l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  629 (702)
                      ++.++...|+...+..-++...                  ..+++|.+.++++++.+|++   +..++..+...|+
T Consensus       112 lg~~~~~~g~~~~a~~~~~~A~------------------~~~~~A~~~~~~a~~~~p~~---~~~~~~~~~~~~~  166 (172)
T PRK02603        112 IAVIYHKRGEKAEEAGDQDEAE------------------ALFDKAAEYWKQAIRLAPNN---YIEAQNWLKTTGR  166 (172)
T ss_pred             HHHHHHHcCChHhHhhCHHHHH------------------HHHHHHHHHHHHHHhhCchh---HHHHHHHHHhcCc
Confidence            5666666666555443332211                  12678888999999988876   4444444444443

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.74  E-value=0.0013  Score=69.09  Aligned_cols=62  Identities=19%  Similarity=0.247  Sum_probs=31.8

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 005329          581 VVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSK  643 (702)
Q Consensus       581 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  643 (702)
                      ..+..+.......|++++|...++++++++| +...|..++.++...|+.++|.+.++++...
T Consensus       421 ~~~~ala~~~~~~g~~~~A~~~l~rAl~L~p-s~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L  482 (517)
T PRK10153        421 RIYEILAVQALVKGKTDEAYQAINKAIDLEM-SWLNYVLLGKVYELKGDNRLAADAYSTAFNL  482 (517)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            3444444444444555555555555555555 3445555555555555555555555554443

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.72  E-value=0.001  Score=69.86  Aligned_cols=144  Identities=11%  Similarity=0.005  Sum_probs=105.9

Q ss_pred             hCCCCCHHHHHHHHHHHHHcC-----ChHHHHHHHHHchhCCCCCCH-HHHHHHHHHHhcc--------CcHHHHHHHHH
Q 005329          471 ETESDDIVSWTAMINGYAEHG-----YSQEAIHLFEKVPMVGLRPDS-VTFMGVLTACSHA--------GLVDLGFHYFN  536 (702)
Q Consensus       471 ~~~~~~~~~~~~li~~~~~~g-----~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~--------g~~~~A~~~~~  536 (702)
                      .....+...|...+.+.....     ....|..+|++..+.  .|+. ..+..+..++...        .+...+.+...
T Consensus       331 ~~~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~l--dP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~  408 (517)
T PRK10153        331 QGLPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKS--EPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELD  408 (517)
T ss_pred             ccCCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHH
Confidence            334568899999988865432     367899999999984  6765 4566555444322        12334444444


Q ss_pred             HhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCch
Q 005329          537 LMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPH-QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAG  615 (702)
Q Consensus       537 ~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~  615 (702)
                      ..........+...|..+.-.....|++++|...++++.. .|+...|..++..+...|+.++|.+.+++++.++|.++.
T Consensus       409 ~a~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P~~pt  488 (517)
T PRK10153        409 NIVALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLEMSWLNYVLLGKVYELKGDNRLAADAYSTAFNLRPGENT  488 (517)
T ss_pred             HhhhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCch
Confidence            4332211233467788887777788999999999999988 789899999999999999999999999999999998885


Q ss_pred             h
Q 005329          616 T  616 (702)
Q Consensus       616 ~  616 (702)
                      .
T Consensus       489 ~  489 (517)
T PRK10153        489 L  489 (517)
T ss_pred             H
Confidence            3

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=97.64  E-value=0.14  Score=55.14  Aligned_cols=118  Identities=10%  Similarity=0.082  Sum_probs=67.7

Q ss_pred             HHHHHHHhccCcHHHH---HHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCCC-CCHHHHHH-HHHH
Q 005329          516 MGVLTACSHAGLVDLG---FHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPHQ-KDDVVWST-LLRA  589 (702)
Q Consensus       516 ~~ll~~~~~~g~~~~A---~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-p~~~~~~~-l~~~  589 (702)
                      +.++..|.+.++....   +-+++.-.   ...|. ..+--.+++.|.-.|-+..|.+.|..+.-+ -...|... +...
T Consensus       440 ~~Lid~~rktnd~~~l~eaI~LLE~gl---t~s~hnf~~KLlLiriY~~lGa~p~a~~~y~tLdIK~IQ~DTlgh~~~~~  516 (932)
T KOG2053|consen  440 NHLIDLWRKTNDLTDLFEAITLLENGL---TKSPHNFQTKLLLIRIYSYLGAFPDAYELYKTLDIKNIQTDTLGHLIFRR  516 (932)
T ss_pred             HHHHHHHHhcCcHHHHHHHHHHHHHHh---hcCCccHHHHHHHHHHHHHhcCChhHHHHHHhcchHHhhhccchHHHHHH
Confidence            4566677777776643   33333322   12333 344456788888888888888888887652 12222222 3344


Q ss_pred             HHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHH
Q 005329          590 CMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEV  636 (702)
Q Consensus       590 ~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~  636 (702)
                      +...|++..+...+...+....++-.----++..-.+.|.+.+..+.
T Consensus       517 ~~t~g~~~~~s~~~~~~lkfy~~~~kE~~eyI~~AYr~g~ySkI~em  563 (932)
T KOG2053|consen  517 AETSGRSSFASNTFNEHLKFYDSSLKETPEYIALAYRRGAYSKIPEM  563 (932)
T ss_pred             HHhcccchhHHHHHHHHHHHHhhhhhhhHHHHHHHHHcCchhhhHHH
Confidence            55778888888888888776644433222333334455666655443

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=97.62  E-value=0.072  Score=51.47  Aligned_cols=282  Identities=14%  Similarity=0.130  Sum_probs=180.2

Q ss_pred             CCHHHHHHHHhcC---CCCChhhHHHHHHH--HHcCCChHHHHHHHHHHHHCCCCCCHH--HHHHHHHHHcccCcHHHHH
Q 005329          359 GQLTSTSIVFHGM---IRRDIISWSTIIGG--YSQGGYEEEAFEYLALMRREGPRPNEF--AFASVLSVCGNMAILEQGK  431 (702)
Q Consensus       359 g~~~~a~~~~~~~---~~~~~~~~~~li~~--~~~~g~~~~a~~~~~~m~~~g~~p~~~--~~~~ll~~~~~~~~~~~a~  431 (702)
                      |+-..|.+.-.+.   ...|......|+.+  -.-.|+++.|.+-|+.|..   .|...  -...|.-..-+.|+.+.|.
T Consensus        98 Gda~lARkmt~~~~~llssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~---dPEtRllGLRgLyleAqr~GareaAr  174 (531)
T COG3898          98 GDASLARKMTARASKLLSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLD---DPETRLLGLRGLYLEAQRLGAREAAR  174 (531)
T ss_pred             CchHHHHHHHHHHHhhhhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhc---ChHHHHHhHHHHHHHHHhcccHHHHH
Confidence            4455555444332   22344444444433  2346888888888888865   22222  2334444455678888888


Q ss_pred             HHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCC-----CCCHHH--HHHHHHHHH---HcCChHHHHHHHH
Q 005329          432 QIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETE-----SDDIVS--WTAMINGYA---EHGYSQEAIHLFE  501 (702)
Q Consensus       432 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~-----~~~~~~--~~~li~~~~---~~g~~~~A~~~~~  501 (702)
                      .+-+..-..- +.-.....+.+...+..|+++.|+++.+.-.     ++++.-  --.|+.+-.   -..+...|...-.
T Consensus       175 ~yAe~Aa~~A-p~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A~  253 (531)
T COG3898         175 HYAERAAEKA-PQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDAL  253 (531)
T ss_pred             HHHHHHHhhc-cCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHHH
Confidence            7766655432 2234566778888999999999999987644     344321  122222211   1234555665555


Q ss_pred             HchhCCCCCCHH-HHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCC----
Q 005329          502 KVPMVGLRPDSV-TFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPH----  576 (702)
Q Consensus       502 ~m~~~g~~p~~~-~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----  576 (702)
                      +..+  +.||.. .-..-..++.+.|+..++-.+++.+.+.   .|.+..+...+  +.+.|+.  +..-+++...    
T Consensus       254 ~a~K--L~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~---ePHP~ia~lY~--~ar~gdt--a~dRlkRa~~L~sl  324 (531)
T COG3898         254 EANK--LAPDLVPAAVVAARALFRDGNLRKGSKILETAWKA---EPHPDIALLYV--RARSGDT--ALDRLKRAKKLESL  324 (531)
T ss_pred             HHhh--cCCccchHHHHHHHHHHhccchhhhhhHHHHHHhc---CCChHHHHHHH--HhcCCCc--HHHHHHHHHHHHhc
Confidence            5443  567764 3344567789999999999999999854   77777664333  3455654  3333332221    


Q ss_pred             -CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhc-CChHHHHHHHHHHHhCCCccCCeeeEE
Q 005329          577 -QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAK-GRWREAAEVRKMMRSKGVIKEPGWSRI  654 (702)
Q Consensus       577 -~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~~~~~~~~~~~~  654 (702)
                       +.+......+..+-...|++..|..-.+.+....| ....|..|+++-... |+-.++...+-+..+.  ..+|.|+-.
T Consensus       325 k~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r~~p-res~~lLlAdIeeAetGDqg~vR~wlAqav~A--PrdPaW~ad  401 (531)
T COG3898         325 KPNNAESSLAVAEAALDAGEFSAARAKAEAAAREAP-RESAYLLLADIEEAETGDQGKVRQWLAQAVKA--PRDPAWTAD  401 (531)
T ss_pred             CccchHHHHHHHHHHHhccchHHHHHHHHHHhhhCc-hhhHHHHHHHHHhhccCchHHHHHHHHHHhcC--CCCCccccc
Confidence             34566777888888999999999999999999999 778889999987665 9999999999887764  345666544


Q ss_pred             EE
Q 005329          655 KV  656 (702)
Q Consensus       655 ~~  656 (702)
                      .+
T Consensus       402 g~  403 (531)
T COG3898         402 GV  403 (531)
T ss_pred             Cc
Confidence            33

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=97.62  E-value=5e-05  Score=45.96  Aligned_cols=34  Identities=35%  Similarity=0.527  Sum_probs=31.4

Q ss_pred             HHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHH
Q 005329          602 TAEKILELHPSCAGTHITLANIYAAKGRWREAAE  635 (702)
Q Consensus       602 ~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~  635 (702)
                      +|+++++++|+++..|..|+.+|...|++++|++
T Consensus         1 ~y~kAie~~P~n~~a~~nla~~~~~~g~~~~A~~   34 (34)
T PF13431_consen    1 CYKKAIELNPNNAEAYNNLANLYLNQGDYEEAIA   34 (34)
T ss_pred             ChHHHHHHCCCCHHHHHHHHHHHHHCcCHHhhcC
Confidence            3789999999999999999999999999999863

>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=97.62  E-value=0.0005  Score=54.11  Aligned_cols=91  Identities=19%  Similarity=0.208  Sum_probs=50.2

Q ss_pred             HHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcC
Q 005329          518 VLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQG  594 (702)
Q Consensus       518 ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g  594 (702)
                      +...+...|++++|...++.+.+.   .|+ ...+..+...+...|++++|.+.++....  +.+..++..++..+...|
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (100)
T cd00189           6 LGNLYYKLGDYDEALEYYEKALEL---DPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKLG   82 (100)
T ss_pred             HHHHHHHHhcHHHHHHHHHHHHhc---CCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHHH
Confidence            344444555555555555555422   222 34445555555556666666666655443  223345566666666666


Q ss_pred             CHHHHHHHHHHHHHhCC
Q 005329          595 DVNCGRHTAEKILELHP  611 (702)
Q Consensus       595 ~~~~A~~~~~~~~~~~p  611 (702)
                      +++.|...++++++..|
T Consensus        83 ~~~~a~~~~~~~~~~~~   99 (100)
T cd00189          83 KYEEALEAYEKALELDP   99 (100)
T ss_pred             hHHHHHHHHHHHHccCC
Confidence            66666666666666555

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.59  E-value=0.0026  Score=61.58  Aligned_cols=135  Identities=13%  Similarity=0.174  Sum_probs=102.4

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHH-HhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHH
Q 005329          478 VSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTA-CSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMID  556 (702)
Q Consensus       478 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~-~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~  556 (702)
                      .+|..++....+.+..+.|..+|++..+.+ ..+...|...... +...++.+.|..+|+...+.+  ..+...|...++
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~f--~~~~~~~~~Y~~   78 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKKF--PSDPDFWLEYLD   78 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHHH--TT-HHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHC--CCCHHHHHHHHH
Confidence            467788888888888999999999998543 2334444444333 333577788999999998774  445778888899


Q ss_pred             HHHhcCCHHHHHHHHHhCCC-CC----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCch
Q 005329          557 LLCRAGRLSDAENMIENMPH-QK----DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAG  615 (702)
Q Consensus       557 ~~~~~g~~~~A~~~~~~~~~-~p----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~  615 (702)
                      .+.+.|+.+.|..+|++... -|    ....|...+..-.+.|+.+.+..+.+++.+..|++..
T Consensus        79 ~l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~~~~~~~  142 (280)
T PF05843_consen   79 FLIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEELFPEDNS  142 (280)
T ss_dssp             HHHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHTTTS-H
T ss_pred             HHHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhhhH
Confidence            99999999999999999887 23    3459999999999999999999999999999886443

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.

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.59  E-value=9.6e-05  Score=43.96  Aligned_cols=31  Identities=29%  Similarity=0.507  Sum_probs=23.1

Q ss_pred             chHHHHHHHHHhCCChHHHHHHHHHHHHCCC
Q 005329          175 VSWTAIITGLVRAGHNKEGLIYFAEMWRSKE  205 (702)
Q Consensus       175 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~  205 (702)
                      ++||.+|++|++.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            3677777777777777777777777777653

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.

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.56  E-value=0.00084  Score=54.70  Aligned_cols=89  Identities=19%  Similarity=0.029  Sum_probs=66.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHHhCCCC----C-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCC---CchhHHHHHHHH
Q 005329          553 CMIDLLCRAGRLSDAENMIENMPHQ----K-DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPS---CAGTHITLANIY  624 (702)
Q Consensus       553 ~l~~~~~~~g~~~~A~~~~~~~~~~----p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~---~~~~~~~l~~~~  624 (702)
                      .+..++-..|+.++|+.+|++....    + ....+..+...+...|++++|+.++++.++..|+   +......++.++
T Consensus         6 ~~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L   85 (120)
T PF12688_consen    6 ELAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALAL   85 (120)
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHH
Confidence            3456677778888888888776651    1 1346667778888888888888888888888777   667777788888


Q ss_pred             HhcCChHHHHHHHHHHH
Q 005329          625 AAKGRWREAAEVRKMMR  641 (702)
Q Consensus       625 ~~~g~~~~A~~~~~~~~  641 (702)
                      ...|+.+||+..+-...
T Consensus        86 ~~~gr~~eAl~~~l~~l  102 (120)
T PF12688_consen   86 YNLGRPKEALEWLLEAL  102 (120)
T ss_pred             HHCCCHHHHHHHHHHHH
Confidence            88888888888765543

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.55  E-value=0.0003  Score=53.91  Aligned_cols=78  Identities=18%  Similarity=0.257  Sum_probs=31.0

Q ss_pred             CChHHHHHHHHHchhCCC-CCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHH
Q 005329          491 GYSQEAIHLFEKVPMVGL-RPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAE  568 (702)
Q Consensus       491 g~~~~A~~~~~~m~~~g~-~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~  568 (702)
                      |+++.|+.+++++.+... .|+...+..+..++.+.|++++|.++++. .   ...|+ ......++.++.+.|++++|+
T Consensus         3 ~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~---~~~~~~~~~~~l~a~~~~~l~~y~eAi   78 (84)
T PF12895_consen    3 GNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-L---KLDPSNPDIHYLLARCLLKLGKYEEAI   78 (84)
T ss_dssp             T-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-H---THHHCHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             ccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-h---CCCCCCHHHHHHHHHHHHHhCCHHHHH
Confidence            444555555555444321 01222233344444455555555555544 1   11222 222223344444455555554


Q ss_pred             HHHH
Q 005329          569 NMIE  572 (702)
Q Consensus       569 ~~~~  572 (702)
                      +.++
T Consensus        79 ~~l~   82 (84)
T PF12895_consen   79 KALE   82 (84)
T ss_dssp             HHHH
T ss_pred             HHHh
Confidence            4443

>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=97.54  E-value=0.00017  Score=52.88  Aligned_cols=65  Identities=22%  Similarity=0.243  Sum_probs=54.2

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CC-CHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHhCC
Q 005329          547 SKEHYGCMIDLLCRAGRLSDAENMIENMPH-QK-DDVVWSTLLRACMVQG-DVNCGRHTAEKILELHP  611 (702)
Q Consensus       547 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p-~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~~p  611 (702)
                      +...|..++..+...|++++|+..|++... .| +...|..++.++...| ++++|++.++++++++|
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l~P   69 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKLDP   69 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHcCc
Confidence            356677888888888999999988888877 44 5678888888999998 79999999999999887

...

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.54  E-value=0.00011  Score=43.62  Aligned_cols=31  Identities=29%  Similarity=0.710  Sum_probs=23.0

Q ss_pred             chHHHHHHHHHhcCChhHHHHHHHHHHHCCC
Q 005329          276 ISWTTIITSYVQMGEEENAFDAFVRMQESDV  306 (702)
Q Consensus       276 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~  306 (702)
                      ++||+++++|++.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            3677777777777777777777777777663

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.

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.54  E-value=0.11  Score=51.36  Aligned_cols=61  Identities=16%  Similarity=0.139  Sum_probs=53.2

Q ss_pred             CHHHHHHHHHH--HHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHH
Q 005329          579 DDVVWSTLLRA--CMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMM  640 (702)
Q Consensus       579 ~~~~~~~l~~~--~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  640 (702)
                      +...-|.|..+  +..+|++.++.-.-.-+.+..| ++.+|..+|.++....+++||.++++.+
T Consensus       459 e~eian~LaDAEyLysqgey~kc~~ys~WL~~iaP-S~~~~RLlGl~l~e~k~Y~eA~~~l~~L  521 (549)
T PF07079_consen  459 EEEIANFLADAEYLYSQGEYHKCYLYSSWLTKIAP-SPQAYRLLGLCLMENKRYQEAWEYLQKL  521 (549)
T ss_pred             HHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCC-cHHHHHHHHHHHHHHhhHHHHHHHHHhC
Confidence            44566777776  4589999999988888889999 9999999999999999999999999865

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.53  E-value=0.015  Score=56.60  Aligned_cols=115  Identities=20%  Similarity=0.276  Sum_probs=59.6

Q ss_pred             HHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhcc-CcHHHHHHHHHHhHHhhCCCCC----hhhHHHHHHHH
Q 005329          484 INGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHA-GLVDLGFHYFNLMSDKYGFVPS----KEHYGCMIDLL  558 (702)
Q Consensus       484 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~-g~~~~A~~~~~~~~~~~~~~p~----~~~~~~l~~~~  558 (702)
                      +..|...|++..|-..+.+               +...|... |+++.|++.|++..+-+.....    ..++..++..+
T Consensus       101 ~~~y~~~G~~~~aA~~~~~---------------lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~  165 (282)
T PF14938_consen  101 IEIYREAGRFSQAAKCLKE---------------LAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLY  165 (282)
T ss_dssp             HHHHHHCT-HHHHHHHHHH---------------HHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCcHHHHHHHHHH---------------HHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHH
Confidence            3445555555555444433               33345555 6666666666665543321211    33455566677


Q ss_pred             HhcCCHHHHHHHHHhCCC----CC----CH-HHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCC
Q 005329          559 CRAGRLSDAENMIENMPH----QK----DD-VVWSTLLRACMVQGDVNCGRHTAEKILELHPSC  613 (702)
Q Consensus       559 ~~~g~~~~A~~~~~~~~~----~p----~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~  613 (702)
                      .+.|++++|.++|++...    .+    +. ..+-..+-.+...||...|...+++..+.+|.-
T Consensus       166 ~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F  229 (282)
T PF14938_consen  166 ARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSF  229 (282)
T ss_dssp             HHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTS
T ss_pred             HHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCC
Confidence            777777777777766533    11    11 122223334556777777777777777777643

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.52  E-value=0.17  Score=53.35  Aligned_cols=98  Identities=15%  Similarity=0.017  Sum_probs=48.8

Q ss_pred             HCCCCCChhhHHH-----HHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhhhCC---ChHHHHHHHhccCC-
Q 005329          202 RSKEQGDSYTFAI-----VLKASADSGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCG---KLDYSLRLFERMST-  272 (702)
Q Consensus       202 ~~~~~p~~~~~~~-----ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g---~~~~A~~~~~~~~~-  272 (702)
                      +-|++.+..-|..     +|.-+...+.+..|.++-..+...-... ..++.....-+.+..   +.+.+..+=+++.. 
T Consensus       425 ~~gIplT~~qy~~l~~~~vi~Rl~~r~~Y~vaIQva~~l~~p~~~~-~~Vl~~Wa~~kI~~~d~~d~~vld~I~~kls~~  503 (829)
T KOG2280|consen  425 RIGIPLTHEQYRHLSEEVVIDRLVDRHLYSVAIQVAKLLNLPESQG-DRVLLEWARRKIKQSDKMDEEVLDKIDEKLSAK  503 (829)
T ss_pred             ccCccccHHHHhhhchhhhhHHHHhcchhHHHHHHHHHhCCccccc-cHHHHHHHHHHHhccCccchHHHHHHHHHhccc
Confidence            3455555554443     3444455566666666555443211111 444555555555442   22333333344443 


Q ss_pred             -CCcchHHHHHHHHHhcCChhHHHHHHHH
Q 005329          273 -RDVISWTTIITSYVQMGEEENAFDAFVR  300 (702)
Q Consensus       273 -~~~~~~~~li~~~~~~g~~~~a~~~~~~  300 (702)
                       .+..+|..+.+-....|+++.|..+++.
T Consensus       504 ~~~~iSy~~iA~~Ay~~GR~~LA~kLle~  532 (829)
T KOG2280|consen  504 LTPGISYAAIARRAYQEGRFELARKLLEL  532 (829)
T ss_pred             CCCceeHHHHHHHHHhcCcHHHHHHHHhc
Confidence             3455666666666666777766666554

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.51  E-value=0.0019  Score=57.42  Aligned_cols=64  Identities=13%  Similarity=0.035  Sum_probs=31.5

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHhCCC-C-CCHHHHHHHHHHHH-------hcCCHH-------HHHHHHHHHHHhCCCC
Q 005329          550 HYGCMIDLLCRAGRLSDAENMIENMPH-Q-KDDVVWSTLLRACM-------VQGDVN-------CGRHTAEKILELHPSC  613 (702)
Q Consensus       550 ~~~~l~~~~~~~g~~~~A~~~~~~~~~-~-p~~~~~~~l~~~~~-------~~g~~~-------~A~~~~~~~~~~~p~~  613 (702)
                      ++..+..++...|++++|...+++... . ....++..++..+.       ..|+++       +|...++++++.+|++
T Consensus        74 ~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~~~~~~~~la~i~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~a~~~~p~~  153 (168)
T CHL00033         74 ILYNIGLIHTSNGEHTKALEYYFQALERNPFLPQALNNMAVICHYRGEQAIEQGDSEIAEAWFDQAAEYWKQAIALAPGN  153 (168)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhhHHHHHcccHHHHHHHHHHHHHHHHHHHHhCccc
Confidence            344444444555555555555444433 1 12233333333333       455544       5666667777777754

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.50  E-value=0.12  Score=50.79  Aligned_cols=107  Identities=16%  Similarity=0.185  Sum_probs=64.8

Q ss_pred             HHHHHHHHhcCCHHHHHHHHhhCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHH
Q 005329          450 SALINMYSKCGSIKEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVD  529 (702)
Q Consensus       450 ~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~  529 (702)
                      +..+.-+...|+...|.++-.+..-|+-.-|...+.+++..+++++-.++...      +-.+.-|..++.+|...|...
T Consensus       181 ~~Ti~~li~~~~~k~A~kl~k~Fkv~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~~~~~~~  254 (319)
T PF04840_consen  181 NDTIRKLIEMGQEKQAEKLKKEFKVPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACLKYGNKK  254 (319)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHHHCCCHH
Confidence            33455555666777777777666666777777777777777777665554322      112355666666777777777


Q ss_pred             HHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHh
Q 005329          530 LGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIEN  573 (702)
Q Consensus       530 ~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~  573 (702)
                      +|..+...+.           +..-+..|.+.|++.+|.+.--+
T Consensus       255 eA~~yI~k~~-----------~~~rv~~y~~~~~~~~A~~~A~~  287 (319)
T PF04840_consen  255 EASKYIPKIP-----------DEERVEMYLKCGDYKEAAQEAFK  287 (319)
T ss_pred             HHHHHHHhCC-----------hHHHHHHHHHCCCHHHHHHHHHH
Confidence            6666665421           13345666667777666655433

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

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.50  E-value=0.00086  Score=63.59  Aligned_cols=85  Identities=18%  Similarity=0.094  Sum_probs=46.9

Q ss_pred             HhcCCHHHHHHHHHhCCC-CCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCC---chhHHHHHHHHHhcCCh
Q 005329          559 CRAGRLSDAENMIENMPH-QKD----DVVWSTLLRACMVQGDVNCGRHTAEKILELHPSC---AGTHITLANIYAAKGRW  630 (702)
Q Consensus       559 ~~~g~~~~A~~~~~~~~~-~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~---~~~~~~l~~~~~~~g~~  630 (702)
                      .+.|++++|...|+.... .|+    +..+.-++..|...|++++|...|+++++..|++   +..+..++.++...|++
T Consensus       154 ~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~~~~~~g~~  233 (263)
T PRK10803        154 QDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGVIMQDKGDT  233 (263)
T ss_pred             HhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHHHHHHcCCH
Confidence            444555555555555444 232    2344455556666666666666666666655543   33444455666666666


Q ss_pred             HHHHHHHHHHHhC
Q 005329          631 REAAEVRKMMRSK  643 (702)
Q Consensus       631 ~~A~~~~~~~~~~  643 (702)
                      ++|..+++++.+.
T Consensus       234 ~~A~~~~~~vi~~  246 (263)
T PRK10803        234 AKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHHHHHHHHHH
Confidence            6666666665553

>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=97.49  E-value=0.00012  Score=53.53  Aligned_cols=57  Identities=16%  Similarity=0.257  Sum_probs=25.1

Q ss_pred             cCCHHHHHHHHHhCCC-CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhH
Q 005329          561 AGRLSDAENMIENMPH-QK-DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTH  617 (702)
Q Consensus       561 ~g~~~~A~~~~~~~~~-~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~  617 (702)
                      .|++++|+..|+++.. .| +...+..++.+|.+.|++++|.++++++...+|+++..+
T Consensus         4 ~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~   62 (68)
T PF14559_consen    4 QGDYDEAIELLEKALQRNPDNPEARLLLAQCYLKQGQYDEAEELLERLLKQDPDNPEYQ   62 (68)
T ss_dssp             TTHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGGTTHHHHH
T ss_pred             ccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCHHHHH
Confidence            3444444444444433 22 333444444444444444444444444444444443333

...

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.48  E-value=0.13  Score=50.88  Aligned_cols=202  Identities=16%  Similarity=0.180  Sum_probs=104.1

Q ss_pred             hhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHHH-------HHHHc-ccC---cHHHHHHHHHHHHHhCCCC
Q 005329          376 IISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASV-------LSVCG-NMA---ILEQGKQIHAHVMSIGLER  444 (702)
Q Consensus       376 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~l-------l~~~~-~~~---~~~~a~~~~~~~~~~~~~~  444 (702)
                      +.++..++....+.++..+|...+.-+..  ..|+...-..+       -+..+ .-.   +...-..+|+.+....+..
T Consensus       298 i~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~--ldp~~svs~Kllls~~~lq~Iv~~DD~~~Tklr~yL~lwe~~qs~DiDr  375 (549)
T PF07079_consen  298 IDRFGNLLSFKVKQVQTEEAKQYLALLKI--LDPRISVSEKLLLSPKVLQDIVCEDDESYTKLRDYLNLWEEIQSYDIDR  375 (549)
T ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHh--cCCcchhhhhhhcCHHHHHHHHhcchHHHHHHHHHHHHHHHHHhhcccH
Confidence            34666777777777887777777766654  23333211111       11111 111   1222233444444333321


Q ss_pred             ChhHHHHHH---HHHHhcCC-HHHHHHHHhhCCC---CCHHHHHHHHH----HHHH---cCChHHHHHHHHHchhCCCCC
Q 005329          445 TAMIKSALI---NMYSKCGS-IKEASQIFYETES---DDIVSWTAMIN----GYAE---HGYSQEAIHLFEKVPMVGLRP  510 (702)
Q Consensus       445 ~~~~~~~li---~~~~~~g~-~~~A~~~~~~~~~---~~~~~~~~li~----~~~~---~g~~~~A~~~~~~m~~~g~~p  510 (702)
                      . .....|+   .-+-+.|. -++|+++++.+..   -|..+-|.+..    .|.+   ...+..-+.+-+-+.+.|++|
T Consensus       376 q-QLvh~L~~~Ak~lW~~g~~dekalnLLk~il~ft~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~~  454 (549)
T PF07079_consen  376 Q-QLVHYLVFGAKHLWEIGQCDEKALNLLKLILQFTNYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEVGLTP  454 (549)
T ss_pred             H-HHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCc
Confidence            1 1111122   22334444 6677777776553   34444333221    2221   112233333334444567666


Q ss_pred             CHH----HHHHHHHH--HhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCCCCCHHHHH
Q 005329          511 DSV----TFMGVLTA--CSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPHQKDDVVWS  584 (702)
Q Consensus       511 ~~~----~~~~ll~~--~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~  584 (702)
                      -.+    .-|.|..|  +...|++.++.-+-..+.   .+.|++.+|..++-++....++++|..++..++  |+..+++
T Consensus       455 i~i~e~eian~LaDAEyLysqgey~kc~~ys~WL~---~iaPS~~~~RLlGl~l~e~k~Y~eA~~~l~~LP--~n~~~~d  529 (549)
T PF07079_consen  455 ITISEEEIANFLADAEYLYSQGEYHKCYLYSSWLT---KIAPSPQAYRLLGLCLMENKRYQEAWEYLQKLP--PNERMRD  529 (549)
T ss_pred             ccccHHHHHHHHHHHHHHHhcccHHHHHHHHHHHH---HhCCcHHHHHHHHHHHHHHhhHHHHHHHHHhCC--CchhhHH
Confidence            432    23333332  346788888777666665   467888888888888888888888888888775  4555554


Q ss_pred             H
Q 005329          585 T  585 (702)
Q Consensus       585 ~  585 (702)
                      .
T Consensus       530 s  530 (549)
T PF07079_consen  530 S  530 (549)
T ss_pred             H
Confidence            3

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.41  E-value=0.0042  Score=52.55  Aligned_cols=94  Identities=6%  Similarity=-0.028  Sum_probs=51.1

Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHH
Q 005329          476 DIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPD-SVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGC  553 (702)
Q Consensus       476 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~  553 (702)
                      +....-.+...+...|++++|.++|+-+..  +.|. ..-|..|..+|...|++++|+..|..+..   +.|| +..+-.
T Consensus        34 ~l~~lY~~A~~ly~~G~l~~A~~~f~~L~~--~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~---L~~ddp~~~~~  108 (157)
T PRK15363         34 PLNTLYRYAMQLMEVKEFAGAARLFQLLTI--YDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQ---IKIDAPQAPWA  108 (157)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHh---cCCCCchHHHH
Confidence            333344444555566666666666665554  2332 23444555555556666666666665542   3343 555555


Q ss_pred             HHHHHHhcCCHHHHHHHHHhC
Q 005329          554 MIDLLCRAGRLSDAENMIENM  574 (702)
Q Consensus       554 l~~~~~~~g~~~~A~~~~~~~  574 (702)
                      +..++...|+.+.|.+.|+..
T Consensus       109 ag~c~L~lG~~~~A~~aF~~A  129 (157)
T PRK15363        109 AAECYLACDNVCYAIKALKAV  129 (157)
T ss_pred             HHHHHHHcCCHHHHHHHHHHH
Confidence            666666666666666655544

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=97.41  E-value=0.00073  Score=67.13  Aligned_cols=66  Identities=20%  Similarity=0.084  Sum_probs=51.6

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchh---HHHHHHHHHhcCChHHHHHHHHHHHhC
Q 005329          578 KDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGT---HITLANIYAAKGRWREAAEVRKMMRSK  643 (702)
Q Consensus       578 p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~---~~~l~~~~~~~g~~~~A~~~~~~~~~~  643 (702)
                      .+...|+.++.+|...|++++|+..|+++++++|++...   |++++.+|...|+.++|+..++++.+.
T Consensus        73 ~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         73 KTAEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            356677888888888888888888888888888877744   788888888888888888888877764

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.38  E-value=0.16  Score=49.53  Aligned_cols=98  Identities=14%  Similarity=0.167  Sum_probs=55.8

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHchhCCCCC-----CHH-HHHHHHHHHhccCcHHHHHHHHHHhHHhh-CCCCC--hh
Q 005329          479 SWTAMINGYAEHGYSQEAIHLFEKVPMVGLRP-----DSV-TFMGVLTACSHAGLVDLGFHYFNLMSDKY-GFVPS--KE  549 (702)
Q Consensus       479 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-----~~~-~~~~ll~~~~~~g~~~~A~~~~~~~~~~~-~~~p~--~~  549 (702)
                      ++..++..+.+.|++++|+++|++........     +.. .|...+-++...||...|.+.++...... ++..+  ..
T Consensus       157 ~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~  236 (282)
T PF14938_consen  157 CLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYK  236 (282)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHH
Confidence            34456677888888888888888876543221     111 22333445566788888888888876321 11112  33


Q ss_pred             hHHHHHHHHHh--cCCHHHHHHHHHhCCC
Q 005329          550 HYGCMIDLLCR--AGRLSDAENMIENMPH  576 (702)
Q Consensus       550 ~~~~l~~~~~~--~g~~~~A~~~~~~~~~  576 (702)
                      ....|+.++-.  ...+++|+.-|+.+..
T Consensus       237 ~~~~l~~A~~~~D~e~f~~av~~~d~~~~  265 (282)
T PF14938_consen  237 FLEDLLEAYEEGDVEAFTEAVAEYDSISR  265 (282)
T ss_dssp             HHHHHHHHHHTT-CCCHHHHCHHHTTSS-
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHcccCc
Confidence            44556666643  3356677777777653

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.37  E-value=0.0017  Score=65.33  Aligned_cols=119  Identities=10%  Similarity=0.002  Sum_probs=94.0

Q ss_pred             CCCchhHHHHHHHhhhcCCChhHHHHHhccCCC-C-----CcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhH
Q 005329          139 FVNSVFVGSALLDMYTKLGKIELGCRVFDEMPL-R-----NVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTF  212 (702)
Q Consensus       139 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-~-----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~  212 (702)
                      .+.+......++.......+++.+..++-+... |     -..|.+++|+.|...|..+.+++++..=..-|+-||..|+
T Consensus        62 ~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~  141 (429)
T PF10037_consen   62 KPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSF  141 (429)
T ss_pred             CCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhH
Confidence            344555666677777777778888887766552 2     1335679999999999999999999998899999999999


Q ss_pred             HHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhhhC
Q 005329          213 AIVLKASADSGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKC  257 (702)
Q Consensus       213 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~  257 (702)
                      +.+|..+.+.|++..|.++...|..++...+..|+..-+.+|.+.
T Consensus       142 n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  142 NLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            999999999999999999999998888777777766666665555

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 [].

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.36  E-value=0.16  Score=49.85  Aligned_cols=110  Identities=15%  Similarity=0.212  Sum_probs=87.3

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 005329          513 VTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPHQKDDVVWSTLLRACMV  592 (702)
Q Consensus       513 ~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~  592 (702)
                      .+.+..+.-|...|....|.++-++.    + .|+...|...+.+|+..|+|++-..+-..   +.++..|..++.+|..
T Consensus       178 ~Sl~~Ti~~li~~~~~k~A~kl~k~F----k-v~dkrfw~lki~aLa~~~~w~eL~~fa~s---kKsPIGyepFv~~~~~  249 (319)
T PF04840_consen  178 LSLNDTIRKLIEMGQEKQAEKLKKEF----K-VPDKRFWWLKIKALAENKDWDELEKFAKS---KKSPIGYEPFVEACLK  249 (319)
T ss_pred             CCHHHHHHHHHHCCCHHHHHHHHHHc----C-CcHHHHHHHHHHHHHhcCCHHHHHHHHhC---CCCCCChHHHHHHHHH
Confidence            35566677777888888887776655    4 47888999999999999999998887654   3456889999999999


Q ss_pred             cCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHH
Q 005329          593 QGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKM  639 (702)
Q Consensus       593 ~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  639 (702)
                      .|+..+|..+..+         -.+..-+..|.+.|+|.+|.+.--+
T Consensus       250 ~~~~~eA~~yI~k---------~~~~~rv~~y~~~~~~~~A~~~A~~  287 (319)
T PF04840_consen  250 YGNKKEASKYIPK---------IPDEERVEMYLKCGDYKEAAQEAFK  287 (319)
T ss_pred             CCCHHHHHHHHHh---------CChHHHHHHHHHCCCHHHHHHHHHH
Confidence            9999999988877         1225677889999999999876433

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

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.36  E-value=0.0023  Score=49.94  Aligned_cols=80  Identities=13%  Similarity=-0.049  Sum_probs=66.6

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHHCCC-CCChhhHHHHHHHHhccC--------ChHHHHHHHHHHHHhCCCCchhHH
Q 005329          177 WTAIITGLVRAGHNKEGLIYFAEMWRSKE-QGDSYTFAIVLKASADSG--------ALNFGREIHTIMLKRGFDVVSFVA  247 (702)
Q Consensus       177 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~p~~~~~~~ll~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~~  247 (702)
                      -...|..+...+++.....+|+.+++.|+ .|+..+|+.++.+.+++.        .+-....+|+.|+..++.|+..+|
T Consensus        28 ~i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etY  107 (120)
T PF08579_consen   28 QIDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETY  107 (120)
T ss_pred             HHHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHH
Confidence            34556667777999999999999999999 899999999999987643        234577889999999999999999


Q ss_pred             HHHHHHhhh
Q 005329          248 NSLATMYSK  256 (702)
Q Consensus       248 ~~li~~~~~  256 (702)
                      +.++..+.+
T Consensus       108 nivl~~Llk  116 (120)
T PF08579_consen  108 NIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHH
Confidence            999887764

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 [, , ].

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.35  E-value=0.038  Score=52.11  Aligned_cols=57  Identities=16%  Similarity=0.149  Sum_probs=47.9

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHhCCCCc---hhHHHHHHHHHhcCChHHHHHHHHHHH
Q 005329          585 TLLRACMVQGDVNCGRHTAEKILELHPSCA---GTHITLANIYAAKGRWREAAEVRKMMR  641 (702)
Q Consensus       585 ~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~  641 (702)
                      .++.-|.+.|++..|..-++.+++..|+.+   +.+..++.+|...|..++|..+...+.
T Consensus       180 ~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        180 SVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             HHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence            345568899999999999999999988764   567788899999999999998887653

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.33  E-value=0.0015  Score=62.84  Aligned_cols=130  Identities=12%  Similarity=0.099  Sum_probs=87.5

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHH---hHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC--------CCCH
Q 005329          513 VTFMGVLTACSHAGLVDLGFHYFNL---MSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH--------QKDD  580 (702)
Q Consensus       513 ~~~~~ll~~~~~~g~~~~A~~~~~~---~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--------~p~~  580 (702)
                      ..|..|...|.-.|+++.|+...+.   +.+.+|-... ...+..|.+++.-.|+++.|.+.|+....        ....
T Consensus       196 Ra~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEA  275 (639)
T KOG1130|consen  196 RAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEA  275 (639)
T ss_pred             chhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHH
Confidence            3566666666677888888766543   2223343322 55677788888888888888887765432        1234


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHh----C--CCCchhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 005329          581 VVWSTLLRACMVQGDVNCGRHTAEKILEL----H--PSCAGTHITLANIYAAKGRWREAAEVRKMMRS  642 (702)
Q Consensus       581 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  642 (702)
                      ....+|..+|--..+++.|+.+.++=+.+    +  ......++.|+.+|...|..++|+.+.+...+
T Consensus       276 QscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~  343 (639)
T KOG1130|consen  276 QSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLR  343 (639)
T ss_pred             HHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            45566777777777888888887765543    2  22456788888888888888888887776554

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=97.33  E-value=0.00049  Score=44.81  Aligned_cols=42  Identities=24%  Similarity=0.328  Sum_probs=38.6

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHH
Q 005329          581 VVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLAN  622 (702)
Q Consensus       581 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~  622 (702)
                      .+|..+..+|...|++++|+++++++++.+|+|+..+..|+.
T Consensus         2 ~~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~~~~a~~~La~   43 (44)
T PF13428_consen    2 AAWLALARAYRRLGQPDEAERLLRRALALDPDDPEAWRALAQ   43 (44)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCHHHHHHhhh
Confidence            467889999999999999999999999999999999988875

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.27  E-value=0.0034  Score=63.14  Aligned_cols=118  Identities=9%  Similarity=0.135  Sum_probs=85.1

Q ss_pred             CCchhHHHHHHHHhhhCCChHHHHHHHhccCC-C-----CcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHH
Q 005329          241 DVVSFVANSLATMYSKCGKLDYSLRLFERMST-R-----DVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFA  314 (702)
Q Consensus       241 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-~-----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~  314 (702)
                      +.+......+++.+....+++.+..++-+... |     -..+..++|+.|.+.|..+.++.++..=...|+-||..|++
T Consensus        63 ~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n  142 (429)
T PF10037_consen   63 PVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFN  142 (429)
T ss_pred             CCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHH
Confidence            34444555555555555666666666555432 1     23455688888888888888888888888889999999999


Q ss_pred             HHHHHHHccCchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhc
Q 005329          315 AIISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKC  358 (702)
Q Consensus       315 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  358 (702)
                      .||+.+.+.|++..|.++...|...+...+..++..-+.++.+.
T Consensus       143 ~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  143 LLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            99999999999999999888888777666666666555555554

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 [].

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=97.25  E-value=0.22  Score=48.34  Aligned_cols=243  Identities=13%  Similarity=0.059  Sum_probs=100.8

Q ss_pred             CCChhHHHHHHHHhhhCCCCCCCHHHHHHHHHHhhccCCchhhhHHHHHHHHhcCCCchhHHHHHHHhhhcCCChhHHHH
Q 005329           85 AMDSIEALALFSRVWVEPQMNMDPFILSLALKACALNVNVNYGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKIELGCR  164 (702)
Q Consensus        85 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  164 (702)
                      .|+++.|.+-|+.|...+  ....--+..|.-...+.|+.+.|...-+.....- +.-...+.+.+...+..|+|+.|++
T Consensus       133 eG~~~~Ar~kfeAMl~dP--EtRllGLRgLyleAqr~GareaAr~yAe~Aa~~A-p~l~WA~~AtLe~r~~~gdWd~Alk  209 (531)
T COG3898         133 EGDYEDARKKFEAMLDDP--ETRLLGLRGLYLEAQRLGAREAARHYAERAAEKA-PQLPWAARATLEARCAAGDWDGALK  209 (531)
T ss_pred             cCchHHHHHHHHHHhcCh--HHHHHhHHHHHHHHHhcccHHHHHHHHHHHHhhc-cCCchHHHHHHHHHHhcCChHHHHH
Confidence            556666666666664221  0001112222222334455555555544443332 2223455555555556666666666


Q ss_pred             HhccCC-----CCCcc--hHHHHHHHHH---hCCChHHHHHHHHHHHHCCCCCChhhH-HHHHHHHhccCChHHHHHHHH
Q 005329          165 VFDEMP-----LRNVV--SWTAIITGLV---RAGHNKEGLIYFAEMWRSKEQGDSYTF-AIVLKASADSGALNFGREIHT  233 (702)
Q Consensus       165 ~~~~~~-----~~~~~--~~~~li~~~~---~~~~~~~a~~~~~~m~~~~~~p~~~~~-~~ll~~~~~~~~~~~a~~~~~  233 (702)
                      +++.-.     +++..  .-..|+.+-.   -.-++..|.+.-.+..+  +.||...- ...-+++.+.|++.++-.+++
T Consensus       210 Lvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A~~a~K--L~pdlvPaav~AAralf~d~~~rKg~~ilE  287 (531)
T COG3898         210 LVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDALEANK--LAPDLVPAAVVAARALFRDGNLRKGSKILE  287 (531)
T ss_pred             HHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHhh--cCCccchHHHHHHHHHHhccchhhhhhHHH
Confidence            555432     22221  1112222111   11234444443333322  33443321 122344555566666666666


Q ss_pred             HHHHhCCCCchhHHHHHHHHhhhCCChHHH----HHHHhccCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCC
Q 005329          234 IMLKRGFDVVSFVANSLATMYSKCGKLDYS----LRLFERMSTRDVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPN  309 (702)
Q Consensus       234 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~A----~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~  309 (702)
                      .+-+....|+..    ++-.+.+.|+....    .+-++.|+..+..+.-.+..+-...|++..|..--+.....  .|.
T Consensus       288 ~aWK~ePHP~ia----~lY~~ar~gdta~dRlkRa~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r~--~pr  361 (531)
T COG3898         288 TAWKAEPHPDIA----LLYVRARSGDTALDRLKRAKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAARE--APR  361 (531)
T ss_pred             HHHhcCCChHHH----HHHHHhcCCCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHhhh--Cch
Confidence            555553333321    12223334432211    12233444444555555555555555555544444333322  344


Q ss_pred             hhhHHHHHHHH-HccCchHHHHHHHHHHHH
Q 005329          310 EYTFAAIISAS-ANLARIQWGEQLHAHVLR  338 (702)
Q Consensus       310 ~~t~~~ll~~~-~~~~~~~~a~~~~~~~~~  338 (702)
                      ...|..|.+.- +..|+-.++...+.+..+
T Consensus       362 es~~lLlAdIeeAetGDqg~vR~wlAqav~  391 (531)
T COG3898         362 ESAYLLLADIEEAETGDQGKVRQWLAQAVK  391 (531)
T ss_pred             hhHHHHHHHHHhhccCchHHHHHHHHHHhc
Confidence            44444444332 223444444444444443

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.23  E-value=0.09  Score=54.12  Aligned_cols=227  Identities=15%  Similarity=0.150  Sum_probs=111.6

Q ss_pred             HHHHHccCchHHHH--HHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhhHHHHHHHHHcCCChHH
Q 005329          317 ISASANLARIQWGE--QLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIRRDIISWSTIIGGYSQGGYEEE  394 (702)
Q Consensus       317 l~~~~~~~~~~~a~--~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  394 (702)
                      =.+|.+..+...-+  .-++++.+.|-.|+....   ...++-.|.+.+|.++|.+                  .|....
T Consensus       605 RkAY~rVRdl~~L~li~EL~~~k~rge~P~~iLl---A~~~Ay~gKF~EAAklFk~------------------~G~enR  663 (1081)
T KOG1538|consen  605 RKAYIRVRDLRYLELISELEERKKRGETPNDLLL---ADVFAYQGKFHEAAKLFKR------------------SGHENR  663 (1081)
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHhcCCCchHHHH---HHHHHhhhhHHHHHHHHHH------------------cCchhh
Confidence            34444444433222  223455556655655432   3344556777777666643                  555566


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCC
Q 005329          395 AFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETES  474 (702)
Q Consensus       395 a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  474 (702)
                      |+++|..|+--          -...-+...|..++-..+...-.+.  ..+..--.+-.+++...|+.++|..+      
T Consensus       664 AlEmyTDlRMF----------D~aQE~~~~g~~~eKKmL~RKRA~W--Ar~~kePkaAAEmLiSaGe~~KAi~i------  725 (1081)
T KOG1538|consen  664 ALEMYTDLRMF----------DYAQEFLGSGDPKEKKMLIRKRADW--ARNIKEPKAAAEMLISAGEHVKAIEI------  725 (1081)
T ss_pred             HHHHHHHHHHH----------HHHHHHhhcCChHHHHHHHHHHHHH--hhhcCCcHHHHHHhhcccchhhhhhh------
Confidence            66666655321          0112223334333333332222110  00000001233445555666665443      


Q ss_pred             CCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHH
Q 005329          475 DDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCM  554 (702)
Q Consensus       475 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l  554 (702)
                                  +..+|-.+-++++-+++..    .+..+...+...+.+...+..|-++|..|-.          ...+
T Consensus       726 ------------~~d~gW~d~lidI~rkld~----~ere~l~~~a~ylk~l~~~gLAaeIF~k~gD----------~ksi  779 (1081)
T KOG1538|consen  726 ------------CGDHGWVDMLIDIARKLDK----AEREPLLLCATYLKKLDSPGLAAEIFLKMGD----------LKSL  779 (1081)
T ss_pred             ------------hhcccHHHHHHHHHhhcch----hhhhHHHHHHHHHhhccccchHHHHHHHhcc----------HHHH
Confidence                        2334444445555444432    2223444444444555666667777776632          2345


Q ss_pred             HHHHHhcCCHHHHHHHHHhCCC-CCCH-----------HHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 005329          555 IDLLCRAGRLSDAENMIENMPH-QKDD-----------VVWSTLLRACMVQGDVNCGRHTAEKILE  608 (702)
Q Consensus       555 ~~~~~~~g~~~~A~~~~~~~~~-~p~~-----------~~~~~l~~~~~~~g~~~~A~~~~~~~~~  608 (702)
                      ++.....++|++|..+-++..+ .|+.           .-+...-.+|.+.|+..+|.++++++-.
T Consensus       780 VqlHve~~~W~eAFalAe~hPe~~~dVy~pyaqwLAE~DrFeEAqkAfhkAGr~~EA~~vLeQLtn  845 (1081)
T KOG1538|consen  780 VQLHVETQRWDEAFALAEKHPEFKDDVYMPYAQWLAENDRFEEAQKAFHKAGRQREAVQVLEQLTN  845 (1081)
T ss_pred             hhheeecccchHhHhhhhhCccccccccchHHHHhhhhhhHHHHHHHHHHhcchHHHHHHHHHhhh
Confidence            6666777777777777777665 2221           1223334566777888888888877654

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.22  E-value=0.36  Score=50.39  Aligned_cols=200  Identities=13%  Similarity=0.098  Sum_probs=110.8

Q ss_pred             CCCHHHHHHHHHHhhccCCchhhhHHHHHHHHh-cC--------CCchhHHHHHHHhhhcCCChhHHHHHhccCCCCCcc
Q 005329          105 NMDPFILSLALKACALNVNVNYGESLHGYTVKT-GF--------VNSVFVGSALLDMYTKLGKIELGCRVFDEMPLRNVV  175 (702)
Q Consensus       105 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~--------~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~  175 (702)
                      .|.+..|..+.......-.++.|+..|-+.... |+        ..+...-.+=+.+|  .|++++|++++-++.++|. 
T Consensus       689 nPHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY~Gik~vkrl~~i~s~~~q~aei~~~--~g~feeaek~yld~drrDL-  765 (1189)
T KOG2041|consen  689 NPHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKLVKRLRTIHSKEQQRAEISAF--YGEFEEAEKLYLDADRRDL-  765 (1189)
T ss_pred             CCchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhHHHHhhhhhhHHHHhHhHhhh--hcchhHhhhhhhccchhhh-
Confidence            567777777766555544555555444332211 11        11112222223333  3889999999988877664 


Q ss_pred             hHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCC----hhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHH
Q 005329          176 SWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGD----SYTFAIVLKASADSGALNFGREIHTIMLKRGFDVVSFVANSLA  251 (702)
Q Consensus       176 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  251 (702)
                          -|..+.+.|+|-+..++++.-   |-..|    ...++.+...++....++.|.+.|..-...         ...+
T Consensus       766 ----Aielr~klgDwfrV~qL~r~g---~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~~~~---------e~~~  829 (1189)
T KOG2041|consen  766 ----AIELRKKLGDWFRVYQLIRNG---GSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYCGDT---------ENQI  829 (1189)
T ss_pred             ----hHHHHHhhhhHHHHHHHHHcc---CCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccch---------HhHH
Confidence                366677778887777766541   11111    134566666666666777777776543321         2355


Q ss_pred             HHhhhCCChHHHHHHHhccCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCchHHHHH
Q 005329          252 TMYSKCGKLDYSLRLFERMSTRDVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQ  331 (702)
Q Consensus       252 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~  331 (702)
                      .++.+..++++-+.+-+.+++ |....-.+...+.+.|.-++|.+.|-+--    .|     ...+..|...+++.+|.+
T Consensus       830 ecly~le~f~~LE~la~~Lpe-~s~llp~~a~mf~svGMC~qAV~a~Lr~s----~p-----kaAv~tCv~LnQW~~ave  899 (1189)
T KOG2041|consen  830 ECLYRLELFGELEVLARTLPE-DSELLPVMADMFTSVGMCDQAVEAYLRRS----LP-----KAAVHTCVELNQWGEAVE  899 (1189)
T ss_pred             HHHHHHHhhhhHHHHHHhcCc-ccchHHHHHHHHHhhchHHHHHHHHHhcc----Cc-----HHHHHHHHHHHHHHHHHH
Confidence            666666666666666666554 33445556667777777777766654321    11     123445555566655555


Q ss_pred             HH
Q 005329          332 LH  333 (702)
Q Consensus       332 ~~  333 (702)
                      +-
T Consensus       900 la  901 (1189)
T KOG2041|consen  900 LA  901 (1189)
T ss_pred             HH
Confidence            43

>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=97.22  E-value=0.00069  Score=51.08  Aligned_cols=62  Identities=24%  Similarity=0.271  Sum_probs=50.3

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-------CCCchhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 005329          581 VVWSTLLRACMVQGDVNCGRHTAEKILELH-------PSCAGTHITLANIYAAKGRWREAAEVRKMMRS  642 (702)
Q Consensus       581 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-------p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  642 (702)
                      .+++.+...|...|++++|+..+++++++.       |.-..++..++.+|...|++++|++++++..+
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            467888888899999999999999988652       22256788999999999999999999998764

...

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.20  E-value=0.0013  Score=48.82  Aligned_cols=66  Identities=17%  Similarity=0.225  Sum_probs=53.8

Q ss_pred             HHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHH
Q 005329          555 IDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITL  620 (702)
Q Consensus       555 ~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l  620 (702)
                      ...|.+.+++++|.++++.+..  +.+...|...+..+...|++++|.+.++++++..|+++......
T Consensus         2 ~~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p~~~~~~~~~   69 (73)
T PF13371_consen    2 KQIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALELSPDDPDARALR   69 (73)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCCCcHHHHHHH
Confidence            3567888999999999998877  44566778888889999999999999999999999776655443

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.18  E-value=0.088  Score=45.38  Aligned_cols=132  Identities=14%  Similarity=0.099  Sum_probs=94.6

Q ss_pred             CCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC---hhhH
Q 005329          475 DDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS---KEHY  551 (702)
Q Consensus       475 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~---~~~~  551 (702)
                      |.+..-..|..++...|++.+|...|++...--+.-|......+.++....++...|...++.+.+.   .|.   +...
T Consensus        87 pTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~---~pa~r~pd~~  163 (251)
T COG4700          87 PTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEY---NPAFRSPDGH  163 (251)
T ss_pred             hhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhc---CCccCCCCch
Confidence            4455556677888888888888888888775334456677777888888888888888888887654   243   5556


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhCCC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Q 005329          552 GCMIDLLCRAGRLSDAENMIENMPH-QKDDVVWSTLLRACMVQGDVNCGRHTAEKILEL  609 (702)
Q Consensus       552 ~~l~~~~~~~g~~~~A~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  609 (702)
                      -.+.+.|...|.+++|..-|+.... -|+.....-....+.++|+.+++..-+..+.+.
T Consensus       164 Ll~aR~laa~g~~a~Aesafe~a~~~ypg~~ar~~Y~e~La~qgr~~ea~aq~~~v~d~  222 (251)
T COG4700         164 LLFARTLAAQGKYADAESAFEVAISYYPGPQARIYYAEMLAKQGRLREANAQYVAVVDT  222 (251)
T ss_pred             HHHHHHHHhcCCchhHHHHHHHHHHhCCCHHHHHHHHHHHHHhcchhHHHHHHHHHHHH
Confidence            6678888888888888888888777 466555544555566778777776666555543

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.17  E-value=0.0047  Score=58.62  Aligned_cols=99  Identities=12%  Similarity=0.120  Sum_probs=77.2

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC----hhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CC----CHHHHH
Q 005329          514 TFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS----KEHYGCMIDLLCRAGRLSDAENMIENMPH-QK----DDVVWS  584 (702)
Q Consensus       514 ~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p----~~~~~~  584 (702)
                      .|...+....+.|++++|+..|+.+.+.   .|+    ...+..++.+|...|++++|...|+.+.. -|    ....+.
T Consensus       145 ~Y~~A~~l~~~~~~y~~Ai~af~~fl~~---yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~  221 (263)
T PRK10803        145 DYNAAIALVQDKSRQDDAIVAFQNFVKK---YPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMF  221 (263)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHH---CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHH
Confidence            4554444445678899999999998866   344    35677888999999999999999988875 23    355666


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHhCCCCch
Q 005329          585 TLLRACMVQGDVNCGRHTAEKILELHPSCAG  615 (702)
Q Consensus       585 ~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~  615 (702)
                      .++..+...|+.+.|..+|+++++..|++..
T Consensus       222 klg~~~~~~g~~~~A~~~~~~vi~~yP~s~~  252 (263)
T PRK10803        222 KVGVIMQDKGDTAKAKAVYQQVIKKYPGTDG  252 (263)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHCcCCHH
Confidence            6777888999999999999999999997654

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=97.17  E-value=0.003  Score=61.32  Aligned_cols=62  Identities=15%  Similarity=0.120  Sum_probs=41.9

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 005329          581 VVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRS  642 (702)
Q Consensus       581 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  642 (702)
                      .++..+...|.+.+++..|++...++++++|+|...++.-+.+|...|.++.|+..|+++.+
T Consensus       258 ~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k  319 (397)
T KOG0543|consen  258 ACHLNLAACYLKLKEYKEAIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKALK  319 (397)
T ss_pred             HHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHHHH
Confidence            34555666666666677777777777777776777777777777777777777777766665

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.12  E-value=0.0089  Score=46.81  Aligned_cols=78  Identities=10%  Similarity=0.087  Sum_probs=64.6

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHCCC-CCChhhHHHHHHHHHccC--------chHHHHHHHHHHHHhCCCCchHHHHH
Q 005329          280 TIITSYVQMGEEENAFDAFVRMQESDV-KPNEYTFAAIISASANLA--------RIQWGEQLHAHVLRLGLVDSLSVANS  350 (702)
Q Consensus       280 ~li~~~~~~g~~~~a~~~~~~m~~~g~-~p~~~t~~~ll~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~~~~  350 (702)
                      ..|..+...+++.....+|+.+++.|+ .|+..+|+.++.+.++..        .+-....+|..|...+++|+..+|+.
T Consensus        30 ~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYni  109 (120)
T PF08579_consen   30 DNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNI  109 (120)
T ss_pred             HHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHH
Confidence            345566667999999999999999999 999999999999877643        24456788899999999999999999


Q ss_pred             HHHHHHh
Q 005329          351 IMAMYSK  357 (702)
Q Consensus       351 l~~~~~~  357 (702)
                      ++..+.+
T Consensus       110 vl~~Llk  116 (120)
T PF08579_consen  110 VLGSLLK  116 (120)
T ss_pred             HHHHHHH
Confidence            8887765

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 [, , ].

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.12  E-value=0.0058  Score=59.22  Aligned_cols=129  Identities=12%  Similarity=0.088  Sum_probs=101.5

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHh-cCCHHHHHHHHHhCCC--CCCHHHHHHHHHH
Q 005329          513 VTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCR-AGRLSDAENMIENMPH--QKDDVVWSTLLRA  589 (702)
Q Consensus       513 ~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~-~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~  589 (702)
                      .+|..++..+.+.+..+.|+.+|.++.+.  -..+..+|-..+..-.+ .++.+.|.++|+...+  ..+...|...+.-
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~--~~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~f~~~~~~~~~Y~~~   79 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKD--KRCTYHVYVAYALMEYYCNKDPKRARKIFERGLKKFPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCC--CCS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcC--CCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHH
Confidence            46888899999999999999999999743  22345666666555334 5677779999999887  6678899999999


Q ss_pred             HHhcCCHHHHHHHHHHHHHhCCCCc---hhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 005329          590 CMVQGDVNCGRHTAEKILELHPSCA---GTHITLANIYAAKGRWREAAEVRKMMRSK  643 (702)
Q Consensus       590 ~~~~g~~~~A~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  643 (702)
                      +...|+.+.|..+|++++..-|...   ..|...+.--.+.|+.+.+..+.+++.+.
T Consensus        80 l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~  136 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL  136 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            9999999999999999999876554   58888888888999999999999888763

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.

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=97.07  E-value=0.0058  Score=59.46  Aligned_cols=96  Identities=14%  Similarity=0.104  Sum_probs=83.6

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHH
Q 005329          548 KEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYA  625 (702)
Q Consensus       548 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  625 (702)
                      ..++..|.-++.+.+++.+|+...+....  +++...+-.-+.+|...|+++.|+..|+++++++|+|..+...|+.+-.
T Consensus       257 ~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~P~Nka~~~el~~l~~  336 (397)
T KOG0543|consen  257 LACHLNLAACYLKLKEYKEAIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKALKLEPSNKAARAELIKLKQ  336 (397)
T ss_pred             HHHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHH
Confidence            34677888899999999999999999877  6778888889999999999999999999999999999999999988887


Q ss_pred             hcCChHHH-HHHHHHHHhC
Q 005329          626 AKGRWREA-AEVRKMMRSK  643 (702)
Q Consensus       626 ~~g~~~~A-~~~~~~~~~~  643 (702)
                      +..++.+. .++|..|...
T Consensus       337 k~~~~~~kekk~y~~mF~k  355 (397)
T KOG0543|consen  337 KIREYEEKEKKMYANMFAK  355 (397)
T ss_pred             HHHHHHHHHHHHHHHHhhc
Confidence            77666654 7788888764

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.01  E-value=0.081  Score=51.63  Aligned_cols=84  Identities=15%  Similarity=0.126  Sum_probs=35.7

Q ss_pred             ccCcHHHHHHHHHHhHHhhCCCCC-----hhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CCC-HHHHHHHHHHHHhcCCH
Q 005329          524 HAGLVDLGFHYFNLMSDKYGFVPS-----KEHYGCMIDLLCRAGRLSDAENMIENMPH-QKD-DVVWSTLLRACMVQGDV  596 (702)
Q Consensus       524 ~~g~~~~A~~~~~~~~~~~~~~p~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~-~~~~~~l~~~~~~~g~~  596 (702)
                      +.|++..|.+.|.+.+   ++.|+     ...|.....+..+.|+.++|+.-.+.... .|. ...+..-..++...+++
T Consensus       261 k~G~y~~A~E~Yteal---~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD~syikall~ra~c~l~le~~  337 (486)
T KOG0550|consen  261 KNGNYRKAYECYTEAL---NIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKIDSSYIKALLRRANCHLALEKW  337 (486)
T ss_pred             hccchhHHHHHHHHhh---cCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcCHHHHHHHHHHHHHHHHHHHH
Confidence            3444555555554443   33332     23333334444455555555555444443 111 11222222233344455


Q ss_pred             HHHHHHHHHHHHhC
Q 005329          597 NCGRHTAEKILELH  610 (702)
Q Consensus       597 ~~A~~~~~~~~~~~  610 (702)
                      ++|++-++++.+..
T Consensus       338 e~AV~d~~~a~q~~  351 (486)
T KOG0550|consen  338 EEAVEDYEKAMQLE  351 (486)
T ss_pred             HHHHHHHHHHHhhc
Confidence            55555555555544

>PRK11906 transcriptional regulator; Provisional

Probab=97.00  E-value=0.011  Score=59.09  Aligned_cols=63  Identities=11%  Similarity=-0.057  Sum_probs=30.4

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHH
Q 005329          579 DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMR  641 (702)
Q Consensus       579 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  641 (702)
                      |+.+...++.+....|+++.|...|+++..++|+.+..|...+++..-.|+.++|.+.+++..
T Consensus       337 Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~al  399 (458)
T PRK11906        337 DGKILAIMGLITGLSGQAKVSHILFEQAKIHSTDIASLYYYRALVHFHNEKIEEARICIDKSL  399 (458)
T ss_pred             CHHHHHHHHHHHHhhcchhhHHHHHHHHhhcCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            344444444444444445555555555555555555555555555555555555555444433

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.00  E-value=0.031  Score=51.24  Aligned_cols=49  Identities=18%  Similarity=0.183  Sum_probs=39.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHhCCCCc---hhHHHHHHHHHhcCChHHHH
Q 005329          586 LLRACMVQGDVNCGRHTAEKILELHPSCA---GTHITLANIYAAKGRWREAA  634 (702)
Q Consensus       586 l~~~~~~~g~~~~A~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~A~  634 (702)
                      ++..|.+.|.+..|..-++.+++..|+.+   ..+..++.+|.+.|..+.|.
T Consensus       147 ia~~Y~~~~~y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a~  198 (203)
T PF13525_consen  147 IARFYYKRGKYKAAIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAAD  198 (203)
T ss_dssp             HHHHHHCTT-HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             HHHHHHHcccHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHHH
Confidence            45668899999999999999999999775   45677888999999988554

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.98  E-value=0.1  Score=51.61  Aligned_cols=161  Identities=17%  Similarity=0.104  Sum_probs=97.5

Q ss_pred             HHHHHHhcCCHHHHHHHHhhCCCC-------CHHHHHHHHHHHHH---cCChHHHHHHHHHchhCCCCCCHHHHHHHHHH
Q 005329          452 LINMYSKCGSIKEASQIFYETESD-------DIVSWTAMINGYAE---HGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTA  521 (702)
Q Consensus       452 li~~~~~~g~~~~A~~~~~~~~~~-------~~~~~~~li~~~~~---~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~  521 (702)
                      ++-.|....+++...++.+.+...       ....-...+-++.+   .|+.++|++++..+....-.+++.+|..+...
T Consensus       147 lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL~GRI  226 (374)
T PF13281_consen  147 LLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGLLGRI  226 (374)
T ss_pred             HHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHHHHHH
Confidence            444566666666666666666542       12222234445566   78888888888775554556777777776665


Q ss_pred             Hhc---------cCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHH----HHHHH---HhC-----CC--CC
Q 005329          522 CSH---------AGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSD----AENMI---ENM-----PH--QK  578 (702)
Q Consensus       522 ~~~---------~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~----A~~~~---~~~-----~~--~p  578 (702)
                      |-.         ....++|++.|.+.-   .+.|+...--.++..+...|...+    ..++-   ..+     ..  ..
T Consensus       227 yKD~~~~s~~~d~~~ldkAi~~Y~kgF---e~~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~~~~  303 (374)
T PF13281_consen  227 YKDLFLESNFTDRESLDKAIEWYRKGF---EIEPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLEKMQ  303 (374)
T ss_pred             HHHHHHHcCccchHHHHHHHHHHHHHH---cCCccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhccccccc
Confidence            432         224677888887654   456664433333444444443222    12221   111     11  24


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCch
Q 005329          579 DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAG  615 (702)
Q Consensus       579 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~  615 (702)
                      +-..+.+++.++.-.|+++.|.+.+++++.+.|+...
T Consensus       304 dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~~~~W~  340 (374)
T PF13281_consen  304 DYWDVATLLEASVLAGDYEKAIQAAEKAFKLKPPAWE  340 (374)
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCcchh
Confidence            5556678999999999999999999999999875543

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.93  E-value=0.27  Score=50.81  Aligned_cols=66  Identities=20%  Similarity=0.269  Sum_probs=38.4

Q ss_pred             HHHhhccCCchhhhH--HHHHHHHhcCCCchhHHHHHHHhhhcCCChhHHHHHhccCCCCCcchHHHHHHHHHhCCChHH
Q 005329          115 LKACALNVNVNYGES--LHGYTVKTGFVNSVFVGSALLDMYTKLGKIELGCRVFDEMPLRNVVSWTAIITGLVRAGHNKE  192 (702)
Q Consensus       115 l~~~~~~~~~~~a~~--~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~  192 (702)
                      -++|.+-++..-.+-  -++.+.+.|-.|+....   ...++-.|++.+|-++|.+                  .|.-.+
T Consensus       605 RkAY~rVRdl~~L~li~EL~~~k~rge~P~~iLl---A~~~Ay~gKF~EAAklFk~------------------~G~enR  663 (1081)
T KOG1538|consen  605 RKAYIRVRDLRYLELISELEERKKRGETPNDLLL---ADVFAYQGKFHEAAKLFKR------------------SGHENR  663 (1081)
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHhcCCCchHHHH---HHHHHhhhhHHHHHHHHHH------------------cCchhh
Confidence            344444444433332  24556667766776543   3445566888888888864                  455566


Q ss_pred             HHHHHHHHH
Q 005329          193 GLIYFAEMW  201 (702)
Q Consensus       193 a~~~~~~m~  201 (702)
                      |+++|..|.
T Consensus       664 AlEmyTDlR  672 (1081)
T KOG1538|consen  664 ALEMYTDLR  672 (1081)
T ss_pred             HHHHHHHHH
Confidence            666666653

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.92  E-value=0.064  Score=48.90  Aligned_cols=135  Identities=10%  Similarity=0.033  Sum_probs=98.4

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChh-----hHHH
Q 005329          479 SWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKE-----HYGC  553 (702)
Q Consensus       479 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~-----~~~~  553 (702)
                      .-++++..+.-.|.+.-...++.+.++...+.++.....|++.-.+.||.+.|..+|+...+. .-..+..     ....
T Consensus       179 Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~-~~kL~~~q~~~~V~~n  257 (366)
T KOG2796|consen  179 VMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKV-TQKLDGLQGKIMVLMN  257 (366)
T ss_pred             HHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHH-HhhhhccchhHHHHhh
Confidence            445677777778888888899999888654557777888888888999999999999977544 2233322     3333


Q ss_pred             HHHHHHhcCCHHHHHHHHHhCCC-C-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCc
Q 005329          554 MIDLLCRAGRLSDAENMIENMPH-Q-KDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCA  614 (702)
Q Consensus       554 l~~~~~~~g~~~~A~~~~~~~~~-~-p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~  614 (702)
                      ....|.-++++.+|...++++.. . .++...|+-.-...-.|+...|+...+.+++..|...
T Consensus       258 ~a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~~P~~~  320 (366)
T KOG2796|consen  258 SAFLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQQDPRHY  320 (366)
T ss_pred             hhhheecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhccCCccc
Confidence            44456677888999999988877 3 3455555555555567889999999999999988543

>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=96.92  E-value=0.085  Score=42.61  Aligned_cols=141  Identities=15%  Similarity=0.128  Sum_probs=91.2

Q ss_pred             HHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHH
Q 005329          487 YAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSD  566 (702)
Q Consensus       487 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~  566 (702)
                      +.-.|..++..++..+...+   .+..-+|.++--....-+-+-..++++.+-+-+.+.|- .....++.+|.+.|.   
T Consensus        12 ~ildG~V~qGveii~k~v~S---sni~E~NWvICNiiDaa~C~yvv~~LdsIGkiFDis~C-~NlKrVi~C~~~~n~---   84 (161)
T PF09205_consen   12 RILDGDVKQGVEIIEKTVNS---SNIKEYNWVICNIIDAADCDYVVETLDSIGKIFDISKC-GNLKRVIECYAKRNK---   84 (161)
T ss_dssp             HHHTT-HHHHHHHHHHHHHH---S-HHHHTHHHHHHHHH--HHHHHHHHHHHGGGS-GGG--S-THHHHHHHHHTT----
T ss_pred             HHHhchHHHHHHHHHHHcCc---CCccccceeeeecchhhchhHHHHHHHHHhhhcCchhh-cchHHHHHHHHHhcc---
Confidence            34568888888988887753   34555666666666666777777888877544332221 122344555555554   


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhCCCc
Q 005329          567 AENMIENMPHQKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKGVI  646 (702)
Q Consensus       567 A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  646 (702)
                                  .....+..+.....+|+-+.-.+++..+...+..+|+...-++.+|.+.|+..+|-+++.++.+.|++
T Consensus        85 ------------~se~vD~ALd~lv~~~kkDqLdki~~~l~kn~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~k  152 (161)
T PF09205_consen   85 ------------LSEYVDLALDILVKQGKKDQLDKIYNELKKNEEINPEFLVKIANAYKKLGNTREANELLKEACEKGLK  152 (161)
T ss_dssp             --------------HHHHHHHHHHHHTT-HHHHHHHHHHH-----S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-H
T ss_pred             ------------hHHHHHHHHHHHHHhccHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhchH
Confidence                        33345556778889999999999999998776669999999999999999999999999999999875

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.84  E-value=0.079  Score=48.32  Aligned_cols=135  Identities=8%  Similarity=-0.005  Sum_probs=98.3

Q ss_pred             hHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHH-----H
Q 005329          378 SWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSA-----L  452 (702)
Q Consensus       378 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-----l  452 (702)
                      ..+.++..+...|.+.-.+..+++.++...+.++.....+.+.-.+.|+.+.|...++...+..-..+...++.     .
T Consensus       179 Vmy~~~~~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  179 VMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNS  258 (366)
T ss_pred             HHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhh
Confidence            44567777777888888999999998877777888888888888999999999999998776543333333333     3


Q ss_pred             HHHHHhcCCHHHHHHHHhhCCC---CCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHH
Q 005329          453 INMYSKCGSIKEASQIFYETES---DDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVT  514 (702)
Q Consensus       453 i~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~  514 (702)
                      ...|.-++++..|...|.++..   .++..-|.-.-++.-.|+..+|++.++.|.+.  .|...+
T Consensus       259 a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~--~P~~~l  321 (366)
T KOG2796|consen  259 AFLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQQ--DPRHYL  321 (366)
T ss_pred             hhheecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhcc--CCccch
Confidence            3345567788888888877764   35566666666666778888888888888864  444443

>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=96.81  E-value=0.0086  Score=53.20  Aligned_cols=97  Identities=9%  Similarity=0.090  Sum_probs=70.6

Q ss_pred             HHHhccC--CCCCcchHHHHHHHHHhC-----CChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhccC------------
Q 005329          163 CRVFDEM--PLRNVVSWTAIITGLVRA-----GHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSG------------  223 (702)
Q Consensus       163 ~~~~~~~--~~~~~~~~~~li~~~~~~-----~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~------------  223 (702)
                      ...|+..  ...|..+|..++..|.+.     |..+=....+..|.+-|+.-|..+|+.||+.+=+..            
T Consensus        34 ~~~f~~~~~~~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~  113 (228)
T PF06239_consen   34 EELFERAPGQAKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFM  113 (228)
T ss_pred             HHHHHHHhhccccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhc
Confidence            3444444  345667777777777643     566666777888888888888888888888765421            


Q ss_pred             ----ChHHHHHHHHHHHHhCCCCchhHHHHHHHHhhhCCC
Q 005329          224 ----ALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGK  259 (702)
Q Consensus       224 ----~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  259 (702)
                          +-+-|.+++++|...|+-||..++..+++.+.+.+.
T Consensus       114 hyp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  114 HYPRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             cCcHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence                345688889999999999999999988888876654

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=96.81  E-value=0.28  Score=46.34  Aligned_cols=59  Identities=12%  Similarity=-0.013  Sum_probs=29.1

Q ss_pred             HHHHHHcCCChHHHHHHHHHHHHCCCCCCHHH--HHHHHHHHcccCcHHHHHHHHHHHHHh
Q 005329          382 IIGGYSQGGYEEEAFEYLALMRREGPRPNEFA--FASVLSVCGNMAILEQGKQIHAHVMSI  440 (702)
Q Consensus       382 li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~--~~~ll~~~~~~~~~~~a~~~~~~~~~~  440 (702)
                      ....+.+.|++++|.+.|+++...-..+....  .-.+..++.+.++++.|...++...+.
T Consensus        38 ~A~~~~~~g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~   98 (243)
T PRK10866         38 TAQQKLQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRL   98 (243)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Confidence            34444556677777777776665322221111  112334445555555555555555544

>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=96.78  E-value=0.034  Score=48.01  Aligned_cols=62  Identities=26%  Similarity=0.233  Sum_probs=54.0

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 005329          581 VVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRS  642 (702)
Q Consensus       581 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  642 (702)
                      .+...++..+...|+++.|.+.+++++..+|-+...|..++.+|...|+..+|.++|+++..
T Consensus        63 ~~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~  124 (146)
T PF03704_consen   63 DALERLAEALLEAGDYEEALRLLQRALALDPYDEEAYRLLMRALAAQGRRAEALRVYERYRR  124 (146)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence            35566778888999999999999999999999999999999999999999999999998854

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=96.78  E-value=0.036  Score=45.24  Aligned_cols=90  Identities=16%  Similarity=0.200  Sum_probs=64.1

Q ss_pred             HHHHHHHcCChHHHHHHHHHchhCCCCCCH--HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC----hhhHHHHHH
Q 005329          483 MINGYAEHGYSQEAIHLFEKVPMVGLRPDS--VTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS----KEHYGCMID  556 (702)
Q Consensus       483 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~----~~~~~~l~~  556 (702)
                      +..++-..|+.++|+.+|++....|.....  ..+..+...+...|++++|..+++.....+   |+    ......+.-
T Consensus         7 ~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~---p~~~~~~~l~~f~Al   83 (120)
T PF12688_consen    7 LAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEF---PDDELNAALRVFLAL   83 (120)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC---CCccccHHHHHHHHH
Confidence            456677788889999999888887766543  356677778888889999999888887652   43    222233445


Q ss_pred             HHHhcCCHHHHHHHHHhCC
Q 005329          557 LLCRAGRLSDAENMIENMP  575 (702)
Q Consensus       557 ~~~~~g~~~~A~~~~~~~~  575 (702)
                      ++...|+.++|++.+-...
T Consensus        84 ~L~~~gr~~eAl~~~l~~l  102 (120)
T PF12688_consen   84 ALYNLGRPKEALEWLLEAL  102 (120)
T ss_pred             HHHHCCCHHHHHHHHHHHH
Confidence            6778888888888765543

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=96.76  E-value=0.036  Score=46.16  Aligned_cols=91  Identities=15%  Similarity=0.143  Sum_probs=69.3

Q ss_pred             HHHHHHhcCCHHHHHHHHHhCCCC-C----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCch---hHHHHHHHHH
Q 005329          554 MIDLLCRAGRLSDAENMIENMPHQ-K----DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAG---THITLANIYA  625 (702)
Q Consensus       554 l~~~~~~~g~~~~A~~~~~~~~~~-p----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~---~~~~l~~~~~  625 (702)
                      -.....+.|++++|.+.|+.+..+ |    ...+-..|+.++.+.|++++|...+++-++++|.++.   ++...|.++.
T Consensus        16 ~a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~~~   95 (142)
T PF13512_consen   16 EAQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLSYY   95 (142)
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHHHH
Confidence            344556788999999998888761 2    3456667889999999999999999999999988764   5566666666


Q ss_pred             hcCC---------------hHHHHHHHHHHHhCC
Q 005329          626 AKGR---------------WREAAEVRKMMRSKG  644 (702)
Q Consensus       626 ~~g~---------------~~~A~~~~~~~~~~~  644 (702)
                      ++..               ..+|...|+.+++.-
T Consensus        96 ~~~~~~~~~~~~~drD~~~~~~A~~~f~~lv~~y  129 (142)
T PF13512_consen   96 EQDEGSLQSFFRSDRDPTPARQAFRDFEQLVRRY  129 (142)
T ss_pred             HHhhhHHhhhcccccCcHHHHHHHHHHHHHHHHC
Confidence            6655               667778887777654

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=96.76  E-value=0.032  Score=52.40  Aligned_cols=104  Identities=14%  Similarity=0.054  Sum_probs=80.0

Q ss_pred             CCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcC---CHHHHHHHHHhCCC-CC-CHHH
Q 005329          509 RPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAG---RLSDAENMIENMPH-QK-DDVV  582 (702)
Q Consensus       509 ~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~-~p-~~~~  582 (702)
                      +-|...|..|...|...|+.+.|..-|....+   +.|+ +..+..+..++..+.   ...++..+|+++.. +| +..+
T Consensus       153 P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~r---L~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~ira  229 (287)
T COG4235         153 PGDAEGWDLLGRAYMALGRASDALLAYRNALR---LAGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPANIRA  229 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHHH
Confidence            44667888899999999999999999988874   3444 677777777665433   45678889998877 44 5566


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCch
Q 005329          583 WSTLLRACMVQGDVNCGRHTAEKILELHPSCAG  615 (702)
Q Consensus       583 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~  615 (702)
                      ..-|...+...|++.+|...|+.+++..|.+..
T Consensus       230 l~lLA~~afe~g~~~~A~~~Wq~lL~~lp~~~~  262 (287)
T COG4235         230 LSLLAFAAFEQGDYAEAAAAWQMLLDLLPADDP  262 (287)
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHhcCCCCCc
Confidence            777778889999999999999999999875543

>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=96.74  E-value=0.0014  Score=49.33  Aligned_cols=61  Identities=18%  Similarity=0.221  Sum_probs=39.6

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHhCCC--------CCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Q 005329          549 EHYGCMIDLLCRAGRLSDAENMIENMPH--------QKD-DVVWSTLLRACMVQGDVNCGRHTAEKILEL  609 (702)
Q Consensus       549 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~--------~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  609 (702)
                      .+|+.+...|...|++++|+..|++...        .|+ ..++..++..+...|++++|++.+++++++
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~i   75 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALDI   75 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            4556666666666666666666665543        122 446677777788888888888888877764

...

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.66  E-value=1.2  Score=47.37  Aligned_cols=326  Identities=12%  Similarity=0.098  Sum_probs=171.5

Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCc---hHHHHHHHHHHHHhCCCCchHHHHHHHHHH
Q 005329          279 TTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLAR---IQWGEQLHAHVLRLGLVDSLSVANSIMAMY  355 (702)
Q Consensus       279 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  355 (702)
                      ..+|.-+...+.+..|+++-..+...-..- ...|......+.+..+   -+.+..+-+.+... . .+...|..+.+-.
T Consensus       441 ~~vi~Rl~~r~~Y~vaIQva~~l~~p~~~~-~~Vl~~Wa~~kI~~~d~~d~~vld~I~~kls~~-~-~~~iSy~~iA~~A  517 (829)
T KOG2280|consen  441 EVVIDRLVDRHLYSVAIQVAKLLNLPESQG-DRVLLEWARRKIKQSDKMDEEVLDKIDEKLSAK-L-TPGISYAAIARRA  517 (829)
T ss_pred             hhhhHHHHhcchhHHHHHHHHHhCCccccc-cHHHHHHHHHHHhccCccchHHHHHHHHHhccc-C-CCceeHHHHHHHH
Confidence            345666667777777777766664321111 4555555555554432   22222222222111 2 2233455555555


Q ss_pred             HhcCCHHHHHHHHhcCCCC--------ChhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcH
Q 005329          356 SKCGQLTSTSIVFHGMIRR--------DIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAIL  427 (702)
Q Consensus       356 ~~~g~~~~a~~~~~~~~~~--------~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~  427 (702)
                      ..+|+.+-|.++++.=+..        +..-+..-+.-..+.|+.+-...++-.+..+-   +...|...+      .+.
T Consensus       518 y~~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kaies~d~~Li~~Vllhlk~~~---~~s~l~~~l------~~~  588 (829)
T KOG2280|consen  518 YQEGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAIESGDTDLIIQVLLHLKNKL---NRSSLFMTL------RNQ  588 (829)
T ss_pred             HhcCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHHhcCCchhHHHHHHHHHHHH---HHHHHHHHH------Hhc
Confidence            6778888887777654332        11223344444555666666666655554321   111111111      122


Q ss_pred             HHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHh--hC-----CCCCHHHHHHHHHHHHHcCC--------
Q 005329          428 EQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFY--ET-----ESDDIVSWTAMINGYAEHGY--------  492 (702)
Q Consensus       428 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~--~~-----~~~~~~~~~~li~~~~~~g~--------  492 (702)
                      ..|..++....+..-...      +-+.| .+++...+...|.  ..     .++-.........++.+...        
T Consensus       589 p~a~~lY~~~~r~~~~~~------l~d~y-~q~dn~~~~a~~~~q~~~~~~~~~~r~~~lk~~a~~~a~sk~~s~e~ka~  661 (829)
T KOG2280|consen  589 PLALSLYRQFMRHQDRAT------LYDFY-NQDDNHQALASFHLQASYAAETIEGRIPALKTAANAFAKSKEKSFEAKAL  661 (829)
T ss_pred             hhhhHHHHHHHHhhchhh------hhhhh-hcccchhhhhhhhhhhhhhhhhhcccchhHHHHHHHHhhhhhhhhHHHHH
Confidence            333444443333211100      11111 1222222222111  10     01111122223333333322        


Q ss_pred             --hHHHHHHHHHch-hCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHH
Q 005329          493 --SQEAIHLFEKVP-MVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAEN  569 (702)
Q Consensus       493 --~~~A~~~~~~m~-~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~  569 (702)
                        ..+-+++.+.+. +.|..-...+.+--+.-+...|...+|.++-.+..     -||...|..=+.+++..++|++-++
T Consensus       662 ed~~kLl~lQ~~Le~q~~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk-----ipdKr~~wLk~~aLa~~~kweeLek  736 (829)
T KOG2280|consen  662 EDQMKLLKLQRTLEDQFGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFK-----IPDKRLWWLKLTALADIKKWEELEK  736 (829)
T ss_pred             HHHHHHHHHHHHHHHHhccccccCcHHHHHHHHHHccchHHHHHHHHhcC-----CcchhhHHHHHHHHHhhhhHHHHHH
Confidence              111222333332 12333444556666667778888999988877663     5788888888899999999998887


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHH
Q 005329          570 MIENMPHQKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKM  639 (702)
Q Consensus       570 ~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  639 (702)
                      +-+...   ++.-|.-...+|.+.|+.++|..++-+.-.+        .-.+.+|.+.|++.+|.+.--+
T Consensus       737 fAkskk---sPIGy~PFVe~c~~~~n~~EA~KYiprv~~l--------~ekv~ay~~~~~~~eAad~A~~  795 (829)
T KOG2280|consen  737 FAKSKK---SPIGYLPFVEACLKQGNKDEAKKYIPRVGGL--------QEKVKAYLRVGDVKEAADLAAE  795 (829)
T ss_pred             HHhccC---CCCCchhHHHHHHhcccHHHHhhhhhccCCh--------HHHHHHHHHhccHHHHHHHHHH
Confidence            777655   3567777889999999999998887654221        1678889999999999886543

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=96.64  E-value=0.013  Score=56.68  Aligned_cols=256  Identities=15%  Similarity=0.096  Sum_probs=136.3

Q ss_pred             HHHhcCChhHHHHHHHHHHHCCC---CCChhhHHHHHHHHHccCchHHHHHHHHHHH--H--hCCC-CchHHHHHHHHHH
Q 005329          284 SYVQMGEEENAFDAFVRMQESDV---KPNEYTFAAIISASANLARIQWGEQLHAHVL--R--LGLV-DSLSVANSIMAMY  355 (702)
Q Consensus       284 ~~~~~g~~~~a~~~~~~m~~~g~---~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~--~--~~~~-~~~~~~~~l~~~~  355 (702)
                      -+|+.|+....+.+|+...+.|-   ..=+..|..|-++|.-.+++++|.+++..=+  .  .|-+ -.......|.+.+
T Consensus        26 RLck~gdcraGv~ff~aA~qvGTeDl~tLSAIYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgdklGEAKssgNLGNtl  105 (639)
T KOG1130|consen   26 RLCKMGDCRAGVDFFKAALQVGTEDLSTLSAIYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGDKLGEAKSSGNLGNTL  105 (639)
T ss_pred             HHHhccchhhhHHHHHHHHHhcchHHHHHHHHHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcchhccccccccccchh
Confidence            45667777777777777766652   1122345555566666667777776654311  1  1110 0112222344445


Q ss_pred             HhcCCHHHHHHHHhcCC-------CC--ChhhHHHHHHHHHcCCC--------------------hHHHHHHHHHHH---
Q 005329          356 SKCGQLTSTSIVFHGMI-------RR--DIISWSTIIGGYSQGGY--------------------EEEAFEYLALMR---  403 (702)
Q Consensus       356 ~~~g~~~~a~~~~~~~~-------~~--~~~~~~~li~~~~~~g~--------------------~~~a~~~~~~m~---  403 (702)
                      .-.|.+++|+-+..+-.       .+  ...++..+...|...|+                    ++.|.++|.+=.   
T Consensus       106 Kv~G~fdeA~~cc~rhLd~areLgDrv~e~RAlYNlgnvYhakGk~~g~~~pee~g~f~~ev~~al~~Av~fy~eNL~l~  185 (639)
T KOG1130|consen  106 KVKGAFDEALTCCFRHLDFARELGDRVLESRALYNLGNVYHAKGKCTGLEAPEEKGAFNAEVTSALENAVKFYMENLELS  185 (639)
T ss_pred             hhhcccchHHHHHHHHhHHHHHHhHHHhhhHHHhhhhhhhhhcccccCCCChhhcccccHHHHHHHHHHHHHHHHHHHHH
Confidence            55566666654432211       11  22344445555554442                    223333333211   


Q ss_pred             -HCCCC-CCHHHHHHHHHHHcccCcHHHHHHHHHHHHH----hCCCC-ChhHHHHHHHHHHhcCCHHHHHHHHhhCC---
Q 005329          404 -REGPR-PNEFAFASVLSVCGNMAILEQGKQIHAHVMS----IGLER-TAMIKSALINMYSKCGSIKEASQIFYETE---  473 (702)
Q Consensus       404 -~~g~~-p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~----~~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~---  473 (702)
                       +.|-. .--..|..+-+.|.-.|+++.|...++.-..    .|-.. ....+..+.+++.-.|+++.|.+.|+...   
T Consensus       186 ~~lgDr~aqGRa~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LA  265 (639)
T KOG1130|consen  186 EKLGDRLAQGRAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLA  265 (639)
T ss_pred             HHhhhHHhhcchhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHH
Confidence             11111 1112455555556667788888877655432    23222 23455667778888888888888877532   


Q ss_pred             ----CC--CHHHHHHHHHHHHHcCChHHHHHHHHHchh----CC-CCCCHHHHHHHHHHHhccCcHHHHHHHHHHhH
Q 005329          474 ----SD--DIVSWTAMINGYAEHGYSQEAIHLFEKVPM----VG-LRPDSVTFMGVLTACSHAGLVDLGFHYFNLMS  539 (702)
Q Consensus       474 ----~~--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~----~g-~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~  539 (702)
                          ..  ...+..+|...|.-..++++|+.++.+-..    .+ ..-....+.+|..++...|..++|+.+.+...
T Consensus       266 ielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl  342 (639)
T KOG1130|consen  266 IELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHL  342 (639)
T ss_pred             HHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence                22  233455677777777788888877755321    11 11233567778888888888888877665543

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=96.56  E-value=0.02  Score=45.88  Aligned_cols=90  Identities=19%  Similarity=0.153  Sum_probs=71.0

Q ss_pred             HHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CCCc---hhHHHHHHHHHhcCC
Q 005329          556 DLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELH-PSCA---GTHITLANIYAAKGR  629 (702)
Q Consensus       556 ~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~---~~~~~l~~~~~~~g~  629 (702)
                      -++...|+.+.|++.|.+...  +.....||.-..++.-+|+.++|..-+++++++. |...   ..|..-+.+|...|+
T Consensus        51 valaE~g~Ld~AlE~F~qal~l~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~  130 (175)
T KOG4555|consen   51 IALAEAGDLDGALELFGQALCLAPERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGN  130 (175)
T ss_pred             HHHHhccchHHHHHHHHHHHHhcccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCc
Confidence            456778888888888887766  4567788888889999999999999999998875 4432   356677888888899


Q ss_pred             hHHHHHHHHHHHhCCC
Q 005329          630 WREAAEVRKMMRSKGV  645 (702)
Q Consensus       630 ~~~A~~~~~~~~~~~~  645 (702)
                      -+.|..-|+..-+.|.
T Consensus       131 dd~AR~DFe~AA~LGS  146 (175)
T KOG4555|consen  131 DDAARADFEAAAQLGS  146 (175)
T ss_pred             hHHHHHhHHHHHHhCC
Confidence            9999888888777663

>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=96.54  E-value=0.03  Score=49.87  Aligned_cols=89  Identities=15%  Similarity=0.176  Sum_probs=65.0

Q ss_pred             CCChhhHHHHHHHHHc-----CCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHccc----------------CcHHHHH
Q 005329          373 RRDIISWSTIIGGYSQ-----GGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNM----------------AILEQGK  431 (702)
Q Consensus       373 ~~~~~~~~~li~~~~~-----~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~----------------~~~~~a~  431 (702)
                      .++-.+|..++..|.+     .|..+=....++.|.+-|+.-|..+|+.|++.+=+.                .+.+-|.
T Consensus        44 ~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~i  123 (228)
T PF06239_consen   44 AKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECAI  123 (228)
T ss_pred             cccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHHH
Confidence            3455556666665553     466777777888888888888888888888876542                2356677


Q ss_pred             HHHHHHHHhCCCCChhHHHHHHHHHHhcCC
Q 005329          432 QIHAHVMSIGLERTAMIKSALINMYSKCGS  461 (702)
Q Consensus       432 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  461 (702)
                      +++++|...|+-||..++..+++.+++.+.
T Consensus       124 ~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  124 DLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             HHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence            888888888888888888888888876554

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=96.40  E-value=0.86  Score=42.73  Aligned_cols=195  Identities=21%  Similarity=0.160  Sum_probs=131.9

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhhCC-----CCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHH
Q 005329          446 AMIKSALINMYSKCGSIKEASQIFYETE-----SDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLT  520 (702)
Q Consensus       446 ~~~~~~li~~~~~~g~~~~A~~~~~~~~-----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~  520 (702)
                      ...+......+...+++..+...+....     ......+......+...+++..+.+.+.........+ .........
T Consensus        59 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~  137 (291)
T COG0457          59 AGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDP-DLAEALLAL  137 (291)
T ss_pred             hHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCc-chHHHHHHH
Confidence            3444556666666777777766666543     2344556666667777777888888887777543222 122222222


Q ss_pred             -HHhccCcHHHHHHHHHHhHHhhCCCC----ChhhHHHHHHHHHhcCCHHHHHHHHHhCCC-C-C-CHHHHHHHHHHHHh
Q 005329          521 -ACSHAGLVDLGFHYFNLMSDKYGFVP----SKEHYGCMIDLLCRAGRLSDAENMIENMPH-Q-K-DDVVWSTLLRACMV  592 (702)
Q Consensus       521 -~~~~~g~~~~A~~~~~~~~~~~~~~p----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~-p-~~~~~~~l~~~~~~  592 (702)
                       .+...|+++.|...+.....   ..|    ....+......+...++.+.|...+..... . . ....+..+...+..
T Consensus       138 ~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~  214 (291)
T COG0457         138 GALYELGDYEEALELYEKALE---LDPELNELAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEALLNLGLLYLK  214 (291)
T ss_pred             HHHHHcCCHHHHHHHHHHHHh---cCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhCcccchHHHHHhhHHHHH
Confidence             67788888888888888743   233    233344444446677888888888888776 2 3 35677788888888


Q ss_pred             cCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 005329          593 QGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKG  644 (702)
Q Consensus       593 ~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  644 (702)
                      .++++.|...+..++...|.....+..++..+...|.++++...+++.....
T Consensus       215 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  266 (291)
T COG0457         215 LGKYEEALEYYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKALELD  266 (291)
T ss_pred             cccHHHHHHHHHHHHhhCcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            8888899999999888888767777777777777777888888887776543

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.35  E-value=0.026  Score=52.32  Aligned_cols=91  Identities=15%  Similarity=0.135  Sum_probs=43.7

Q ss_pred             ccCcHHHHHHHHHHhHHhhCCCC-ChhhHHHHHHHHHhcCCHHHHHHHHHhCCC-----CCCHHHHHHHHHHHHhcCCHH
Q 005329          524 HAGLVDLGFHYFNLMSDKYGFVP-SKEHYGCMIDLLCRAGRLSDAENMIENMPH-----QKDDVVWSTLLRACMVQGDVN  597 (702)
Q Consensus       524 ~~g~~~~A~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~p~~~~~~~l~~~~~~~g~~~  597 (702)
                      ..|++..|.+.|...+++|.-.+ ....+-.|..++...|++++|..+|..+.+     +..+..+--|+....+.|+.+
T Consensus       153 ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~~~d  232 (262)
T COG1729         153 KSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLGNTD  232 (262)
T ss_pred             HcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhcCHH
Confidence            44556666666666554421111 133344455555555555555555544433     112344444444455555555


Q ss_pred             HHHHHHHHHHHhCCCCc
Q 005329          598 CGRHTAEKILELHPSCA  614 (702)
Q Consensus       598 ~A~~~~~~~~~~~p~~~  614 (702)
                      .|..+|+++.+..|..+
T Consensus       233 ~A~atl~qv~k~YP~t~  249 (262)
T COG1729         233 EACATLQQVIKRYPGTD  249 (262)
T ss_pred             HHHHHHHHHHHHCCCCH
Confidence            55555555555555443

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=96.30  E-value=0.024  Score=49.25  Aligned_cols=91  Identities=16%  Similarity=0.179  Sum_probs=74.4

Q ss_pred             HHHHHhcCCHHHHHHHHHhCCC-CC------CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhc
Q 005329          555 IDLLCRAGRLSDAENMIENMPH-QK------DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAK  627 (702)
Q Consensus       555 ~~~~~~~g~~~~A~~~~~~~~~-~p------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~  627 (702)
                      .+-+.+.|++++|..-|..+.. .|      ....|..-..+..+.++++.|+.-..++++++|....+....+.+|.+.
T Consensus       102 GN~~F~ngdyeeA~skY~~Ale~cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pty~kAl~RRAeayek~  181 (271)
T KOG4234|consen  102 GNELFKNGDYEEANSKYQEALESCPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPTYEKALERRAEAYEKM  181 (271)
T ss_pred             HHHhhhcccHHHHHHHHHHHHHhCccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCchhHHHHHHHHHHHHhh
Confidence            3456678888888888887766 22      2345556666778999999999999999999998888888999999999


Q ss_pred             CChHHHHHHHHHHHhCCC
Q 005329          628 GRWREAAEVRKMMRSKGV  645 (702)
Q Consensus       628 g~~~~A~~~~~~~~~~~~  645 (702)
                      .++++|++-|+++.+..+
T Consensus       182 ek~eealeDyKki~E~dP  199 (271)
T KOG4234|consen  182 EKYEEALEDYKKILESDP  199 (271)
T ss_pred             hhHHHHHHHHHHHHHhCc
Confidence            999999999999887544

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=96.25  E-value=0.62  Score=42.73  Aligned_cols=57  Identities=14%  Similarity=-0.013  Sum_probs=23.7

Q ss_pred             HHHHHcCCChHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHcccCcHHHHHHHHHHHHH
Q 005329          383 IGGYSQGGYEEEAFEYLALMRREGPRP--NEFAFASVLSVCGNMAILEQGKQIHAHVMS  439 (702)
Q Consensus       383 i~~~~~~g~~~~a~~~~~~m~~~g~~p--~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  439 (702)
                      ...+...|++.+|.+.|+.+...-...  -....-.+..++.+.|+++.|...++..++
T Consensus        12 a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~   70 (203)
T PF13525_consen   12 ALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIK   70 (203)
T ss_dssp             HHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            334445555555555555555432111  111222333444444555555544444443

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=96.22  E-value=1.9  Score=44.87  Aligned_cols=185  Identities=12%  Similarity=0.113  Sum_probs=121.4

Q ss_pred             ChhHHHHHHHHHHhcCCHHHHHHHHhhCCCCC---HHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHH
Q 005329          445 TAMIKSALINMYSKCGSIKEASQIFYETESDD---IVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTA  521 (702)
Q Consensus       445 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~  521 (702)
                      ....|+..+..-.+.|+.+.+.-.|++..-|-   ...|-..+.-....|+.+-|...+....+-..+-.+.+-..-..-
T Consensus       296 ql~nw~~yLdf~i~~g~~~~~~~l~ercli~cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k~~~~i~L~~a~f  375 (577)
T KOG1258|consen  296 QLKNWRYYLDFEITLGDFSRVFILFERCLIPCALYDEFWIKYARWMESSGDVSLANNVLARACKIHVKKTPIIHLLEARF  375 (577)
T ss_pred             HHHHHHHHhhhhhhcccHHHHHHHHHHHHhHHhhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCCCCcHHHHHHHHH
Confidence            34566666677777888888888888776542   234444444444558888888877666554333333332222233


Q ss_pred             HhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHH---HHHHhCCC-CCCHHHHHHHHH-----HHH
Q 005329          522 CSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAE---NMIENMPH-QKDDVVWSTLLR-----ACM  591 (702)
Q Consensus       522 ~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~---~~~~~~~~-~p~~~~~~~l~~-----~~~  591 (702)
                      +...|+++.|..+++.+.+.  + |+ ...-..-+....+.|..+.+.   +++..... +-+......+..     .+.
T Consensus       376 ~e~~~n~~~A~~~lq~i~~e--~-pg~v~~~l~~~~~e~r~~~~~~~~~~~~l~s~~~~~~~~~~i~~~l~~~~~r~~~~  452 (577)
T KOG1258|consen  376 EESNGNFDDAKVILQRIESE--Y-PGLVEVVLRKINWERRKGNLEDANYKNELYSSIYEGKENNGILEKLYVKFARLRYK  452 (577)
T ss_pred             HHhhccHHHHHHHHHHHHhh--C-CchhhhHHHHHhHHHHhcchhhhhHHHHHHHHhcccccCcchhHHHHHHHHHHHHH
Confidence            45678999999999999876  3 66 444444566677888888888   44444433 222222222222     244


Q ss_pred             hcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHH
Q 005329          592 VQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWRE  632 (702)
Q Consensus       592 ~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  632 (702)
                      ..++.+.|..++.++.+..|.+...|..++.....++...+
T Consensus       453 i~~d~~~a~~~l~~~~~~~~~~k~~~~~~~~~~~~~~~~~e  493 (577)
T KOG1258|consen  453 IREDADLARIILLEANDILPDCKVLYLELIRFELIQPSGRE  493 (577)
T ss_pred             HhcCHHHHHHHHHHhhhcCCccHHHHHHHHHHHHhCCcchh
Confidence            67899999999999999999999999999998887764433

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=96.18  E-value=0.11  Score=49.75  Aligned_cols=162  Identities=10%  Similarity=0.045  Sum_probs=88.8

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHchh-CCCCCCH---HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCC--CC--Chhh
Q 005329          479 SWTAMINGYAEHGYSQEAIHLFEKVPM-VGLRPDS---VTFMGVLTACSHAGLVDLGFHYFNLMSDKYGF--VP--SKEH  550 (702)
Q Consensus       479 ~~~~li~~~~~~g~~~~A~~~~~~m~~-~g~~p~~---~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~--~p--~~~~  550 (702)
                      .|..+..++-+.-++.+++.+-+.-.. .|..|..   .....+..++.-.+.++++++.|+.+.+--.-  +|  ...+
T Consensus        85 a~lnlar~~e~l~~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqv  164 (518)
T KOG1941|consen   85 AYLNLARSNEKLCEFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQV  164 (518)
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeeh
Confidence            444555555555555555555443221 1222211   22333555556666677777777765432111  11  1456


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhCCC-------CC-----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC------CC
Q 005329          551 YGCMIDLLCRAGRLSDAENMIENMPH-------QK-----DDVVWSTLLRACMVQGDVNCGRHTAEKILELH------PS  612 (702)
Q Consensus       551 ~~~l~~~~~~~g~~~~A~~~~~~~~~-------~p-----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~------p~  612 (702)
                      +..|...|.+..++++|.-+..++.+       +.     ...+...+..++...|....|.+.-+++.++.      |-
T Consensus       165 cv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~  244 (518)
T KOG1941|consen  165 CVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRAL  244 (518)
T ss_pred             hhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHH
Confidence            67777777777777777666554432       11     11223344556677777777777777665542      33


Q ss_pred             CchhHHHHHHHHHhcCChHHHHHHHHHH
Q 005329          613 CAGTHITLANIYAAKGRWREAAEVRKMM  640 (702)
Q Consensus       613 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~  640 (702)
                      .......++++|...|+.+.|..-|+.+
T Consensus       245 ~arc~~~~aDIyR~~gd~e~af~rYe~A  272 (518)
T KOG1941|consen  245 QARCLLCFADIYRSRGDLERAFRRYEQA  272 (518)
T ss_pred             HHHHHHHHHHHHHhcccHhHHHHHHHHH
Confidence            3445566777777777777776655544

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.14  E-value=0.048  Score=50.60  Aligned_cols=86  Identities=14%  Similarity=0.151  Sum_probs=48.7

Q ss_pred             hcCCHHHHHHHHHhCCCC-C----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCC---chhHHHHHHHHHhcCChH
Q 005329          560 RAGRLSDAENMIENMPHQ-K----DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSC---AGTHITLANIYAAKGRWR  631 (702)
Q Consensus       560 ~~g~~~~A~~~~~~~~~~-p----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~---~~~~~~l~~~~~~~g~~~  631 (702)
                      +.|++.+|...|....++ |    .+..+--|+.++...|+++.|..+|..+....|++   ++.+.-|+.+..+.|+.+
T Consensus       153 ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~~~d  232 (262)
T COG1729         153 KSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLGNTD  232 (262)
T ss_pred             HcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhcCHH
Confidence            445566666666555441 1    12223336666666666666666666666655444   345556666666666666


Q ss_pred             HHHHHHHHHHhCCC
Q 005329          632 EAAEVRKMMRSKGV  645 (702)
Q Consensus       632 ~A~~~~~~~~~~~~  645 (702)
                      +|...|+++.++-+
T Consensus       233 ~A~atl~qv~k~YP  246 (262)
T COG1729         233 EACATLQQVIKRYP  246 (262)
T ss_pred             HHHHHHHHHHHHCC
Confidence            66666666665543

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=96.14  E-value=2.2  Score=44.91  Aligned_cols=40  Identities=8%  Similarity=0.011  Sum_probs=22.6

Q ss_pred             hhHHHHHhccCCCCCcchHHHHHHHHHhCCChHHHHHHHHHH
Q 005329          159 IELGCRVFDEMPLRNVVSWTAIITGLVRAGHNKEGLIYFAEM  200 (702)
Q Consensus       159 ~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  200 (702)
                      +++|.+..+.  .|.+..|..|.......-.++-|...|-+.
T Consensus       679 ledA~qfiEd--nPHprLWrllAe~Al~Kl~l~tAE~AFVrc  718 (1189)
T KOG2041|consen  679 LEDAIQFIED--NPHPRLWRLLAEYALFKLALDTAEHAFVRC  718 (1189)
T ss_pred             hHHHHHHHhc--CCchHHHHHHHHHHHHHHhhhhHhhhhhhh
Confidence            3444444443  456667777776665555556565555544

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.12  E-value=0.032  Score=55.82  Aligned_cols=62  Identities=13%  Similarity=0.019  Sum_probs=38.7

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CCCH----HHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Q 005329          548 KEHYGCMIDLLCRAGRLSDAENMIENMPH-QKDD----VVWSTLLRACMVQGDVNCGRHTAEKILEL  609 (702)
Q Consensus       548 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  609 (702)
                      ...++.+..+|.+.|++++|+..|++... .|+.    .+|..+..+|...|+.++|++.+++++++
T Consensus        75 a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         75 AEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            55566666666666666666666666554 4442    23666666666666666666666666665

>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=95.89  E-value=0.12  Score=42.74  Aligned_cols=96  Identities=16%  Similarity=0.244  Sum_probs=63.4

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhcc
Q 005329          446 AMIKSALINMYSKCGSIKEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHA  525 (702)
Q Consensus       446 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~  525 (702)
                      ..++..++.++++.|+++....+++..-..++.       +-...+.         --......|+..+..+++.+|+..
T Consensus         2 e~~~~~ii~al~r~g~~~~i~~~i~~~WgI~~~-------~~~~~~~---------~~~~spl~Pt~~lL~AIv~sf~~n   65 (126)
T PF12921_consen    2 EELLCNIIYALGRSGQLDSIKSYIKSVWGIDVN-------GKKKEGD---------YPPSSPLYPTSRLLIAIVHSFGYN   65 (126)
T ss_pred             hHHHHHHHHHHhhcCCHHHHHHHHHHhcCCCCC-------CccccCc---------cCCCCCCCCCHHHHHHHHHHHHhc
Confidence            345666666777777766666666544321111       0000000         122334678888899999999999


Q ss_pred             CcHHHHHHHHHHhHHhhCCCCChhhHHHHHHH
Q 005329          526 GLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDL  557 (702)
Q Consensus       526 g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~  557 (702)
                      |++..|.++.+...+.|+++.+...|..|+.-
T Consensus        66 ~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W   97 (126)
T PF12921_consen   66 GDIFSALKLVDFFSRKYPIPIPKEFWRRLLEW   97 (126)
T ss_pred             ccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence            99999999999998888888788888877753

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PRK15331 chaperone protein SicA; Provisional

Probab=95.85  E-value=0.18  Score=43.21  Aligned_cols=94  Identities=11%  Similarity=0.043  Sum_probs=59.0

Q ss_pred             HHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCC
Q 005329          484 INGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGR  563 (702)
Q Consensus       484 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~  563 (702)
                      .--+...|++++|..+|+-+...+ +-|..-+..|..+|-..+.++.|+..|.....- + .-|+..+-....+|...|+
T Consensus        44 Ay~~y~~Gk~~eA~~~F~~L~~~d-~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l-~-~~dp~p~f~agqC~l~l~~  120 (165)
T PRK15331         44 AYEFYNQGRLDEAETFFRFLCIYD-FYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTL-L-KNDYRPVFFTGQCQLLMRK  120 (165)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc-c-cCCCCccchHHHHHHHhCC
Confidence            334556778888888777766532 223334455666666777788888877766432 1 1234444456777777888


Q ss_pred             HHHHHHHHHhCCCCCCH
Q 005329          564 LSDAENMIENMPHQKDD  580 (702)
Q Consensus       564 ~~~A~~~~~~~~~~p~~  580 (702)
                      .+.|...|+....+|..
T Consensus       121 ~~~A~~~f~~a~~~~~~  137 (165)
T PRK15331        121 AAKARQCFELVNERTED  137 (165)
T ss_pred             HHHHHHHHHHHHhCcch
Confidence            88888877777665543

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=95.83  E-value=0.028  Score=33.87  Aligned_cols=33  Identities=30%  Similarity=0.334  Sum_probs=24.5

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCC
Q 005329          581 VVWSTLLRACMVQGDVNCGRHTAEKILELHPSC  613 (702)
Q Consensus       581 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~  613 (702)
                      ..|..++..+...|++++|++.++++++++|+|
T Consensus         2 ~~~~~lg~~~~~~~~~~~A~~~~~~al~l~p~~   34 (34)
T PF07719_consen    2 EAWYYLGQAYYQLGNYEEAIEYFEKALELDPNN   34 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTTS
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHHCcCC
Confidence            356677777888888888888888888888764

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....

>PRK11619 lytic murein transglycosylase; Provisional

Probab=95.78  E-value=3.9  Score=44.78  Aligned_cols=54  Identities=6%  Similarity=-0.055  Sum_probs=26.8

Q ss_pred             HHHHHHhcCCHHHHHHHHhcCCCCChhhHHHHHHHHHcCCChHHHHHHHHHHHHC
Q 005329          351 IMAMYSKCGQLTSTSIVFHGMIRRDIISWSTIIGGYSQGGYEEEAFEYLALMRRE  405 (702)
Q Consensus       351 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  405 (702)
                      -+..+.+.+++.....++.. ...+...-.....+....|+.++|......+-..
T Consensus       105 ~l~~La~~~~w~~~~~~~~~-~p~~~~~~c~~~~A~~~~G~~~~A~~~a~~lW~~  158 (644)
T PRK11619        105 FVNELARREDWRGLLAFSPE-KPKPVEARCNYYYAKWATGQQQEAWQGAKELWLT  158 (644)
T ss_pred             HHHHHHHccCHHHHHHhcCC-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhcc
Confidence            33344455566655553322 2234444444555566666666565555554333

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=95.78  E-value=0.49  Score=49.63  Aligned_cols=157  Identities=15%  Similarity=0.077  Sum_probs=101.9

Q ss_pred             HHHHHHHcCChHHHHHHHHHchhCC-CCCCH-----HHHHHHHHHHh----ccCcHHHHHHHHHHhHHhhCCCCChhhHH
Q 005329          483 MINGYAEHGYSQEAIHLFEKVPMVG-LRPDS-----VTFMGVLTACS----HAGLVDLGFHYFNLMSDKYGFVPSKEHYG  552 (702)
Q Consensus       483 li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~-----~~~~~ll~~~~----~~g~~~~A~~~~~~~~~~~~~~p~~~~~~  552 (702)
                      +++...-.|+-+.+++.+.+..+.+ +.-..     ..|..++..++    .....+.|.++++.+.++   -|+...|.
T Consensus       194 ll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~---yP~s~lfl  270 (468)
T PF10300_consen  194 LLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR---YPNSALFL  270 (468)
T ss_pred             HHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh---CCCcHHHH
Confidence            3444444555566666555544321 11111     12333333332    245678888999888765   57755554


Q ss_pred             H-HHHHHHhcCCHHHHHHHHHhCCC------CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHH-HHHHHH
Q 005329          553 C-MIDLLCRAGRLSDAENMIENMPH------QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHI-TLANIY  624 (702)
Q Consensus       553 ~-l~~~~~~~g~~~~A~~~~~~~~~------~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~-~l~~~~  624 (702)
                      . -.+.+...|+.++|++.|+++..      +-....+-.++..+....++++|.+.+.++.+.+.-+...|. ..+-++
T Consensus       271 ~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s~WSka~Y~Y~~a~c~  350 (468)
T PF10300_consen  271 FFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKESKWSKAFYAYLAAACL  350 (468)
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhccccHHHHHHHHHHHHH
Confidence            3 35667788999999999997654      123445566777888899999999999999997765555444 456667


Q ss_pred             HhcCCh-------HHHHHHHHHHHh
Q 005329          625 AAKGRW-------REAAEVRKMMRS  642 (702)
Q Consensus       625 ~~~g~~-------~~A~~~~~~~~~  642 (702)
                      ...|+.       ++|.+++.++..
T Consensus       351 ~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  351 LMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HhhccchhhhhhHHHHHHHHHHHHH
Confidence            788888       888888887765

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.

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=95.75  E-value=0.023  Score=34.32  Aligned_cols=32  Identities=25%  Similarity=0.289  Sum_probs=25.1

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCC
Q 005329          581 VVWSTLLRACMVQGDVNCGRHTAEKILELHPS  612 (702)
Q Consensus       581 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~  612 (702)
                      .+|..++..+...|++++|+..++++++++|+
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~   33 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALELDPD   33 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHCcC
Confidence            46777888888888888888888888888885

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=95.73  E-value=4.8  Score=45.49  Aligned_cols=111  Identities=13%  Similarity=0.079  Sum_probs=63.2

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC--hhhHHHHHH
Q 005329          479 SWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS--KEHYGCMID  556 (702)
Q Consensus       479 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~--~~~~~~l~~  556 (702)
                      .|.+...-+.....+++|.-.|+..-+         ..-.+.+|..+|+|++|..+-.++..    .-+  ..+-..|+.
T Consensus       941 i~~~ya~hL~~~~~~~~Aal~Ye~~Gk---------lekAl~a~~~~~dWr~~l~~a~ql~~----~~de~~~~a~~L~s 1007 (1265)
T KOG1920|consen  941 IYEAYADHLREELMSDEAALMYERCGK---------LEKALKAYKECGDWREALSLAAQLSE----GKDELVILAEELVS 1007 (1265)
T ss_pred             HHHHHHHHHHHhccccHHHHHHHHhcc---------HHHHHHHHHHhccHHHHHHHHHhhcC----CHHHHHHHHHHHHH
Confidence            344444444555666666666654321         11245666677777777776665531    111  222256677


Q ss_pred             HHHhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 005329          557 LLCRAGRLSDAENMIENMPHQKDDVVWSTLLRACMVQGDVNCGRHTAEKIL  607 (702)
Q Consensus       557 ~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  607 (702)
                      -+...+++-+|-++..+....|..     ....+++...+++|.++....-
T Consensus      1008 ~L~e~~kh~eAa~il~e~~sd~~~-----av~ll~ka~~~~eAlrva~~~~ 1053 (1265)
T KOG1920|consen 1008 RLVEQRKHYEAAKILLEYLSDPEE-----AVALLCKAKEWEEALRVASKAK 1053 (1265)
T ss_pred             HHHHcccchhHHHHHHHHhcCHHH-----HHHHHhhHhHHHHHHHHHHhcc
Confidence            777778887777777777654432     2334455566777776666543

>PRK11906 transcriptional regulator; Provisional

Probab=95.72  E-value=0.44  Score=48.13  Aligned_cols=143  Identities=9%  Similarity=0.102  Sum_probs=99.8

Q ss_pred             hHHHHHHHHHchh-CCCCCCH-HHHHHHHHHHhc---------cCcHHHHHHHHHHhHHhhCCCC-ChhhHHHHHHHHHh
Q 005329          493 SQEAIHLFEKVPM-VGLRPDS-VTFMGVLTACSH---------AGLVDLGFHYFNLMSDKYGFVP-SKEHYGCMIDLLCR  560 (702)
Q Consensus       493 ~~~A~~~~~~m~~-~g~~p~~-~~~~~ll~~~~~---------~g~~~~A~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~  560 (702)
                      .+.|+.+|.+... +.+.|+. ..|..+..++..         .....+|.++-+...   .+.| |......+..++.-
T Consensus       274 ~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAv---eld~~Da~a~~~~g~~~~~  350 (458)
T PRK11906        274 IYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVS---DITTVDGKILAIMGLITGL  350 (458)
T ss_pred             HHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHH---hcCCCCHHHHHHHHHHHHh
Confidence            4567777877772 2245654 344444433321         234556677776666   3455 47777888888888


Q ss_pred             cCCHHHHHHHHHhCCC-CCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHH--HHhcCChHHHHHH
Q 005329          561 AGRLSDAENMIENMPH-QKD-DVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANI--YAAKGRWREAAEV  636 (702)
Q Consensus       561 ~g~~~~A~~~~~~~~~-~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~--~~~~g~~~~A~~~  636 (702)
                      .|+++.|...|+++.. .|+ ..+|......+.-.|+.++|.+.++++++++|.....-..-.++  |+. ...++|+.+
T Consensus       351 ~~~~~~a~~~f~rA~~L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~~~~~~~~~~~~~~~~-~~~~~~~~~  429 (458)
T PRK11906        351 SGQAKVSHILFEQAKIHSTDIASLYYYRALVHFHNEKIEEARICIDKSLQLEPRRRKAVVIKECVDMYVP-NPLKNNIKL  429 (458)
T ss_pred             hcchhhHHHHHHHHhhcCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCchhhHHHHHHHHHHHHcC-CchhhhHHH
Confidence            8999999999999887 554 66888888888899999999999999999999876655544444  544 456777776


Q ss_pred             HHH
Q 005329          637 RKM  639 (702)
Q Consensus       637 ~~~  639 (702)
                      +-+
T Consensus       430 ~~~  432 (458)
T PRK11906        430 YYK  432 (458)
T ss_pred             Hhh
Confidence            643

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=95.66  E-value=2.7  Score=42.02  Aligned_cols=133  Identities=17%  Similarity=0.191  Sum_probs=97.5

Q ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHchhCC-CCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhH-HHH
Q 005329          477 IVSWTAMINGYAEHGYSQEAIHLFEKVPMVG-LRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHY-GCM  554 (702)
Q Consensus       477 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~-~~l  554 (702)
                      ...|...+..-.+..-.+.|..+|-++.+.| +.++...+++++.-++ .|+...|..+|+.-...   -||...| +..
T Consensus       397 t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~---f~d~~~y~~ky  472 (660)
T COG5107         397 TFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLK---FPDSTLYKEKY  472 (660)
T ss_pred             hhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHh---CCCchHHHHHH
Confidence            4466677777777777888888888888877 5567777777777554 57778888888865544   3554443 455


Q ss_pred             HHHHHhcCCHHHHHHHHHhCCC----CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCC
Q 005329          555 IDLLCRAGRLSDAENMIENMPH----QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSC  613 (702)
Q Consensus       555 ~~~~~~~g~~~~A~~~~~~~~~----~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~  613 (702)
                      +..+.+.++-+.|..+|+....    ..-...|..++.--..-|+...+..+-+++.+..|+.
T Consensus       473 l~fLi~inde~naraLFetsv~r~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~~pQe  535 (660)
T COG5107         473 LLFLIRINDEENARALFETSVERLEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRELVPQE  535 (660)
T ss_pred             HHHHHHhCcHHHHHHHHHHhHHHHHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHHcCcH
Confidence            6677788888888888886654    1235678888888888899988888888888888854

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.64  E-value=1.5  Score=39.99  Aligned_cols=88  Identities=14%  Similarity=0.152  Sum_probs=54.3

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHhCCC-------CCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHHhC----CCCchh
Q 005329          549 EHYGCMIDLLCRAGRLSDAENMIENMPH-------QKDD-VVWSTLLRACMVQGDVNCGRHTAEKILELH----PSCAGT  616 (702)
Q Consensus       549 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~-------~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~----p~~~~~  616 (702)
                      ..+....+.|++...+++|-..+.+-..       -|+. ..+-..+-.+....|+..|+.+++...+..    |++..+
T Consensus       151 el~gk~sr~lVrl~kf~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~  230 (308)
T KOG1585|consen  151 ELYGKCSRVLVRLEKFTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRS  230 (308)
T ss_pred             HHHHHhhhHhhhhHHhhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHH
Confidence            3455556677777777777666655433       1222 234445555666778888888888866643    666667


Q ss_pred             HHHHHHHHHhcCChHHHHHHH
Q 005329          617 HITLANIYAAKGRWREAAEVR  637 (702)
Q Consensus       617 ~~~l~~~~~~~g~~~~A~~~~  637 (702)
                      ...|...| ..|+.+++..++
T Consensus       231 lenLL~ay-d~gD~E~~~kvl  250 (308)
T KOG1585|consen  231 LENLLTAY-DEGDIEEIKKVL  250 (308)
T ss_pred             HHHHHHHh-ccCCHHHHHHHH
Confidence            77776655 456666665543

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=95.46  E-value=1.3  Score=41.77  Aligned_cols=33  Identities=21%  Similarity=0.187  Sum_probs=16.6

Q ss_pred             HhCCCCchhHHHHHHHHHhcCChHHHHHHHHHH
Q 005329          608 ELHPSCAGTHITLANIYAAKGRWREAAEVRKMM  640 (702)
Q Consensus       608 ~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  640 (702)
                      ..+|+|...-..|+..|...|+.++|.+.+=.+
T Consensus       230 aadPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~  262 (304)
T COG3118         230 AADPDDVEAALALADQLHLVGRNEAALEHLLAL  262 (304)
T ss_pred             HhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            344555555555555555555555554443333

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=95.45  E-value=1.3  Score=44.00  Aligned_cols=164  Identities=11%  Similarity=-0.000  Sum_probs=105.2

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHchhCC---CCCCHHHHHHHHHHHhc---cCcHHHHHHHHHHhHHhhCCCCChhhHH
Q 005329          479 SWTAMINGYAEHGYSQEAIHLFEKVPMVG---LRPDSVTFMGVLTACSH---AGLVDLGFHYFNLMSDKYGFVPSKEHYG  552 (702)
Q Consensus       479 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g---~~p~~~~~~~ll~~~~~---~g~~~~A~~~~~~~~~~~~~~p~~~~~~  552 (702)
                      +...++-+|....+++..+++.+.+...-   +.-....--.+.-++.+   .|+.++|++++..+... .-.+++++|.
T Consensus       143 iv~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~-~~~~~~d~~g  221 (374)
T PF13281_consen  143 IVINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLES-DENPDPDTLG  221 (374)
T ss_pred             HHHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhc-cCCCChHHHH
Confidence            33456667999999999999999998631   11122222234556666   89999999999996555 5567788988


Q ss_pred             HHHHHHH----h-----cCCHHHHHHHHHhCCC-CCCHHHHHHHHHHHHhcCCHH----HHHHHH----HHHHHhC----
Q 005329          553 CMIDLLC----R-----AGRLSDAENMIENMPH-QKDDVVWSTLLRACMVQGDVN----CGRHTA----EKILELH----  610 (702)
Q Consensus       553 ~l~~~~~----~-----~g~~~~A~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~----~A~~~~----~~~~~~~----  610 (702)
                      .++..|-    .     ....++|...|.+.-. +|+...--.++..+...|...    +..++-    ..+.+.+    
T Consensus       222 L~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~~  301 (374)
T PF13281_consen  222 LLGRIYKDLFLESNFTDRESLDKAIEWYRKGFEIEPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLEK  301 (374)
T ss_pred             HHHHHHHHHHHHcCccchHHHHHHHHHHHHHHcCCccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhccccc
Confidence            8877653    2     2347788888888765 555433333333333444322    222222    1111111    


Q ss_pred             CCCchhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 005329          611 PSCAGTHITLANIYAAKGRWREAAEVRKMMRSK  643 (702)
Q Consensus       611 p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  643 (702)
                      -.+-..+.+++.+..-.|++++|.+..++|.+.
T Consensus       302 ~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l  334 (374)
T PF13281_consen  302 MQDYWDVATLLEASVLAGDYEKAIQAAEKAFKL  334 (374)
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc
Confidence            224455667888888999999999999999875

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.37  E-value=0.36  Score=45.85  Aligned_cols=148  Identities=14%  Similarity=0.000  Sum_probs=68.2

Q ss_pred             cCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHH----HHHHHHHhcCCHH
Q 005329          490 HGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYG----CMIDLLCRAGRLS  565 (702)
Q Consensus       490 ~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~----~l~~~~~~~g~~~  565 (702)
                      .|+..+|...++++.+. .+.|...+...=.+|...|+.+.-...++++..+  ..|+...|.    .+.-++...|-++
T Consensus       116 ~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~--wn~dlp~~sYv~GmyaFgL~E~g~y~  192 (491)
T KOG2610|consen  116 RGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK--WNADLPCYSYVHGMYAFGLEECGIYD  192 (491)
T ss_pred             cccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccc--cCCCCcHHHHHHHHHHhhHHHhccch
Confidence            34455555555555443 3444444444455555555555555555555432  233332222    2223344555555


Q ss_pred             HHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCC----chhHHHHHHHHHhcCChHHHHHHHHH
Q 005329          566 DAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSC----AGTHITLANIYAAKGRWREAAEVRKM  639 (702)
Q Consensus       566 ~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~----~~~~~~l~~~~~~~g~~~~A~~~~~~  639 (702)
                      +|++.-++..+  +-|...-.++...+...|++.++.+..++--..-.+.    ...|.+.+-.+.+.+.++.|+++|+.
T Consensus       193 dAEk~A~ralqiN~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD~  272 (491)
T KOG2610|consen  193 DAEKQADRALQINRFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYDR  272 (491)
T ss_pred             hHHHHHHhhccCCCcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHHH
Confidence            55555555554  2233333444444455555555555544432221111    12334444445555555555555554


Q ss_pred             H
Q 005329          640 M  640 (702)
Q Consensus       640 ~  640 (702)
                      =
T Consensus       273 e  273 (491)
T KOG2610|consen  273 E  273 (491)
T ss_pred             H
Confidence            3

>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=95.35  E-value=0.14  Score=44.04  Aligned_cols=72  Identities=17%  Similarity=0.248  Sum_probs=48.5

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHH----hhCCCCChhhH
Q 005329          479 SWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSD----KYGFVPSKEHY  551 (702)
Q Consensus       479 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~----~~~~~p~~~~~  551 (702)
                      +...++..+...|++++|..+++++.... +-|...|..+|.++...|+...|.+.|+.+..    ..|+.|+..+-
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            44556677778888888888888888753 44677888888888888888888888877643    35888876554

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=95.33  E-value=1.8  Score=38.68  Aligned_cols=161  Identities=14%  Similarity=0.118  Sum_probs=90.1

Q ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHH
Q 005329          477 IVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPD-SVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMI  555 (702)
Q Consensus       477 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~  555 (702)
                      +..||-+.--+...|+++.|.+.|+...+.  .|. ..+...-.-++.-.|++..|.+-+-..-+.   .|+...-...+
T Consensus        99 ~~vfNyLG~Yl~~a~~fdaa~eaFds~~EL--Dp~y~Ya~lNRgi~~YY~gR~~LAq~d~~~fYQ~---D~~DPfR~LWL  173 (297)
T COG4785          99 PEVFNYLGIYLTQAGNFDAAYEAFDSVLEL--DPTYNYAHLNRGIALYYGGRYKLAQDDLLAFYQD---DPNDPFRSLWL  173 (297)
T ss_pred             HHHHHHHHHHHHhcccchHHHHHhhhHhcc--CCcchHHHhccceeeeecCchHhhHHHHHHHHhc---CCCChHHHHHH
Confidence            456777777777888888888888887764  332 223333233445667888887766555433   33321111112


Q ss_pred             HHHHhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCC-------chhHHHHHHHHHhcC
Q 005329          556 DLLCRAGRLSDAENMIENMPHQKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSC-------AGTHITLANIYAAKG  628 (702)
Q Consensus       556 ~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~-------~~~~~~l~~~~~~~g  628 (702)
                      -.-...-+..+|..-+.+--.+-+..-|...+..+.- |+.. .+.+++++.+-..++       .++|.-|+.-+...|
T Consensus       174 Yl~E~k~dP~~A~tnL~qR~~~~d~e~WG~~iV~~yL-gkiS-~e~l~~~~~a~a~~n~~~Ae~LTEtyFYL~K~~l~~G  251 (297)
T COG4785         174 YLNEQKLDPKQAKTNLKQRAEKSDKEQWGWNIVEFYL-GKIS-EETLMERLKADATDNTSLAEHLTETYFYLGKYYLSLG  251 (297)
T ss_pred             HHHHhhCCHHHHHHHHHHHHHhccHhhhhHHHHHHHH-hhcc-HHHHHHHHHhhccchHHHHHHHHHHHHHHHHHHhccc
Confidence            2222344566666544332223444455444433321 2221 123444444333332       458888999999999


Q ss_pred             ChHHHHHHHHHHHhCC
Q 005329          629 RWREAAEVRKMMRSKG  644 (702)
Q Consensus       629 ~~~~A~~~~~~~~~~~  644 (702)
                      ..++|..+|+-.+...
T Consensus       252 ~~~~A~~LfKLaiann  267 (297)
T COG4785         252 DLDEATALFKLAVANN  267 (297)
T ss_pred             cHHHHHHHHHHHHHHh
Confidence            9999999998877643

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=95.28  E-value=0.048  Score=35.33  Aligned_cols=31  Identities=19%  Similarity=0.221  Sum_probs=27.8

Q ss_pred             chhHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 005329          614 AGTHITLANIYAAKGRWREAAEVRKMMRSKG  644 (702)
Q Consensus       614 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  644 (702)
                      |..+..++.+|.+.|++++|+++++++.+..
T Consensus         1 p~~~~~la~~~~~~G~~~~A~~~~~~~l~~~   31 (44)
T PF13428_consen    1 PAAWLALARAYRRLGQPDEAERLLRRALALD   31 (44)
T ss_pred             CHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            4678899999999999999999999998853

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=95.25  E-value=2.6  Score=39.32  Aligned_cols=195  Identities=17%  Similarity=0.145  Sum_probs=126.0

Q ss_pred             HHHHHHHHHcccCcHHHHHHHHHHHHHh-CCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCC--CC-HHHHHHHHH-HH
Q 005329          413 AFASVLSVCGNMAILEQGKQIHAHVMSI-GLERTAMIKSALINMYSKCGSIKEASQIFYETES--DD-IVSWTAMIN-GY  487 (702)
Q Consensus       413 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~-~~~~~~li~-~~  487 (702)
                      .+......+...+....+...+...... ........+......+...++...+...+.....  ++ ......... .+
T Consensus        61 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  140 (291)
T COG0457          61 LLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDPDLAEALLALGAL  140 (291)
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCcchHHHHHHHHHH
Confidence            3333444444444444444444444332 2223333444455555566666677766665543  11 122222333 67


Q ss_pred             HHcCChHHHHHHHHHchhCCCCC----CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC--hhhHHHHHHHHHhc
Q 005329          488 AEHGYSQEAIHLFEKVPMVGLRP----DSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS--KEHYGCMIDLLCRA  561 (702)
Q Consensus       488 ~~~g~~~~A~~~~~~m~~~g~~p----~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~  561 (702)
                      ...|+++.|...+++...  ..|    ....+......+...++.+.+...+......   .++  ...+..+...+...
T Consensus       141 ~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~  215 (291)
T COG0457         141 YELGDYEEALELYEKALE--LDPELNELAEALLALGALLEALGRYEEALELLEKALKL---NPDDDAEALLNLGLLYLKL  215 (291)
T ss_pred             HHcCCHHHHHHHHHHHHh--cCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhh---CcccchHHHHHhhHHHHHc
Confidence            888999999999988855  333    2234444444467788999999999988754   333  67788888889999


Q ss_pred             CCHHHHHHHHHhCCC-CCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCC
Q 005329          562 GRLSDAENMIENMPH-QKD-DVVWSTLLRACMVQGDVNCGRHTAEKILELHPS  612 (702)
Q Consensus       562 g~~~~A~~~~~~~~~-~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~  612 (702)
                      ++++.|...+..... .|. ...+..+...+...+..+.+...+.+.....|.
T Consensus       216 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  268 (291)
T COG0457         216 GKYEEALEYYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKALELDPD  268 (291)
T ss_pred             ccHHHHHHHHHHHHhhCcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHhCcc
Confidence            999999999988877 444 456666666666777899999999999999986

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=95.21  E-value=2.2  Score=43.45  Aligned_cols=16  Identities=13%  Similarity=0.272  Sum_probs=12.1

Q ss_pred             HHHHHHHHHHHHhCCC
Q 005329          597 NCGRHTAEKILELHPS  612 (702)
Q Consensus       597 ~~A~~~~~~~~~~~p~  612 (702)
                      ..|.+.+.++++.+|-
T Consensus       363 ~~aveAi~RAvefNPH  378 (539)
T PF04184_consen  363 MNAVEAIHRAVEFNPH  378 (539)
T ss_pred             HHHHHHHHHHHHhCCC
Confidence            3467888898888874

The molecular function of this protein is uncertain.

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=95.16  E-value=0.081  Score=42.57  Aligned_cols=57  Identities=19%  Similarity=0.060  Sum_probs=53.0

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 005329          587 LRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSK  643 (702)
Q Consensus       587 ~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  643 (702)
                      ..+....|+.+.|++.|.+++.+-|.+++.|++-+.++.-+|+.++|++-+++..+.
T Consensus        50 ~valaE~g~Ld~AlE~F~qal~l~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleL  106 (175)
T KOG4555|consen   50 AIALAEAGDLDGALELFGQALCLAPERASAYNNRAQALRLQGDDEEALDDLNKALEL  106 (175)
T ss_pred             HHHHHhccchHHHHHHHHHHHHhcccchHhhccHHHHHHHcCChHHHHHHHHHHHHh
Confidence            445778999999999999999999999999999999999999999999999998774

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=95.02  E-value=3  Score=38.74  Aligned_cols=58  Identities=22%  Similarity=0.282  Sum_probs=43.6

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHhCCCCch---hHHHHHHHHHhcCChHHHHHHHHHHHh
Q 005329          585 TLLRACMVQGDVNCGRHTAEKILELHPSCAG---THITLANIYAAKGRWREAAEVRKMMRS  642 (702)
Q Consensus       585 ~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~---~~~~l~~~~~~~g~~~~A~~~~~~~~~  642 (702)
                      .++.-|.+.|.+..|..-++.+++..|+.+.   .+..+..+|...|..++|...-+-+..
T Consensus       172 ~IaryY~kr~~~~AA~nR~~~v~e~y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~  232 (254)
T COG4105         172 AIARYYLKRGAYVAAINRFEEVLENYPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGA  232 (254)
T ss_pred             HHHHHHHHhcChHHHHHHHHHHHhccccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHh
Confidence            3566688888888888888888888766544   555667778888988888777655543

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=95.02  E-value=3  Score=38.73  Aligned_cols=169  Identities=15%  Similarity=0.132  Sum_probs=112.0

Q ss_pred             CChhHHHHHHHHHHhcCCHHHHHHHHhhCCCC------CHHHHHHHHHHHHHcCChHHHHHHHHHchhCC-CCCCHHHHH
Q 005329          444 RTAMIKSALINMYSKCGSIKEASQIFYETESD------DIVSWTAMINGYAEHGYSQEAIHLFEKVPMVG-LRPDSVTFM  516 (702)
Q Consensus       444 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~~~~  516 (702)
                      |-...|+. +..-.+.|++++|.+.|+.+...      ...+.-.++-++.+.+++++|+..+++....- -.|| .-|.
T Consensus        33 p~~~LY~~-g~~~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n-~dY~  110 (254)
T COG4105          33 PASELYNE-GLTELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPN-ADYA  110 (254)
T ss_pred             CHHHHHHH-HHHHHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCC-hhHH
Confidence            33444543 44556789999999999998742      23455667778889999999999999988642 2233 3444


Q ss_pred             HHHHHHhcc-------CcH---HHHHHHHHHhHHhhC---CCCChhh------------HHHHHHHHHhcCCHHHHHHHH
Q 005329          517 GVLTACSHA-------GLV---DLGFHYFNLMSDKYG---FVPSKEH------------YGCMIDLLCRAGRLSDAENMI  571 (702)
Q Consensus       517 ~ll~~~~~~-------g~~---~~A~~~~~~~~~~~~---~~p~~~~------------~~~l~~~~~~~g~~~~A~~~~  571 (702)
                      ..|.+++.-       .|.   ..|..-|+.++.++.   ..||...            =..+.+.|.+.|.+..|..-+
T Consensus       111 ~YlkgLs~~~~i~~~~rDq~~~~~A~~~f~~~i~ryPnS~Ya~dA~~~i~~~~d~LA~~Em~IaryY~kr~~~~AA~nR~  190 (254)
T COG4105         111 YYLKGLSYFFQIDDVTRDQSAARAAFAAFKELVQRYPNSRYAPDAKARIVKLNDALAGHEMAIARYYLKRGAYVAAINRF  190 (254)
T ss_pred             HHHHHHHHhccCCccccCHHHHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHHH
Confidence            445544421       233   345555666665531   1122111            013456788999999999999


Q ss_pred             HhCCCC-----CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCc
Q 005329          572 ENMPHQ-----KDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCA  614 (702)
Q Consensus       572 ~~~~~~-----p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~  614 (702)
                      +++.+.     -....+-.+..+|...|-.++|...-+-+-...|+++
T Consensus       191 ~~v~e~y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~N~p~s~  238 (254)
T COG4105         191 EEVLENYPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGANYPDSQ  238 (254)
T ss_pred             HHHHhccccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHhcCCCCc
Confidence            998872     2344666788889999999999988776666667665

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=94.98  E-value=3.3  Score=41.95  Aligned_cols=150  Identities=9%  Similarity=-0.006  Sum_probs=84.2

Q ss_pred             CCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCC---CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC--hh
Q 005329          475 DDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRP---DSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS--KE  549 (702)
Q Consensus       475 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p---~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~--~~  549 (702)
                      ....+|..++..+.+.|+++.|...+.++...+..+   .+.....-....-..|+..+|+..++..... .+..+  ..
T Consensus       144 ~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~~-~~~~~~~~~  222 (352)
T PF02259_consen  144 ELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLKC-RLSKNIDSI  222 (352)
T ss_pred             HHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHHH-Hhhhccccc
Confidence            345677888888888899999988888877643211   2233334445556678888888888877652 11111  11


Q ss_pred             hHHHHHHHHHhcCCHHHHHHH-HHhCCCCCCHHHHHHHHHHHHhc------CCHHHHHHHHHHHHHhCCCCchhHHHHHH
Q 005329          550 HYGCMIDLLCRAGRLSDAENM-IENMPHQKDDVVWSTLLRACMVQ------GDVNCGRHTAEKILELHPSCAGTHITLAN  622 (702)
Q Consensus       550 ~~~~l~~~~~~~g~~~~A~~~-~~~~~~~p~~~~~~~l~~~~~~~------g~~~~A~~~~~~~~~~~p~~~~~~~~l~~  622 (702)
                      ....+...+..  ..+..... ......+.....+..++.-+...      ++.+.+...|+++.+..|.....|..++.
T Consensus       223 ~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~a~~~l~~a~w~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~k~~~~~a~  300 (352)
T PF02259_consen  223 SNAELKSGLLE--SLEVISSTNLDKESKELKAKAFLLLAKWLDELYSKLSSESSDEILKYYKEATKLDPSWEKAWHSWAL  300 (352)
T ss_pred             cHHHHhhcccc--ccccccccchhhhhHHHHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHHHhChhHHHHHHHHHH
Confidence            11111111100  00000000 00000001122333344444444      78999999999999999999999988887


Q ss_pred             HHHhc
Q 005329          623 IYAAK  627 (702)
Q Consensus       623 ~~~~~  627 (702)
                      .+.+.
T Consensus       301 ~~~~~  305 (352)
T PF02259_consen  301 FNDKL  305 (352)
T ss_pred             HHHHH
Confidence            76654

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.92  E-value=0.26  Score=46.72  Aligned_cols=116  Identities=15%  Similarity=0.078  Sum_probs=93.2

Q ss_pred             ccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHH----HHHHHHHhcCCHH
Q 005329          524 HAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWS----TLLRACMVQGDVN  597 (702)
Q Consensus       524 ~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~----~l~~~~~~~g~~~  597 (702)
                      -.|+..+|-..|+++.++  .+.|...+...=+++.-.|+.+.-...++++.-  .|+.+.|.    .+.-++...|-++
T Consensus       115 ~~g~~h~a~~~wdklL~d--~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~wn~dlp~~sYv~GmyaFgL~E~g~y~  192 (491)
T KOG2610|consen  115 GRGKHHEAAIEWDKLLDD--YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIYD  192 (491)
T ss_pred             ccccccHHHHHHHHHHHh--CchhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccch
Confidence            457788888889998875  345566777777888889999888888888765  45554333    2333455889999


Q ss_pred             HHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHH
Q 005329          598 CGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMR  641 (702)
Q Consensus       598 ~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  641 (702)
                      +|++..+++++++|.+......++.++...|+..|+.++..+-.
T Consensus       193 dAEk~A~ralqiN~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~te  236 (491)
T KOG2610|consen  193 DAEKQADRALQINRFDCWASHAKAHVLEMNGRHKEGKEFMYKTE  236 (491)
T ss_pred             hHHHHHHhhccCCCcchHHHHHHHHHHHhcchhhhHHHHHHhcc
Confidence            99999999999999999999999999999999999999887643

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=94.86  E-value=0.7  Score=38.66  Aligned_cols=117  Identities=10%  Similarity=0.028  Sum_probs=66.1

Q ss_pred             HHHHHHHHcCChHHHHHHHHHchhCCCCCC---HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHH
Q 005329          482 AMINGYAEHGYSQEAIHLFEKVPMVGLRPD---SVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLL  558 (702)
Q Consensus       482 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~---~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~  558 (702)
                      .-.....+.|++++|.+.|+.+... .+..   ...-..++.++.+.++++.|...+++.++.+.-.|+ ..|.....++
T Consensus        15 ~~a~~~l~~~~Y~~A~~~le~L~~r-yP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~-vdYa~Y~~gL   92 (142)
T PF13512_consen   15 QEAQEALQKGNYEEAIKQLEALDTR-YPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPN-VDYAYYMRGL   92 (142)
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHhc-CCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCC-ccHHHHHHHH
Confidence            3344455677888888888777754 2222   235556777777888888888888877754222222 2344444444


Q ss_pred             HhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCch
Q 005329          559 CRAGRLSDAENMIENMPHQKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAG  615 (702)
Q Consensus       559 ~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~  615 (702)
                      ..-...+.   .+..+..            .=...+....|...|++++...|++..
T Consensus        93 ~~~~~~~~---~~~~~~~------------~drD~~~~~~A~~~f~~lv~~yP~S~y  134 (142)
T PF13512_consen   93 SYYEQDEG---SLQSFFR------------SDRDPTPARQAFRDFEQLVRRYPNSEY  134 (142)
T ss_pred             HHHHHhhh---HHhhhcc------------cccCcHHHHHHHHHHHHHHHHCcCChh
Confidence            33222221   1111111            001122356888899999999997654

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=94.81  E-value=1.4  Score=41.62  Aligned_cols=169  Identities=13%  Similarity=0.047  Sum_probs=117.5

Q ss_pred             HHHHHHHhhCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhh
Q 005329          463 KEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKY  542 (702)
Q Consensus       463 ~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~  542 (702)
                      +...+++++...+....--.-.......|++.+|..+|+...+.. +-+...-..+..++...|+.+.|..++..+-.. 
T Consensus       120 sqlr~~ld~~~~~~~e~~~~~~~~~~~~e~~~~a~~~~~~al~~~-~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~-  197 (304)
T COG3118         120 SQLRQFLDKVLPAEEEEALAEAKELIEAEDFGEAAPLLKQALQAA-PENSEAKLLLAECLLAAGDVEAAQAILAALPLQ-  197 (304)
T ss_pred             HHHHHHHHHhcChHHHHHHHHhhhhhhccchhhHHHHHHHHHHhC-cccchHHHHHHHHHHHcCChHHHHHHHHhCccc-
Confidence            345556666665533322333445678899999999999988753 334556677888999999999999999987533 


Q ss_pred             CCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC--CCCchhHHH
Q 005329          543 GFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPHQK-DDVVWSTLLRACMVQGDVNCGRHTAEKILELH--PSCAGTHIT  619 (702)
Q Consensus       543 ~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--p~~~~~~~~  619 (702)
                      .-.........-+..+.+.....+...+-++.-..| |...-..+...+...|+.+.|.+.+-.++..+  -++...-..
T Consensus       198 ~~~~~~~~l~a~i~ll~qaa~~~~~~~l~~~~aadPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~  277 (304)
T COG3118         198 AQDKAAHGLQAQIELLEQAAATPEIQDLQRRLAADPDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARKT  277 (304)
T ss_pred             chhhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHHH
Confidence            111112222233556666666666666666666656 67777888999999999999999998888865  557778888


Q ss_pred             HHHHHHhcCChHHH
Q 005329          620 LANIYAAKGRWREA  633 (702)
Q Consensus       620 l~~~~~~~g~~~~A  633 (702)
                      |+.++.--|.-+.+
T Consensus       278 lle~f~~~g~~Dp~  291 (304)
T COG3118         278 LLELFEAFGPADPL  291 (304)
T ss_pred             HHHHHHhcCCCCHH
Confidence            88888887755543

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=94.74  E-value=5.1  Score=40.13  Aligned_cols=128  Identities=14%  Similarity=0.089  Sum_probs=96.7

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHhHHhhC-CCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CCCHHHH-HHHHHH
Q 005329          513 VTFMGVLTACSHAGLVDLGFHYFNLMSDKYG-FVPSKEHYGCMIDLLCRAGRLSDAENMIENMPH-QKDDVVW-STLLRA  589 (702)
Q Consensus       513 ~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~-~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~~~~~-~~l~~~  589 (702)
                      ..|...+.+..+..-++.|..+|-++.+. + +.+++..+++++..++ +|+..-|..+|+--.. -||...| +-.+.-
T Consensus       398 ~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         398 FVFCVHLNYVLRKRGLEAARKLFIKLRKE-GIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLKFPDSTLYKEKYLLF  475 (660)
T ss_pred             hHHHHHHHHHHHHhhHHHHHHHHHHHhcc-CCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHhCCCchHHHHHHHHH
Confidence            46777888888888899999999999766 6 6677889999998765 6888899999987665 4665554 456666


Q ss_pred             HHhcCCHHHHHHHHHHHHHhCCCC--chhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 005329          590 CMVQGDVNCGRHTAEKILELHPSC--AGTHITLANIYAAKGRWREAAEVRKMMRS  642 (702)
Q Consensus       590 ~~~~g~~~~A~~~~~~~~~~~p~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  642 (702)
                      +..-++-+.|..+|+..++.-..+  ..+|..++.--..-|+...+..+=+.|.+
T Consensus       476 Li~inde~naraLFetsv~r~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e  530 (660)
T COG5107         476 LIRINDEENARALFETSVERLEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRE  530 (660)
T ss_pred             HHHhCcHHHHHHHHHHhHHHHHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHH
Confidence            778899999999999777643222  56777777777777888777665555543

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=94.52  E-value=2.6  Score=35.79  Aligned_cols=123  Identities=7%  Similarity=0.037  Sum_probs=58.5

Q ss_pred             HHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhc
Q 005329          482 AMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRA  561 (702)
Q Consensus       482 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  561 (702)
                      .++..+...+.+.....+++.+...+ ..+...++.++..|++.+ .....+.++.       .++.......++.|.+.
T Consensus        12 ~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~~-~~~ll~~l~~-------~~~~yd~~~~~~~c~~~   82 (140)
T smart00299       12 EVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKYD-PQKEIERLDN-------KSNHYDIEKVGKLCEKA   82 (140)
T ss_pred             HHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHHC-HHHHHHHHHh-------ccccCCHHHHHHHHHHc
Confidence            34455555556666666666665554 244445555665555432 2333333331       11222233345555555


Q ss_pred             CCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc-CCHHHHHHHHHHHHHhCCCCchhHHHHHHHH
Q 005329          562 GRLSDAENMIENMPHQKDDVVWSTLLRACMVQ-GDVNCGRHTAEKILELHPSCAGTHITLANIY  624 (702)
Q Consensus       562 g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~  624 (702)
                      +.++++.-++.++..      +...+..+... ++.+.|.+.+++     +.++..|..++..+
T Consensus        83 ~l~~~~~~l~~k~~~------~~~Al~~~l~~~~d~~~a~~~~~~-----~~~~~lw~~~~~~~  135 (140)
T smart00299       83 KLYEEAVELYKKDGN------FKDAIVTLIEHLGNYEKAIEYFVK-----QNNPELWAEVLKAL  135 (140)
T ss_pred             CcHHHHHHHHHhhcC------HHHHHHHHHHcccCHHHHHHHHHh-----CCCHHHHHHHHHHH
Confidence            666666666655542      11222222223 556666665554     23444555554443

>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=94.40  E-value=1.4  Score=45.58  Aligned_cols=157  Identities=13%  Similarity=0.112  Sum_probs=96.9

Q ss_pred             HHHHhCCChHHHHHHHH--HHHHCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhhhCCC
Q 005329          182 TGLVRAGHNKEGLIYFA--EMWRSKEQGDSYTFAIVLKASADSGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGK  259 (702)
Q Consensus       182 ~~~~~~~~~~~a~~~~~--~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  259 (702)
                      ....-.++++.+.+..+  ++.. .++  ....+.+++.+-+.|..+.|.++-..-            ..-.....+.|+
T Consensus       269 k~av~~~d~~~v~~~i~~~~ll~-~i~--~~~~~~i~~fL~~~G~~e~AL~~~~D~------------~~rFeLAl~lg~  333 (443)
T PF04053_consen  269 KTAVLRGDFEEVLRMIAASNLLP-NIP--KDQGQSIARFLEKKGYPELALQFVTDP------------DHRFELALQLGN  333 (443)
T ss_dssp             HHHHHTT-HHH-----HHHHTGG-G----HHHHHHHHHHHHHTT-HHHHHHHSS-H------------HHHHHHHHHCT-
T ss_pred             HHHHHcCChhhhhhhhhhhhhcc-cCC--hhHHHHHHHHHHHCCCHHHHHhhcCCh------------HHHhHHHHhcCC
Confidence            44556678888766665  2211 122  344677777788888888887774322            223455677899


Q ss_pred             hHHHHHHHhccCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCchHHHHHHHHHHHHh
Q 005329          260 LDYSLRLFERMSTRDVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRL  339 (702)
Q Consensus       260 ~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~  339 (702)
                      ++.|.++.++..  +...|..|.....+.|+++-|.+.|.+...         |..|+-.|...|+.+.-.++.+.....
T Consensus       334 L~~A~~~a~~~~--~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~~~  402 (443)
T PF04053_consen  334 LDIALEIAKELD--DPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAEER  402 (443)
T ss_dssp             HHHHHHHCCCCS--THHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhcC--cHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHHHc
Confidence            999998887765  566899999999999999999999888653         455666677778877777777766665


Q ss_pred             CCCCchHHHHHHHHHHHhcCCHHHHHHHHhc
Q 005329          340 GLVDSLSVANSIMAMYSKCGQLTSTSIVFHG  370 (702)
Q Consensus       340 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  370 (702)
                      |-      ++....++.-.|+.++..+++.+
T Consensus       403 ~~------~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  403 GD------INIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             T-------HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             cC------HHHHHHHHHHcCCHHHHHHHHHH
Confidence            52      34444455556676666555543

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.

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.26  E-value=10  Score=41.42  Aligned_cols=149  Identities=14%  Similarity=0.050  Sum_probs=84.7

Q ss_pred             chhhhhHHHHHHccCChHHHHHHhhcCCCCCcchHHHHHH----HHHcCCChhHHHHHHHHhhhCCCCCCCHHHHHHHHH
Q 005329           41 TPEVNSQLKHLVKSGYLHDARKMFDTMTQRDEISWTTLIS----GYVKAMDSIEALALFSRVWVEPQMNMDPFILSLALK  116 (702)
Q Consensus        41 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~ll~----~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~  116 (702)
                      ....-.-+..+.+..-+.-|..+-..-.- +......+..    -+.+.|++++|...|-+-.   |.-..+    .+++
T Consensus       334 ek~le~kL~iL~kK~ly~~Ai~LAk~~~~-d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI---~~le~s----~Vi~  405 (933)
T KOG2114|consen  334 EKDLETKLDILFKKNLYKVAINLAKSQHL-DEDTLAEIHRKYGDYLYGKGDFDEATDQYIETI---GFLEPS----EVIK  405 (933)
T ss_pred             eccHHHHHHHHHHhhhHHHHHHHHHhcCC-CHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHc---ccCChH----HHHH
Confidence            33445667788888888888887765433 3333333333    3456888888887777665   322221    2344


Q ss_pred             HhhccCCchhhhHHHHHHHHhcCCCchhHHHHHHHhhhcCCChhHHHHHhccCCCCCcc-hHHHHHHHHHhCCChHHHHH
Q 005329          117 ACALNVNVNYGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKIELGCRVFDEMPLRNVV-SWTAIITGLVRAGHNKEGLI  195 (702)
Q Consensus       117 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~li~~~~~~~~~~~a~~  195 (702)
                      .+........-...++.+.+.|+. +...-+.|+.+|.+.++.++..+..+........ -....+..+.+.+-.++|.-
T Consensus       406 kfLdaq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~efI~~~~~g~~~fd~e~al~Ilr~snyl~~a~~  484 (933)
T KOG2114|consen  406 KFLDAQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEFISKCDKGEWFFDVETALEILRKSNYLDEAEL  484 (933)
T ss_pred             HhcCHHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHHHHhcCCCcceeeeHHHHHHHHHHhChHHHHHH
Confidence            444445555556667777777753 3334456778888888888777777665521111 13334444444444444444


Q ss_pred             HHH
Q 005329          196 YFA  198 (702)
Q Consensus       196 ~~~  198 (702)
                      +-.
T Consensus       485 LA~  487 (933)
T KOG2114|consen  485 LAT  487 (933)
T ss_pred             HHH
Confidence            333

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.08  E-value=11  Score=41.16  Aligned_cols=142  Identities=13%  Similarity=0.040  Sum_probs=81.6

Q ss_pred             HHHHHhhhcCCChhHHHHHhccCCCCCcchHHHHH----HHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhcc
Q 005329          147 SALLDMYTKLGKIELGCRVFDEMPLRNVVSWTAII----TGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADS  222 (702)
Q Consensus       147 ~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li----~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~  222 (702)
                      ..-+..+.+..-++-|..+-+.-.. +..+-..+.    +.+.+.|++++|..-|-+-... +.|     ..+++-+...
T Consensus       338 e~kL~iL~kK~ly~~Ai~LAk~~~~-d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~-----s~Vi~kfLda  410 (933)
T KOG2114|consen  338 ETKLDILFKKNLYKVAINLAKSQHL-DEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEP-----SEVIKKFLDA  410 (933)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHhcCC-CHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CCh-----HHHHHHhcCH
Confidence            3445555666667777766655332 222222233    3345678888888777765432 222     2345556666


Q ss_pred             CChHHHHHHHHHHHHhCCCCchhHHHHHHHHhhhCCChHHHHHHHhccCCCCcc--hHHHHHHHHHhcCChhHHHHH
Q 005329          223 GALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMSTRDVI--SWTTIITSYVQMGEEENAFDA  297 (702)
Q Consensus       223 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~--~~~~li~~~~~~g~~~~a~~~  297 (702)
                      ..+..-..+++.+.+.|+... ..-+.|+.+|.+.++.++-.++.+...+ ...  -....+..+.+.+-.++|.-+
T Consensus       411 q~IknLt~YLe~L~~~gla~~-dhttlLLncYiKlkd~~kL~efI~~~~~-g~~~fd~e~al~Ilr~snyl~~a~~L  485 (933)
T KOG2114|consen  411 QRIKNLTSYLEALHKKGLANS-DHTTLLLNCYIKLKDVEKLTEFISKCDK-GEWFFDVETALEILRKSNYLDEAELL  485 (933)
T ss_pred             HHHHHHHHHHHHHHHcccccc-hhHHHHHHHHHHhcchHHHHHHHhcCCC-cceeeeHHHHHHHHHHhChHHHHHHH
Confidence            666777777888888875433 3346778888888888887777766552 111  133444444444444444443

>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=94.03  E-value=2  Score=36.81  Aligned_cols=87  Identities=17%  Similarity=0.060  Sum_probs=58.3

Q ss_pred             HhccCcHHHHHHHHHHhHHhhCCCCCh-hhHHHHHHHHHhcCCHHHHHHHHHhCCC-CCCHHHHHHHHHHHHhcCCHHHH
Q 005329          522 CSHAGLVDLGFHYFNLMSDKYGFVPSK-EHYGCMIDLLCRAGRLSDAENMIENMPH-QKDDVVWSTLLRACMVQGDVNCG  599 (702)
Q Consensus       522 ~~~~g~~~~A~~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~A  599 (702)
                      -...++.+.+..++..+.   -+.|.. ..-..-+..+.+.|+|.+|..+|+++.. .|....-..|+..|....+-..=
T Consensus        20 al~~~~~~D~e~lL~ALr---vLRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~~~~p~~kALlA~CL~~~~D~~W   96 (160)
T PF09613_consen   20 ALRLGDPDDAEALLDALR---VLRPEFPELDLFDGWLHIVRGDWDDALRLLRELEERAPGFPYAKALLALCLYALGDPSW   96 (160)
T ss_pred             HHccCChHHHHHHHHHHH---HhCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccCCCChHHHHHHHHHHHHcCChHH
Confidence            346678888888888886   457763 3333345667888999999999999877 45555556666666655544444


Q ss_pred             HHHHHHHHHhCC
Q 005329          600 RHTAEKILELHP  611 (702)
Q Consensus       600 ~~~~~~~~~~~p  611 (702)
                      ....+++++.++
T Consensus        97 r~~A~evle~~~  108 (160)
T PF09613_consen   97 RRYADEVLESGA  108 (160)
T ss_pred             HHHHHHHHhcCC
Confidence            555566666655

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=94.01  E-value=0.11  Score=31.86  Aligned_cols=26  Identities=23%  Similarity=0.326  Sum_probs=20.5

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHH
Q 005329          616 THITLANIYAAKGRWREAAEVRKMMR  641 (702)
Q Consensus       616 ~~~~l~~~~~~~g~~~~A~~~~~~~~  641 (702)
                      +|..|+.+|.+.|++++|++++++..
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            46788888888899999988888854

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=94.00  E-value=0.91  Score=46.04  Aligned_cols=149  Identities=11%  Similarity=0.056  Sum_probs=82.3

Q ss_pred             HcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHH
Q 005329          489 EHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAE  568 (702)
Q Consensus       489 ~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~  568 (702)
                      +..++..-++.-++..+  +.||..+...++ +-.......++.++|++..+. +    ...+..- ......|..   .
T Consensus       180 RERnp~aRIkaA~eALe--i~pdCAdAYILL-AEEeA~Ti~Eae~l~rqAvkA-g----E~~lg~s-~~~~~~g~~---~  247 (539)
T PF04184_consen  180 RERNPQARIKAAKEALE--INPDCADAYILL-AEEEASTIVEAEELLRQAVKA-G----EASLGKS-QFLQHHGHF---W  247 (539)
T ss_pred             hcCCHHHHHHHHHHHHH--hhhhhhHHHhhc-ccccccCHHHHHHHHHHHHHH-H----HHhhchh-hhhhcccch---h
Confidence            33445555555555554  456654332222 223345577888888877654 1    0011000 000011111   1


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCC--CchhHHHHHHHHHhcCChHHHHHHHHHHHhCCCc
Q 005329          569 NMIENMPHQKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPS--CAGTHITLANIYAAKGRWREAAEVRKMMRSKGVI  646 (702)
Q Consensus       569 ~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  646 (702)
                      +.+..-...|-..+-..|...+.+.|+.++|++.++++++..|.  +-.+...|+.++...+++.++..++.+-.+....
T Consensus       248 e~~~~Rdt~~~~y~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lp  327 (539)
T PF04184_consen  248 EAWHRRDTNVLVYAKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLP  327 (539)
T ss_pred             hhhhccccchhhhhHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCC
Confidence            11111011233444456777778888888888888888877764  4567888888888888888888888876554333


Q ss_pred             cCC
Q 005329          647 KEP  649 (702)
Q Consensus       647 ~~~  649 (702)
                      ++.
T Consensus       328 kSA  330 (539)
T PF04184_consen  328 KSA  330 (539)
T ss_pred             chH
Confidence            333

The molecular function of this protein is uncertain.

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=93.91  E-value=0.44  Score=44.15  Aligned_cols=110  Identities=13%  Similarity=0.036  Sum_probs=79.1

Q ss_pred             HHHHHhccCC--CCCcchHHHHHHHHHhC-----CChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhccC----------
Q 005329          161 LGCRVFDEMP--LRNVVSWTAIITGLVRA-----GHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSG----------  223 (702)
Q Consensus       161 ~A~~~~~~~~--~~~~~~~~~li~~~~~~-----~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~----------  223 (702)
                      ..++.|....  ++|..+|-+.+..+...     +..+=....++.|.+-|+.-|..+|+.||..+-+..          
T Consensus        52 ~~e~~F~aa~~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~  131 (406)
T KOG3941|consen   52 HVEKQFEAAEPEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKV  131 (406)
T ss_pred             chhhhhhccCcccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHH
Confidence            3445566655  56777888888777543     556667778889999999999999999998765432          


Q ss_pred             ------ChHHHHHHHHHHHHhCCCCchhHHHHHHHHhhhCCCh-HHHHHHHhcc
Q 005329          224 ------ALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKL-DYSLRLFERM  270 (702)
Q Consensus       224 ------~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~-~~A~~~~~~~  270 (702)
                            +-+-+..++++|...|+.||..+-..|++++.+.+-. .+..++.-.|
T Consensus       132 F~HYP~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p~~K~~Rm~yWm  185 (406)
T KOG3941|consen  132 FLHYPQQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNFPTKKVKRMLYWM  185 (406)
T ss_pred             HhhCchhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhccccccHHHHHHHHHhh
Confidence                  2244778889999999999999888888888877643 3333333333

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=93.85  E-value=12  Score=41.04  Aligned_cols=49  Identities=22%  Similarity=0.380  Sum_probs=30.9

Q ss_pred             cCCHHHHHHHHHHHHHhC---CCCchhHH------HHHHHHHhcCChHHHHHHHHHHH
Q 005329          593 QGDVNCGRHTAEKILELH---PSCAGTHI------TLANIYAAKGRWREAAEVRKMMR  641 (702)
Q Consensus       593 ~g~~~~A~~~~~~~~~~~---p~~~~~~~------~l~~~~~~~g~~~~A~~~~~~~~  641 (702)
                      .|+..+.......+...-   |+......      .+...|...|+.++|.....+..
T Consensus       547 ~~~~~e~~~~s~~a~~~A~k~~d~~~~LW~~v~~~~l~~~~~~~G~~~ka~~~~~~~~  604 (608)
T PF10345_consen  547 EGDVGEQAKKSARAFQLAKKSSDYSDQLWHLVASGMLADSYEVQGDRDKAEEARQQLD  604 (608)
T ss_pred             cCCHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHH
Confidence            677777666665555543   33233222      45566788899999988877654

It is associated with the cohesin complex and is required in G1 for cohesin binding to chromosomes, but is dispensable in G2 when cohesion has been established. It is often referred to as Ssl3 in Schizosaccharomyces pombe (Fission yeast), and Scc4 in Saccharomyces cerevisiae (Baker's yeast). It complexes with Mis4 [].

>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A

Probab=93.85  E-value=0.14  Score=30.80  Aligned_cols=31  Identities=29%  Similarity=0.305  Sum_probs=22.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHhCCC
Q 005329          582 VWSTLLRACMVQGDVNCGRHTAEKILELHPS  612 (702)
Q Consensus       582 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~  612 (702)
                      +|..++..+...|++++|...|+++++++|+
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~~~~~   33 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEKALELNPD   33 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            4666677777777777777777777777763

...

>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=93.65  E-value=0.53  Score=38.90  Aligned_cols=93  Identities=14%  Similarity=0.082  Sum_probs=44.5

Q ss_pred             hhhhhHHHHHHccCChHHHHHHhhcCCCCCcchHHHHHHHHHcCCChhHHHHHHHHhhhCCCCCCCHHHHHHHHHHhhcc
Q 005329           42 PEVNSQLKHLVKSGYLHDARKMFDTMTQRDEISWTTLISGYVKAMDSIEALALFSRVWVEPQMNMDPFILSLALKACALN  121 (702)
Q Consensus        42 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~  121 (702)
                      .++..++-++++.|+++....+.+..=..+       +.+-...+.          ....+...|+..++.+++.+++..
T Consensus         3 ~~~~~ii~al~r~g~~~~i~~~i~~~WgI~-------~~~~~~~~~----------~~~~spl~Pt~~lL~AIv~sf~~n   65 (126)
T PF12921_consen    3 ELLCNIIYALGRSGQLDSIKSYIKSVWGID-------VNGKKKEGD----------YPPSSPLYPTSRLLIAIVHSFGYN   65 (126)
T ss_pred             HHHHHHHHHHhhcCCHHHHHHHHHHhcCCC-------CCCccccCc----------cCCCCCCCCCHHHHHHHHHHHHhc
Confidence            455666777777777777666665421000       000000000          111223445555555555555555


Q ss_pred             CCchhhhHHHHHHHHh-cCCCchhHHHHHHH
Q 005329          122 VNVNYGESLHGYTVKT-GFVNSVFVGSALLD  151 (702)
Q Consensus       122 ~~~~~a~~~~~~~~~~-~~~~~~~~~~~li~  151 (702)
                      +++..|.++.+...+. +++.+...|..|+.
T Consensus        66 ~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~   96 (126)
T PF12921_consen   66 GDIFSALKLVDFFSRKYPIPIPKEFWRRLLE   96 (126)
T ss_pred             ccHHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            5555555555554432 34444555555554

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=93.65  E-value=0.73  Score=42.81  Aligned_cols=99  Identities=14%  Similarity=0.153  Sum_probs=75.8

Q ss_pred             HHHHHhcCC--CCChhhHHHHHHHHHc-----CCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccC-----------
Q 005329          364 TSIVFHGMI--RRDIISWSTIIGGYSQ-----GGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMA-----------  425 (702)
Q Consensus       364 a~~~~~~~~--~~~~~~~~~li~~~~~-----~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~-----------  425 (702)
                      .++.|..+.  ++|-.+|-..+..|..     .+..+-....++.|.+-|+.-|..+|..|++.+-+..           
T Consensus        53 ~e~~F~aa~~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F  132 (406)
T KOG3941|consen   53 VEKQFEAAEPEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVF  132 (406)
T ss_pred             hhhhhhccCcccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHH
Confidence            344555554  5566777777777654     3566777778888999999999999999998875532           


Q ss_pred             -----cHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCH
Q 005329          426 -----ILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSI  462 (702)
Q Consensus       426 -----~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  462 (702)
                           .-+-+.+++++|..+|+-||..+-..|++++++.+-.
T Consensus       133 ~HYP~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p  174 (406)
T KOG3941|consen  133 LHYPQQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNFP  174 (406)
T ss_pred             hhCchhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhcccccc
Confidence                 3455778999999999999999999999999887753

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=93.59  E-value=3.9  Score=43.03  Aligned_cols=115  Identities=14%  Similarity=0.076  Sum_probs=53.7

Q ss_pred             ChHHHHHHHHHchhCCCCCCHHHHHHH-HHHHhccCcHHHHHHHHHHhHHhh-CC-CCChhhHHHHHHHHHhcCCHHHHH
Q 005329          492 YSQEAIHLFEKVPMVGLRPDSVTFMGV-LTACSHAGLVDLGFHYFNLMSDKY-GF-VPSKEHYGCMIDLLCRAGRLSDAE  568 (702)
Q Consensus       492 ~~~~A~~~~~~m~~~g~~p~~~~~~~l-l~~~~~~g~~~~A~~~~~~~~~~~-~~-~p~~~~~~~l~~~~~~~g~~~~A~  568 (702)
                      +.+.|.++++.+.+.  -|+...|... .+.+...|++++|++.|+...... .. +.....+.-++..+.-.++|++|.
T Consensus       248 ~~~~a~~lL~~~~~~--yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~  325 (468)
T PF10300_consen  248 PLEEAEELLEEMLKR--YPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAA  325 (468)
T ss_pred             CHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHH
Confidence            445555566555542  3544433322 223345566666666666443210 00 011233344555566666666666


Q ss_pred             HHHHhCCC-CC-CHHHHHHHHHH-HHhcCCH-------HHHHHHHHHHHH
Q 005329          569 NMIENMPH-QK-DDVVWSTLLRA-CMVQGDV-------NCGRHTAEKILE  608 (702)
Q Consensus       569 ~~~~~~~~-~p-~~~~~~~l~~~-~~~~g~~-------~~A~~~~~~~~~  608 (702)
                      ..|..+.+ .. +...|.-+..+ +...|+.       ++|.+.++++-.
T Consensus       326 ~~f~~L~~~s~WSka~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  326 EYFLRLLKESKWSKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HHHHHHHhccccHHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHHH
Confidence            66666655 12 22223222222 2245555       555555555544

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.

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=93.56  E-value=0.15  Score=31.23  Aligned_cols=28  Identities=29%  Similarity=0.220  Sum_probs=22.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHh
Q 005329          582 VWSTLLRACMVQGDVNCGRHTAEKILEL  609 (702)
Q Consensus       582 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~  609 (702)
                      +|..|+..|.+.|++++|++++++++.+
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL~l   28 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQALAL   28 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            4678888999999999999999996654

>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=93.44  E-value=3.4  Score=42.85  Aligned_cols=157  Identities=13%  Similarity=0.089  Sum_probs=96.0

Q ss_pred             HHcCCChhHHHHHHHHhhhCCCCCCCHHHHHHHHHHhhccCCchhhhHHHHHHHHhcCCCchhHHHHHHHhhhcCCChhH
Q 005329           82 YVKAMDSIEALALFSRVWVEPQMNMDPFILSLALKACALNVNVNYGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKIEL  161 (702)
Q Consensus        82 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  161 (702)
                      ..-+++++++.+....-.--+.+  +....+.+++.+.+.|-.+.|.++-.         |+.   .-.....+.|+++.
T Consensus       271 av~~~d~~~v~~~i~~~~ll~~i--~~~~~~~i~~fL~~~G~~e~AL~~~~---------D~~---~rFeLAl~lg~L~~  336 (443)
T PF04053_consen  271 AVLRGDFEEVLRMIAASNLLPNI--PKDQGQSIARFLEKKGYPELALQFVT---------DPD---HRFELALQLGNLDI  336 (443)
T ss_dssp             HHHTT-HHH-----HHHHTGGG----HHHHHHHHHHHHHTT-HHHHHHHSS----------HH---HHHHHHHHCT-HHH
T ss_pred             HHHcCChhhhhhhhhhhhhcccC--ChhHHHHHHHHHHHCCCHHHHHhhcC---------ChH---HHhHHHHhcCCHHH
Confidence            34567777766665511111111  24456677777777777777766532         222   34455678899999


Q ss_pred             HHHHhccCCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCC
Q 005329          162 GCRVFDEMPLRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSGALNFGREIHTIMLKRGFD  241 (702)
Q Consensus       162 A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~  241 (702)
                      |.++.++..  +...|..|.....+.|+++-|.+.|.+..+         |..|+-.+...|+.+.-.++.+.....|- 
T Consensus       337 A~~~a~~~~--~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~~~~~-  404 (443)
T PF04053_consen  337 ALEIAKELD--DPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAEERGD-  404 (443)
T ss_dssp             HHHHCCCCS--THHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHTT--
T ss_pred             HHHHHHhcC--cHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHHHccC-
Confidence            999988876  566899999999999999999999998643         56666677778888887777777766651 


Q ss_pred             CchhHHHHHHHHhhhCCChHHHHHHHhc
Q 005329          242 VVSFVANSLATMYSKCGKLDYSLRLFER  269 (702)
Q Consensus       242 ~~~~~~~~li~~~~~~g~~~~A~~~~~~  269 (702)
                           ++....++.-.|+.++..+++.+
T Consensus       405 -----~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  405 -----INIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             -----HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             -----HHHHHHHHHHcCCHHHHHHHHHH
Confidence                 24444444455666666655543

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.

>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=93.28  E-value=0.71  Score=39.44  Aligned_cols=72  Identities=19%  Similarity=0.114  Sum_probs=45.2

Q ss_pred             HhcCCHHHHHHHHHhCCC-CCCHHHHHH-HHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCCh
Q 005329          559 CRAGRLSDAENMIENMPH-QKDDVVWST-LLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRW  630 (702)
Q Consensus       559 ~~~g~~~~A~~~~~~~~~-~p~~~~~~~-l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  630 (702)
                      .+.++.+++..+++.+.. +|....... -...+...|++.+|+++++.+.+..|..+..--.++.++...|+.
T Consensus        21 l~~~~~~D~e~lL~ALrvLRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~~~~p~~kALlA~CL~~~~D~   94 (160)
T PF09613_consen   21 LRLGDPDDAEALLDALRVLRPEFPELDLFDGWLHIVRGDWDDALRLLRELEERAPGFPYAKALLALCLYALGDP   94 (160)
T ss_pred             HccCChHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccCCCChHHHHHHHHHHHHcCCh
Confidence            455677777777766655 554443332 344456777777777777777666666666666666666666654

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=93.26  E-value=4.9  Score=35.57  Aligned_cols=113  Identities=14%  Similarity=0.086  Sum_probs=69.2

Q ss_pred             HHHHHHHHchhCCCCCCHHHHHH--HHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhH-----HHHHHHHHhcCCHHHH
Q 005329          495 EAIHLFEKVPMVGLRPDSVTFMG--VLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHY-----GCMIDLLCRAGRLSDA  567 (702)
Q Consensus       495 ~A~~~~~~m~~~g~~p~~~~~~~--ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~-----~~l~~~~~~~g~~~~A  567 (702)
                      +.....+++....-+....++..  +...+...++++.|..-++.....    |....+     -.|.+.....|.+|+|
T Consensus        70 ~~~~~~ekf~~~n~~t~Ya~laaL~lAk~~ve~~~~d~A~aqL~~~l~~----t~De~lk~l~~lRLArvq~q~~k~D~A  145 (207)
T COG2976          70 KSIAAAEKFVQANGKTIYAVLAALELAKAEVEANNLDKAEAQLKQALAQ----TKDENLKALAALRLARVQLQQKKADAA  145 (207)
T ss_pred             hhHHHHHHHHhhccccHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHcc----chhHHHHHHHHHHHHHHHHHhhhHHHH
Confidence            44555556654321112222222  344567788888888888766532    222222     2455667788888888


Q ss_pred             HHHHHhCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCC
Q 005329          568 ENMIENMPHQK-DDVVWSTLLRACMVQGDVNCGRHTAEKILELHP  611 (702)
Q Consensus       568 ~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p  611 (702)
                      +..++....+. .......-++.+...|+.++|...|+++++.++
T Consensus       146 L~~L~t~~~~~w~~~~~elrGDill~kg~k~~Ar~ay~kAl~~~~  190 (207)
T COG2976         146 LKTLDTIKEESWAAIVAELRGDILLAKGDKQEARAAYEKALESDA  190 (207)
T ss_pred             HHHHhccccccHHHHHHHHhhhHHHHcCchHHHHHHHHHHHHccC
Confidence            88888776522 122334456678888888888888888888764

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=93.21  E-value=13  Score=39.11  Aligned_cols=129  Identities=14%  Similarity=0.003  Sum_probs=88.8

Q ss_pred             CcchHHHHHHHHHcCCChhHHHHHHHHhhhCCCCCCCHH-HHHHHHHHhhccCCchhhhHHHHHHHHhcCCCchhHHHHH
Q 005329           71 DEISWTTLISGYVKAMDSIEALALFSRVWVEPQMNMDPF-ILSLALKACALNVNVNYGESLHGYTVKTGFVNSVFVGSAL  149 (702)
Q Consensus        71 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  149 (702)
                      +-..|+.+|.---.....+.+..++..++..   -|--. .|.....-=.+.|..+.+.++|++-+. |++.++..|...
T Consensus        44 ~f~~wt~li~~~~~~~~~~~~r~~y~~fL~k---yPl~~gyW~kfA~~E~klg~~~~s~~Vfergv~-aip~SvdlW~~Y  119 (577)
T KOG1258|consen   44 DFDAWTTLIQENDSIEDVDALREVYDIFLSK---YPLCYGYWKKFADYEYKLGNAENSVKVFERGVQ-AIPLSVDLWLSY  119 (577)
T ss_pred             cccchHHHHhccCchhHHHHHHHHHHHHHhh---CccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHH-hhhhHHHHHHHH
Confidence            4445777776544455556677777777744   34433 445555555577888888899988775 456777777776


Q ss_pred             HHhhh-cCCChhHHHHHhccCC------CCCcchHHHHHHHHHhCCChHHHHHHHHHHHHC
Q 005329          150 LDMYT-KLGKIELGCRVFDEMP------LRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRS  203 (702)
Q Consensus       150 i~~~~-~~g~~~~A~~~~~~~~------~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  203 (702)
                      ...+. ..|+.+...+.|+...      -.+...|...|..-..++++.....+|++.++.
T Consensus       120 ~~f~~n~~~d~~~lr~~fe~A~~~vG~dF~S~~lWdkyie~en~qks~k~v~~iyeRilei  180 (577)
T KOG1258|consen  120 LAFLKNNNGDPETLRDLFERAKSYVGLDFLSDPLWDKYIEFENGQKSWKRVANIYERILEI  180 (577)
T ss_pred             HHHHhccCCCHHHHHHHHHHHHHhcccchhccHHHHHHHHHHhccccHHHHHHHHHHHHhh
Confidence            66554 4577777777777654      235567888888888888999999999998774

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=93.16  E-value=0.31  Score=46.34  Aligned_cols=94  Identities=13%  Similarity=0.065  Sum_probs=56.1

Q ss_pred             HHhccCcHHHHHHHHHHhHHhhCCCC-ChhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHH
Q 005329          521 ACSHAGLVDLGFHYFNLMSDKYGFVP-SKEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVN  597 (702)
Q Consensus       521 ~~~~~g~~~~A~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~  597 (702)
                      -|.++|++++|+..|....   .+.| ++.++..-..+|.+..++..|..-.+.+..  +.-...|..-+.+-...|+..
T Consensus       106 ~yFKQgKy~EAIDCYs~~i---a~~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd~~Y~KAYSRR~~AR~~Lg~~~  182 (536)
T KOG4648|consen  106 TYFKQGKYEEAIDCYSTAI---AVYPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALDKLYVKAYSRRMQARESLGNNM  182 (536)
T ss_pred             hhhhccchhHHHHHhhhhh---ccCCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHHHHhhHH
Confidence            3555666666666666544   3345 455555555566666666655555444433  122334555555555667788


Q ss_pred             HHHHHHHHHHHhCCCCchhH
Q 005329          598 CGRHTAEKILELHPSCAGTH  617 (702)
Q Consensus       598 ~A~~~~~~~~~~~p~~~~~~  617 (702)
                      +|.+-++.++++.|++.+.-
T Consensus       183 EAKkD~E~vL~LEP~~~ELk  202 (536)
T KOG4648|consen  183 EAKKDCETVLALEPKNIELK  202 (536)
T ss_pred             HHHHhHHHHHhhCcccHHHH
Confidence            88888888888888765433

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=92.84  E-value=1.6  Score=38.43  Aligned_cols=99  Identities=14%  Similarity=0.068  Sum_probs=60.9

Q ss_pred             HhccCcHHHHHHHHHHhHHhhCCCCC------hhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CCC-HHHHHHHHHHHHhc
Q 005329          522 CSHAGLVDLGFHYFNLMSDKYGFVPS------KEHYGCMIDLLCRAGRLSDAENMIENMPH-QKD-DVVWSTLLRACMVQ  593 (702)
Q Consensus       522 ~~~~g~~~~A~~~~~~~~~~~~~~p~------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~-~~~~~~l~~~~~~~  593 (702)
                      +...|++++|..-|..++..   -|.      ...|..-..++.+.+.++.|+.-..+... .|. ..++..-..+|.+.
T Consensus       105 ~F~ngdyeeA~skY~~Ale~---cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pty~kAl~RRAeayek~  181 (271)
T KOG4234|consen  105 LFKNGDYEEANSKYQEALES---CPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPTYEKALERRAEAYEKM  181 (271)
T ss_pred             hhhcccHHHHHHHHHHHHHh---CccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCchhHHHHHHHHHHHHhh
Confidence            44556666666666665543   222      22333344566677777777776666655 332 22333345567778


Q ss_pred             CCHHHHHHHHHHHHHhCCCCchhHHHHHHH
Q 005329          594 GDVNCGRHTAEKILELHPSCAGTHITLANI  623 (702)
Q Consensus       594 g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~  623 (702)
                      .+++.|++-|+++++.+|.....-...+.+
T Consensus       182 ek~eealeDyKki~E~dPs~~ear~~i~rl  211 (271)
T KOG4234|consen  182 EKYEEALEDYKKILESDPSRREAREAIARL  211 (271)
T ss_pred             hhHHHHHHHHHHHHHhCcchHHHHHHHHhc
Confidence            889999999999999999776555544444

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=92.65  E-value=0.87  Score=38.16  Aligned_cols=53  Identities=17%  Similarity=0.201  Sum_probs=30.1

Q ss_pred             hcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 005329          592 VQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKG  644 (702)
Q Consensus       592 ~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  644 (702)
                      ..++.+.++.++..+.-+.|+.++.-..-++++...|+|.||..++..+.+.+
T Consensus        22 ~~~d~~D~e~lLdALrvLrP~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~~   74 (153)
T TIGR02561        22 RSADPYDAQAMLDALRVLRPNLKELDMFDGWLLIARGNYDEAARILRELLSSA   74 (153)
T ss_pred             hcCCHHHHHHHHHHHHHhCCCccccchhHHHHHHHcCCHHHHHHHHHhhhccC
Confidence            35555555555555555555555555555555555555555555555554433

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=92.60  E-value=0.31  Score=46.33  Aligned_cols=88  Identities=11%  Similarity=0.024  Sum_probs=75.7

Q ss_pred             HHHHHhcCCHHHHHHHHHhCCC-CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHH
Q 005329          555 IDLLCRAGRLSDAENMIENMPH-QK-DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWRE  632 (702)
Q Consensus       555 ~~~~~~~g~~~~A~~~~~~~~~-~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  632 (702)
                      .+-|.++|.+++|++.|.+... .| +++++..-..+|.+...+..|+.-.+.++.++......|..-+.+-...|+..|
T Consensus       104 GN~yFKQgKy~EAIDCYs~~ia~~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd~~Y~KAYSRR~~AR~~Lg~~~E  183 (536)
T KOG4648|consen  104 GNTYFKQGKYEEAIDCYSTAIAVYPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALDKLYVKAYSRRMQARESLGNNME  183 (536)
T ss_pred             hhhhhhccchhHHHHHhhhhhccCCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHHHHhhHHH
Confidence            4568899999999999988776 56 888888889999999999999999999999988778888888888888888888


Q ss_pred             HHHHHHHHHh
Q 005329          633 AAEVRKMMRS  642 (702)
Q Consensus       633 A~~~~~~~~~  642 (702)
                      |.+-.+...+
T Consensus       184 AKkD~E~vL~  193 (536)
T KOG4648|consen  184 AKKDCETVLA  193 (536)
T ss_pred             HHHhHHHHHh
Confidence            8877766654

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=92.44  E-value=0.2  Score=29.95  Aligned_cols=31  Identities=23%  Similarity=0.190  Sum_probs=26.2

Q ss_pred             chhHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 005329          614 AGTHITLANIYAAKGRWREAAEVRKMMRSKG  644 (702)
Q Consensus       614 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  644 (702)
                      +..+..++.+|...|++++|++.+++..+..
T Consensus         1 a~~~~~lg~~~~~~~~~~~A~~~~~~al~l~   31 (34)
T PF07719_consen    1 AEAWYYLGQAYYQLGNYEEAIEYFEKALELD   31 (34)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred             CHHHHHHHHHHHHhCCHHHHHHHHHHHHHHC
Confidence            3578899999999999999999999987643

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=92.10  E-value=4.2  Score=35.96  Aligned_cols=90  Identities=21%  Similarity=0.133  Sum_probs=68.7

Q ss_pred             HHHHHHhcCCHHHHHHHHHhCCCCCCHHHHH-----HHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcC
Q 005329          554 MIDLLCRAGRLSDAENMIENMPHQKDDVVWS-----TLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKG  628 (702)
Q Consensus       554 l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~-----~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  628 (702)
                      +...+...|++++|..-++.....|....+.     .|.......|+++.|...+....+.+= .+.....-++++...|
T Consensus        95 lAk~~ve~~~~d~A~aqL~~~l~~t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~~~w-~~~~~elrGDill~kg  173 (207)
T COG2976          95 LAKAEVEANNLDKAEAQLKQALAQTKDENLKALAALRLARVQLQQKKADAALKTLDTIKEESW-AAIVAELRGDILLAKG  173 (207)
T ss_pred             HHHHHHhhccHHHHHHHHHHHHccchhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhccccccH-HHHHHHHhhhHHHHcC
Confidence            3566889999999999999887755544443     355567789999999988876544221 2334567799999999


Q ss_pred             ChHHHHHHHHHHHhCC
Q 005329          629 RWREAAEVRKMMRSKG  644 (702)
Q Consensus       629 ~~~~A~~~~~~~~~~~  644 (702)
                      +.++|+..|++..+.+
T Consensus       174 ~k~~Ar~ay~kAl~~~  189 (207)
T COG2976         174 DKQEARAAYEKALESD  189 (207)
T ss_pred             chHHHHHHHHHHHHcc
Confidence            9999999999998764

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=92.02  E-value=6.9  Score=33.20  Aligned_cols=45  Identities=7%  Similarity=0.054  Sum_probs=25.5

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhcc
Q 005329          177 WTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADS  222 (702)
Q Consensus       177 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~  222 (702)
                      ...++..+...+.+.....+++.+...+ ..+...++.++..+++.
T Consensus        10 ~~~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~   54 (140)
T smart00299       10 VSEVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKY   54 (140)
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHH
Confidence            4455556655566666666666665554 24455555566555543

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=91.94  E-value=27  Score=39.94  Aligned_cols=112  Identities=14%  Similarity=0.115  Sum_probs=72.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhhCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHH--HHHHHHHHhcc
Q 005329          448 IKSALINMYSKCGSIKEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVT--FMGVLTACSHA  525 (702)
Q Consensus       448 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~--~~~ll~~~~~~  525 (702)
                      .|.+..+.+...+.+++|.-.|+..-+     ..--+.+|...|++.+|+.+..++..   .-+...  -..|..-+...
T Consensus       941 i~~~ya~hL~~~~~~~~Aal~Ye~~Gk-----lekAl~a~~~~~dWr~~l~~a~ql~~---~~de~~~~a~~L~s~L~e~ 1012 (1265)
T KOG1920|consen  941 IYEAYADHLREELMSDEAALMYERCGK-----LEKALKAYKECGDWREALSLAAQLSE---GKDELVILAEELVSRLVEQ 1012 (1265)
T ss_pred             HHHHHHHHHHHhccccHHHHHHHHhcc-----HHHHHHHHHHhccHHHHHHHHHhhcC---CHHHHHHHHHHHHHHHHHc
Confidence            334444445556777777766665432     12245677778888888888777652   223322  24567777788


Q ss_pred             CcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCC
Q 005329          526 GLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPH  576 (702)
Q Consensus       526 g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  576 (702)
                      ++.-+|-++..+...+         ..--+..|++...|++|..+......
T Consensus      1013 ~kh~eAa~il~e~~sd---------~~~av~ll~ka~~~~eAlrva~~~~~ 1054 (1265)
T KOG1920|consen 1013 RKHYEAAKILLEYLSD---------PEEAVALLCKAKEWEEALRVASKAKR 1054 (1265)
T ss_pred             ccchhHHHHHHHHhcC---------HHHHHHHHhhHhHHHHHHHHHHhccc
Confidence            8888888877766532         23446677888889999988877663

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=91.87  E-value=0.27  Score=29.51  Aligned_cols=30  Identities=23%  Similarity=0.218  Sum_probs=26.0

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 005329          615 GTHITLANIYAAKGRWREAAEVRKMMRSKG  644 (702)
Q Consensus       615 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  644 (702)
                      ..|..+|.+|...|++++|+..++++.+..
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~   31 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALELD   31 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHC
Confidence            578999999999999999999999988743

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....

>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=91.74  E-value=7.7  Score=33.80  Aligned_cols=136  Identities=12%  Similarity=0.020  Sum_probs=83.4

Q ss_pred             HHHHHHHHHCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhhhCCChHHHHHHHhccCCC
Q 005329          194 LIYFAEMWRSKEQGDSYTFAIVLKASADSGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMSTR  273 (702)
Q Consensus       194 ~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  273 (702)
                      .+.++.+.+.+++|+...+..+++.+.+.|++...    ..++..++-+|.......+-.+..  ....+.++=-+|..+
T Consensus        14 lEYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L----~qllq~~Vi~DSk~lA~~LLs~~~--~~~~~~Ql~lDMLkR   87 (167)
T PF07035_consen   14 LEYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQL----HQLLQYHVIPDSKPLACQLLSLGN--QYPPAYQLGLDMLKR   87 (167)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHH----HHHHhhcccCCcHHHHHHHHHhHc--cChHHHHHHHHHHHH
Confidence            35566667788899999999999999988886544    444555655665544444333322  223333333333322


Q ss_pred             CcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCchHHHHHHHHHHHHh
Q 005329          274 DVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRL  339 (702)
Q Consensus       274 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~  339 (702)
                      =...+..++..+...|++-+|+++.+.....    +......++.+..+.+|...--.+++.....
T Consensus        88 L~~~~~~iievLL~~g~vl~ALr~ar~~~~~----~~~~~~~fLeAA~~~~D~~lf~~V~~ff~~~  149 (167)
T PF07035_consen   88 LGTAYEEIIEVLLSKGQVLEALRYARQYHKV----DSVPARKFLEAAANSNDDQLFYAVFRFFEER  149 (167)
T ss_pred             hhhhHHHHHHHHHhCCCHHHHHHHHHHcCCc----ccCCHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            2235677788888999999999988775332    2233355667777777666555555555543

>PRK11619 lytic murein transglycosylase; Provisional

Probab=91.42  E-value=26  Score=38.59  Aligned_cols=93  Identities=8%  Similarity=-0.117  Sum_probs=58.6

Q ss_pred             HHHHHhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC---CCCchhHHHHHHHHHhcCChH
Q 005329          555 IDLLCRAGRLSDAENMIENMPHQKDDVVWSTLLRACMVQGDVNCGRHTAEKILELH---PSCAGTHITLANIYAAKGRWR  631 (702)
Q Consensus       555 ~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---p~~~~~~~~l~~~~~~~g~~~  631 (702)
                      +..+...|...+|...+..+....+......+.......|.++.++....+....+   -..+..|...+..+.+.-..+
T Consensus       414 a~~L~~~g~~~~a~~ew~~~~~~~~~~~~~~la~~A~~~g~~~~ai~~~~~~~~~~~~~~rfp~~~~~~~~~~a~~~~v~  493 (644)
T PRK11619        414 VRELMYWNMDNTARSEWANLVASRSKTEQAQLARYAFNQQWWDLSVQATIAGKLWDHLEERFPLAWNDEFRRYTSGKGIP  493 (644)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCHHHHHHHHhhchhHHHHHHhCCcchHHHHHHHHHHcCCC
Confidence            45567789999999888887776666666777777778899888888776554321   112334555666666655666


Q ss_pred             HHHHHHHHHHhCCCcc
Q 005329          632 EAAEVRKMMRSKGVIK  647 (702)
Q Consensus       632 ~A~~~~~~~~~~~~~~  647 (702)
                      .+.-+--.-.+.+..+
T Consensus       494 ~~lv~ai~rqES~f~p  509 (644)
T PRK11619        494 QSYAMAIARQESAWNP  509 (644)
T ss_pred             HHHHHHHHHHhcCCCC
Confidence            6554322223444444

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=91.38  E-value=1.1  Score=43.31  Aligned_cols=164  Identities=13%  Similarity=-0.008  Sum_probs=109.9

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHchhC--CCCC---CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC---hhh
Q 005329          479 SWTAMINGYAEHGYSQEAIHLFEKVPMV--GLRP---DSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS---KEH  550 (702)
Q Consensus       479 ~~~~li~~~~~~g~~~~A~~~~~~m~~~--g~~p---~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~---~~~  550 (702)
                      ++..+..+.+..|++++++..--.-++.  ....   -...|..+.+++.+..++.+++.+-+.-....|..|.   ...
T Consensus        45 ~lG~l~~a~s~~g~y~~mL~~a~sqi~~a~~~~ds~~~~ea~lnlar~~e~l~~f~kt~~y~k~~l~lpgt~~~~~~gq~  124 (518)
T KOG1941|consen   45 VLGCLVTAHSEMGRYKEMLKFAVSQIDTARELEDSDFLLEAYLNLARSNEKLCEFHKTISYCKTCLGLPGTRAGQLGGQV  124 (518)
T ss_pred             HhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHhcCCCCCcccccchh
Confidence            4555666666667666665432111110  0011   1135666777777777777777777665544454452   233


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhCCC------CC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCC----CC-----
Q 005329          551 YGCMIDLLCRAGRLSDAENMIENMPH------QK--DDVVWSTLLRACMVQGDVNCGRHTAEKILELHP----SC-----  613 (702)
Q Consensus       551 ~~~l~~~~~~~g~~~~A~~~~~~~~~------~p--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p----~~-----  613 (702)
                      ...|..++.-.+.++++++.|+.+..      .|  .-.++-.|...|....|+++|.-...++.++-.    ++     
T Consensus       125 ~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~ky  204 (518)
T KOG1941|consen  125 SLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLKY  204 (518)
T ss_pred             hhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHHH
Confidence            44577788888899999999988765      12  234778899999999999999999999988631    22     


Q ss_pred             -chhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 005329          614 -AGTHITLANIYAAKGRWREAAEVRKMMRS  642 (702)
Q Consensus       614 -~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  642 (702)
                       ....++++-+|..+|+.-+|.+.-++..+
T Consensus       205 r~~~lyhmaValR~~G~LgdA~e~C~Ea~k  234 (518)
T KOG1941|consen  205 RAMSLYHMAVALRLLGRLGDAMECCEEAMK  234 (518)
T ss_pred             HHHHHHHHHHHHHHhcccccHHHHHHHHHH
Confidence             34567788899999999999998887765

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=91.14  E-value=0.49  Score=27.94  Aligned_cols=27  Identities=19%  Similarity=0.281  Sum_probs=14.0

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHhCCC
Q 005329          586 LLRACMVQGDVNCGRHTAEKILELHPS  612 (702)
Q Consensus       586 l~~~~~~~g~~~~A~~~~~~~~~~~p~  612 (702)
                      ++.++...|++++|.+.++++++..|+
T Consensus         6 ~a~~~~~~g~~~~A~~~~~~~~~~~P~   32 (33)
T PF13174_consen    6 LARCYYKLGDYDEAIEYFQRLIKRYPD   32 (33)
T ss_dssp             HHHHHHHHCHHHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHccCHHHHHHHHHHHHHHCcC
Confidence            444444555555555555555555553

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=90.86  E-value=13  Score=36.21  Aligned_cols=133  Identities=12%  Similarity=0.140  Sum_probs=72.7

Q ss_pred             hHHHHHHHHHHHCCCCCChhhHHHHHHHHHc--cC----chHHHHHHHHHHHHhCC---CCchHHHHHHHHHHHhcCCHH
Q 005329          292 ENAFDAFVRMQESDVKPNEYTFAAIISASAN--LA----RIQWGEQLHAHVLRLGL---VDSLSVANSIMAMYSKCGQLT  362 (702)
Q Consensus       292 ~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~--~~----~~~~a~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~  362 (702)
                      ++.+.+++.|.+.|++-+..+|.+.......  ..    ....+..+|+.|++.-.   .++..++..++..  ..++.+
T Consensus        79 ~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~e  156 (297)
T PF13170_consen   79 KEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDVE  156 (297)
T ss_pred             HHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccHH
Confidence            4566788888999988888777653333222  22    24566777777776532   2222333333221  111111


Q ss_pred             HHHHHHhcCCCCChhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHH--HHHHHHHHHcccCc--HHHHHHHHHHHH
Q 005329          363 STSIVFHGMIRRDIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEF--AFASVLSVCGNMAI--LEQGKQIHAHVM  438 (702)
Q Consensus       363 ~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~--~~~~ll~~~~~~~~--~~~a~~~~~~~~  438 (702)
                      .                           -.+.+..+|+.+.+.|+..+..  ....++..+.....  ...+..+++.+.
T Consensus       157 ~---------------------------l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~  209 (297)
T PF13170_consen  157 E---------------------------LAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALK  209 (297)
T ss_pred             H---------------------------HHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHH
Confidence            1                           1245666777777767655433  33333333332222  346667788888


Q ss_pred             HhCCCCChhHHHHHH
Q 005329          439 SIGLERTAMIKSALI  453 (702)
Q Consensus       439 ~~~~~~~~~~~~~li  453 (702)
                      +.|+++....|..+.
T Consensus       210 ~~~~kik~~~yp~lG  224 (297)
T PF13170_consen  210 KNGVKIKYMHYPTLG  224 (297)
T ss_pred             HcCCccccccccHHH
Confidence            888887777766544

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=90.83  E-value=10  Score=32.86  Aligned_cols=119  Identities=16%  Similarity=0.158  Sum_probs=82.5

Q ss_pred             HHHcCChHHHHHHHHHchhCCCCCCHH-HHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHH-----HHHHHh
Q 005329          487 YAEHGYSQEAIHLFEKVPMVGLRPDSV-TFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCM-----IDLLCR  560 (702)
Q Consensus       487 ~~~~g~~~~A~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l-----~~~~~~  560 (702)
                      +.+.+..++|+.-|..+.+.|...-+. ............|+...|...|+++-..   .|.+.....+     ..++..
T Consensus        68 lA~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~d---t~~P~~~rd~ARlraa~lLvD  144 (221)
T COG4649          68 LAQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAAD---TSIPQIGRDLARLRAAYLLVD  144 (221)
T ss_pred             HHHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhcc---CCCcchhhHHHHHHHHHHHhc
Confidence            456788899999998888877544332 2222333456788999999999988644   3433333222     234677


Q ss_pred             cCCHHHHHHHHHhCCCC--C-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 005329          561 AGRLSDAENMIENMPHQ--K-DDVVWSTLLRACMVQGDVNCGRHTAEKILE  608 (702)
Q Consensus       561 ~g~~~~A~~~~~~~~~~--p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  608 (702)
                      .|.+++...-.+-+..+  | ....-..|.-+-.+.|++..|...|+.+..
T Consensus       145 ~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~  195 (221)
T COG4649         145 NGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAN  195 (221)
T ss_pred             cccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHc
Confidence            88999888888777663  2 234556777788899999999999998876

>PRK10941 hypothetical protein; Provisional

Probab=90.76  E-value=2.4  Score=40.48  Aligned_cols=63  Identities=17%  Similarity=0.093  Sum_probs=57.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 005329          582 VWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKG  644 (702)
Q Consensus       582 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  644 (702)
                      ..+.+-.+|.+.++++.|.++.+.++.+.|+++.-+.-.|.+|.+.|.+..|..=++...+..
T Consensus       183 ml~nLK~~~~~~~~~~~AL~~~e~ll~l~P~dp~e~RDRGll~~qL~c~~~A~~DL~~fl~~~  245 (269)
T PRK10941        183 LLDTLKAALMEEKQMELALRASEALLQFDPEDPYEIRDRGLIYAQLDCEHVALSDLSYFVEQC  245 (269)
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHHHhC
Confidence            446677788999999999999999999999999999999999999999999999998887754

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=90.69  E-value=1.3  Score=42.04  Aligned_cols=62  Identities=19%  Similarity=0.295  Sum_probs=45.9

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 005329          581 VVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRS  642 (702)
Q Consensus       581 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  642 (702)
                      .++..++..+...|+.+.+.+.++++++.+|-+...|..+..+|.+.|+...|+..|+.+.+
T Consensus       154 ~~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~  215 (280)
T COG3629         154 KALTKLAEALIACGRADAVIEHLERLIELDPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKK  215 (280)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCchHHHHHHHHHHH
Confidence            35555666677777777777777777777777777777777777777777777777777655

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=90.59  E-value=14  Score=34.06  Aligned_cols=54  Identities=19%  Similarity=0.115  Sum_probs=26.7

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHchhCC---CCCCHHHHHHHHHHHhccCcHHHHHHH
Q 005329          480 WTAMINGYAEHGYSQEAIHLFEKVPMVG---LRPDSVTFMGVLTACSHAGLVDLGFHY  534 (702)
Q Consensus       480 ~~~li~~~~~~g~~~~A~~~~~~m~~~g---~~p~~~~~~~ll~~~~~~g~~~~A~~~  534 (702)
                      |.+.|-.+....++..|...++.-.+.+   -+-+..+...|+.+| ..|+.+++..+
T Consensus       193 ~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ay-d~gD~E~~~kv  249 (308)
T KOG1585|consen  193 YVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAY-DEGDIEEIKKV  249 (308)
T ss_pred             HHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHh-ccCCHHHHHHH
Confidence            4444455555566666666666533221   112334555566555 34555554443

>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=90.11  E-value=11  Score=32.76  Aligned_cols=133  Identities=8%  Similarity=0.032  Sum_probs=72.7

Q ss_pred             HHHHHHHHHCCCCCChhhHHHHHHHHHccCchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcC--CHHHHHHHHhcCC
Q 005329          295 FDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCG--QLTSTSIVFHGMI  372 (702)
Q Consensus       295 ~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~~~a~~~~~~~~  372 (702)
                      .+.++.+.+.|++|+...+..++..+.+.|.+....    .+...++-+|.......+-.+....  -.+-+.+.+.++.
T Consensus        14 lEYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~----qllq~~Vi~DSk~lA~~LLs~~~~~~~~~Ql~lDMLkRL~   89 (167)
T PF07035_consen   14 LEYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLH----QLLQYHVIPDSKPLACQLLSLGNQYPPAYQLGLDMLKRLG   89 (167)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHH----HHHhhcccCCcHHHHHHHHHhHccChHHHHHHHHHHHHhh
Confidence            345566667778888888888888888877765433    3344455444443333322222111  1233344444432


Q ss_pred             CCChhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHH
Q 005329          373 RRDIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMS  439 (702)
Q Consensus       373 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  439 (702)
                          ..+..++..+...|++-+|+++.+.....    +......++.+....++...--.++.....
T Consensus        90 ----~~~~~iievLL~~g~vl~ALr~ar~~~~~----~~~~~~~fLeAA~~~~D~~lf~~V~~ff~~  148 (167)
T PF07035_consen   90 ----TAYEEIIEVLLSKGQVLEALRYARQYHKV----DSVPARKFLEAAANSNDDQLFYAVFRFFEE  148 (167)
T ss_pred             ----hhHHHHHHHHHhCCCHHHHHHHHHHcCCc----ccCCHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence                24556677788888888888888765222    112223455555555555554444444443

>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=90.09  E-value=7  Score=34.73  Aligned_cols=98  Identities=10%  Similarity=0.030  Sum_probs=52.5

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCH--HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHH--H
Q 005329          479 SWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDS--VTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGC--M  554 (702)
Q Consensus       479 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~--l  554 (702)
                      .+..+..-|.+.|+.+.|++.|.++.+....|..  ..+-.++..+...+++..+.....++........|...-+.  .
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk~  117 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLKV  117 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHHH
Confidence            4555666667777777777777776665444433  24455666666667777666666655432111111111111  1


Q ss_pred             --HHHHHhcCCHHHHHHHHHhCCC
Q 005329          555 --IDLLCRAGRLSDAENMIENMPH  576 (702)
Q Consensus       555 --~~~~~~~g~~~~A~~~~~~~~~  576 (702)
                        +-.+...|++.+|-+.|-+...
T Consensus       118 ~~gL~~l~~r~f~~AA~~fl~~~~  141 (177)
T PF10602_consen  118 YEGLANLAQRDFKEAAELFLDSLS  141 (177)
T ss_pred             HHHHHHHHhchHHHHHHHHHccCc
Confidence              1123456777777777666544

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.

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=89.88  E-value=18  Score=34.29  Aligned_cols=61  Identities=18%  Similarity=0.150  Sum_probs=53.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 005329          582 VWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRS  642 (702)
Q Consensus       582 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  642 (702)
                      ++......|...|.+.+|.++-++++.++|-+...+..|..+|...|+--+|...++++.+
T Consensus       281 llgkva~~yle~g~~neAi~l~qr~ltldpL~e~~nk~lm~~la~~gD~is~~khyerya~  341 (361)
T COG3947         281 LLGKVARAYLEAGKPNEAIQLHQRALTLDPLSEQDNKGLMASLATLGDEISAIKHYERYAE  341 (361)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHhhcChhhhHHHHHHHHHHHHhccchhhhhHHHHHHH
Confidence            3445566788999999999999999999999999999999999999999888888887754

>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A

Probab=89.81  E-value=0.72  Score=27.52  Aligned_cols=29  Identities=24%  Similarity=0.256  Sum_probs=26.1

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 005329          615 GTHITLANIYAAKGRWREAAEVRKMMRSK  643 (702)
Q Consensus       615 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  643 (702)
                      .+|..++.+|...|++++|...+++..+.
T Consensus         2 ~~~~~lg~~y~~~~~~~~A~~~~~~a~~~   30 (34)
T PF13181_consen    2 EAYYNLGKIYEQLGDYEEALEYFEKALEL   30 (34)
T ss_dssp             HHHHHHHHHHHHTTSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            47889999999999999999999998763

...

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=89.79  E-value=6.6  Score=38.25  Aligned_cols=126  Identities=11%  Similarity=0.167  Sum_probs=65.4

Q ss_pred             hHHHHHHHHHHHHCCCCCChhhHHHHHHHHhc--cC----ChHHHHHHHHHHHHhCC---CCchhHHHHHHHHhhhCCCh
Q 005329          190 NKEGLIYFAEMWRSKEQGDSYTFAIVLKASAD--SG----ALNFGREIHTIMLKRGF---DVVSFVANSLATMYSKCGKL  260 (702)
Q Consensus       190 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~--~~----~~~~a~~~~~~~~~~~~---~~~~~~~~~li~~~~~~g~~  260 (702)
                      +++.+.+++.|.+.|++-+..+|.+..-....  ..    ....+..+|+.|++...   .++...+..|+..  ..++.
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            34566788888888888888777664333322  22    24568888888888643   2344455555433  23332


Q ss_pred             ----HHHHHHHhccCC-----CCcchHHHHHHHHHhc-CC--hhHHHHHHHHHHHCCCCCChhhHHHHH
Q 005329          261 ----DYSLRLFERMST-----RDVISWTTIITSYVQM-GE--EENAFDAFVRMQESDVKPNEYTFAAII  317 (702)
Q Consensus       261 ----~~A~~~~~~~~~-----~~~~~~~~li~~~~~~-g~--~~~a~~~~~~m~~~g~~p~~~t~~~ll  317 (702)
                          +.++.+|+.+.+     .|..-+-+-+-++... ..  ..++.++++.+.+.|+++....|..+.
T Consensus       156 e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lG  224 (297)
T PF13170_consen  156 EELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLG  224 (297)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHH
Confidence                233344443332     1222222222222211 11  335666666677777666666655443

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=89.75  E-value=34  Score=37.27  Aligned_cols=39  Identities=13%  Similarity=0.258  Sum_probs=24.5

Q ss_pred             HhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 005329          559 CRAGRLSDAENMIENMPHQKDDVVWSTLLRACMVQGDVNCGR  600 (702)
Q Consensus       559 ~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~  600 (702)
                      .+.++.++|.++..+   +.|...|..|+..+...-.+-.++
T Consensus       672 ~el~die~AIefvKe---q~D~eLWe~LI~~~ldkPe~~~~l  710 (846)
T KOG2066|consen  672 NELRDIEKAIEFVKE---QDDSELWEDLINYSLDKPEFIKAL  710 (846)
T ss_pred             HHhhCHHHHHHHHHh---cCCHHHHHHHHHHhhcCcHHHHHH
Confidence            344555556555544   568888888888876655544444

>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins

Probab=89.62  E-value=0.75  Score=39.95  Aligned_cols=33  Identities=18%  Similarity=0.269  Sum_probs=19.6

Q ss_pred             HHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcC
Q 005329          596 VNCGRHTAEKILELHPSCAGTHITLANIYAAKG  628 (702)
Q Consensus       596 ~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  628 (702)
                      +++|+.-|++++.++|+...++.+++.+|...|
T Consensus        51 iedAisK~eeAL~I~P~~hdAlw~lGnA~ts~A   83 (186)
T PF06552_consen   51 IEDAISKFEEALKINPNKHDALWCLGNAYTSLA   83 (186)
T ss_dssp             HHHHHHHHHHHHHH-TT-HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHH
Confidence            345556666666666766666666666666554

Most mitochondrial proteins are encoded by the nuclear genome, and are synthesised in the cytosol. TOM20 is a general import receptor that binds to mitochondrial pre-sequences in the early step of protein import into the mitochondria [].; GO: 0045040 protein import into mitochondrial outer membrane, 0005742 mitochondrial outer membrane translocase complex; PDB: 1ZU2_A.

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=89.41  E-value=9.5  Score=33.00  Aligned_cols=128  Identities=12%  Similarity=0.068  Sum_probs=87.2

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CCCHHHHH-----H
Q 005329          513 VTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH-QKDDVVWS-----T  585 (702)
Q Consensus       513 ~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~~~~~~-----~  585 (702)
                      ..|...++ +.+.++.++|+.-|..+.+. |...- .-..-.+.......|+...|...|+++.. .|.+....     .
T Consensus        60 d~flaAL~-lA~~~k~d~Alaaf~~lekt-g~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlr  137 (221)
T COG4649          60 DAFLAALK-LAQENKTDDALAAFTDLEKT-GYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLR  137 (221)
T ss_pred             HHHHHHHH-HHHcCCchHHHHHHHHHHhc-CCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHH
Confidence            44544443 45678889999999998654 44322 11222344567789999999999999877 33333332     2


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHh-CCCCchhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 005329          586 LLRACMVQGDVNCGRHTAEKILEL-HPSCAGTHITLANIYAAKGRWREAAEVRKMMRS  642 (702)
Q Consensus       586 l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  642 (702)
                      -...+...|-++......+.+-.- +|-....-..|+.+-.+.|++.+|...|+.+..
T Consensus       138 aa~lLvD~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~  195 (221)
T COG4649         138 AAYLLVDNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAN  195 (221)
T ss_pred             HHHHHhccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHc
Confidence            233456888888877766654332 344456667899999999999999999998765

>PRK09687 putative lyase; Provisional

Probab=89.39  E-value=22  Score=34.49  Aligned_cols=134  Identities=12%  Similarity=-0.100  Sum_probs=60.8

Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccC-cHHHHHHHHHHhHHhhCCCCChhhHHHH
Q 005329          476 DIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAG-LVDLGFHYFNLMSDKYGFVPSKEHYGCM  554 (702)
Q Consensus       476 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g-~~~~A~~~~~~~~~~~~~~p~~~~~~~l  554 (702)
                      +...-...+.++.+.++ .+++..+-.+.+   .+|...-...+.++...+ ....+...+..+..    .++..+-..-
T Consensus       141 ~~~VR~~a~~aLg~~~~-~~ai~~L~~~L~---d~~~~VR~~A~~aLg~~~~~~~~~~~~L~~~L~----D~~~~VR~~A  212 (280)
T PRK09687        141 STNVRFAVAFALSVIND-EAAIPLLINLLK---DPNGDVRNWAAFALNSNKYDNPDIREAFVAMLQ----DKNEEIRIEA  212 (280)
T ss_pred             CHHHHHHHHHHHhccCC-HHHHHHHHHHhc---CCCHHHHHHHHHHHhcCCCCCHHHHHHHHHHhc----CCChHHHHHH
Confidence            33344444444544443 344444444443   233333333344443332 12234444444332    3344455555


Q ss_pred             HHHHHhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHH
Q 005329          555 IDLLCRAGRLSDAENMIENMPHQKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLAN  622 (702)
Q Consensus       555 ~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~  622 (702)
                      +.++.+.|+ ..|+..+-+....++  .....+.++...|+. +|+..+.++.+.+| |..+-....+
T Consensus       213 ~~aLg~~~~-~~av~~Li~~L~~~~--~~~~a~~ALg~ig~~-~a~p~L~~l~~~~~-d~~v~~~a~~  275 (280)
T PRK09687        213 IIGLALRKD-KRVLSVLIKELKKGT--VGDLIIEAAGELGDK-TLLPVLDTLLYKFD-DNEIITKAID  275 (280)
T ss_pred             HHHHHccCC-hhHHHHHHHHHcCCc--hHHHHHHHHHhcCCH-hHHHHHHHHHhhCC-ChhHHHHHHH
Confidence            556666555 344444444443333  223455555555653 56666666666555 4444333333

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=89.32  E-value=0.46  Score=28.07  Aligned_cols=29  Identities=24%  Similarity=0.233  Sum_probs=25.9

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 005329          616 THITLANIYAAKGRWREAAEVRKMMRSKG  644 (702)
Q Consensus       616 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  644 (702)
                      ++..++.++.+.|++++|.+.++++.+.-
T Consensus         2 a~~~~a~~~~~~g~~~~A~~~~~~~~~~~   30 (33)
T PF13174_consen    2 ALYRLARCYYKLGDYDEAIEYFQRLIKRY   30 (33)
T ss_dssp             HHHHHHHHHHHHCHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHHC
Confidence            56789999999999999999999998754

>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=89.23  E-value=22  Score=34.43  Aligned_cols=21  Identities=14%  Similarity=0.042  Sum_probs=14.9

Q ss_pred             HHHHHhcCChHHHHHHHHHHH
Q 005329          621 ANIYAAKGRWREAAEVRKMMR  641 (702)
Q Consensus       621 ~~~~~~~g~~~~A~~~~~~~~  641 (702)
                      +....+.++|++|.++++-..
T Consensus       253 ~~~~~~~k~y~~A~~w~~~al  273 (278)
T PF08631_consen  253 GKKHYKAKNYDEAIEWYELAL  273 (278)
T ss_pred             HHHHHhhcCHHHHHHHHHHHH
Confidence            445667788888888887543

It is also involved in sporulation [].

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=89.15  E-value=0.66  Score=29.26  Aligned_cols=28  Identities=36%  Similarity=0.449  Sum_probs=23.3

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 005329          615 GTHITLANIYAAKGRWREAAEVRKMMRS  642 (702)
Q Consensus       615 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~  642 (702)
                      .++..|+.+|...|++++|..+++++.+
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~al~   30 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEALE   30 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence            4678899999999999999999988865

>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=88.92  E-value=23  Score=34.28  Aligned_cols=17  Identities=6%  Similarity=-0.206  Sum_probs=9.7

Q ss_pred             HHhcCCHHHHHHHHHHH
Q 005329          590 CMVQGDVNCGRHTAEKI  606 (702)
Q Consensus       590 ~~~~g~~~~A~~~~~~~  606 (702)
                      +.+.++++.|.+.|+-+
T Consensus       256 ~~~~k~y~~A~~w~~~a  272 (278)
T PF08631_consen  256 HYKAKNYDEAIEWYELA  272 (278)
T ss_pred             HHhhcCHHHHHHHHHHH
Confidence            34556666666666543

It is also involved in sporulation [].

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=88.89  E-value=6.3  Score=39.77  Aligned_cols=94  Identities=16%  Similarity=0.075  Sum_probs=45.9

Q ss_pred             HHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHH
Q 005329          558 LCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAE  635 (702)
Q Consensus       558 ~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~  635 (702)
                      +...|+++.+...+.....  .....+...++......|+++.|....+.++...-++++....-+-.-...|-++++..
T Consensus       333 ~~~lg~ye~~~~~~s~~~~~~~s~~~~~~~~~r~~~~l~r~~~a~s~a~~~l~~eie~~ei~~iaa~sa~~l~~~d~~~~  412 (831)
T PRK15180        333 FSHLGYYEQAYQDISDVEKIIGTTDSTLRCRLRSLHGLARWREALSTAEMMLSNEIEDEEVLTVAAGSADALQLFDKSYH  412 (831)
T ss_pred             HHHhhhHHHHHHHhhchhhhhcCCchHHHHHHHhhhchhhHHHHHHHHHHHhccccCChhheeeecccHHHHhHHHHHHH
Confidence            3444555555555444333  22333444555555555555555555555555544444444444444444455555555


Q ss_pred             HHHHHHhCCCccCCee
Q 005329          636 VRKMMRSKGVIKEPGW  651 (702)
Q Consensus       636 ~~~~~~~~~~~~~~~~  651 (702)
                      .|+++.....+...||
T Consensus       413 ~wk~~~~~~~~~~~g~  428 (831)
T PRK15180        413 YWKRVLLLNPETQSGW  428 (831)
T ss_pred             HHHHHhccCChhcccc
Confidence            5555554444444443

>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=88.80  E-value=12  Score=30.78  Aligned_cols=140  Identities=11%  Similarity=0.134  Sum_probs=74.7

Q ss_pred             HHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHH
Q 005329          285 YVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTST  364 (702)
Q Consensus       285 ~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  364 (702)
                      ..-.|..++..++..+....   .+..-++.++.-....-+   ..-+++.+.+.|--.|..          .+|++...
T Consensus        12 ~ildG~V~qGveii~k~v~S---sni~E~NWvICNiiDaa~---C~yvv~~LdsIGkiFDis----------~C~NlKrV   75 (161)
T PF09205_consen   12 RILDGDVKQGVEIIEKTVNS---SNIKEYNWVICNIIDAAD---CDYVVETLDSIGKIFDIS----------KCGNLKRV   75 (161)
T ss_dssp             HHHTT-HHHHHHHHHHHHHH---S-HHHHTHHHHHHHHH-----HHHHHHHHHHHGGGS-GG----------G-S-THHH
T ss_pred             HHHhchHHHHHHHHHHHcCc---CCccccceeeeecchhhc---hhHHHHHHHHHhhhcCch----------hhcchHHH
Confidence            34467777777777777654   244445555544333222   333344444444333322          22333333


Q ss_pred             HHHHhcCCCCChhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCC
Q 005329          365 SIVFHGMIRRDIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGL  442 (702)
Q Consensus       365 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  442 (702)
                      ...+-.+.. +......-+..+.++|+-++-.+++.++.+. -.+++.....+..+|.+.|+..++.+++.++-+.|+
T Consensus        76 i~C~~~~n~-~se~vD~ALd~lv~~~kkDqLdki~~~l~kn-~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~  151 (161)
T PF09205_consen   76 IECYAKRNK-LSEYVDLALDILVKQGKKDQLDKIYNELKKN-EEINPEFLVKIANAYKKLGNTREANELLKEACEKGL  151 (161)
T ss_dssp             HHHHHHTT----HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-
T ss_pred             HHHHHHhcc-hHHHHHHHHHHHHHhccHHHHHHHHHHHhhc-cCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhch
Confidence            333322211 2233455667778888888888888888653 467777778888899999999999888888877774

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF07721 TPR_4: Tetratricopeptide repeat; InterPro: IPR011717 This entry includes tetratricopeptide-like repeats not detected by the IPR001440 from INTERPRO, IPR013105 from INTERPRO and IPR011716 from INTERPRO models

Probab=88.79  E-value=0.65  Score=25.84  Aligned_cols=24  Identities=25%  Similarity=0.306  Sum_probs=18.3

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHH
Q 005329          615 GTHITLANIYAAKGRWREAAEVRK  638 (702)
Q Consensus       615 ~~~~~l~~~~~~~g~~~~A~~~~~  638 (702)
                      .....++.++...|++++|..+++
T Consensus         2 ~a~~~la~~~~~~G~~~eA~~~l~   25 (26)
T PF07721_consen    2 RARLALARALLAQGDPDEAERLLR   25 (26)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHh
Confidence            456678888888888888887765

The tetratricopeptide repeat (TPR) motif is a protein-protein interaction module found in multiple copies in a number of functionally different proteins that facilitates specific interactions with a partner protein(s) [].; GO: 0042802 identical protein binding

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=88.76  E-value=3.6  Score=39.16  Aligned_cols=79  Identities=13%  Similarity=0.222  Sum_probs=53.0

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHH----hhCCCCChhhHHH
Q 005329          478 VSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSD----KYGFVPSKEHYGC  553 (702)
Q Consensus       478 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~----~~~~~p~~~~~~~  553 (702)
                      .++..++..+...|+++.+.+.++++.... +-+...|..++.+|.+.|+...|+..|+.+.+    ..|+.|...+...
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            345566777777777777777777777643 44667777777777777777777777776644    2366776665554


Q ss_pred             HHHH
Q 005329          554 MIDL  557 (702)
Q Consensus       554 l~~~  557 (702)
                      +...
T Consensus       233 y~~~  236 (280)
T COG3629         233 YEEI  236 (280)
T ss_pred             HHHH
Confidence            4444

>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=88.50  E-value=8.8  Score=34.12  Aligned_cols=61  Identities=15%  Similarity=0.086  Sum_probs=32.4

Q ss_pred             hHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHH--HHHHHHHHHcccCcHHHHHHHHHHHH
Q 005329          378 SWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEF--AFASVLSVCGNMAILEQGKQIHAHVM  438 (702)
Q Consensus       378 ~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~--~~~~ll~~~~~~~~~~~a~~~~~~~~  438 (702)
                      .+..+...|.+.|+.++|++.|.++.+....+...  .+-.++..+...+++..+......+.
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~  100 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAE  100 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            34555666666666666666666665543333222  33444555555555555555544443

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.

>PRK09687 putative lyase; Provisional

Probab=88.36  E-value=25  Score=34.00  Aligned_cols=137  Identities=9%  Similarity=-0.005  Sum_probs=69.8

Q ss_pred             CCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhccC-ChHHHHHHHHHHHHhCCCCchhHHHHH
Q 005329          172 RNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSG-ALNFGREIHTIMLKRGFDVVSFVANSL  250 (702)
Q Consensus       172 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l  250 (702)
                      ++...--..+.++.+.++ ..++..+-.+.+   .+|...-...+.++...+ +...+...+..+..   .++..+...-
T Consensus       140 ~~~~VR~~a~~aLg~~~~-~~ai~~L~~~L~---d~~~~VR~~A~~aLg~~~~~~~~~~~~L~~~L~---D~~~~VR~~A  212 (280)
T PRK09687        140 KSTNVRFAVAFALSVIND-EAAIPLLINLLK---DPNGDVRNWAAFALNSNKYDNPDIREAFVAMLQ---DKNEEIRIEA  212 (280)
T ss_pred             CCHHHHHHHHHHHhccCC-HHHHHHHHHHhc---CCCHHHHHHHHHHHhcCCCCCHHHHHHHHHHhc---CCChHHHHHH
Confidence            344444455555555554 345555555544   233334444444444432 12344444444442   4556666666


Q ss_pred             HHHhhhCCChHHHHHHHhccCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHH
Q 005329          251 ATMYSKCGKLDYSLRLFERMSTRDVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISAS  320 (702)
Q Consensus       251 i~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~  320 (702)
                      +.++.+.|+......+.+.+..++  ..-..+.++...|+. +|+..+..+.+.  .||...-...+.++
T Consensus       213 ~~aLg~~~~~~av~~Li~~L~~~~--~~~~a~~ALg~ig~~-~a~p~L~~l~~~--~~d~~v~~~a~~a~  277 (280)
T PRK09687        213 IIGLALRKDKRVLSVLIKELKKGT--VGDLIIEAAGELGDK-TLLPVLDTLLYK--FDDNEIITKAIDKL  277 (280)
T ss_pred             HHHHHccCChhHHHHHHHHHcCCc--hHHHHHHHHHhcCCH-hHHHHHHHHHhh--CCChhHHHHHHHHH
Confidence            777777776544444444444433  233456666666764 567777766653  24555444444433

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=88.33  E-value=42  Score=36.41  Aligned_cols=148  Identities=13%  Similarity=0.116  Sum_probs=85.3

Q ss_pred             CChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHH---Hh----cCC
Q 005329          491 GYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLL---CR----AGR  563 (702)
Q Consensus       491 g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~---~~----~g~  563 (702)
                      .+...|..++++..+.| .|-..--...+..+.. +.++.+.-.+..+.+. |.+.....-..+....   ..    ..+
T Consensus       378 r~~~~A~~~~k~aA~~g-~~~A~~~~~~~~~~g~-~~~~~~~~~~~~~a~~-g~~~~q~~a~~l~~~~~~~~~~~~~~~~  454 (552)
T KOG1550|consen  378 RNLELAFAYYKKAAEKG-NPSAAYLLGAFYEYGV-GRYDTALALYLYLAEL-GYEVAQSNAAYLLDQSEEDLFSRGVIST  454 (552)
T ss_pred             CCHHHHHHHHHHHHHcc-ChhhHHHHHHHHHHcc-ccccHHHHHHHHHHHh-hhhHHhhHHHHHHHhccccccccccccc
Confidence            35677777777777766 3332222222333333 5555555555444332 3222111111111111   11    225


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhc----CCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhc-C--ChHHHHHH
Q 005329          564 LSDAENMIENMPHQKDDVVWSTLLRACMVQ----GDVNCGRHTAEKILELHPSCAGTHITLANIYAAK-G--RWREAAEV  636 (702)
Q Consensus       564 ~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~----g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~-g--~~~~A~~~  636 (702)
                      .+.+...+.+...+.+......+...|...    .+++.|...|.++.+..   +....+++..+... |  ++..|.++
T Consensus       455 ~~~~~~~~~~a~~~g~~~a~~~lgd~y~~g~g~~~d~~~a~~~y~~a~~~~---~~~~~nlg~~~e~g~g~~~~~~a~~~  531 (552)
T KOG1550|consen  455 LERAFSLYSRAAAQGNADAILKLGDYYYYGLGTGRDPEKAAAQYARASEQG---AQALFNLGYMHEHGEGIKVLHLAKRY  531 (552)
T ss_pred             hhHHHHHHHHHHhccCHHHHhhhcceeeecCCCCCChHHHHHHHHHHHHhh---hHHHhhhhhHHhcCcCcchhHHHHHH
Confidence            566677777766666777777777776533    46888999999888877   77888888887654 1  26788888


Q ss_pred             HHHHHhCC
Q 005329          637 RKMMRSKG  644 (702)
Q Consensus       637 ~~~~~~~~  644 (702)
                      +++..+.+
T Consensus       532 ~~~~~~~~  539 (552)
T KOG1550|consen  532 YDQASEED  539 (552)
T ss_pred             HHHHHhcC
Confidence            88876643

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=88.33  E-value=22  Score=33.20  Aligned_cols=239  Identities=14%  Similarity=0.158  Sum_probs=130.1

Q ss_pred             CCHHHHHHHHhcCCCC-------ChhhHHHHHHHHHcCCChHHHHHHHHHHHHC---C--CCCCHHHHHHHHHHHcccCc
Q 005329          359 GQLTSTSIVFHGMIRR-------DIISWSTIIGGYSQGGYEEEAFEYLALMRRE---G--PRPNEFAFASVLSVCGNMAI  426 (702)
Q Consensus       359 g~~~~a~~~~~~~~~~-------~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~---g--~~p~~~~~~~ll~~~~~~~~  426 (702)
                      .++++|+.-|+++.+-       ...+.-.+|..+.+.|++++.++.+.+|..-   .  -.-+..+.+.++...+...+
T Consensus        41 ~~p~~Al~sF~kVlelEgEKgeWGFKALKQmiKI~f~l~~~~eMm~~Y~qlLTYIkSAVTrNySEKsIN~IlDyiStS~~  120 (440)
T KOG1464|consen   41 DEPKEALSSFQKVLELEGEKGEWGFKALKQMIKINFRLGNYKEMMERYKQLLTYIKSAVTRNYSEKSINSILDYISTSKN  120 (440)
T ss_pred             cCHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHhhhhh
Confidence            4556666666655221       2234556777888888888888888777531   1  12234456666666665555


Q ss_pred             HHHHHHHHHHHHHh-----CCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCC--------C-------CHHHHHHHHHH
Q 005329          427 LEQGKQIHAHVMSI-----GLERTAMIKSALINMYSKCGSIKEASQIFYETES--------D-------DIVSWTAMING  486 (702)
Q Consensus       427 ~~~a~~~~~~~~~~-----~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--------~-------~~~~~~~li~~  486 (702)
                      .+....+++.-.+.     +-...-.+-+.|...|...+.+.+...+++++..        .       -...|..=|..
T Consensus       121 m~LLQ~FYeTTL~ALkdAKNeRLWFKTNtKLgkl~fd~~e~~kl~KIlkqLh~SCq~edGedD~kKGtQLLEiYAlEIQm  200 (440)
T KOG1464|consen  121 MDLLQEFYETTLDALKDAKNERLWFKTNTKLGKLYFDRGEYTKLQKILKQLHQSCQTEDGEDDQKKGTQLLEIYALEIQM  200 (440)
T ss_pred             hHHHHHHHHHHHHHHHhhhcceeeeeccchHhhhheeHHHHHHHHHHHHHHHHHhccccCchhhhccchhhhhHhhHhhh
Confidence            55555554433221     1112222334566777777777777777776541        1       12466667788


Q ss_pred             HHHcCChHHHHHHHHHchhC-CCCCCHHHHHHHHHHH-----hccCcHHHHHHHHHHhHHhhCC--CCC---hhhHHHHH
Q 005329          487 YAEHGYSQEAIHLFEKVPMV-GLRPDSVTFMGVLTAC-----SHAGLVDLGFHYFNLMSDKYGF--VPS---KEHYGCMI  555 (702)
Q Consensus       487 ~~~~g~~~~A~~~~~~m~~~-g~~p~~~~~~~ll~~~-----~~~g~~~~A~~~~~~~~~~~~~--~p~---~~~~~~l~  555 (702)
                      |...++-.+-..++++.... ..-|-+... .+|+-|     .+.|.+++|..-|=++.+.+.-  .|.   .--|-.|.
T Consensus       201 YT~qKnNKkLK~lYeqalhiKSAIPHPlIm-GvIRECGGKMHlreg~fe~AhTDFFEAFKNYDEsGspRRttCLKYLVLA  279 (440)
T KOG1464|consen  201 YTEQKNNKKLKALYEQALHIKSAIPHPLIM-GVIRECGGKMHLREGEFEKAHTDFFEAFKNYDESGSPRRTTCLKYLVLA  279 (440)
T ss_pred             hhhhcccHHHHHHHHHHHHhhccCCchHHH-hHHHHcCCccccccchHHHHHhHHHHHHhcccccCCcchhHHHHHHHHH
Confidence            88887777777788776532 223444333 344544     3567888775433333333221  222   22355666


Q ss_pred             HHHHhcCC----HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 005329          556 DLLCRAGR----LSDAENMIENMPHQKDDVVWSTLLRACMVQGDVNCGRHTA  603 (702)
Q Consensus       556 ~~~~~~g~----~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~  603 (702)
                      +++.+.|-    -.+|.    -....|...+...++.+|.. ++..+.++++
T Consensus       280 NMLmkS~iNPFDsQEAK----PyKNdPEIlAMTnlv~aYQ~-NdI~eFE~Il  326 (440)
T KOG1464|consen  280 NMLMKSGINPFDSQEAK----PYKNDPEILAMTNLVAAYQN-NDIIEFERIL  326 (440)
T ss_pred             HHHHHcCCCCCcccccC----CCCCCHHHHHHHHHHHHHhc-ccHHHHHHHH
Confidence            77777662    11111    01113566677788888754 4444433333

>KOG1308 consensus Hsp70-interacting protein Hip/Transient component of progesterone receptor complexes and an Hsp70-binding protein [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=88.19  E-value=0.32  Score=46.49  Aligned_cols=89  Identities=12%  Similarity=0.119  Sum_probs=67.9

Q ss_pred             HhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHH
Q 005329          559 CRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEV  636 (702)
Q Consensus       559 ~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~  636 (702)
                      ...|.++.|++.|.....  +|....|..-..++.+.++...|++-+..+++++|+....|-.-+.+..-.|+|++|...
T Consensus       125 ln~G~~~~ai~~~t~ai~lnp~~a~l~~kr~sv~lkl~kp~~airD~d~A~ein~Dsa~~ykfrg~A~rllg~~e~aa~d  204 (377)
T KOG1308|consen  125 LNDGEFDTAIELFTSAIELNPPLAILYAKRASVFLKLKKPNAAIRDCDFAIEINPDSAKGYKFRGYAERLLGNWEEAAHD  204 (377)
T ss_pred             hcCcchhhhhcccccccccCCchhhhcccccceeeeccCCchhhhhhhhhhccCcccccccchhhHHHHHhhchHHHHHH
Confidence            345677888888777766  345556666666777888888888888888888888888888888888888888888888


Q ss_pred             HHHHHhCCCcc
Q 005329          637 RKMMRSKGVIK  647 (702)
Q Consensus       637 ~~~~~~~~~~~  647 (702)
                      +....+.++..
T Consensus       205 l~~a~kld~dE  215 (377)
T KOG1308|consen  205 LALACKLDYDE  215 (377)
T ss_pred             HHHHHhccccH
Confidence            88887776654

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=87.54  E-value=11  Score=31.77  Aligned_cols=65  Identities=15%  Similarity=0.109  Sum_probs=41.0

Q ss_pred             ccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCCCC-CHHHHHHHHHHHH
Q 005329          524 HAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPHQK-DDVVWSTLLRACM  591 (702)
Q Consensus       524 ~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p-~~~~~~~l~~~~~  591 (702)
                      ..++.+++..+++.|.   .+.|+ ...-..-+..+...|+|++|..+|++....+ ....-..|+..|.
T Consensus        22 ~~~d~~D~e~lLdALr---vLrP~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~~~~~p~~kAL~A~CL   88 (153)
T TIGR02561        22 RSADPYDAQAMLDALR---VLRPNLKELDMFDGWLLIARGNYDEAARILRELLSSAGAPPYGKALLALCL   88 (153)
T ss_pred             hcCCHHHHHHHHHHHH---HhCCCccccchhHHHHHHHcCCHHHHHHHHHhhhccCCCchHHHHHHHHHH
Confidence            4778888888888775   45665 2222233555678888888888888888743 3333334444443

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>KOG0890 consensus Protein kinase of the PI-3 kinase family involved in mitotic growth, DNA repair and meiotic recombination [Signal transduction mechanisms; Chromatin structure and dynamics; Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=87.13  E-value=92  Score=39.04  Aligned_cols=64  Identities=16%  Similarity=0.114  Sum_probs=55.1

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 005329          579 DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKG  644 (702)
Q Consensus       579 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  644 (702)
                      -..+|....+.++..|.++.|...+-.+.+..  -+..+.-.+..+..+|+...|+.++++-.+..
T Consensus      1669 ~ge~wLqsAriaR~aG~~q~A~nall~A~e~r--~~~i~~E~AK~lW~~gd~~~Al~~Lq~~l~~~ 1732 (2382)
T KOG0890|consen 1669 LGECWLQSARIARLAGHLQRAQNALLNAKESR--LPEIVLERAKLLWQTGDELNALSVLQEILSKN 1732 (2382)
T ss_pred             hHHHHHHHHHHHHhcccHHHHHHHHHhhhhcc--cchHHHHHHHHHHhhccHHHHHHHHHHHHHhh
Confidence            45688899999999999999999988888877  46788889999999999999999999887643

>KOG0403 consensus Neoplastic transformation suppressor Pdcd4/MA-3, contains MA3 domain [Signal transduction mechanisms]

Probab=86.44  E-value=39  Score=34.14  Aligned_cols=69  Identities=7%  Similarity=0.095  Sum_probs=51.2

Q ss_pred             HHHHHHHHhcCCHHHHHHHHhcCCCC---ChhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 005329          349 NSIMAMYSKCGQLTSTSIVFHGMIRR---DIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVC  421 (702)
Q Consensus       349 ~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~  421 (702)
                      ..|+.-|...|++.+|..+++++--|   ....+.+++.+.-+.|+....+++++..-..|.    .|.+.+-.+|
T Consensus       513 ~~LLeEY~~~GdisEA~~CikeLgmPfFhHEvVkkAlVm~mEkk~d~t~~ldLLk~cf~sgl----IT~nQMtkGf  584 (645)
T KOG0403|consen  513 DMLLEEYELSGDISEACHCIKELGMPFFHHEVVKKALVMVMEKKGDSTMILDLLKECFKSGL----ITTNQMTKGF  584 (645)
T ss_pred             HHHHHHHHhccchHHHHHHHHHhCCCcchHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhcCc----eeHHHhhhhh
Confidence            34777788899999999999888555   456788889998888888888888887766553    3444444444

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=86.41  E-value=0.62  Score=28.01  Aligned_cols=24  Identities=25%  Similarity=0.429  Sum_probs=14.5

Q ss_pred             CCC-hhhHHHHHHHHHhcCCHHHHH
Q 005329          545 VPS-KEHYGCMIDLLCRAGRLSDAE  568 (702)
Q Consensus       545 ~p~-~~~~~~l~~~~~~~g~~~~A~  568 (702)
                      .|+ ...|..+..+|...|++++|+
T Consensus         9 ~P~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    9 NPNNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             CCCCHHHHHHHHHHHHHCcCHHhhc
Confidence            444 566666666666666666654

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized 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=86.30  E-value=1  Score=38.44  Aligned_cols=53  Identities=9%  Similarity=0.139  Sum_probs=24.6

Q ss_pred             HHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhccCChHHHHHHHH
Q 005329          181 ITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSGALNFGREIHT  233 (702)
Q Consensus       181 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~  233 (702)
                      |..+.+.+.+.....+++.+...+...+....+.++..|++.++.+...++++
T Consensus        14 i~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~   66 (143)
T PF00637_consen   14 ISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLK   66 (143)
T ss_dssp             HHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTT
T ss_pred             HHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcc
Confidence            34444444555555555555544433444445555555555544444444443

These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. Clathrin is a trimer composed of three heavy chains and three light chains, each monomer projecting outwards like a leg; this three-legged structure is known as a triskelion [, ]. The heavy chains form the legs, their N-terminal beta-propeller regions extending outwards, while their C-terminal alpha-alpha-superhelical regions form the central hub of the triskelion. Peptide motifs can bind between the beta-propeller blades. The light chains appear to have a regulatory role, and may help orient the assembly and disassembly of clathrin coats as they interact with hsc70 uncoating ATPase []. Clathrin triskelia self-polymerise into a curved lattice by twisting individual legs together. The clathrin lattice forms around a vesicle as it buds from the TGN, plasma membrane or endosomes, acting to stabilise the vesicle and facilitate the budding process []. The multiple blades created when the triskelia polymerise are involved in multiple protein interactions, enabling the recruitment of different cargo adaptors and membrane attachment proteins []. This entry represents the 7-fold alpha-alpha-superhelical ARM-type repeat found at the C-terminal of clathrin heavy chains and in VPS (vacuolar protein sorting-associated) proteins. In clathrin heavy chains, the C-terminal 7-fold ARM-type repeats interact to form the central hub of the triskelion. VPS proteins are required for vacuolar assembly and vacuolar traffick, and contain one clathrin-type repeat []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport; PDB: 3LVH_A 3LVG_C 1B89_A 3QIL_L.

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=86.04  E-value=6.1  Score=35.53  Aligned_cols=110  Identities=15%  Similarity=0.084  Sum_probs=73.3

Q ss_pred             HhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CCC-HHHHHHHHHHHHhcCCHHH
Q 005329          522 CSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH-QKD-DVVWSTLLRACMVQGDVNC  598 (702)
Q Consensus       522 ~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~-~~~~~~l~~~~~~~g~~~~  598 (702)
                      |-..|-+..|+-=|....   .+.|+ +..||.|.--+...|+++.|.+.|+...+ .|. ..+...-+-++.--|++..
T Consensus        75 YDSlGL~~LAR~DftQaL---ai~P~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi~~YY~gR~~L  151 (297)
T COG4785          75 YDSLGLRALARNDFSQAL---AIRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALYYGGRYKL  151 (297)
T ss_pred             hhhhhHHHHHhhhhhhhh---hcCCCcHHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhccceeeeecCchHh
Confidence            445566667766666655   67787 77888888888889999999999988877 443 2233333334456788888


Q ss_pred             HHHHHHHHHHhCCCCchhHHHHHHHHH--hcCChHHHHHHH
Q 005329          599 GRHTAEKILELHPSCAGTHITLANIYA--AKGRWREAAEVR  637 (702)
Q Consensus       599 A~~~~~~~~~~~p~~~~~~~~l~~~~~--~~g~~~~A~~~~  637 (702)
                      |.+-+.+-.+.+|+||.   .-.|.|.  ..=+..+|..-+
T Consensus       152 Aq~d~~~fYQ~D~~DPf---R~LWLYl~E~k~dP~~A~tnL  189 (297)
T COG4785         152 AQDDLLAFYQDDPNDPF---RSLWLYLNEQKLDPKQAKTNL  189 (297)
T ss_pred             hHHHHHHHHhcCCCChH---HHHHHHHHHhhCCHHHHHHHH
Confidence            88888888888887763   2234443  333555665543

>smart00028 TPR Tetratricopeptide repeats

Probab=85.96  E-value=1.5  Score=25.09  Aligned_cols=29  Identities=34%  Similarity=0.332  Sum_probs=13.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHhCC
Q 005329          583 WSTLLRACMVQGDVNCGRHTAEKILELHP  611 (702)
Q Consensus       583 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~p  611 (702)
                      |..++..+...|+++.|...++++++..|
T Consensus         4 ~~~~a~~~~~~~~~~~a~~~~~~~~~~~~   32 (34)
T smart00028        4 LYNLGNAYLKLGDYDEALEYYEKALELDP   32 (34)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHccCC
Confidence            33444444444555555555555444444

Repeats present in 4 or more copies in proteins. Contain a minimum of 34 amino acids each and self-associate via a "knobs and holes" mechanism.

>KOG4642 consensus Chaperone-dependent E3 ubiquitin protein ligase (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]

Probab=85.93  E-value=2.2  Score=38.83  Aligned_cols=86  Identities=9%  Similarity=-0.001  Sum_probs=50.6

Q ss_pred             HHhccCcHHHHHHHHHHhHHhhCCCCChhh-HHHHHHHHHhcCCHHHHHHHHHhCCC-CCCHH-HHHHHHHHHHhcCCHH
Q 005329          521 ACSHAGLVDLGFHYFNLMSDKYGFVPSKEH-YGCMIDLLCRAGRLSDAENMIENMPH-QKDDV-VWSTLLRACMVQGDVN  597 (702)
Q Consensus       521 ~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~-~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~~~-~~~~l~~~~~~~g~~~  597 (702)
                      .|.....++.|+..|.+.+   .+.|+..+ |..=+-++.+..+++.+..-..+... .|+.. ..-.+.........++
T Consensus        19 k~f~~k~y~~ai~~y~raI---~~nP~~~~Y~tnralchlk~~~~~~v~~dcrralql~~N~vk~h~flg~~~l~s~~~~   95 (284)
T KOG4642|consen   19 KCFIPKRYDDAIDCYSRAI---CINPTVASYYTNRALCHLKLKHWEPVEEDCRRALQLDPNLVKAHYFLGQWLLQSKGYD   95 (284)
T ss_pred             cccchhhhchHHHHHHHHH---hcCCCcchhhhhHHHHHHHhhhhhhhhhhHHHHHhcChHHHHHHHHHHHHHHhhcccc
Confidence            3555666777777666655   45676533 34445556666677666655555544 44433 3344555555666677


Q ss_pred             HHHHHHHHHHHh
Q 005329          598 CGRHTAEKILEL  609 (702)
Q Consensus       598 ~A~~~~~~~~~~  609 (702)
                      .|+..++++..+
T Consensus        96 eaI~~Lqra~sl  107 (284)
T KOG4642|consen   96 EAIKVLQRAYSL  107 (284)
T ss_pred             HHHHHHHHHHHH
Confidence            777777777554

>PF14853 Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repeat; PDB: 1IYG_A 1PC2_A 1NZN_A 3UUX_C 1Y8M_A 2PQR_A 2PQN_A 3O48_A

Probab=85.91  E-value=3.9  Score=27.60  Aligned_cols=35  Identities=17%  Similarity=0.227  Sum_probs=27.5

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHH
Q 005329          584 STLLRACMVQGDVNCGRHTAEKILELHPSCAGTHI  618 (702)
Q Consensus       584 ~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~  618 (702)
                      -.+.-++.+.|+++.|.+..+.+++.+|+|.....
T Consensus         5 Y~lAig~ykl~~Y~~A~~~~~~lL~~eP~N~Qa~~   39 (53)
T PF14853_consen    5 YYLAIGHYKLGEYEKARRYCDALLEIEPDNRQAQS   39 (53)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHHHHHHTTS-HHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHhhCCCcHHHHH
Confidence            34667788999999999999999999998765543

>KOG0890 consensus Protein kinase of the PI-3 kinase family involved in mitotic growth, DNA repair and meiotic recombination [Signal transduction mechanisms; Chromatin structure and dynamics; Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=85.37  E-value=1.1e+02  Score=38.37  Aligned_cols=63  Identities=17%  Similarity=0.093  Sum_probs=45.5

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC
Q 005329          548 KEHYGCMIDLLCRAGRLSDAENMIENMPHQKDDVVWSTLLRACMVQGDVNCGRHTAEKILELH  610 (702)
Q Consensus       548 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  610 (702)
                      ..+|-...+...++|+++.|...+-.+.+..-+..+-..+.-....|+...|..++++.++.+
T Consensus      1670 ge~wLqsAriaR~aG~~q~A~nall~A~e~r~~~i~~E~AK~lW~~gd~~~Al~~Lq~~l~~~ 1732 (2382)
T KOG0890|consen 1670 GECWLQSARIARLAGHLQRAQNALLNAKESRLPEIVLERAKLLWQTGDELNALSVLQEILSKN 1732 (2382)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHhhhhcccchHHHHHHHHHHhhccHHHHHHHHHHHHHhh
Confidence            556777777777788888888777666653344555666677778888888888888888654

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized 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=85.36  E-value=1.4  Score=37.59  Aligned_cols=84  Identities=13%  Similarity=0.064  Sum_probs=62.3

Q ss_pred             HHHHhhccCCchhhhHHHHHHHHhcCCCchhHHHHHHHhhhcCCChhHHHHHhccCCCCCcchHHHHHHHHHhCCChHHH
Q 005329          114 ALKACALNVNVNYGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKIELGCRVFDEMPLRNVVSWTAIITGLVRAGHNKEG  193 (702)
Q Consensus       114 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a  193 (702)
                      +++.+...+.+.....+++.+...+...+....+.++..|++.++.+...+.++...   ..-...+++.+.+.|.++++
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~~---~yd~~~~~~~c~~~~l~~~a   89 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTSN---NYDLDKALRLCEKHGLYEEA   89 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSSS---SS-CTHHHHHHHTTTSHHHH
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHccccc---ccCHHHHHHHHHhcchHHHH
Confidence            456666777888888888888877766778889999999999988888888888433   24445677777777777777


Q ss_pred             HHHHHHH
Q 005329          194 LIYFAEM  200 (702)
Q Consensus       194 ~~~~~~m  200 (702)
                      .-++.++
T Consensus        90 ~~Ly~~~   96 (143)
T PF00637_consen   90 VYLYSKL   96 (143)
T ss_dssp             HHHHHCC
T ss_pred             HHHHHHc
Confidence            7777765

These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. Clathrin is a trimer composed of three heavy chains and three light chains, each monomer projecting outwards like a leg; this three-legged structure is known as a triskelion [, ]. The heavy chains form the legs, their N-terminal beta-propeller regions extending outwards, while their C-terminal alpha-alpha-superhelical regions form the central hub of the triskelion. Peptide motifs can bind between the beta-propeller blades. The light chains appear to have a regulatory role, and may help orient the assembly and disassembly of clathrin coats as they interact with hsc70 uncoating ATPase []. Clathrin triskelia self-polymerise into a curved lattice by twisting individual legs together. The clathrin lattice forms around a vesicle as it buds from the TGN, plasma membrane or endosomes, acting to stabilise the vesicle and facilitate the budding process []. The multiple blades created when the triskelia polymerise are involved in multiple protein interactions, enabling the recruitment of different cargo adaptors and membrane attachment proteins []. This entry represents the 7-fold alpha-alpha-superhelical ARM-type repeat found at the C-terminal of clathrin heavy chains and in VPS (vacuolar protein sorting-associated) proteins. In clathrin heavy chains, the C-terminal 7-fold ARM-type repeats interact to form the central hub of the triskelion. VPS proteins are required for vacuolar assembly and vacuolar traffick, and contain one clathrin-type repeat []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport; PDB: 3LVH_A 3LVG_C 1B89_A 3QIL_L.

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=85.25  E-value=2.3  Score=26.69  Aligned_cols=29  Identities=24%  Similarity=0.227  Sum_probs=23.5

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Q 005329          581 VVWSTLLRACMVQGDVNCGRHTAEKILEL  609 (702)
Q Consensus       581 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  609 (702)
                      .+++.|...|...|++++|+.+++++++.
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~al~~   31 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEALEI   31 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHHHHH
Confidence            46788888888889999999999888874

>PF14561 TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S_A 3QDN_B

Probab=85.00  E-value=3.7  Score=31.58  Aligned_cols=45  Identities=20%  Similarity=0.224  Sum_probs=32.9

Q ss_pred             HHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 005329          600 RHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKG  644 (702)
Q Consensus       600 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  644 (702)
                      ...+++.++.+|+|......++..+...|++++|++.+-.+.+..
T Consensus         8 ~~al~~~~a~~P~D~~ar~~lA~~~~~~g~~e~Al~~Ll~~v~~d   52 (90)
T PF14561_consen    8 IAALEAALAANPDDLDARYALADALLAAGDYEEALDQLLELVRRD   52 (90)
T ss_dssp             HHHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHCC-
T ss_pred             HHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            456677777888888888888888888888888888877776653

>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed

Probab=84.44  E-value=6.7  Score=35.07  Aligned_cols=75  Identities=17%  Similarity=0.135  Sum_probs=56.0

Q ss_pred             HhcCCHHHHHHHHHhCCCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC----CCCchhHHHHHHHHHhcCChHH
Q 005329          559 CRAGRLSDAENMIENMPHQK--DDVVWSTLLRACMVQGDVNCGRHTAEKILELH----PSCAGTHITLANIYAAKGRWRE  632 (702)
Q Consensus       559 ~~~g~~~~A~~~~~~~~~~p--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~----p~~~~~~~~l~~~~~~~g~~~~  632 (702)
                      .+.|+ ++|.+.|-.+...|  +.......+..|....|.++++.++.+++++.    ..|+..+..|+.+|.+.|++++
T Consensus       118 sr~~d-~~A~~~fL~~E~~~~l~t~elq~aLAtyY~krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~  196 (203)
T PF11207_consen  118 SRFGD-QEALRRFLQLEGTPELETAELQYALATYYTKRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQ  196 (203)
T ss_pred             hccCc-HHHHHHHHHHcCCCCCCCHHHHHHHHHHHHccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhh
Confidence            34455 66777777776644  33444445556666889999999999999975    2368899999999999999998


Q ss_pred             HH
Q 005329          633 AA  634 (702)
Q Consensus       633 A~  634 (702)
                      |.
T Consensus       197 AY  198 (203)
T PF11207_consen  197 AY  198 (203)
T ss_pred             hh
Confidence            85

>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins

Probab=84.44  E-value=5  Score=35.06  Aligned_cols=44  Identities=14%  Similarity=0.129  Sum_probs=27.9

Q ss_pred             HHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhCCCc
Q 005329          596 VNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKGVI  646 (702)
Q Consensus       596 ~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  646 (702)
                      +++|.+.|+++++.+|.|......|-..       ++|-++..++.+.+..
T Consensus        96 F~kA~~~FqkAv~~~P~ne~Y~ksLe~~-------~kap~lh~e~~~~~~~  139 (186)
T PF06552_consen   96 FEKATEYFQKAVDEDPNNELYRKSLEMA-------AKAPELHMEIHKQGLG  139 (186)
T ss_dssp             HHHHHHHHHHHHHH-TT-HHHHHHHHHH-------HTHHHHHHHHHHSSS-
T ss_pred             HHHHHHHHHHHHhcCCCcHHHHHHHHHH-------HhhHHHHHHHHHHHhh
Confidence            6788889999999999766555544332       3466676666665543

Most mitochondrial proteins are encoded by the nuclear genome, and are synthesised in the cytosol. TOM20 is a general import receptor that binds to mitochondrial pre-sequences in the early step of protein import into the mitochondria [].; GO: 0045040 protein import into mitochondrial outer membrane, 0005742 mitochondrial outer membrane translocase complex; PDB: 1ZU2_A.

>KOG4507 consensus Uncharacterized conserved protein, contains TPR repeats [Function unknown]

Probab=84.14  E-value=3.4  Score=42.70  Aligned_cols=101  Identities=14%  Similarity=0.173  Sum_probs=78.7

Q ss_pred             HhccCcHHHHHHHHHHhHHhhCCCCC--hhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHH
Q 005329          522 CSHAGLVDLGFHYFNLMSDKYGFVPS--KEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVN  597 (702)
Q Consensus       522 ~~~~g~~~~A~~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~  597 (702)
                      ....|+...|...+..+.   ...|.  ....-.|.+.+.+.|...+|..++.....  ...+.++..+++++....+++
T Consensus       617 wr~~gn~~~a~~cl~~a~---~~~p~~~~v~~v~la~~~~~~~~~~da~~~l~q~l~~~~sepl~~~~~g~~~l~l~~i~  693 (886)
T KOG4507|consen  617 WRAVGNSTFAIACLQRAL---NLAPLQQDVPLVNLANLLIHYGLHLDATKLLLQALAINSSEPLTFLSLGNAYLALKNIS  693 (886)
T ss_pred             eeecCCcHHHHHHHHHHh---ccChhhhcccHHHHHHHHHHhhhhccHHHHHHHHHhhcccCchHHHhcchhHHHHhhhH
Confidence            345788888888887765   44554  33445677788888888888888877654  345567888999999999999


Q ss_pred             HHHHHHHHHHHhCCCCchhHHHHHHHHH
Q 005329          598 CGRHTAEKILELHPSCAGTHITLANIYA  625 (702)
Q Consensus       598 ~A~~~~~~~~~~~p~~~~~~~~l~~~~~  625 (702)
                      .|++.+++++++.|+++.+-..|..+-+
T Consensus       694 ~a~~~~~~a~~~~~~~~~~~~~l~~i~c  721 (886)
T KOG4507|consen  694 GALEAFRQALKLTTKCPECENSLKLIRC  721 (886)
T ss_pred             HHHHHHHHHHhcCCCChhhHHHHHHHHH
Confidence            9999999999999999998888766655

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=84.09  E-value=9  Score=29.80  Aligned_cols=60  Identities=22%  Similarity=0.297  Sum_probs=41.6

Q ss_pred             HHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHH
Q 005329          495 EAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMID  556 (702)
Q Consensus       495 ~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~  556 (702)
                      +..+-+..+....+.|++....+.+++|.+.+++..|.++|+.+..+.+  +....|..+++
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~~--~~~~~Y~~~lq   87 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKCG--NKKEIYPYILQ   87 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTT--T-TTHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHcc--ChHHHHHHHHH
Confidence            4455556666667889999999999999999999999999998877633  33447776664

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 ....

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=84.04  E-value=12  Score=35.79  Aligned_cols=97  Identities=18%  Similarity=0.205  Sum_probs=68.3

Q ss_pred             CCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCC-C--------CHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCC
Q 005329          441 GLERTAMIKSALINMYSKCGSIKEASQIFYETES-D--------DIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPD  511 (702)
Q Consensus       441 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-~--------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  511 (702)
                      |.+.+..+...++..-....+++.+...+-+++. |        ...+|-.+    +..-++++++.++..=++-|+-||
T Consensus        59 g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~~irl----llky~pq~~i~~l~npIqYGiF~d  134 (418)
T KOG4570|consen   59 GLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIHTWIRL----LLKYDPQKAIYTLVNPIQYGIFPD  134 (418)
T ss_pred             CCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHHHHHHH----HHccChHHHHHHHhCcchhccccc
Confidence            4444444555555555556777777777766653 2        22233222    233467899999988889999999


Q ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHhHHh
Q 005329          512 SVTFMGVLTACSHAGLVDLGFHYFNLMSDK  541 (702)
Q Consensus       512 ~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~  541 (702)
                      ..+++.+|..+.+.+++..|.++.-.|...
T Consensus       135 qf~~c~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  135 QFTFCLLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             hhhHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            999999999999999999988887776654

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=84.04  E-value=73  Score=35.13  Aligned_cols=164  Identities=7%  Similarity=-0.020  Sum_probs=87.7

Q ss_pred             cchHHHHHHHHH-cCCChhHHHHHHHHhhhCCCCCCCHH----H-HHHHHHHhhccCCchhhhHHHHHHHHhcCC----C
Q 005329           72 EISWTTLISGYV-KAMDSIEALALFSRVWVEPQMNMDPF----I-LSLALKACALNVNVNYGESLHGYTVKTGFV----N  141 (702)
Q Consensus        72 ~~~~~~ll~~~~-~~~~~~~a~~~~~~~~~~~~~~~~~~----~-~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~----~  141 (702)
                      ..++-.+...+. ...+.++|...+++.+... -+++-.    . -..+++.+.+.+... |....+..++.--.    +
T Consensus        59 a~~~l~la~iL~~eT~n~~~Ae~~L~k~~~l~-~~~~~~d~k~~~~~ll~~i~~~~~~~~-a~~~l~~~I~~~~~~~~~~  136 (608)
T PF10345_consen   59 ARVRLRLASILLEETENLDLAETYLEKAILLC-ERHRLTDLKFRCQFLLARIYFKTNPKA-ALKNLDKAIEDSETYGHSA  136 (608)
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhc-cccchHHHHHHHHHHHHHHHHhcCHHH-HHHHHHHHHHHHhccCchh
Confidence            335555566555 5778888888888765331 112211    1 223345555555444 77777776654222    2


Q ss_pred             chhHHHHH-HHhhhcCCChhHHHHHhccCC-------CCCcchHHHHHHHHH--hCCChHHHHHHHHHHHHCCC------
Q 005329          142 SVFVGSAL-LDMYTKLGKIELGCRVFDEMP-------LRNVVSWTAIITGLV--RAGHNKEGLIYFAEMWRSKE------  205 (702)
Q Consensus       142 ~~~~~~~l-i~~~~~~g~~~~A~~~~~~~~-------~~~~~~~~~li~~~~--~~~~~~~a~~~~~~m~~~~~------  205 (702)
                      -...+.-+ +..+...++...|.+.++.+.       .+....+-.++.+.+  +.+.++++++.+.++.....      
T Consensus       137 w~~~frll~~~l~~~~~d~~~Al~~L~~~~~~a~~~~d~~~~v~~~l~~~~l~l~~~~~~d~~~~l~~~~~~~~~~q~~~  216 (608)
T PF10345_consen  137 WYYAFRLLKIQLALQHKDYNAALENLQSIAQLANQRGDPAVFVLASLSEALLHLRRGSPDDVLELLQRAIAQARSLQLDP  216 (608)
T ss_pred             HHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHhcCCCchhHHHHHHHHHHHHhhcccCC
Confidence            23333333 333333378888888887664       122233333444333  45666777777776633211      


Q ss_pred             ---CCChhhHHHHHHHHh--ccCChHHHHHHHHHHHH
Q 005329          206 ---QGDSYTFAIVLKASA--DSGALNFGREIHTIMLK  237 (702)
Q Consensus       206 ---~p~~~~~~~ll~~~~--~~~~~~~a~~~~~~~~~  237 (702)
                         .|-..+|..+++.++  ..|+++.+...++++.+
T Consensus       217 ~~~~~qL~~~~lll~l~~~l~~~~~~~~~~~L~~lq~  253 (608)
T PF10345_consen  217 SVHIPQLKALFLLLDLCCSLQQGDVKNSKQKLKQLQQ  253 (608)
T ss_pred             CCCcHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence               234456666666654  56777677766665544

It is associated with the cohesin complex and is required in G1 for cohesin binding to chromosomes, but is dispensable in G2 when cohesion has been established. It is often referred to as Ssl3 in Schizosaccharomyces pombe (Fission yeast), and Scc4 in Saccharomyces cerevisiae (Baker's yeast). It complexes with Mis4 [].

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=83.73  E-value=13  Score=28.72  Aligned_cols=86  Identities=16%  Similarity=0.175  Sum_probs=58.6

Q ss_pred             hHHHHHHHHHHHHhCCCCchhHHHHHHHHhhhCCChHHHHHHHhccCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHC
Q 005329          225 LNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMSTRDVISWTTIITSYVQMGEEENAFDAFVRMQES  304 (702)
Q Consensus       225 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  304 (702)
                      .++|..+-+.+...+- ....+--.-+..+.+.|++++|..+.+.+..||...|-+|-..  +.|-.+....-+.+|..+
T Consensus        21 HqEA~tIAdwL~~~~~-~~E~v~lIRlsSLmNrG~Yq~Al~l~~~~~~pdlepw~ALce~--rlGl~s~l~~rl~rla~s   97 (115)
T TIGR02508        21 HQEANTIADWLHLKGE-SEEAVQLIRLSSLMNRGDYQSALQLGNKLCYPDLEPWLALCEW--RLGLGSALESRLNRLAAS   97 (115)
T ss_pred             HHHHHHHHHHHhcCCc-hHHHHHHHHHHHHHccchHHHHHHhcCCCCCchHHHHHHHHHH--hhccHHHHHHHHHHHHhC
Confidence            4566666655555431 1333333344667789999999999999999999999877654  667777777777788777


Q ss_pred             CCCCChhhHH
Q 005329          305 DVKPNEYTFA  314 (702)
Q Consensus       305 g~~p~~~t~~  314 (702)
                      | .|....|.
T Consensus        98 g-~p~lq~Fa  106 (115)
T TIGR02508        98 G-DPRLQTFV  106 (115)
T ss_pred             C-CHHHHHHH
Confidence            6 45555553

YscG is a molecular chaperone for YscE, where both are part of the type III secretion system that in Yersinia is designated Ysc (Yersinia secretion). The secretion system delivers effector proteins, designate Yops (Yersinia outer proteins) in Yersinia. This family consists of YscG of Yersinia, and functionally equivalent type III secretion machinery protein in other species: AscG in Aeromonas, LscG in Photorhabdus luminescens, etc.

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=83.44  E-value=18  Score=37.92  Aligned_cols=147  Identities=16%  Similarity=0.130  Sum_probs=86.6

Q ss_pred             cCCHHHHHHHHhhCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHH-HHHHHHHHHhccCcHHHHHHHHHH
Q 005329          459 CGSIKEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSV-TFMGVLTACSHAGLVDLGFHYFNL  537 (702)
Q Consensus       459 ~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~g~~~~A~~~~~~  537 (702)
                      .|+++.|..++..++++   ..+.++.-+.+.|-.++|+++         .+|+. -|..    ..+.|+++.|.++..+
T Consensus       599 rrd~~~a~~vLp~I~k~---~rt~va~Fle~~g~~e~AL~~---------s~D~d~rFel----al~lgrl~iA~~la~e  662 (794)
T KOG0276|consen  599 RRDLEVADGVLPTIPKE---IRTKVAHFLESQGMKEQALEL---------STDPDQRFEL----ALKLGRLDIAFDLAVE  662 (794)
T ss_pred             hccccccccccccCchh---hhhhHHhHhhhccchHhhhhc---------CCChhhhhhh----hhhcCcHHHHHHHHHh
Confidence            45666666655555432   233444555566666666543         23322 2222    2356777777776654


Q ss_pred             hHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhH
Q 005329          538 MSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPHQKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTH  617 (702)
Q Consensus       538 ~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~  617 (702)
                      ..       +..-|..|.++....|++..|.+.|.+...      |..|+-.+-..|+.+.-..+...+.+.+..|..  
T Consensus       663 ~~-------s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d------~~~LlLl~t~~g~~~~l~~la~~~~~~g~~N~A--  727 (794)
T KOG0276|consen  663 AN-------SEVKWRQLGDAALSAGELPLASECFLRARD------LGSLLLLYTSSGNAEGLAVLASLAKKQGKNNLA--  727 (794)
T ss_pred             hc-------chHHHHHHHHHHhhcccchhHHHHHHhhcc------hhhhhhhhhhcCChhHHHHHHHHHHhhcccchH--
Confidence            42       455678888888888888888888877653      455666666667666555555555554443332  


Q ss_pred             HHHHHHHHhcCChHHHHHHHHH
Q 005329          618 ITLANIYAAKGRWREAAEVRKM  639 (702)
Q Consensus       618 ~~l~~~~~~~g~~~~A~~~~~~  639 (702)
                         -.+|...|++++..+++.+
T Consensus       728 ---F~~~~l~g~~~~C~~lLi~  746 (794)
T KOG0276|consen  728 ---FLAYFLSGDYEECLELLIS  746 (794)
T ss_pred             ---HHHHHHcCCHHHHHHHHHh
Confidence               2345667788777777654

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=83.32  E-value=15  Score=35.12  Aligned_cols=102  Identities=15%  Similarity=0.204  Sum_probs=71.3

Q ss_pred             hCCCCchhHHHHHHHHhhhCCChHHHHHHHhccCC-CC-----cchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChh
Q 005329          238 RGFDVVSFVANSLATMYSKCGKLDYSLRLFERMST-RD-----VISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEY  311 (702)
Q Consensus       238 ~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-~~-----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~  311 (702)
                      .|.+....+...++..-....+++.+...+-++.. |+     ..+-.++++ ++-.-++++++.++..=...|+-||..
T Consensus        58 ~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~~ir-lllky~pq~~i~~l~npIqYGiF~dqf  136 (418)
T KOG4570|consen   58 RGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIHTWIR-LLLKYDPQKAIYTLVNPIQYGIFPDQF  136 (418)
T ss_pred             cCCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHHHHHH-HHHccChHHHHHHHhCcchhccccchh
Confidence            34455555666666666666777888777766652 11     111122222 233446778888888888899999999


Q ss_pred             hHHHHHHHHHccCchHHHHHHHHHHHHhC
Q 005329          312 TFAAIISASANLARIQWGEQLHAHVLRLG  340 (702)
Q Consensus       312 t~~~ll~~~~~~~~~~~a~~~~~~~~~~~  340 (702)
                      +++.+|+.+.+.++...|.++...|....
T Consensus       137 ~~c~l~D~flk~~n~~~aa~vvt~~~~qe  165 (418)
T KOG4570|consen  137 TFCLLMDSFLKKENYKDAASVVTEVMMQE  165 (418)
T ss_pred             hHHHHHHHHHhcccHHHHHHHHHHHHHHH
Confidence            99999999999999999998888776654

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=83.23  E-value=53  Score=35.59  Aligned_cols=115  Identities=12%  Similarity=0.060  Sum_probs=59.1

Q ss_pred             cHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhc---CCHHHHHHHHHhCCCCCCHHHHHHHHHHHH----hcCCHHHH
Q 005329          527 LVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRA---GRLSDAENMIENMPHQKDDVVWSTLLRACM----VQGDVNCG  599 (702)
Q Consensus       527 ~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~---g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~----~~g~~~~A  599 (702)
                      +.+.|..+|....+. | .|+...  .+..++...   .+...|.++|..+........+-.+...|.    ...+...|
T Consensus       308 d~~~A~~~~~~aA~~-g-~~~a~~--~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~~~A~~~la~~y~~G~gv~r~~~~A  383 (552)
T KOG1550|consen  308 DYEKALKLYTKAAEL-G-NPDAQY--LLGVLYETGTKERDYRRAFEYYSLAAKAGHILAIYRLALCYELGLGVERNLELA  383 (552)
T ss_pred             cHHHHHHHHHHHHhc-C-CchHHH--HHHHHHHcCCccccHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCcCCCHHHH
Confidence            556677777666433 2 222222  233333222   345677777777666444444444433332    23467777


Q ss_pred             HHHHHHHHHhCCCCchhHHHHHHHHHhc-CChHHHHHHHHHHHhCCCcc
Q 005329          600 RHTAEKILELHPSCAGTHITLANIYAAK-GRWREAAEVRKMMRSKGVIK  647 (702)
Q Consensus       600 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~~~~~  647 (702)
                      ...++++-+.+  ++.+...++..+.-. ++++.+.-.+..+.+.|.+.
T Consensus       384 ~~~~k~aA~~g--~~~A~~~~~~~~~~g~~~~~~~~~~~~~~a~~g~~~  430 (552)
T KOG1550|consen  384 FAYYKKAAEKG--NPSAAYLLGAFYEYGVGRYDTALALYLYLAELGYEV  430 (552)
T ss_pred             HHHHHHHHHcc--ChhhHHHHHHHHHHccccccHHHHHHHHHHHhhhhH
Confidence            77777777776  233333333333222 66666666666665555433

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=82.68  E-value=9.3  Score=29.37  Aligned_cols=61  Identities=21%  Similarity=0.303  Sum_probs=43.9

Q ss_pred             HHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHH
Q 005329          494 QEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMID  556 (702)
Q Consensus       494 ~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~  556 (702)
                      -++.+-++.+....+.|++....+.+++|.+.+++..|.++|+....+.+  .+...|..+++
T Consensus        24 we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~~--~~~~~y~~~lq   84 (103)
T cd00923          24 WELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKCG--AHKEIYPYILQ   84 (103)
T ss_pred             HHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHcc--CchhhHHHHHH
Confidence            34555556666666788888889999999999999999999988765533  24446655554

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.

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=82.48  E-value=40  Score=31.00  Aligned_cols=91  Identities=14%  Similarity=0.163  Sum_probs=52.4

Q ss_pred             CcHHHHHHHHHHhHHhhCCCCC-h---hhHHHHHHHHHhcCCHHHHHHHHHhCCC---CCCHHHHH-----HHHHHHH-h
Q 005329          526 GLVDLGFHYFNLMSDKYGFVPS-K---EHYGCMIDLLCRAGRLSDAENMIENMPH---QKDDVVWS-----TLLRACM-V  592 (702)
Q Consensus       526 g~~~~A~~~~~~~~~~~~~~p~-~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~p~~~~~~-----~l~~~~~-~  592 (702)
                      .+++.|+..|+...+-+...-. .   ..+--....-...+++.+|+++|++...   ..+..-|.     .-...|. .
T Consensus       128 ~d~ekaI~~YE~Aae~yk~ees~ssANKC~lKvA~yaa~leqY~~Ai~iyeqva~~s~~n~LLKys~KdyflkAgLChl~  207 (288)
T KOG1586|consen  128 QDFEKAIAHYEQAAEYYKGEESVSSANKCLLKVAQYAAQLEQYSKAIDIYEQVARSSLDNNLLKYSAKDYFLKAGLCHLC  207 (288)
T ss_pred             HHHHHHHHHHHHHHHHHcchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccchHHHhHHHHHHHHHHHHhHh
Confidence            5667777777766544322222 1   1222233334567889999999988755   11222221     1122233 3


Q ss_pred             cCCHHHHHHHHHHHHHhCCCCchh
Q 005329          593 QGDVNCGRHTAEKILELHPSCAGT  616 (702)
Q Consensus       593 ~g~~~~A~~~~~~~~~~~p~~~~~  616 (702)
                      ..|.-.+...+++-.+++|.-..+
T Consensus       208 ~~D~v~a~~ALeky~~~dP~F~ds  231 (288)
T KOG1586|consen  208 KADEVNAQRALEKYQELDPAFTDS  231 (288)
T ss_pred             cccHHHHHHHHHHHHhcCCccccc
Confidence            478888888888888999976554

>KOG1498 consensus 26S proteasome regulatory complex, subunit RPN5/PSMD12 [Posttranslational modification, protein turnover, chaperones]

Probab=82.26  E-value=35  Score=33.94  Aligned_cols=242  Identities=11%  Similarity=0.124  Sum_probs=134.8

Q ss_pred             cCcHHHHHHHHHHHHH-----hCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCHHHHHHHHHH-HHHcCChHHHH
Q 005329          424 MAILEQGKQIHAHVMS-----IGLERTAMIKSALINMYSKCGSIKEASQIFYETESDDIVSWTAMING-YAEHGYSQEAI  497 (702)
Q Consensus       424 ~~~~~~a~~~~~~~~~-----~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~-~~~~g~~~~A~  497 (702)
                      .++.+.+.+-+-...+     .+...+..++..++..|...++|+.--+               .+.. .-++|+...|+
T Consensus        25 ~~~~~~~ie~Ll~~EkqtR~~~D~~s~~kv~~~i~~lc~~~~~w~~Lne---------------~i~~Lskkrgqlk~ai   89 (439)
T KOG1498|consen   25 QIDLEAAIEELLNLEKQTRLASDMASNTKVLEEIMKLCFSAKDWDLLNE---------------QIRLLSKKRGQLKQAI   89 (439)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHhccccHHHHHH---------------HHHHHHHHhhHHHHHH
Confidence            4556665553332221     2334455556666666666666655322               2222 23566666665


Q ss_pred             HHH-HH-chhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC---hhhHHHHHHHHHhcCCHHHHHHHHH
Q 005329          498 HLF-EK-VPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS---KEHYGCMIDLLCRAGRLSDAENMIE  572 (702)
Q Consensus       498 ~~~-~~-m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~---~~~~~~l~~~~~~~g~~~~A~~~~~  572 (702)
                      ... ++ |.-..-.||..|-..++..+.             ...+. .+-..   ...-..|...+...|+.++|..++.
T Consensus        90 ~~Mvq~~~~y~~~~~d~~~k~~li~tLr-------------~Vteg-kIyvEvERarlTk~L~~ike~~Gdi~~Aa~il~  155 (439)
T KOG1498|consen   90 QSMVQQAMTYIDGTPDLETKIKLIETLR-------------TVTEG-KIYVEVERARLTKMLAKIKEEQGDIAEAADILC  155 (439)
T ss_pred             HHHHHHHHHhccCCCCchhHHHHHHHHH-------------HhhcC-ceEEeehHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            422 22 221122455555555554432             11111 11111   1222346777888999999999988


Q ss_pred             hCCCC--------CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCC-------chhHHHHHHHHHhcCChHHHHHHH
Q 005329          573 NMPHQ--------KDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSC-------AGTHITLANIYAAKGRWREAAEVR  637 (702)
Q Consensus       573 ~~~~~--------p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~-------~~~~~~l~~~~~~~g~~~~A~~~~  637 (702)
                      +....        --....---++.|...+|+-.|.-+-+++....-+.       ...|..++......+.+-++-+.+
T Consensus       156 el~VETygsm~~~ekV~fiLEQmrKOG~~~D~vra~i~skKI~~K~F~~~~~~~lKlkyY~lmI~l~lh~~~Yl~v~~~Y  235 (439)
T KOG1498|consen  156 ELQVETYGSMEKSEKVAFILEQMRLCLLRLDYVRAQIISKKINKKFFEKPDVQELKLKYYELMIRLGLHDRAYLNVCRSY  235 (439)
T ss_pred             hcchhhhhhhHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhHHhcCCccHHHHHHHHHHHHHHhcccccchhhHHHHH
Confidence            87652        111222344677889999999999999987754222       246788888888999999999999


Q ss_pred             HHHHhCCCccCCeeeEEEECCEEEEEEcCCCCCCChhHHHHHHHH--HHHHhcCCCCCCccc
Q 005329          638 KMMRSKGVIKEPGWSRIKVKDQVSAFVSSDRRHSQGEDIYRMLDL--LASRESDIDDLDSLV  697 (702)
Q Consensus       638 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~l~~--l~~~~~~~~~~~~~~  697 (702)
                      +.....|..+...--|+.+-..+..|..-   -|+.-+....+.+  ..+++.-.|++..++
T Consensus       236 raiy~t~~vk~d~~kw~~vL~~iv~f~~L---Ap~dneQsdll~~is~dKkL~e~p~~k~lL  294 (439)
T KOG1498|consen  236 RAIYDTGNVKEDPEKWIEVLRSIVSFCVL---APHDNEQSDLLARISNDKKLSELPDYKELL  294 (439)
T ss_pred             HHHhcccccccChhhhhhhhhhheeEEee---cCCCcHHHHHHHHHhcccccccCccHHHHH
Confidence            99988887776554555543333233322   2333333333333  334444456665554

>KOG2062 consensus 26S proteasome regulatory complex, subunit RPN2/PSMD1 [Posttranslational modification, protein turnover, chaperones]

Probab=82.00  E-value=83  Score=34.30  Aligned_cols=26  Identities=8%  Similarity=-0.010  Sum_probs=16.0

Q ss_pred             HHHHHHHHhccCChHHHHHHHHHHHH
Q 005329          212 FAIVLKASADSGALNFGREIHTIMLK  237 (702)
Q Consensus       212 ~~~ll~~~~~~~~~~~a~~~~~~~~~  237 (702)
                      |..+.+++.-..+.+.+.++++.+.+
T Consensus       213 y~~vc~c~v~Ldd~~~va~ll~kL~~  238 (929)
T KOG2062|consen  213 YFSVCQCYVFLDDAEAVADLLEKLVK  238 (929)
T ss_pred             eeeeeeeeEEcCCHHHHHHHHHHHHh
Confidence            33445556666666666666666665

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=81.91  E-value=68  Score=33.26  Aligned_cols=94  Identities=14%  Similarity=0.220  Sum_probs=49.0

Q ss_pred             CCCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCC---CCHHHHHHHH
Q 005329          408 RPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETES---DDIVSWTAMI  484 (702)
Q Consensus       408 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li  484 (702)
                      ..|.....+++..+.......-++.+..++...|-  +...+..++++|... ..+.-..+++++.+   .|++.-..|+
T Consensus        63 ~l~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~e--~kmal~el~q~y~en-~n~~l~~lWer~ve~dfnDvv~~ReLa  139 (711)
T COG1747          63 LLDDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYGE--SKMALLELLQCYKEN-GNEQLYSLWERLVEYDFNDVVIGRELA  139 (711)
T ss_pred             cccchHHHHHHHHhccchHHHHHHHHHHHHHHhcc--hHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcchhHHHHHHHH
Confidence            34556666777777777777766666666666542  334455555555555 33444444443332   2333333333


Q ss_pred             HHHHHcCChHHHHHHHHHchh
Q 005329          485 NGYAEHGYSQEAIHLFEKVPM  505 (702)
Q Consensus       485 ~~~~~~g~~~~A~~~~~~m~~  505 (702)
                      .-|-+ ++.+.+..+|.++..
T Consensus       140 ~~yEk-ik~sk~a~~f~Ka~y  159 (711)
T COG1747         140 DKYEK-IKKSKAAEFFGKALY  159 (711)
T ss_pred             HHHHH-hchhhHHHHHHHHHH
Confidence            33333 455555555555443

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=81.28  E-value=92  Score=34.31  Aligned_cols=46  Identities=30%  Similarity=0.172  Sum_probs=33.9

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhccC
Q 005329          177 WTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSG  223 (702)
Q Consensus       177 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~  223 (702)
                      -=++|-.+.|.|++++|.++..+..+ ........|...+..+....
T Consensus       114 ~Wa~Iyy~LR~G~~~~A~~~~~~~~~-~~~~~~~~f~~~l~~~~~s~  159 (613)
T PF04097_consen  114 IWALIYYCLRCGDYDEALEVANENRN-QFQKIERSFPTYLKAYASSP  159 (613)
T ss_dssp             HHHHHHHHHTTT-HHHHHHHHHHTGG-GS-TTTTHHHHHHHHCTTTT
T ss_pred             cHHHHHHHHhcCCHHHHHHHHHHhhh-hhcchhHHHHHHHHHHHhCC
Confidence            33678889999999999999966544 35666778888888887753

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.

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=81.28  E-value=5.8  Score=35.72  Aligned_cols=64  Identities=19%  Similarity=0.112  Sum_probs=48.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhCCC-CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCc
Q 005329          551 YGCMIDLLCRAGRLSDAENMIENMPH-QK-DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCA  614 (702)
Q Consensus       551 ~~~l~~~~~~~g~~~~A~~~~~~~~~-~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~  614 (702)
                      .+.-+..+.+.+...+|+...++-.+ +| +......+.+.++-.|++++|..-++-+-++.|+..
T Consensus         4 l~~t~seLL~~~sL~dai~~a~~qVkakPtda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t   69 (273)
T COG4455           4 LRDTISELLDDNSLQDAIGLARDQVKAKPTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDT   69 (273)
T ss_pred             hHHHHHHHHHhccHHHHHHHHHHHHhcCCccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccc
Confidence            34456677788888888888766555 55 455667788888888999998888888888888653

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=80.54  E-value=3.4  Score=26.57  Aligned_cols=27  Identities=26%  Similarity=0.383  Sum_probs=22.5

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhCC
Q 005329          618 ITLANIYAAKGRWREAAEVRKMMRSKG  644 (702)
Q Consensus       618 ~~l~~~~~~~g~~~~A~~~~~~~~~~~  644 (702)
                      ..|+.+|...|+.+.|.++++++...|
T Consensus         3 LdLA~ayie~Gd~e~Ar~lL~evl~~~   29 (44)
T TIGR03504         3 LDLARAYIEMGDLEGARELLEEVIEEG   29 (44)
T ss_pred             hHHHHHHHHcCChHHHHHHHHHHHHcC
Confidence            468888999999999999999888654

This protein is found at the extreme C-terminus of FimV from Pseudomonas aeruginosa, and of TspA of Neisseria meningitidis. Disruption of the former blocks twitching motility from type IV pili; Semmler, et al. suggest a role in peptidoglycan layer remodelling required by type IV fimbrial systems.

---

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	702
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-11
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	1e-07
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-07
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	1e-06
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	2e-04
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	3e-04

>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 = 64.9 bits (157), Expect = 6e-11
 Identities = 76/574 (13%), Positives = 164/574 (28%), Gaps = 159/574 (27%)

Query: 45  NSQLKHLVKSGY-LHDARKMFDTMTQRDEISWTTLISGYVKAMDSIEALA---LFSRVWV 100
             ++ H++ S   +    ++F T+  + E           K ++ +  +    L S +  
Sbjct: 48  KEEIDHIIMSKDAVSGTLRLFWTLLSKQE-------EMVQKFVEEVLRINYKFLMSPIKT 100

Query: 101 E---PQMNMDPFI----------------------LSLALKACALNVNVNYGESLHG--- 132
           E   P M    +I                        L L+   L +       + G   
Sbjct: 101 EQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLG 160

Query: 133 -------------YTVKTGFVNSVF---VGS-----ALLDMYTKLGKIELGCRVFDEM-- 169
                        Y V+      +F   + +      +L+M  KL          D    
Sbjct: 161 SGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKL------LYQIDPNWT 214

Query: 170 --------PLRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAI---VLKA 218
                       + S  A +  L+++   +  L+    +  + +  ++  F +   +L  
Sbjct: 215 SRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQ-NAKAWNA--FNLSCKILLT 271

Query: 219 SADSG---ALNFGREIHTIM--LKRGF---DVVSFVANSLATMYSK-----CGKLDYSLR 265
           +        L+     H  +          +V S +   L                  L 
Sbjct: 272 TRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLS 331

Query: 266 LFERMSTRDVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASAN--- 322
           +        + +W      +V   +     ++ + + E       +   ++   SA+   
Sbjct: 332 IIAESIRDGLATWDN--WKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPT 389

Query: 323 --LARIQWG-------EQLHAHVLRLGLV--DSLSVANSIMAMY----SKCGQLTS--TS 365
             L+ I W          +   + +  LV         SI ++Y     K     +   S
Sbjct: 390 ILLSLI-WFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRS 448

Query: 366 IVFHGMIRRDIISWSTI---IGGY--SQGGY---------EEEAFE--YLAL------MR 403
           IV H  I +   S   I   +  Y  S  G+             F   +L        +R
Sbjct: 449 IVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIR 508

Query: 404 REGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIK 463
            +    N  A  S+L+       L+Q K    ++     +   ++  A+++   K     
Sbjct: 509 HDSTAWN--ASGSILNT------LQQLKFYKPYICDNDPKYERLVN-AILDFLPKIE--- 556

Query: 464 EASQIFYETESDDIVSWTAMIN---GYAEHGYSQ 494
              +    ++  D++   A++       E  + Q
Sbjct: 557 ---ENLICSKYTDLLR-IALMAEDEAIFEEAHKQ 586

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 54.1 bits (128), Expect = 1e-07
 Identities = 30/245 (12%), Positives = 57/245 (23%), Gaps = 10/245 (4%)

Query: 402 MRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGS 461
            R+    P E   A +L        L+  +          L        A          
Sbjct: 83  TRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQ 142

Query: 462 IKEASQIFYETESD-------DIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVT 514
           +  A  +               +  + A++ G+A  G  +E +++   V   GL PD ++
Sbjct: 143 LPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLS 202

Query: 515 FMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENM 574
           +   L                     + G          ++    RA  L     +    
Sbjct: 203 YAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKV---K 259

Query: 575 PHQKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAA 634
           P           +    +  DV              P      +    ++          
Sbjct: 260 PTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPLKTLQCLFEKQLHMELASRVCVV 319

Query: 635 EVRKM 639
            V K 
Sbjct: 320 SVEKP 324

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 53.7 bits (127), Expect = 2e-07
 Identities = 9/119 (7%), Positives = 36/119 (30%), Gaps = 7/119 (5%)

Query: 211 TFAIVLKASADSGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERM 270
             A +L+ +    +L+  +       +           +         +L  +  L    
Sbjct: 94  QLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVH 153

Query: 271 STR-------DVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASAN 322
             +        +  +  ++  + + G  +        ++++ + P+  ++AA +     
Sbjct: 154 HGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGR 212

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 51.0 bits (120), Expect = 1e-06
 Identities = 15/131 (11%), Positives = 43/131 (32%), Gaps = 7/131 (5%)

Query: 301 MQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQ 360
            +++   P E   A ++  +     +   +       +  L        +         Q
Sbjct: 83  TRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQ 142

Query: 361 LTSTSIVFHGMIRR-------DIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFA 413
           L     +      +        +  ++ ++ G+++ G  +E    L +++  G  P+  +
Sbjct: 143 LPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLS 202

Query: 414 FASVLSVCGNM 424
           +A+ L   G  
Sbjct: 203 YAAALQCMGRQ 213

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus} Length = 291

 Score = 43.2 bits (101), Expect = 2e-04
 Identities = 24/192 (12%), Positives = 50/192 (26%), Gaps = 10/192 (5%)

Query: 446 AMIKSALINMYSKCGSIKEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPM 505
           A   ++     +    +        +  +   +   A I  Y        A+    +   
Sbjct: 72  AEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASI--YFYDQNPDAALRTLHQGDS 129

Query: 506 VGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLS 565
           +     +V              +DL       M D+       +     + L     +L 
Sbjct: 130 LECMAMTVQ------ILLKLDRLDLARKELKKMQDQDEDATLTQLATAWVSLAAGGEKLQ 183

Query: 566 DAENMIENM--PHQKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANI 623
           DA  + + M        ++ +      M QG         ++ L+       T I L  +
Sbjct: 184 DAYYIFQEMADKCSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDSGHPETLINLVVL 243

Query: 624 YAAKGRWREAAE 635
               G+  E   
Sbjct: 244 SQHLGKPPEVTN 255

>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* Length = 568

 Score = 42.9 bits (101), Expect = 3e-04
 Identities = 13/84 (15%), Positives = 23/84 (27%), Gaps = 6/84 (7%)

Query: 556 DLLCRAGRLSDAENM----IENMPHQKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHP 611
           D     G  +  E      +   P   +    + L R    Q          ++  +  P
Sbjct: 31  DAELGMGDTTAGEMAVQRGLALHPGHPE--AVARLGRVRWTQQRHAEAAVLLQQASDAAP 88

Query: 612 SCAGTHITLANIYAAKGRWREAAE 635
              G  + L +     G+   AA 
Sbjct: 89  EHPGIALWLGHALEDAGQAEAAAA 112

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	702
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.96
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.96
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.95
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.95
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.92
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.92
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.91
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.9
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.89
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.89
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.86
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.85
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.84
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.84
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.81
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.8
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.8
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.78
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.78
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.77
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.77
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.77
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.76
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.75
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.75
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.74
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.74
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.74
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.72
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.71
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.67
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.67
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.65
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.65
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.63
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.61
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.6
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.59
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.59
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.58
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.58
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.56
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.56
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.55
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.55
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.55
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.54
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.53
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.52
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.51
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.5
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.5
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.5
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.49
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.49
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.48
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.48
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.47
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.47
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.45
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.42
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.42
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.42
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.41
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.39
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.38
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.36
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.35
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.34
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.34
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.34
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.33
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.32
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.31
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.29
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.28
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.26
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.26
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.26
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.24
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.23
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.22
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.22
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.15
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.13
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.12
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.11
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.11
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.11
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.08
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.08
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.07
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.06
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.06
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.05
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	99.04
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.03
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.03
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.0
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.99
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.98
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	98.98
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.96
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.95
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	98.95
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.94
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.94
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.93
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.9
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.9
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.88
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.88
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.86
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.86
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.84
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.82
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.81
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.78
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.78
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.77
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.77
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.74
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.74
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.74
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.72
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.72
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.71
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.71
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.71
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.71
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.71
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.69
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.68
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.68
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.67
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.66
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.65
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.64
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.64
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.64
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.63
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.62
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.62
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.6
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.59
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.58
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.57
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.57
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.55
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.54
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.53
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.53
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.53
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.53
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.53
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.52
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.52
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.51
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.48
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.47
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.45
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.43
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.39
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.38
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.36
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.36
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.35
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.33
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.32
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.31
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.3
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.29
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.28
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.28
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.28
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.27
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.25
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.23
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.22
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.22
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.22
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.21
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.2
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.17
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	98.16
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	98.15
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.14
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.13
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.13
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.13
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.12
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.11
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.09
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.06
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.06
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.05
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.05
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.02
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.01
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.01
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.92
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	97.92
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.83
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.83
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.78
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.69
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.59
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.59
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.55
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.55
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.39
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.39
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	97.36
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.36
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	97.27
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.15
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.12
1pc2_A	152	Mitochondria fission protein; unknown function; NM	97.1
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	97.03
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.01
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.97
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.75
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	96.62
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	96.58
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.34
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.04
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	96.0
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	95.91
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	95.77
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	95.66
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	95.61
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	95.52
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	95.02
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	94.84
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	94.75
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	94.63
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	94.52
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	93.52
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	93.34
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	92.89
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	90.51
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	90.32
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	90.29
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	90.27
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	89.94
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	89.76
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	89.66
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	89.51
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	88.81
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	87.4
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	86.73
2p58_C	116	Putative type III secretion protein YSCG; type III	86.63
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	86.38
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	86.06
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	85.56
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	85.54
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	85.09
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	83.46
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	83.22
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	83.2
3esl_A	202	Checkpoint serine/threonine-protein kinase BUB1; m	82.63
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	81.5
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	80.77
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	80.06
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	80.02

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=5.5e-41  Score=368.06  Aligned_cols=502  Identities=7%  Similarity=-0.067  Sum_probs=360.0

Q ss_pred             HHHHccCChHHHHHHhhcCCCCCcchHHHHHHHHHcCCChhHHHHHHHHhhhCCCCCCCHHHHHHHHHHhhccCCchhhh
Q 005329           49 KHLVKSGYLHDARKMFDTMTQRDEISWTTLISGYVKAMDSIEALALFSRVWVEPQMNMDPFILSLALKACALNVNVNYGE  128 (702)
Q Consensus        49 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~  128 (702)
                      ..+.+.|.+..+...|+.++.+++..|+.++..|.+.|++++|+.+|+++..   ..|+..++..++.+|...|++++|.
T Consensus        61 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~---~~p~~~~~~~l~~~~~~~g~~~~A~  137 (597)
T 2xpi_A           61 NNTSTDGSFLKERNAQNTDSLSREDYLRLWRHDALMQQQYKCAAFVGEKVLD---ITGNPNDAFWLAQVYCCTGDYARAK  137 (597)
T ss_dssp             ---------------------CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HHCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             ccccccCccCCCCCccccchHHHHHHHHHHHHHHHHccCchHHHHHHHHHHh---hCCCchHHHHHHHHHHHcCcHHHHH
Confidence            3456778888889999988888999999999999999999999999999983   4778899999999999999999999


Q ss_pred             HHHHHHHHhcCCCchhHHHHHHHhhhcCCChhHHHHHhccCCCC-------------------CcchHHHHHHHHHhCCC
Q 005329          129 SLHGYTVKTGFVNSVFVGSALLDMYTKLGKIELGCRVFDEMPLR-------------------NVVSWTAIITGLVRAGH  189 (702)
Q Consensus       129 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-------------------~~~~~~~li~~~~~~~~  189 (702)
                      .+++.+...  ++++.+++.++.+|.+.|++++|.++|+++...                   +..+|+.++.+|.+.|+
T Consensus       138 ~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  215 (597)
T 2xpi_A          138 CLLTKEDLY--NRSSACRYLAAFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSN  215 (597)
T ss_dssp             HHHHHTCGG--GTCHHHHHHHHHHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHhcc--ccchhHHHHHHHHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCC
Confidence            999987644  688999999999999999999999999965433                   37899999999999999


Q ss_pred             hHHHHHHHHHHHHCCCCCChhhHHHHHHHHhccCChHHH--HHH-HHHHHHhCCCCchhHHHHHHHHhhhCCChHHHHHH
Q 005329          190 NKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSGALNFG--REI-HTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRL  266 (702)
Q Consensus       190 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a--~~~-~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  266 (702)
                      +++|++.|++|.+.+ +.+...+..+...+...+..+.+  ..+ +..+...+..+...+|+.++..|.+.|++++|.++
T Consensus       216 ~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~  294 (597)
T 2xpi_A          216 FDRAKECYKEALMVD-AKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDY  294 (597)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-chhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHH
Confidence            999999999998753 22344455554444433322221  111 44444445555566777788899999999999999


Q ss_pred             HhccCC--CCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCchHHHHHHHHHHHHhCCCCc
Q 005329          267 FERMST--RDVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLVDS  344 (702)
Q Consensus       267 ~~~~~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~  344 (702)
                      |+++.+  ++..+|+.++.+|.+.|++++|.++|+++.+.+ +.+..++..++..+...|++++|..+++.+.+.. +.+
T Consensus       295 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~  372 (597)
T 2xpi_A          295 LSSINGLEKSSDLLLCKADTLFVRSRFIDVLAITTKILEID-PYNLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEK  372 (597)
T ss_dssp             HHTSTTGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTS
T ss_pred             HHHhhcCCchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-ccc
Confidence            999886  788899999999999999999999999998765 3467788888888888888888888888887553 344


Q ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHhcCC---CCChhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 005329          345 LSVANSIMAMYSKCGQLTSTSIVFHGMI---RRDIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVC  421 (702)
Q Consensus       345 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~  421 (702)
                      ..+++.++.+|.+.|++++|.++|+++.   ..+..+|+.++.+|.+.|++++|+++|+++.+.+               
T Consensus       373 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---------------  437 (597)
T 2xpi_A          373 AVTWLAVGIYYLCVNKISEARRYFSKSSTMDPQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF---------------  437 (597)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---------------
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC---------------
Confidence            5555555555555555555555554432   1233344444444444444444444444443321               


Q ss_pred             cccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCHHHHHHHHHHHHHcCChHHHHHHHH
Q 005329          422 GNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFE  501 (702)
Q Consensus       422 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~  501 (702)
                                                                          ..+..+|+.++.+|.+.|++++|.++|+
T Consensus       438 ----------------------------------------------------~~~~~~~~~l~~~~~~~g~~~~A~~~~~  465 (597)
T 2xpi_A          438 ----------------------------------------------------QGTHLPYLFLGMQHMQLGNILLANEYLQ  465 (597)
T ss_dssp             ----------------------------------------------------TTCSHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             ----------------------------------------------------ccchHHHHHHHHHHHHcCCHHHHHHHHH
Confidence                                                                1234455566666666666677777776


Q ss_pred             HchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhh---CCCCC--hhhHHHHHHHHHhcCCHHHHHHHHHhCCC
Q 005329          502 KVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKY---GFVPS--KEHYGCMIDLLCRAGRLSDAENMIENMPH  576 (702)
Q Consensus       502 ~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~---~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  576 (702)
                      ++.+.. +.+..+|..++..|.+.|++++|.++|+++.+..   +..|+  ..+|..++.+|.+.|++++|.++++++..
T Consensus       466 ~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  544 (597)
T 2xpi_A          466 SSYALF-QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLL  544 (597)
T ss_dssp             HHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            666542 3456677777777777777777777777775432   44666  67888888888888888888888888766


Q ss_pred             --CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHh
Q 005329          577 --QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAA  626 (702)
Q Consensus       577 --~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~  626 (702)
                        +++..+|..++.+|...|++++|.+.++++++++|+++..+..++.+|..
T Consensus       545 ~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~  596 (597)
T 2xpi_A          545 LSTNDANVHTAIALVYLHKKIPGLAITHLHESLAISPNEIMASDLLKRALEE  596 (597)
T ss_dssp             HSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHTTC-
T ss_pred             hCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCChHHHHHHHHHHhc
Confidence              44788999999999999999999999999999999999999999988753

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=1.4e-40  Score=364.78  Aligned_cols=480  Identities=12%  Similarity=0.002  Sum_probs=400.2

Q ss_pred             hhcCCChhHHHHHhccCCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhccCChHHHHHHH
Q 005329          153 YTKLGKIELGCRVFDEMPLRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSGALNFGREIH  232 (702)
Q Consensus       153 ~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~  232 (702)
                      +.+.|.+..+...+..++.+++..|+.++..|.+.|++++|+.+|++|..  ..|+..++..++.+|...|++++|..++
T Consensus        63 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~--~~p~~~~~~~l~~~~~~~g~~~~A~~~~  140 (597)
T 2xpi_A           63 TSTDGSFLKERNAQNTDSLSREDYLRLWRHDALMQQQYKCAAFVGEKVLD--ITGNPNDAFWLAQVYCCTGDYARAKCLL  140 (597)
T ss_dssp             -------------------CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HHCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             ccccCccCCCCCccccchHHHHHHHHHHHHHHHHccCchHHHHHHHHHHh--hCCCchHHHHHHHHHHHcCcHHHHHHHH
Confidence            45667788888888888888999999999999999999999999999985  5678899999999999999999999999


Q ss_pred             HHHHHhCCCCchhHHHHHHHHhhhCCChHHHHHHHhccCCC-------------------CcchHHHHHHHHHhcCChhH
Q 005329          233 TIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMSTR-------------------DVISWTTIITSYVQMGEEEN  293 (702)
Q Consensus       233 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-------------------~~~~~~~li~~~~~~g~~~~  293 (702)
                      +.+...  +++..+++.++.+|.+.|++++|.++|+++...                   +..+|+.++.+|.+.|++++
T Consensus       141 ~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  218 (597)
T 2xpi_A          141 TKEDLY--NRSSACRYLAAFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDR  218 (597)
T ss_dssp             HHTCGG--GTCHHHHHHHHHHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHhcc--ccchhHHHHHHHHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHHH
Confidence            988654  788899999999999999999999999965433                   37899999999999999999


Q ss_pred             HHHHHHHHHHCCCCCC-hhhHHHHHHHHHccCchHH--HHHH-HHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHh
Q 005329          294 AFDAFVRMQESDVKPN-EYTFAAIISASANLARIQW--GEQL-HAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFH  369 (702)
Q Consensus       294 a~~~~~~m~~~g~~p~-~~t~~~ll~~~~~~~~~~~--a~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  369 (702)
                      |.+.|++|.+.+  |+ ...+..+...+...+..+.  +..+ +..+...+..+...+++.++..|.+.|++++|.++|+
T Consensus       219 A~~~~~~~~~~~--p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~  296 (597)
T 2xpi_A          219 AKECYKEALMVD--AKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLS  296 (597)
T ss_dssp             HHHHHHHHHHHC--TTCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC--chhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHH
Confidence            999999999864  44 3444444443333322221  1111 4444444445556677888899999999999999999


Q ss_pred             cCCC--CChhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChh
Q 005329          370 GMIR--RDIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAM  447 (702)
Q Consensus       370 ~~~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  447 (702)
                      ++.+  ++..+|+.++.+|.+.|++++|..+|+++.+.+. .+..++..++.++.+.|+.++|..+++.+.+.. +.+..
T Consensus       297 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~  374 (597)
T 2xpi_A          297 SINGLEKSSDLLLCKADTLFVRSRFIDVLAITTKILEIDP-YNLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEKAV  374 (597)
T ss_dssp             TSTTGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSHH
T ss_pred             HhhcCCchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcCc-ccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccHH
Confidence            9977  7899999999999999999999999999998653 366788999999999999999999999998654 45788


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhhCC---CCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhc
Q 005329          448 IKSALINMYSKCGSIKEASQIFYETE---SDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSH  524 (702)
Q Consensus       448 ~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~  524 (702)
                      +++.++.+|.+.|++++|.++|+++.   ..+..+|+.++.+|.+.|++++|+++|+++.+.+ +.+..++..++.+|.+
T Consensus       375 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~  453 (597)
T 2xpi_A          375 TWLAVGIYYLCVNKISEARRYFSKSSTMDPQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQ  453 (597)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHH
Confidence            99999999999999999999999875   4578899999999999999999999999999763 4577899999999999


Q ss_pred             cCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCC-------CCC--HHHHHHHHHHHHhcCC
Q 005329          525 AGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPH-------QKD--DVVWSTLLRACMVQGD  595 (702)
Q Consensus       525 ~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-------~p~--~~~~~~l~~~~~~~g~  595 (702)
                      .|++++|.++|+++.+.  .+.+..+|..++.+|.+.|++++|.++|+++..       .|+  ..+|..++.+|.+.|+
T Consensus       454 ~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~  531 (597)
T 2xpi_A          454 LGNILLANEYLQSSYAL--FQYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKM  531 (597)
T ss_dssp             HTCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTC
T ss_pred             cCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcC
Confidence            99999999999999865  233588999999999999999999999998844       465  6799999999999999


Q ss_pred             HHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 005329          596 VNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSK  643 (702)
Q Consensus       596 ~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  643 (702)
                      +++|++.++++++.+|+++.+|..++.+|.+.|++++|.++++++.+.
T Consensus       532 ~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~  579 (597)
T 2xpi_A          532 YDAAIDALNQGLLLSTNDANVHTAIALVYLHKKIPGLAITHLHESLAI  579 (597)
T ss_dssp             HHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhc
Confidence            999999999999999999999999999999999999999999999874

>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=99.96  E-value=5.9e-26  Score=234.06  Aligned_cols=350  Identities=15%  Similarity=0.133  Sum_probs=174.1

Q ss_pred             HhhhCCChHHHHHHHhccC--CC-CcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCchHHH
Q 005329          253 MYSKCGKLDYSLRLFERMS--TR-DVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWG  329 (702)
Q Consensus       253 ~~~~~g~~~~A~~~~~~~~--~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a  329 (702)
                      .+.+.|++++|.+.++.+.  .| +...+..+...+...|++++|...++...+.. +.+..+|..+...+.+.|++++|
T Consensus         8 ~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~-p~~~~~~~~lg~~~~~~g~~~~A   86 (388)
T 1w3b_A            8 REYQAGDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQLQEA   86 (388)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHHH
Confidence            3444555555555554442  12 22334444444555555555555555544432 23344455555555555555555


Q ss_pred             HHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCC
Q 005329          330 EQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIRRDIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRP  409 (702)
Q Consensus       330 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  409 (702)
                      ...|+.+.+.. +.+...+..+...+.+.|++++|.+.|                               +++.+.  .|
T Consensus        87 ~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~-------------------------------~~al~~--~p  132 (388)
T 1w3b_A           87 IEHYRHALRLK-PDFIDGYINLAAALVAAGDMEGAVQAY-------------------------------VSALQY--NP  132 (388)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHHSCSSHHHHHH-------------------------------HHHHHH--CT
T ss_pred             HHHHHHHHHcC-cchHHHHHHHHHHHHHcCCHHHHHHHH-------------------------------HHHHHh--CC
Confidence            55555554432 222334444445555555555555444                               444442  12


Q ss_pred             C-HHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCHHHHHHHHH
Q 005329          410 N-EFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETE---SDDIVSWTAMIN  485 (702)
Q Consensus       410 ~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~  485 (702)
                      + ...+..+...+...|++++|...++.+.+.. +.+...+..+...+.+.|++++|...|+++.   +.+...|..+..
T Consensus       133 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~  211 (388)
T 1w3b_A          133 DLYCVRSDLGNLLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGN  211 (388)
T ss_dssp             TCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHH
Confidence            2 1223333344444444444444444444432 1123344445555555555555555555443   223445555555


Q ss_pred             HHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCH
Q 005329          486 GYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRL  564 (702)
Q Consensus       486 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~  564 (702)
                      .+...|++++|+..|++..... +.+..++..+...+...|++++|.+.|+++.+.   .|+ ..+|..++.++.+.|++
T Consensus       212 ~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~l~~~~~~~g~~  287 (388)
T 1w3b_A          212 VLKEARIFDRAVAAYLRALSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIEL---QPHFPDAYCNLANALKEKGSV  287 (388)
T ss_dssp             HHHTTTCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---CSSCHHHHHHHHHHHHHHSCH
T ss_pred             HHHHcCCHHHHHHHHHHHHhhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh---CCCCHHHHHHHHHHHHHcCCH
Confidence            5555555555555555555421 123345555555555555555555555555432   333 44555555555555555


Q ss_pred             HHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 005329          565 SDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRS  642 (702)
Q Consensus       565 ~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  642 (702)
                      ++|...++++..  +++..++..++..+...|++++|+..++++++..|+++..+..++.+|.+.|++++|...++++.+
T Consensus       288 ~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~  367 (388)
T 1w3b_A          288 AEAEDCYNTALRLCPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIR  367 (388)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            555555555544  334555555555555556666666666665555555555555566666666666666665555543

>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=99.96  E-value=1.4e-25  Score=231.38  Aligned_cols=373  Identities=12%  Similarity=0.117  Sum_probs=295.8

Q ss_pred             HHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhhhCCChHHHHHHHhccC---CCCcchHHHHHHHHHhcCCh
Q 005329          215 VLKASADSGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMS---TRDVISWTTIITSYVQMGEE  291 (702)
Q Consensus       215 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~  291 (702)
                      +...+.+.|++++|.+.++.+.+.. +.+...+..+...+...|++++|...++...   ..+..+|..+...+.+.|++
T Consensus         5 ~a~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~p~~~~~~~~lg~~~~~~g~~   83 (388)
T 1w3b_A            5 LAHREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQL   83 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCH
Confidence            3455678899999999999998874 4556677778888999999999999998765   34677899999999999999


Q ss_pred             hHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHhcC
Q 005329          292 ENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGM  371 (702)
Q Consensus       292 ~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  371 (702)
                      ++|.+.|+++.+.. +.+..+|..+...+...|++++|.+.+..+.+.. +.+...+..+...+...|++++|.+.|+++
T Consensus        84 ~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a  161 (388)
T 1w3b_A           84 QEAIEHYRHALRLK-PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACYLKA  161 (388)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcC-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            99999999998853 3345578999999999999999999999998874 334455556666666666666666666655


Q ss_pred             CC---CChhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhH
Q 005329          372 IR---RDIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMI  448 (702)
Q Consensus       372 ~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  448 (702)
                      .+   .+..+|..+...+...|++++|...|+++.+.+  |+                                  +...
T Consensus       162 l~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--p~----------------------------------~~~~  205 (388)
T 1w3b_A          162 IETQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD--PN----------------------------------FLDA  205 (388)
T ss_dssp             HHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC--TT----------------------------------CHHH
T ss_pred             HHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CC----------------------------------cHHH
Confidence            22   234556666666666666666666666665532  21                                  2334


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhCC---CCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhcc
Q 005329          449 KSALINMYSKCGSIKEASQIFYETE---SDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHA  525 (702)
Q Consensus       449 ~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~  525 (702)
                      +..+...+...|++++|...|++..   +.+..++..+..++...|++++|++.|+++.+.+ +.+..++..+...+...
T Consensus       206 ~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~  284 (388)
T 1w3b_A          206 YINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEK  284 (388)
T ss_dssp             HHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhhCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHc
Confidence            4455666666777777777766543   3467788889999999999999999999998753 33567899999999999


Q ss_pred             CcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 005329          526 GLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTA  603 (702)
Q Consensus       526 g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~  603 (702)
                      |++++|.+.|+++.+.  .+.+..++..++.++.+.|++++|...++++..  +.+..++..++..+...|++++|...+
T Consensus       285 g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~  362 (388)
T 1w3b_A          285 GSVAEAEDCYNTALRL--CPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHY  362 (388)
T ss_dssp             SCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHH
T ss_pred             CCHHHHHHHHHHHHhh--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            9999999999999865  244588999999999999999999999999887  445789999999999999999999999


Q ss_pred             HHHHHhCCCCchhHHHHHHHHHhcCC
Q 005329          604 EKILELHPSCAGTHITLANIYAAKGR  629 (702)
Q Consensus       604 ~~~~~~~p~~~~~~~~l~~~~~~~g~  629 (702)
                      +++++++|+++..|..++.++...|+
T Consensus       363 ~~a~~~~p~~~~a~~~lg~~~~~~~~  388 (388)
T 1w3b_A          363 KEAIRISPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HHHHTTCTTCHHHHHHHHHHHHHTCC
T ss_pred             HHHHhhCCCCHHHHHhHHHHHHHccC
Confidence            99999999999999999999988764

>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=99.95  E-value=2.4e-27  Score=247.97  Aligned_cols=209  Identities=12%  Similarity=0.093  Sum_probs=151.0

Q ss_pred             HHHHHHHhhhCCCCCCCH-HHHHHHHHHhhccCCchhhhHHHHHHHHhcCCCchhHHHHHHHhhhcCCChhHHHHHhccC
Q 005329           91 ALALFSRVWVEPQMNMDP-FILSLALKACALNVNVNYGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKIELGCRVFDEM  169 (702)
Q Consensus        91 a~~~~~~~~~~~~~~~~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~  169 (702)
                      +..+.+++.+. +..+.+ ..++.+|.+|++.|++++|.++|++|.+.|+.||..+||+||.+|++.+...++       
T Consensus         9 ~e~L~~~~~~k-~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~-------   80 (501)
T 4g26_A            9 SENLSRKAKKK-AIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATES-------   80 (501)
T ss_dssp             ----------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSS-------
T ss_pred             HHHHHHHHHHh-cccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhh-------
Confidence            33444555544 554444 468888999999999999999999999999999999999999999887764332       


Q ss_pred             CCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHH
Q 005329          170 PLRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSGALNFGREIHTIMLKRGFDVVSFVANS  249 (702)
Q Consensus       170 ~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  249 (702)
                                     .+.+..++|.++|++|.+.|+.||..||+++|.+|++.|++++|.++|++|.+.|+.||..+|++
T Consensus        81 ---------------~~~~~l~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~  145 (501)
T 4g26_A           81 ---------------SPNPGLSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGP  145 (501)
T ss_dssp             ---------------SCCHHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHH
T ss_pred             ---------------hhcchHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehH
Confidence                           12355788999999999999999999999999999999999999999999999999888888777


Q ss_pred             HHHHhhhCCChHHHHHHHhccC----CCCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHc
Q 005329          250 LATMYSKCGKLDYSLRLFERMS----TRDVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASAN  322 (702)
Q Consensus       250 li~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~  322 (702)
                      +|.+|++.|++++|.++|++|.    .||..+|++||.+|++.|++++|.++|++|++.|..|+..||+.++..++.
T Consensus       146 lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s  222 (501)
T 4g26_A          146 ALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKS  222 (501)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHS
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhc
Confidence            7777777766666666666653    355566666666666666666666666666666666666666666655544

>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=99.95  E-value=4.7e-27  Score=245.81  Aligned_cols=210  Identities=12%  Similarity=0.073  Sum_probs=153.7

Q ss_pred             HHHHHHHHHHHCCCCCChh-hHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhhhCCChHHHHHHHhcc
Q 005329          192 EGLIYFAEMWRSKEQGDSY-TFAIVLKASADSGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERM  270 (702)
Q Consensus       192 ~a~~~~~~m~~~~~~p~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~  270 (702)
                      .+..+.+++.+.+..+.+. .++.+|.+|++.|++++|.++|++|.+.|+.||..+||+||.+|++.+....+       
T Consensus         8 ~~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~-------   80 (501)
T 4g26_A            8 PSENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATES-------   80 (501)
T ss_dssp             ----------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSS-------
T ss_pred             hHHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhh-------
Confidence            3455667777777766554 57888999999999999999999999999999999999999999887764321       


Q ss_pred             CCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCchHHHHHHHHHHHHhCCCCchHHHHH
Q 005329          271 STRDVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVANS  350 (702)
Q Consensus       271 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  350 (702)
                                     .+.+.++.|.++|++|...|+.||..||+++|.+|++.|++++|.++|++|.+.|+.||..+|++
T Consensus        81 ---------------~~~~~l~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~  145 (501)
T 4g26_A           81 ---------------SPNPGLSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGP  145 (501)
T ss_dssp             ---------------SCCHHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHH
T ss_pred             ---------------hhcchHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehH
Confidence                           23455678888899998889999999999999999999999999999999988888888887777


Q ss_pred             HHHHHHhcCCHHHHHHHHhcC----CCCChhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcc
Q 005329          351 IMAMYSKCGQLTSTSIVFHGM----IRRDIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGN  423 (702)
Q Consensus       351 l~~~~~~~g~~~~a~~~~~~~----~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~  423 (702)
                      +|.+|++.|++++|.++|++|    ..||..+|++||.+|++.|+.++|.++|++|.+.|..|+..||+.++..|+.
T Consensus       146 lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s  222 (501)
T 4g26_A          146 ALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKS  222 (501)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHS
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhc
Confidence            777777777776666666666    3456666777777777777777777777777777777777777777766654

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.92  E-value=2.9e-23  Score=222.64  Aligned_cols=438  Identities=11%  Similarity=-0.026  Sum_probs=256.9

Q ss_pred             hHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhh
Q 005329          176 SWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSGALNFGREIHTIMLKRGFDVVSFVANSLATMYS  255 (702)
Q Consensus       176 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  255 (702)
                      .|..+...+.+.|++++|+..|+++.+..  |+...+..+..++...|++++|.+.++.+.+.+ +.+...+..+..+|.
T Consensus         8 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~   84 (514)
T 2gw1_A            8 ALKDKGNQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRASANE   84 (514)
T ss_dssp             HHHHHHHHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHHHHHH
Confidence            44555566677777777777777776643  566667777777777777777777777776664 344455666666666


Q ss_pred             hCCChHHHHHHHhccCC---CCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCchHHHHHH
Q 005329          256 KCGKLDYSLRLFERMST---RDVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQL  332 (702)
Q Consensus       256 ~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~  332 (702)
                      +.|++++|...|+++..   ++......++..+........+.+.+..+...+..|+...+..-....            
T Consensus        85 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~------------  152 (514)
T 2gw1_A           85 GLGKFADAMFDLSVLSLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERK------------  152 (514)
T ss_dssp             HTTCHHHHHHHHHHHHHSSSCCGGGTHHHHHHHHHHHHHHHHTTC-----------------------------------
T ss_pred             HHhhHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHH------------
Confidence            66666666666665531   222333333333333222222322222222222112211111100000            


Q ss_pred             HHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHhcCCCC-ChhhHHHHHHHHHc---CCChHHHHHHHHHHHH----
Q 005329          333 HAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIRR-DIISWSTIIGGYSQ---GGYEEEAFEYLALMRR----  404 (702)
Q Consensus       333 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-~~~~~~~li~~~~~---~g~~~~a~~~~~~m~~----  404 (702)
                          ......|+......    +..........   ..+..+ +...+......+..   .|++++|...|+++.+    
T Consensus       153 ----~~~~~~~~~~~~~~----~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~  221 (514)
T 2gw1_A          153 ----DKQENLPSVTSMAS----FFGIFKPELTF---ANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEE  221 (514)
T ss_dssp             --------CCCCHHHHHH----HHTTSCCCCCC---SSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHH
T ss_pred             ----hhccCCchhHHHHH----HHhhcCHHHHH---HHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhh
Confidence                00001111111111    11100000000   001111 23333334443333   6677777777777665    


Q ss_pred             -CCCC--------CCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCC-
Q 005329          405 -EGPR--------PNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETES-  474 (702)
Q Consensus       405 -~g~~--------p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-  474 (702)
                       ....        .+...+..+...+...|+++.|...++.+.+....  ...+..+...+...|++++|...|+++.. 
T Consensus       222 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  299 (514)
T 2gw1_A          222 QLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGAHEDIKKAIELFPR--VNSYIYMALIMADRNDSTEYYNYFDKALKL  299 (514)
T ss_dssp             HTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHTSSCCTTGGGHHHHHHTT
T ss_pred             hhccCccccccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCcc--HHHHHHHHHHHHHCCCHHHHHHHHHHHhhc
Confidence             2111        12335555666667777777777777777766544  66666777777777777777777776542 


Q ss_pred             --CCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCC-ChhhH
Q 005329          475 --DDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVP-SKEHY  551 (702)
Q Consensus       475 --~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p-~~~~~  551 (702)
                        .+...+..+...+...|++++|+..++++.+.. +.+...+..+...+...|++++|...++.+.+.   .| +...+
T Consensus       300 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~~  375 (514)
T 2gw1_A          300 DSNNSSVYYHRGQMNFILQNYDQAGKDFDKAKELD-PENIFPYIQLACLAYRENKFDDCETLFSEAKRK---FPEAPEVP  375 (514)
T ss_dssp             CTTCTHHHHHHHHHHHHTTCTTHHHHHHHHHHHTC-SSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHH---STTCSHHH
T ss_pred             CcCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH---cccCHHHH
Confidence              356677777888888888888888888877643 334567777777788888888888888887654   33 36677


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhCCC-CC---C----HHHHHHHHHHHHh---cCCHHHHHHHHHHHHHhCCCCchhHHHH
Q 005329          552 GCMIDLLCRAGRLSDAENMIENMPH-QK---D----DVVWSTLLRACMV---QGDVNCGRHTAEKILELHPSCAGTHITL  620 (702)
Q Consensus       552 ~~l~~~~~~~g~~~~A~~~~~~~~~-~p---~----~~~~~~l~~~~~~---~g~~~~A~~~~~~~~~~~p~~~~~~~~l  620 (702)
                      ..++..+.+.|++++|...++++.. .|   .    ...+..++..+..   .|++++|...++++++.+|+++..+..+
T Consensus       376 ~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l  455 (514)
T 2gw1_A          376 NFFAEILTDKNDFDKALKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLDPRSEQAKIGL  455 (514)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhCcccHHHHHHH
Confidence            7788888888888888888877655 12   1    3377778888888   8888888888888888888888888888


Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCC
Q 005329          621 ANIYAAKGRWREAAEVRKMMRSKGV  645 (702)
Q Consensus       621 ~~~~~~~g~~~~A~~~~~~~~~~~~  645 (702)
                      +.+|.+.|++++|...++++.+..+
T Consensus       456 a~~~~~~g~~~~A~~~~~~a~~~~~  480 (514)
T 2gw1_A          456 AQMKLQQEDIDEAITLFEESADLAR  480 (514)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCS
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHhcc
Confidence            8888888888888888888776544

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.92  E-value=3.9e-23  Score=221.67  Aligned_cols=404  Identities=10%  Similarity=-0.014  Sum_probs=285.4

Q ss_pred             hHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhhhCCChHHHHHHHhccC---CCCcchHHHHHHHHHh
Q 005329          211 TFAIVLKASADSGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMS---TRDVISWTTIITSYVQ  287 (702)
Q Consensus       211 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~  287 (702)
                      .+......+...|++++|...|+.+.+..  |+...+..+..+|.+.|++++|...|+++.   ..+..+|..+..++..
T Consensus         8 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~   85 (514)
T 2gw1_A            8 ALKDKGNQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELKPDYSKVLLRRASANEG   85 (514)
T ss_dssp             HHHHHHHHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccChHHHHHHHHHHHHHHH
Confidence            45556677788899999999999998875  688888888889999999999998888765   2355678888888888


Q ss_pred             cCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHH
Q 005329          288 MGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIV  367 (702)
Q Consensus       288 ~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  367 (702)
                      .|++++|...|+++...+ +++......++..+........+.+.+..+...+..|+......-.      +       .
T Consensus        86 ~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~------~-------~  151 (514)
T 2gw1_A           86 LGKFADAMFDLSVLSLNG-DFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAK------E-------R  151 (514)
T ss_dssp             TTCHHHHHHHHHHHHHSS-SCCGGGTHHHHHHHHHHHHHHHHTTC-----------------------------------
T ss_pred             HhhHHHHHHHHHHHHhcC-CCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhh------H-------H
Confidence            999999999998888775 3444444444444443333333333333322222111111110000      0       0


Q ss_pred             HhcC-CCCChhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHc---ccCcHHHHHHHHHHHHH---
Q 005329          368 FHGM-IRRDIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPN-EFAFASVLSVCG---NMAILEQGKQIHAHVMS---  439 (702)
Q Consensus       368 ~~~~-~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~~~~~ll~~~~---~~~~~~~a~~~~~~~~~---  439 (702)
                      .... ..++.......+..+......    .      .. ..|+ ...+......+.   +.|+++.|...++.+.+   
T Consensus       152 ~~~~~~~~~~~~~~~~~~~~~~~~~~----~------~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~  220 (514)
T 2gw1_A          152 KDKQENLPSVTSMASFFGIFKPELTF----A------NY-DESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFE  220 (514)
T ss_dssp             -----CCCCHHHHHHHHTTSCCCCCC----S------SC-CSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHH
T ss_pred             HhhccCCchhHHHHHHHhhcCHHHHH----H------Hh-cCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhh
Confidence            0000 001111111111100000000    0      00 0122 333333333333   48999999999999988   


Q ss_pred             --hCC--------CCChhHHHHHHHHHHhcCCHHHHHHHHhhCC--CCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCC
Q 005329          440 --IGL--------ERTAMIKSALINMYSKCGSIKEASQIFYETE--SDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVG  507 (702)
Q Consensus       440 --~~~--------~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  507 (702)
                        ..-        +.+...+..+...+...|++++|...|+++.  .|+...+..+..++...|++++|...++++.+..
T Consensus       221 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  300 (514)
T 2gw1_A          221 EQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGAHEDIKKAIELFPRVNSYIYMALIMADRNDSTEYYNYFDKALKLD  300 (514)
T ss_dssp             HHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHTSSCCTTGGGHHHHHHTTC
T ss_pred             hhhccCccccccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCccHHHHHHHHHHHHHCCCHHHHHHHHHHHhhcC
Confidence              311        2235677889999999999999999999875  3447889999999999999999999999998753


Q ss_pred             CCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCC-ChhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHH
Q 005329          508 LRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVP-SKEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWS  584 (702)
Q Consensus       508 ~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~  584 (702)
                       +.+...+..+...+...|++++|...|+.+.+.   .| +...+..++..+...|++++|...++++..  +.+...+.
T Consensus       301 -~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~  376 (514)
T 2gw1_A          301 -SNNSSVYYHRGQMNFILQNYDQAGKDFDKAKEL---DPENIFPYIQLACLAYRENKFDDCETLFSEAKRKFPEAPEVPN  376 (514)
T ss_dssp             -TTCTHHHHHHHHHHHHTTCTTHHHHHHHHHHHT---CSSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHSTTCSHHHH
T ss_pred             -cCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHh---ChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHcccCHHHHH
Confidence             446678889999999999999999999999754   44 478899999999999999999999999876  44677899


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHhCCCCch------hHHHHHHHHHh---cCChHHHHHHHHHHHhCCC
Q 005329          585 TLLRACMVQGDVNCGRHTAEKILELHPSCAG------THITLANIYAA---KGRWREAAEVRKMMRSKGV  645 (702)
Q Consensus       585 ~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~------~~~~l~~~~~~---~g~~~~A~~~~~~~~~~~~  645 (702)
                      .++..+...|++++|...++++++..|.++.      .+..++.++..   .|++++|...++++.+..+
T Consensus       377 ~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~~  446 (514)
T 2gw1_A          377 FFAEILTDKNDFDKALKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLDP  446 (514)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhCc
Confidence            9999999999999999999999999988866      99999999999   9999999999999987543

>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=99.91  E-value=1.8e-21  Score=209.98  Aligned_cols=423  Identities=12%  Similarity=0.027  Sum_probs=251.2

Q ss_pred             cchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHH
Q 005329          174 VVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSGALNFGREIHTIMLKRGFDVVSFVANSLATM  253 (702)
Q Consensus       174 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  253 (702)
                      ...|..+...+.+.|++++|++.|+++.+.. +.+...+..+..++...|++++|.+.++.+.+.+ +.+...+..+...
T Consensus        25 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~  102 (537)
T 3fp2_A           25 AVQLKNRGNHFFTAKNFNEAIKYYQYAIELD-PNEPVFYSNISACYISTGDLEKVIEFTTKALEIK-PDHSKALLRRASA  102 (537)
T ss_dssp             HHHHHHHHHHHHHTTCCC-CHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CchHHHHHHHHHH
Confidence            3456667777788888888888888877653 3456677777777778888888888888887765 4456667777777


Q ss_pred             hhhCCChHHHHHHHhccCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHCC------CCCChhhHHHHHHHHHccCchH
Q 005329          254 YSKCGKLDYSLRLFERMSTRDVISWTTIITSYVQMGEEENAFDAFVRMQESD------VKPNEYTFAAIISASANLARIQ  327 (702)
Q Consensus       254 ~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g------~~p~~~t~~~ll~~~~~~~~~~  327 (702)
                      +...|++++|...|+.+. .++...+..+..+...+....|...++++....      ..|+....              
T Consensus       103 ~~~~g~~~~A~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~--------------  167 (537)
T 3fp2_A          103 NESLGNFTDAMFDLSVLS-LNGDFDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSL--------------  167 (537)
T ss_dssp             HHHHTCHHHHHHHHHHHC------------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHH--------------
T ss_pred             HHHcCCHHHHHHHHHHHh-cCCCCChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHH--------------
Confidence            777778877777776442 222222233344444555566777777664431      12222221              


Q ss_pred             HHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHhcCCCCChh---hHHHHHHHHHc--------CCChHHHH
Q 005329          328 WGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIRRDII---SWSTIIGGYSQ--------GGYEEEAF  396 (702)
Q Consensus       328 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~---~~~~li~~~~~--------~g~~~~a~  396 (702)
                                               ..+....+.+.+...+......+..   ....+...+..        .|++++|.
T Consensus       168 -------------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~  222 (537)
T 3fp2_A          168 -------------------------ASFFGIFDSHLEVSSVNTSSNYDTAYALLSDALQRLYSATDEGYLVANDLLTKST  222 (537)
T ss_dssp             -------------------------HHHHHTSCHHHHHHTSCCCCSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHH
T ss_pred             -------------------------HHHHHhcChHHHHHHHhhccccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHH
Confidence                                     1222233333333333333222111   12222222111        13455555


Q ss_pred             HHHHHHHHCCCCCC------HHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHh
Q 005329          397 EYLALMRREGPRPN------EFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFY  470 (702)
Q Consensus       397 ~~~~~m~~~g~~p~------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~  470 (702)
                      .+++++.+......      ..++..+...+...|+++.|...++.+.+....  ...+..+...+...|++++|...|+
T Consensus       223 ~~~~~~l~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~  300 (537)
T 3fp2_A          223 DMYHSLLSANTVDDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESINLHPT--PNSYIFLALTLADKENSQEFFKFFQ  300 (537)
T ss_dssp             HHHHHHHC--CCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC--HHHHHHHHHHTCCSSCCHHHHHHHH
T ss_pred             HHHHHHHHHCCCcchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCC--chHHHHHHHHHHHhcCHHHHHHHHH
Confidence            55555554321110      112333444455556666666666665554322  4555556666666666666666666


Q ss_pred             hCC---CCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC
Q 005329          471 ETE---SDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS  547 (702)
Q Consensus       471 ~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~  547 (702)
                      ++.   ..+..+|..+...+...|++++|+..|+++.+.. +.+...+..+...+...|++++|.++++++.+.   .|+
T Consensus       301 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~---~~~  376 (537)
T 3fp2_A          301 KAVDLNPEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLN-PENVYPYIQLACLLYKQGKFTESEAFFNETKLK---FPT  376 (537)
T ss_dssp             HHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTT
T ss_pred             HHhccCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCC
Confidence            543   2355667777777777777777777777776642 233456777777777777777777777777654   343


Q ss_pred             -hhhHHHHHHHHHhcCCHHHHHHHHHhCCC-C---C----CHHHHHHHHHHHHhc----------CCHHHHHHHHHHHHH
Q 005329          548 -KEHYGCMIDLLCRAGRLSDAENMIENMPH-Q---K----DDVVWSTLLRACMVQ----------GDVNCGRHTAEKILE  608 (702)
Q Consensus       548 -~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~---p----~~~~~~~l~~~~~~~----------g~~~~A~~~~~~~~~  608 (702)
                       ...+..++.++...|++++|...++++.. .   +    ....+..+...+...          |++++|+..++++++
T Consensus       377 ~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~  456 (537)
T 3fp2_A          377 LPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACE  456 (537)
T ss_dssp             CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHH
Confidence             66777777777777888777777777654 1   1    112234445566666          888888888888888


Q ss_pred             hCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 005329          609 LHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKG  644 (702)
Q Consensus       609 ~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  644 (702)
                      .+|+++..+..++.+|.+.|++++|.+.++++.+..
T Consensus       457 ~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  492 (537)
T 3fp2_A          457 LDPRSEQAKIGLAQLKLQMEKIDEAIELFEDSAILA  492 (537)
T ss_dssp             HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             hCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC
Confidence            888888888888888888888888888888777643

>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=99.90  E-value=5e-21  Score=201.49  Aligned_cols=335  Identities=11%  Similarity=0.075  Sum_probs=241.5

Q ss_pred             CcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCchHHHHHHHHHHHHhCCCCchHHHHHHHH
Q 005329          274 DVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMA  353 (702)
Q Consensus       274 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  353 (702)
                      +...|..+...+.+.|++++|+..|+++.+.. +.+...+..+...+...|++++|...++.+.+.+ +.+...+..+..
T Consensus        25 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~  102 (450)
T 2y4t_A           25 DVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLK-MDFTAARLQRGH  102 (450)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCcHHHHHHHHH
Confidence            44567777777777777777777777777642 3456666666777777777777777777776654 333455555555


Q ss_pred             HHHhcCCHHHHHHHHhcCCCC---Ch---hhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcH
Q 005329          354 MYSKCGQLTSTSIVFHGMIRR---DI---ISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAIL  427 (702)
Q Consensus       354 ~~~~~g~~~~a~~~~~~~~~~---~~---~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~  427 (702)
                      .|.+.|++++|...|+++.+.   +.   ..+..++..+...                       .+..+...+...|++
T Consensus       103 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----------------------~~~~~a~~~~~~~~~  159 (450)
T 2y4t_A          103 LLLKQGKLDEAEDDFKKVLKSNPSENEEKEAQSQLIKSDEMQ-----------------------RLRSQALNAFGSGDY  159 (450)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHH-----------------------HHHHHHHHHHHHTCH
T ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHH-----------------------HHHHHHHHHHHcCCH
Confidence            555555555555555555322   11   3333332221100                       011123335566777


Q ss_pred             HHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCHHHHHHHHHHHHHcCChHHHHHHHHHch
Q 005329          428 EQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETE---SDDIVSWTAMINGYAEHGYSQEAIHLFEKVP  504 (702)
Q Consensus       428 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  504 (702)
                      +.|...++.+.+.. +.+...+..++.+|.+.|++++|...|+++.   +.+..+|..++.+|...|++++|+..|+++.
T Consensus       160 ~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  238 (450)
T 2y4t_A          160 TAAIAFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLKNDNTEAFYKISTLYYQLGDHELSLSEVRECL  238 (450)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            77777777776654 2356677778888888888888888888765   3577889999999999999999999999988


Q ss_pred             hCCCCCCH-HHHHHH------------HHHHhccCcHHHHHHHHHHhHHhhCCCCC-----hhhHHHHHHHHHhcCCHHH
Q 005329          505 MVGLRPDS-VTFMGV------------LTACSHAGLVDLGFHYFNLMSDKYGFVPS-----KEHYGCMIDLLCRAGRLSD  566 (702)
Q Consensus       505 ~~g~~p~~-~~~~~l------------l~~~~~~g~~~~A~~~~~~~~~~~~~~p~-----~~~~~~l~~~~~~~g~~~~  566 (702)
                      ..  .|+. ..+..+            ...|...|++++|.++|+.+.+.   .|+     ...+..++.++.+.|++++
T Consensus       239 ~~--~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~---~p~~~~~~~~~~~~l~~~~~~~g~~~~  313 (450)
T 2y4t_A          239 KL--DQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKT---EPSIAEYTVRSKERICHCFSKDEKPVE  313 (450)
T ss_dssp             HH--CTTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CCSSHHHHHHHHHHHHHHHHTTTCHHH
T ss_pred             Hh--CCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc---CCcchHHHHHHHHHHHHHHHHCCCHHH
Confidence            64  4443 344444            78889999999999999999865   455     4578889999999999999


Q ss_pred             HHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHH------------HHhcC----
Q 005329          567 AENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANI------------YAAKG----  628 (702)
Q Consensus       567 A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~------------~~~~g----  628 (702)
                      |...++++..  +.+..+|..++.+|...|++++|...++++++++|+++..+..++.+            |...|    
T Consensus       314 A~~~~~~a~~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~~~y~~lg~~~~  393 (450)
T 2y4t_A          314 AIRVCSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYETAQEHNENDQQIREGLEKAQRLLKQSQKRDYYKILGVKRN  393 (450)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHHHHHHSCCSGGGSCSSTT
T ss_pred             HHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcchHHHHHHHHHHHHHhhcccchhHHHHhCCCcc
Confidence            9999999876  44688999999999999999999999999999999999999999944            55555    


Q ss_pred             -ChHHHHHHHHH
Q 005329          629 -RWREAAEVRKM  639 (702)
Q Consensus       629 -~~~~A~~~~~~  639 (702)
                       +.+++.+.+++
T Consensus       394 ~~~~~~~~~y~~  405 (450)
T 2y4t_A          394 AKKQEIIKAYRK  405 (450)
T ss_dssp             CCTTHHHHHHHH
T ss_pred             CCHHHHHHHHHH
Confidence             56677777776

>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=99.89  E-value=1.8e-20  Score=202.17  Aligned_cols=235  Identities=8%  Similarity=-0.033  Sum_probs=176.1

Q ss_pred             HHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcC
Q 005329          381 TIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCG  460 (702)
Q Consensus       381 ~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  460 (702)
                      .+...+...|++++|...|+++.+.  .|+...+..+...+...|+++.|...+..+.+... .+..++..+...+...|
T Consensus       248 ~~g~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~  324 (537)
T 3fp2_A          248 YTGIFHFLKNNLLDAQVLLQESINL--HPTPNSYIFLALTLADKENSQEFFKFFQKAVDLNP-EYPPTYYHRGQMYFILQ  324 (537)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHhcccHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHhcCHHHHHHHHHHHhccCC-CCHHHHHHHHHHHHhcC
Confidence            3445556666667777777666663  34455666666677777777777777777666542 34566777888888888


Q ss_pred             CHHHHHHHHhhCC---CCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHH
Q 005329          461 SIKEASQIFYETE---SDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNL  537 (702)
Q Consensus       461 ~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~  537 (702)
                      ++++|...|+++.   +.+...|..+..++...|++++|...++++.+.. +.+...+..+...+...|++++|.+.|++
T Consensus       325 ~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  403 (537)
T 3fp2_A          325 DYKNAKEDFQKAQSLNPENVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDI  403 (537)
T ss_dssp             CHHHHHHHHHHHHHHCTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            8888888888765   3456788889999999999999999999988753 44556888889999999999999999999


Q ss_pred             hHHhhCCCCC----hhhHHHHHHHHHhc----------CCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHH
Q 005329          538 MSDKYGFVPS----KEHYGCMIDLLCRA----------GRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRH  601 (702)
Q Consensus       538 ~~~~~~~~p~----~~~~~~l~~~~~~~----------g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~  601 (702)
                      +.+...-.++    ...+..+..++.+.          |++++|...|+++..  +.+..++..++..+...|++++|.+
T Consensus       404 a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~g~~~~A~~  483 (537)
T 3fp2_A          404 AKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELDPRSEQAKIGLAQLKLQMEKIDEAIE  483 (537)
T ss_dssp             HHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccHHHHHH
Confidence            8765211111    22244556777888          999999999999876  4467889999999999999999999


Q ss_pred             HHHHHHHhCCCCchhHHH
Q 005329          602 TAEKILELHPSCAGTHIT  619 (702)
Q Consensus       602 ~~~~~~~~~p~~~~~~~~  619 (702)
                      .+++++++.|.+......
T Consensus       484 ~~~~al~~~~~~~~~~~~  501 (537)
T 3fp2_A          484 LFEDSAILARTMDEKLQA  501 (537)
T ss_dssp             HHHHHHHHC--CHHHHHH
T ss_pred             HHHHHHHhCCCcHHHHHH
Confidence            999999999987766543

>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=99.89  E-value=2.3e-20  Score=196.41  Aligned_cols=307  Identities=11%  Similarity=0.031  Sum_probs=242.3

Q ss_pred             CChhhHHHHHHHHHccCchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHhcCCC---CChhhHHHHHH
Q 005329          308 PNEYTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIR---RDIISWSTIIG  384 (702)
Q Consensus       308 p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~  384 (702)
                      .+...+..+...+.+.|++++|..+|+.+.+.. +.+...+..+..+|...|++++|+..|+++.+   .+..++..+..
T Consensus        24 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~  102 (450)
T 2y4t_A           24 ADVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLKMDFTAARLQRGH  102 (450)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHHHH
Confidence            345566677777777888888888888777653 44567777777777777888877777777632   24567777777


Q ss_pred             HHHcCCChHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcC
Q 005329          385 GYSQGGYEEEAFEYLALMRREGPRPNE----FAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCG  460 (702)
Q Consensus       385 ~~~~~g~~~~a~~~~~~m~~~g~~p~~----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  460 (702)
                      .|.+.|++++|...|+++.+.  .|+.    ..+..+...+..                       ..+..+...+...|
T Consensus       103 ~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~-----------------------~~~~~~a~~~~~~~  157 (450)
T 2y4t_A          103 LLLKQGKLDEAEDDFKKVLKS--NPSENEEKEAQSQLIKSDEM-----------------------QRLRSQALNAFGSG  157 (450)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHH-----------------------HHHHHHHHHHHHHT
T ss_pred             HHHHcCCHHHHHHHHHHHHhc--CCCChhhHHHHHHHHHHHHH-----------------------HHHHHHHHHHHHcC
Confidence            777777777777777777663  3433    333333322111                       11223456688899


Q ss_pred             CHHHHHHHHhhCC---CCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHH
Q 005329          461 SIKEASQIFYETE---SDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNL  537 (702)
Q Consensus       461 ~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~  537 (702)
                      ++++|...|+++.   +.+...+..++.+|...|++++|++.|+++.+.. +.+..++..+...+...|++++|.+.|+.
T Consensus       158 ~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  236 (450)
T 2y4t_A          158 DYTAAIAFLDKILEVCVWDAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRE  236 (450)
T ss_dssp             CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            9999999999875   4578899999999999999999999999998753 45678999999999999999999999999


Q ss_pred             hHHhhCCCCC-hhhHHHH------------HHHHHhcCCHHHHHHHHHhCCC-CCC-----HHHHHHHHHHHHhcCCHHH
Q 005329          538 MSDKYGFVPS-KEHYGCM------------IDLLCRAGRLSDAENMIENMPH-QKD-----DVVWSTLLRACMVQGDVNC  598 (702)
Q Consensus       538 ~~~~~~~~p~-~~~~~~l------------~~~~~~~g~~~~A~~~~~~~~~-~p~-----~~~~~~l~~~~~~~g~~~~  598 (702)
                      +.+.   .|+ ...+..+            +..+.+.|++++|...|+++.. .|+     ...+..++..+.+.|++++
T Consensus       237 ~~~~---~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~~~~l~~~~~~~g~~~~  313 (450)
T 2y4t_A          237 CLKL---DQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPSIAEYTVRSKERICHCFSKDEKPVE  313 (450)
T ss_dssp             HHHH---CTTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHHTTTCHHH
T ss_pred             HHHh---CCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHHCCCHHH
Confidence            9854   565 4445444            8899999999999999999877 454     4478889999999999999


Q ss_pred             HHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 005329          599 GRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKG  644 (702)
Q Consensus       599 A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  644 (702)
                      |+..++++++.+|+++..+..++.+|...|++++|...++++.+..
T Consensus       314 A~~~~~~a~~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~  359 (450)
T 2y4t_A          314 AIRVCSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYETAQEHN  359 (450)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS
T ss_pred             HHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC
Confidence            9999999999999999999999999999999999999999998743

>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=99.86  E-value=1.4e-16  Score=175.96  Aligned_cols=574  Identities=12%  Similarity=0.092  Sum_probs=386.1

Q ss_pred             HHHHHHHhhccCccccccccccCcccCchhhhhHHHHHHccCChHHHHHHhhcCCC---------------C--------
Q 005329           14 FASSAIACTERRPLLLFQGTQLPVYVSTPEVNSQLKHLVKSGYLHDARKMFDTMTQ---------------R--------   70 (702)
Q Consensus        14 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---------------~--------   70 (702)
                      +..++.+=..-+-+.+++|.-.+..-+..+....|.+.++.|.+.+..++..+-.-               +        
T Consensus       698 li~~fe~~~~~egl~y~l~siv~~s~d~~vhfkyi~aa~~~~q~~everi~res~~y~~e~vk~flk~~kl~d~~pli~v  777 (1630)
T 1xi4_A          698 LIELFESFKSFEGLFYFLGSIVNFSQDPDVHFKYIQAACKTGQIKEVERICRESNCYDPERVKNFLKEAKLTDQLPLIIV  777 (1630)
T ss_pred             HHHHHHHhcchhhHHHHHHhhccccCChHHHHHHHHHHHHhCCchhhhHHhccCCCCCHHHHHHHHhhCCCCCCCCceee
Confidence            44444444444555666887777777888999999999999999998888866321               1        


Q ss_pred             -Ccch-HHH------------HHHHHHcCCChhHHHHHHHHhhhCCCCCCCHHHHHHHH-------------HHhhccCC
Q 005329           71 -DEIS-WTT------------LISGYVKAMDSIEALALFSRVWVEPQMNMDPFILSLAL-------------KACALNVN  123 (702)
Q Consensus        71 -~~~~-~~~------------ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll-------------~~~~~~~~  123 (702)
                       |..- ..-            .|.+|.+.-++..+-.+...+.   ++.-+...-..++             ..+-+.++
T Consensus       778 Cdr~~~v~~l~~yLy~n~~~~~ie~yv~~vnp~~~p~Vvg~ll---d~d~~e~~ik~ll~~v~~~~~~~~lv~~~ekrnr  854 (1630)
T 1xi4_A          778 CDRFDFVHDLVLYLYRNNLQKYIEIYVQKVNPSRLPVVIGGLL---DVDCSEDVIKNLILVVRGQFSTDELVAEVEKRNR  854 (1630)
T ss_pred             ccccccHHHHHHHHHhcCchhHHHHHHhccCCcccchhhhhhh---cCCCCHHHHHHHHHHhccCCCHHHHHHHHHHHHH
Confidence             1111 111            2333333333333222222222   1112222222233             33334444


Q ss_pred             chhhhHHHHHHHHhcCCCchhHHHHHHHhhhcCCChhHH-HHH---hccC------CCCCcc----------hHHHHHHH
Q 005329          124 VNYGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKIELG-CRV---FDEM------PLRNVV----------SWTAIITG  183 (702)
Q Consensus       124 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A-~~~---~~~~------~~~~~~----------~~~~li~~  183 (702)
                      +.....+++..+..| ..++.++|+|...|...++-.+. +.-   ++..      .++|+.          .-..||..
T Consensus       855 Lkll~p~LE~~~~~g-~~~~~~hnalakiyid~n~npe~fL~~n~~yd~~~vgkyce~rDp~la~iay~~g~~d~eli~v  933 (1630)
T 1xi4_A          855 LKLLLPWLEARIHEG-CEEPATHNALAKIYIDSNNNPERFLRENPYYDSRVVGKYCEKRDPHLACVAYERGQCDLELINV  933 (1630)
T ss_pred             HHHHHHHHHHHHhCC-CCCHHHHHHHHHHHhccCCCHHHHhhccCcccHHHHHHHHHhcCcchHHHHhcccCCcHHHHHH
Confidence            444555566666777 56889999999999966542222 110   0000      011211          12234444


Q ss_pred             HHhCCChHHH-HHH-----------------------HHHHHHC--CCCCChhhHHHHHHHHhccCChHHHHHHHHHHHH
Q 005329          184 LVRAGHNKEG-LIY-----------------------FAEMWRS--KEQGDSYTFAIVLKASADSGALNFGREIHTIMLK  237 (702)
Q Consensus       184 ~~~~~~~~~a-~~~-----------------------~~~m~~~--~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  237 (702)
                      .-+++-++.. .-+                       .++-...  .-..|+.-.....++|...|.+.+|.++++...-
T Consensus       934 t~~n~l~k~~arylv~r~d~~lW~~vl~~~n~~RR~Lidqv~a~aL~e~~~PeeVs~~vKaf~~aglp~EaieLLEKivl 1013 (1630)
T 1xi4_A          934 CNENSLFKSLSRYLVRRKDPELWGSVLLESNPYRRPLIDQVVQTALSETQDPEEVSVTVKAFMTADLPNELIELLEKIVL 1013 (1630)
T ss_pred             HhcchhHHHHHHHHHHhcCHHHHHHHhcCCcHHHHHHHHHHHHhhcccccCHHHhHHHHHHHHhCCCHHHHHHHHHHHHc
Confidence            4333333221 111                       1111110  1123444455677888889999999999998884


Q ss_pred             hC--CCCchhHHHHHHHHhhhCCChHHHHHHHhccCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHH
Q 005329          238 RG--FDVVSFVANSLATMYSKCGKLDYSLRLFERMSTRDVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAA  315 (702)
Q Consensus       238 ~~--~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~  315 (702)
                      .+  +..+....+.|+.+..+. +..+..++.++...-+   ...+...+...|.+++|..+|++..     -.....+.
T Consensus      1014 ~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd~~d---~~eIA~Iai~lglyEEAf~IYkKa~-----~~~~A~~V 1084 (1630)
T 1xi4_A         1014 DNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLDNYD---APDIANIAISNELFEEAFAIFRKFD-----VNTSAVQV 1084 (1630)
T ss_pred             CCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhhhcc---HHHHHHHHHhCCCHHHHHHHHHHcC-----CHHHHHHH
Confidence            32  113345566677777666 5566666666655333   4557778888999999999999852     11122222


Q ss_pred             HHHHHHccCchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhhHHHHHHHHHcCCChHHH
Q 005329          316 IISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIRRDIISWSTIIGGYSQGGYEEEA  395 (702)
Q Consensus       316 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  395 (702)
                      ++.   ..+++++|.++....      .+..+|..+..++.+.|++++|++.|.+.  .|...|..++.++.+.|++++|
T Consensus      1085 Lie---~i~nldrAiE~Aerv------n~p~vWsqLAKAql~~G~~kEAIdsYiKA--dD~say~eVa~~~~~lGkyEEA 1153 (1630)
T 1xi4_A         1085 LIE---HIGNLDRAYEFAERC------NEPAVWSQLAKAQLQKGMVKEAIDSYIKA--DDPSSYMEVVQAANTSGNWEEL 1153 (1630)
T ss_pred             HHH---HHhhHHHHHHHHHhc------CCHHHHHHHHHHHHhCCCHHHHHHHHHhc--CChHHHHHHHHHHHHcCCHHHH
Confidence            322   677888888888754      45778889999999999999999999775  6777888899999999999999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCCC
Q 005329          396 FEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETESD  475 (702)
Q Consensus       396 ~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  475 (702)
                      .+.|...++..  ++....+.+..+|++.++++....+.    +   .++...+..+.+.|...|++++|..+|...   
T Consensus      1154 IeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI----~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA--- 1221 (1630)
T 1xi4_A         1154 VKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI----N---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV--- 1221 (1630)
T ss_pred             HHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH----h---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---
Confidence            99999887754  33333335888889988888644443    1   345556667999999999999999999985   


Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHH
Q 005329          476 DIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMI  555 (702)
Q Consensus       476 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~  555 (702)
                        ..|..+..+|.+.|++++|++.+++.      .+..+|..+..+|...|++..|......      +..++..+..++
T Consensus      1222 --~ny~rLA~tLvkLge~q~AIEaarKA------~n~~aWkev~~acve~~Ef~LA~~cgl~------Iiv~~deLeeli 1287 (1630)
T 1xi4_A         1222 --SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLH------IVVHADELEELI 1287 (1630)
T ss_pred             --hHHHHHHHHHHHhCCHHHHHHHHHHh------CCHHHHHHHHHHHhhhhHHHHHHHHHHh------hhcCHHHHHHHH
Confidence              58999999999999999999999886      3458888999999999999999886653      344667788999


Q ss_pred             HHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHH--hcCCHHHHHHHHHHHHHhCC-----CCchhHHHHHHHHHh
Q 005329          556 DLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACM--VQGDVNCGRHTAEKILELHP-----SCAGTHITLANIYAA  626 (702)
Q Consensus       556 ~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~--~~g~~~~A~~~~~~~~~~~p-----~~~~~~~~l~~~~~~  626 (702)
                      ..|.+.|.+++|+.+++....  +.....|..|...+.  +-++..++.+.|..-..+.|     +++..|..++.+|.+
T Consensus      1288 ~yYe~~G~feEAI~LlE~aL~LeraH~gmftELaiLyaKy~peklmEhlk~f~~rini~k~~r~~e~~~lW~elv~LY~~ 1367 (1630)
T 1xi4_A         1288 NYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFKPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDK 1367 (1630)
T ss_pred             HHHHHcCCHHHHHHHHHHHhccChhHhHHHHHHHHHHHhCCHHHHHHHHHHHHHhcccchHhHHHHHHHHHHHHHHHHHh
Confidence            999999999999999988876  334557766666665  55678888888887777666     678889999999999


Q ss_pred             cCChHHHHHHH
Q 005329          627 KGRWREAAEVR  637 (702)
Q Consensus       627 ~g~~~~A~~~~  637 (702)
                      .|+++.|....
T Consensus      1368 ~~e~dnA~~tm 1378 (1630)
T 1xi4_A         1368 YEEYDNAIITM 1378 (1630)
T ss_pred             cccHHHHHHHH
Confidence            99999998543

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.85  E-value=1.7e-18  Score=175.86  Aligned_cols=323  Identities=11%  Similarity=0.027  Sum_probs=248.5

Q ss_pred             hhhHHHHHHHHHccCchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHhcCCC---CChhhHHHHHHHH
Q 005329          310 EYTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIR---RDIISWSTIIGGY  386 (702)
Q Consensus       310 ~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~  386 (702)
                      ...+..+...+...|++++|...++.+.+.. +.+...+..+...+...|++++|+..|+++.+   .+...|..+...+
T Consensus         3 ~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~   81 (359)
T 3ieg_A            3 VEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALKMDFTAARLQRGHLL   81 (359)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCcchHHHHHHHHH
Confidence            4556677778888899999999999888864 45577888888888888888888888887732   3566788888888


Q ss_pred             HcCCChHHHHHHHHHHHHCCCCC---CHH-HHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCH
Q 005329          387 SQGGYEEEAFEYLALMRREGPRP---NEF-AFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSI  462 (702)
Q Consensus       387 ~~~g~~~~a~~~~~~m~~~g~~p---~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  462 (702)
                      ...|++++|...|+++.+.  .|   +.. .+..+...       ..                ...+..+...+...|++
T Consensus        82 ~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~-------~~----------------~~~~~~~a~~~~~~~~~  136 (359)
T 3ieg_A           82 LKQGKLDEAEDDFKKVLKS--NPSEQEEKEAESQLVKA-------DE----------------MQRLRSQALDAFDGADY  136 (359)
T ss_dssp             HHHTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHH-------HH----------------HHHHHHHHHHHHHTTCH
T ss_pred             HHcCChHHHHHHHHHHHhc--CCcccChHHHHHHHHHH-------HH----------------HHHHHHHHHHHHHccCH
Confidence            8888888888888888764  44   222 22222111       00                01122346677888899


Q ss_pred             HHHHHHHhhCC---CCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhH
Q 005329          463 KEASQIFYETE---SDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMS  539 (702)
Q Consensus       463 ~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~  539 (702)
                      ++|...|+++.   +.+...+..+...+...|++++|+..++++.+.. +.+..++..+...+...|++++|.+.|+.+.
T Consensus       137 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~  215 (359)
T 3ieg_A          137 TAAITFLDKILEVCVWDAELRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVRECL  215 (359)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            99988888765   3567788889999999999999999999988753 4466788888889999999999999999887


Q ss_pred             HhhCCCCC-hhhHH------------HHHHHHHhcCCHHHHHHHHHhCCC-CCC-H----HHHHHHHHHHHhcCCHHHHH
Q 005329          540 DKYGFVPS-KEHYG------------CMIDLLCRAGRLSDAENMIENMPH-QKD-D----VVWSTLLRACMVQGDVNCGR  600 (702)
Q Consensus       540 ~~~~~~p~-~~~~~------------~l~~~~~~~g~~~~A~~~~~~~~~-~p~-~----~~~~~l~~~~~~~g~~~~A~  600 (702)
                      +.   .|+ ...+.            .++..+.+.|++++|...++++.. .|+ .    ..+..++..+...|++++|.
T Consensus       216 ~~---~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~  292 (359)
T 3ieg_A          216 KL---DQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPSVAEYTVRSKERICHCFSKDEKPVEAI  292 (359)
T ss_dssp             HH---CTTCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             hh---CccchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHccCHHHHH
Confidence            54   444 33332            236678999999999999998876 444 2    23556788899999999999


Q ss_pred             HHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhCCCccCCeeeEEEECCEEEEEEcCCCCCCChhHHHHHH
Q 005329          601 HTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKGVIKEPGWSRIKVKDQVSAFVSSDRRHSQGEDIYRML  680 (702)
Q Consensus       601 ~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~l  680 (702)
                      ..++++++.+|+++..+..++.+|...|++++|...++++.+.                          +|....+...+
T Consensus       293 ~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~--------------------------~p~~~~~~~~l  346 (359)
T 3ieg_A          293 RICSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEH--------------------------NENDQQIREGL  346 (359)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--------------------------CTTCHHHHHHH
T ss_pred             HHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--------------------------CCCChHHHHHH
Confidence            9999999999999999999999999999999999999998864                          36666777777


Q ss_pred             HHHHHHhc
Q 005329          681 DLLASRES  688 (702)
Q Consensus       681 ~~l~~~~~  688 (702)
                      ..+....+
T Consensus       347 ~~~~~~~~  354 (359)
T 3ieg_A          347 EKAQRLLK  354 (359)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            77665543

>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=99.84  E-value=1.1e-15  Score=168.96  Aligned_cols=569  Identities=12%  Similarity=0.084  Sum_probs=358.2

Q ss_pred             hhHHHHHHHHHHHhhccCccccc--cccccCcccCchhhhhHHHHHHccCChHHHHHHhhcCCC-C-----CcchHHHHH
Q 005329            8 HRVGRLFASSAIACTERRPLLLF--QGTQLPVYVSTPEVNSQLKHLVKSGYLHDARKMFDTMTQ-R-----DEISWTTLI   79 (702)
Q Consensus         8 ~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~-----~~~~~~~ll   79 (702)
                      |+=|-.|..+|...-.+|-.+..  ....++-..++.--...+++|...|.+.+|+++++++.- +     +...-+.++
T Consensus       950 r~d~~lW~~vl~~~n~~RR~Lidqv~a~aL~e~~~PeeVs~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi 1029 (1630)
T 1xi4_A          950 RKDPELWGSVLLESNPYRRPLIDQVVQTALSETQDPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLI 1029 (1630)
T ss_pred             hcCHHHHHHHhcCCcHHHHHHHHHHHHhhcccccCHHHhHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHH
Confidence            34456677777555543322222  222233334445556778888888888888888887652 2     224455566


Q ss_pred             HHHHcCCChhHHHHHHHHhhhCCCCCCCHHHHHHHHHHhhccCCchhhhHHHHHHHHhcCCCchhHHHHHHHhhhcCCCh
Q 005329           80 SGYVKAMDSIEALALFSRVWVEPQMNMDPFILSLALKACALNVNVNYGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKI  159 (702)
Q Consensus        80 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  159 (702)
                      ..-++. +..+..++.++..        .....-+...+...|.+++|..+|++..     ......+.++.   ..+++
T Consensus      1030 ~tAIka-D~~Rv~eyI~kLd--------~~d~~eIA~Iai~lglyEEAf~IYkKa~-----~~~~A~~VLie---~i~nl 1092 (1630)
T 1xi4_A         1030 LTAIKA-DRTRVMEYINRLD--------NYDAPDIANIAISNELFEEAFAIFRKFD-----VNTSAVQVLIE---HIGNL 1092 (1630)
T ss_pred             HHHHHh-ChhhHHHHHHHhh--------hccHHHHHHHHHhCCCHHHHHHHHHHcC-----CHHHHHHHHHH---HHhhH
Confidence            555555 4455555555442        1113336667777888888888888742     12222233332   66888


Q ss_pred             hHHHHHhccCCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhC
Q 005329          160 ELGCRVFDEMPLRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSGALNFGREIHTIMLKRG  239 (702)
Q Consensus       160 ~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  239 (702)
                      ++|.++.++..  +..+|..+..++...|++++|++.|.+.      -|...|..++.++.+.|++++|.+.+...++..
T Consensus      1093 drAiE~Aervn--~p~vWsqLAKAql~~G~~kEAIdsYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~ 1164 (1630)
T 1xi4_A         1093 DRAYEFAERCN--EPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA 1164 (1630)
T ss_pred             HHHHHHHHhcC--CHHHHHHHHHHHHhCCCHHHHHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc
Confidence            88888888764  4667889999999999999999998663      467788889999999999999999998887764


Q ss_pred             CCCchhHHHHHHHHhhhCCChHHHHHHHhccCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHH
Q 005329          240 FDVVSFVANSLATMYSKCGKLDYSLRLFERMSTRDVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISA  319 (702)
Q Consensus       240 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~  319 (702)
                        ++....+.++.+|++.+++++...+.   ..++...|..+...|...|++++|..+|...         ..|..+...
T Consensus      1165 --~e~~Idt~LafaYAKl~rleele~fI---~~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~t 1230 (1630)
T 1xi4_A         1165 --RESYVETELIFALAKTNRLAELEEFI---NGPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLAST 1230 (1630)
T ss_pred             --ccccccHHHHHHHHhhcCHHHHHHHH---hCCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHH
Confidence              44444456888899988888655443   3456667778888889999999999999884         378888999


Q ss_pred             HHccCchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhhHHHHHHHHHcCCChHHHHHHH
Q 005329          320 SANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIRRDIISWSTIIGGYSQGGYEEEAFEYL  399 (702)
Q Consensus       320 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~  399 (702)
                      +.+.|+++.|.+.++..      .+..+|..+..++...|++..|...... ...+...+..++..|.+.|.+++|+.++
T Consensus      1231 LvkLge~q~AIEaarKA------~n~~aWkev~~acve~~Ef~LA~~cgl~-Iiv~~deLeeli~yYe~~G~feEAI~Ll 1303 (1630)
T 1xi4_A         1231 LVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLH-IVVHADELEELINYYQDRGYFEELITML 1303 (1630)
T ss_pred             HHHhCCHHHHHHHHHHh------CCHHHHHHHHHHHhhhhHHHHHHHHHHh-hhcCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            99999999999888876      4567888888888889999999888765 3345556678888999999999999999


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHc--ccCcHHHHHHHHHHHHHhCCCC------ChhHHHHHHHHHHhcCCHHHHHHHHhh
Q 005329          400 ALMRREGPRPNEFAFASVLSVCG--NMAILEQGKQIHAHVMSIGLER------TAMIKSALINMYSKCGSIKEASQIFYE  471 (702)
Q Consensus       400 ~~m~~~g~~p~~~~~~~ll~~~~--~~~~~~~a~~~~~~~~~~~~~~------~~~~~~~li~~~~~~g~~~~A~~~~~~  471 (702)
                      +...... +.....|+-+...++  +.++..++.+.|..-.  ++++      ....|..++..|.+.|+++.|....-+
T Consensus      1304 E~aL~Le-raH~gmftELaiLyaKy~peklmEhlk~f~~ri--ni~k~~r~~e~~~lW~elv~LY~~~~e~dnA~~tm~~ 1380 (1630)
T 1xi4_A         1304 EAALGLE-RAHMGMFTELAILYSKFKPQKMREHLELFWSRV--NIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMN 1380 (1630)
T ss_pred             HHHhccC-hhHhHHHHHHHHHHHhCCHHHHHHHHHHHHHhc--ccchHhHHHHHHHHHHHHHHHHHhcccHHHHHHHHHh
Confidence            7776533 223334444444443  4445555555544322  2222      466788888899999999988743322


Q ss_pred             C-------------C--CCCHHHHHHHHHHHHHcC---------------ChHHHHHHHHHchhCCCCCCHHHH------
Q 005329          472 T-------------E--SDDIVSWTAMINGYAEHG---------------YSQEAIHLFEKVPMVGLRPDSVTF------  515 (702)
Q Consensus       472 ~-------------~--~~~~~~~~~li~~~~~~g---------------~~~~A~~~~~~m~~~g~~p~~~~~------  515 (702)
                      -             .  ..|+..|...+.-|....               +++.+.++|.+.-.   -|-...|      
T Consensus      1381 h~~~a~~~~~Fk~~i~kv~n~elyykai~Fyl~~~P~~lndLl~~l~~rlD~~R~V~l~~~~~~---l~lik~yl~~vq~ 1457 (1630)
T 1xi4_A         1381 HPTDAWKEGQFKDIITKVANVELYYRAIQFYLEFKPLLLNDLLMVLSPRLDHTRAVNYFSKVKQ---LPLVKPYLRSVQN 1457 (1630)
T ss_pred             ccHhhhhhHHHHHHhcccccHHHHHHHHHHHHhhChHHHHHHHHHhhhcCChHHHHHHHHHcCC---hHHhHHHHHHHHH
Confidence            1             1  235666666666665444               66666666553211   1111111      


Q ss_pred             -------HHHHHHHhccCcHHHHHHHHHHhH---H---hhCCC-CChhhHHHHHH-HHHhcCCHHHHHHHHHhCCCCCCH
Q 005329          516 -------MGVLTACSHAGLVDLGFHYFNLMS---D---KYGFV-PSKEHYGCMID-LLCRAGRLSDAENMIENMPHQKDD  580 (702)
Q Consensus       516 -------~~ll~~~~~~g~~~~A~~~~~~~~---~---~~~~~-p~~~~~~~l~~-~~~~~g~~~~A~~~~~~~~~~p~~  580 (702)
                             ..+...+....+++.-+.-.+.-.   .   ...+. -+..-+..+.. .|.+.|+|..|.+++.+..     
T Consensus      1458 ~n~~~Vneal~el~ieeed~~~Lr~si~~~~nfd~~~La~~lekheLl~frrIAa~ly~~n~~~~~ai~l~k~d~----- 1532 (1630)
T 1xi4_A         1458 HNNKSVNESLNNLFITEEDYQALRTSIDAYDNFDNISLAQRLEKHELIEFRRIAAYLFKGNNRWKQSVELCKKDS----- 1532 (1630)
T ss_pred             hcchhhhHHHHHHhcCccchHHHHHHHhhccCcCHHHHHHHhhhhhHHHHHHHHHHHHHhcCcHHHHHHHHHhcc-----
Confidence                   111122222222221111110000   0   00000 01111233333 3444578888888777655     


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHH
Q 005329          581 VVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEV  636 (702)
Q Consensus       581 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~  636 (702)
                       .|.-.+.+...+|+.+.+++++.--.+.  .+.++|......+...=+.+-++++
T Consensus      1533 -l~~dAm~~a~~S~d~e~~e~ll~~F~~~--~~~E~f~a~Ly~cy~l~~pd~vle~ 1585 (1630)
T 1xi4_A         1533 -LYKDAMQYASESKDTELAEELLQWFLQE--EKRECFGACLFTCYDLLRPDVVLET 1585 (1630)
T ss_pred             -CHHHHHHHHHHcCCHHHHHHHHHHHHhc--CChhHHHHHHHHHhccCCchHHHHH
Confidence             3445666777888888887777776666  5666777777777777777665553

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.84  E-value=5.8e-18  Score=171.93  Aligned_cols=324  Identities=10%  Similarity=0.057  Sum_probs=242.6

Q ss_pred             CcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCchHHHHHHHHHHHHhCCCCchHHHHHHHH
Q 005329          274 DVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMA  353 (702)
Q Consensus       274 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  353 (702)
                      |+..+..+...+...|++++|+..|+++.+.. +.+...+..+...+...|+++.|...++.+.+.. +.+...+..+..
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~   79 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGH   79 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHH
Confidence            34567788899999999999999999998864 4457788889999999999999999999999875 446788999999


Q ss_pred             HHHhcCCHHHHHHHHhcCCCCC------hhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcH
Q 005329          354 MYSKCGQLTSTSIVFHGMIRRD------IISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAIL  427 (702)
Q Consensus       354 ~~~~~g~~~~a~~~~~~~~~~~------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~  427 (702)
                      .|...|++++|...|+++.+.+      ...+..+...+.                       ...+......+...|++
T Consensus        80 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~-----------------------~~~~~~~a~~~~~~~~~  136 (359)
T 3ieg_A           80 LLLKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKADE-----------------------MQRLRSQALDAFDGADY  136 (359)
T ss_dssp             HHHHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHH-----------------------HHHHHHHHHHHHHTTCH
T ss_pred             HHHHcCChHHHHHHHHHHHhcCCcccChHHHHHHHHHHHH-----------------------HHHHHHHHHHHHHccCH
Confidence            9999999999999999885432      233333321100                       00112223334445555


Q ss_pred             HHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCHHHHHHHHHHHHHcCChHHHHHHHHHch
Q 005329          428 EQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETE---SDDIVSWTAMINGYAEHGYSQEAIHLFEKVP  504 (702)
Q Consensus       428 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  504 (702)
                      +.|...++.+.+... .+...+..+...+...|++++|...++++.   +.+...+..+...+...|++++|...|++..
T Consensus       137 ~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~  215 (359)
T 3ieg_A          137 TAAITFLDKILEVCV-WDAELRELRAECFIKEGEPRKAISDLKAASKLKSDNTEAFYKISTLYYQLGDHELSLSEVRECL  215 (359)
T ss_dssp             HHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCC-CchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            555555555544432 234555666777777777777777777654   2466778888888888888888888888887


Q ss_pred             hCCCCCCHHHHH------------HHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-h----hhHHHHHHHHHhcCCHHHH
Q 005329          505 MVGLRPDSVTFM------------GVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-K----EHYGCMIDLLCRAGRLSDA  567 (702)
Q Consensus       505 ~~g~~p~~~~~~------------~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~----~~~~~l~~~~~~~g~~~~A  567 (702)
                      +.. +.+...+.            .+...+...|++++|...++.+.+.   .|+ .    ..+..+..++...|++++|
T Consensus       216 ~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~~~~~~~~la~~~~~~~~~~~A  291 (359)
T 3ieg_A          216 KLD-QDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKT---EPSVAEYTVRSKERICHCFSKDEKPVEA  291 (359)
T ss_dssp             HHC-TTCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CCSSHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             hhC-ccchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc---CCCchHHHHHHHHHHHHHHHHccCHHHH
Confidence            642 22333322            2356688899999999999999865   344 2    3355688899999999999


Q ss_pred             HHHHHhCCC-CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhc
Q 005329          568 ENMIENMPH-QK-DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAK  627 (702)
Q Consensus       568 ~~~~~~~~~-~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~  627 (702)
                      ...++++.. .| +..+|..++..+...|++++|...++++++++|++...+..+..+....
T Consensus       292 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~  353 (359)
T 3ieg_A          292 IRICSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEHNENDQQIREGLEKAQRLL  353 (359)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHH
Confidence            999999877 44 7889999999999999999999999999999999999998888776554

>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=99.81  E-value=1.2e-17  Score=167.55  Aligned_cols=280  Identities=9%  Similarity=-0.012  Sum_probs=179.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhcCCC---CChhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHccc
Q 005329          348 ANSIMAMYSKCGQLTSTSIVFHGMIR---RDIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNM  424 (702)
Q Consensus       348 ~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~  424 (702)
                      +..+...+...|++++|+++|+++.+   .+...+..++..+...|++++|..+++++.+.. +.+...+..+...+...
T Consensus        25 ~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~  103 (330)
T 3hym_B           25 VVSLAERHYYNCDFKMCYKLTSVVMEKDPFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAVGCYYLMV  103 (330)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHh
Confidence            33334444444444444444444311   123334444455555555555555555555432 12333444444555555


Q ss_pred             C-cHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCHHHHHHHHHHHHHcCChHHHHHHH
Q 005329          425 A-ILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETE---SDDIVSWTAMINGYAEHGYSQEAIHLF  500 (702)
Q Consensus       425 ~-~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~  500 (702)
                      | +++.|...++.+.+.. +.+...+..+...+...|++++|...|+++.   +.+...+..+...+...|++++|.+.+
T Consensus       104 ~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~  182 (330)
T 3hym_B          104 GHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKGCHLPMLYIGLEYGLTNNSKLAERFF  182 (330)
T ss_dssp             CSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCSHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhhHHHHHHHH
Confidence            5 5555555555555433 1234455566667777777777777776654   234556666777888888888888888


Q ss_pred             HHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCC-------CCChhhHHHHHHHHHhcCCHHHHHHHHHh
Q 005329          501 EKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGF-------VPSKEHYGCMIDLLCRAGRLSDAENMIEN  573 (702)
Q Consensus       501 ~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~-------~p~~~~~~~l~~~~~~~g~~~~A~~~~~~  573 (702)
                      +++.+.. +.+...+..+...+...|++++|...++++.+...-       ......+..++.++...|++++|...+++
T Consensus       183 ~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  261 (330)
T 3hym_B          183 SQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALDYHRQ  261 (330)
T ss_dssp             HHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence            8877642 345567777888888888888888888887654211       22356788888888888888888888888


Q ss_pred             CCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHH-HhcCCh
Q 005329          574 MPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIY-AAKGRW  630 (702)
Q Consensus       574 ~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~-~~~g~~  630 (702)
                      +..  +.+...+..++..+...|++++|.+.++++++++|+++..+..++.++ ...|+.
T Consensus       262 a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~g~~  321 (330)
T 3hym_B          262 ALVLIPQNASTYSAIGYIHSLMGNFENAVDYFHTALGLRRDDTFSVTMLGHCIEMYIGDS  321 (330)
T ss_dssp             HHHHSTTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTCSCCHHHHHHHHHHHHTTTTC-
T ss_pred             HHhhCccchHHHHHHHHHHHHhccHHHHHHHHHHHHccCCCchHHHHHHHHHHHHHhCch
Confidence            765  345678888888888888888888888888888888888888888887 445554

>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=99.80  E-value=3.1e-17  Score=164.49  Aligned_cols=284  Identities=10%  Similarity=0.037  Sum_probs=239.1

Q ss_pred             CChhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHH
Q 005329          374 RDIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALI  453 (702)
Q Consensus       374 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  453 (702)
                      .+...+..++..+...|++++|.++|+++.+.. +.+...+..+...+...|++++|...++.+.+... .+...+..+.
T Consensus        20 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~   97 (330)
T 3hym_B           20 ENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVDLYP-SNPVSWFAVG   97 (330)
T ss_dssp             CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TSTHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhCc-CCHHHHHHHH
Confidence            356677788889999999999999999998764 22344555677788899999999999999998653 3567788899


Q ss_pred             HHHHhcC-CHHHHHHHHhhCCC---CCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHH
Q 005329          454 NMYSKCG-SIKEASQIFYETES---DDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVD  529 (702)
Q Consensus       454 ~~~~~~g-~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~  529 (702)
                      ..+...| ++++|...|++...   .+...|..+...+...|++++|+..++++.+.. +.+...+..+...+...|+++
T Consensus        98 ~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~  176 (330)
T 3hym_B           98 CYYLMVGHKNEHARRYLSKATTLEKTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLM-KGCHLPMLYIGLEYGLTNNSK  176 (330)
T ss_dssp             HHHHHSCSCHHHHHHHHHHHHTTCTTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT-TTCSHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHhhhhHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHHhhHH
Confidence            9999999 99999999998653   467789999999999999999999999998753 334567777899999999999


Q ss_pred             HHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC-----------CCCHHHHHHHHHHHHhcCCHH
Q 005329          530 LGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH-----------QKDDVVWSTLLRACMVQGDVN  597 (702)
Q Consensus       530 ~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----------~p~~~~~~~l~~~~~~~g~~~  597 (702)
                      +|.+.++++.+   ..|+ ...+..++..+...|++++|...++++..           +....++..++..+...|+++
T Consensus       177 ~A~~~~~~al~---~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  253 (330)
T 3hym_B          177 LAERFFSQALS---IAPEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYA  253 (330)
T ss_dssp             HHHHHHHHHHT---TCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHH---hCCCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHH
Confidence            99999999974   3554 78899999999999999999999988755           223578999999999999999


Q ss_pred             HHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhCCCccCCeeeEEEECCEEEEEEcCCCCCCChhHHH
Q 005329          598 CGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKGVIKEPGWSRIKVKDQVSAFVSSDRRHSQGEDIY  677 (702)
Q Consensus       598 ~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~  677 (702)
                      +|+..++++++..|+++..+..++.+|...|++++|.+.++++.+.                          .|.....+
T Consensus       254 ~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--------------------------~p~~~~~~  307 (330)
T 3hym_B          254 EALDYHRQALVLIPQNASTYSAIGYIHSLMGNFENAVDYFHTALGL--------------------------RRDDTFSV  307 (330)
T ss_dssp             HHHHHHHHHHHHSTTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTT--------------------------CSCCHHHH
T ss_pred             HHHHHHHHHHhhCccchHHHHHHHHHHHHhccHHHHHHHHHHHHcc--------------------------CCCchHHH
Confidence            9999999999999999999999999999999999999999987653                          36666777


Q ss_pred             HHHHHHH-HHhcC
Q 005329          678 RMLDLLA-SRESD  689 (702)
Q Consensus       678 ~~l~~l~-~~~~~  689 (702)
                      ..+.... ...++
T Consensus       308 ~~l~~~~~~~~g~  320 (330)
T 3hym_B          308 TMLGHCIEMYIGD  320 (330)
T ss_dssp             HHHHHHHHTTTTC
T ss_pred             HHHHHHHHHHhCc
Confidence            7777654 34443

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.80  E-value=2.6e-16  Score=166.96  Aligned_cols=364  Identities=10%  Similarity=0.018  Sum_probs=252.9

Q ss_pred             hHHHHHHHHhhh----CCChHHHHHHHhccCC-CCcchHHHHHHHHHh----cCChhHHHHHHHHHHHCCCCCChhhHHH
Q 005329          245 FVANSLATMYSK----CGKLDYSLRLFERMST-RDVISWTTIITSYVQ----MGEEENAFDAFVRMQESDVKPNEYTFAA  315 (702)
Q Consensus       245 ~~~~~li~~~~~----~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~t~~~  315 (702)
                      ..+..+...|..    .+++++|...|++..+ .+...+..|...|..    .+++++|.+.|++..+.|   +...+..
T Consensus        40 ~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~  116 (490)
T 2xm6_A           40 KAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQGYTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---LPQAQQN  116 (490)
T ss_dssp             HHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHH
T ss_pred             HHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHH
Confidence            333444444444    4555555555554432 244455555555555    556666666666665543   3344444


Q ss_pred             HHHHHHc----cCchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHh----cCCHHHHHHHHhcCCC-CChhhHHHHHHHH
Q 005329          316 IISASAN----LARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSK----CGQLTSTSIVFHGMIR-RDIISWSTIIGGY  386 (702)
Q Consensus       316 ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~-~~~~~~~~li~~~  386 (702)
                      +...+..    .+++++|...|+...+.|   +...+..+...|..    .+++++|.+.|++..+ .+..++..+...|
T Consensus       117 Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~~~~a~~~Lg~~y  193 (490)
T 2xm6_A          117 LGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQGNVWSCNQLGYMY  193 (490)
T ss_dssp             HHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            4444544    556666666666665554   34445555566655    5667777777766533 3556666677777


Q ss_pred             Hc----CCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcc----cCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHh
Q 005329          387 SQ----GGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGN----MAILEQGKQIHAHVMSIGLERTAMIKSALINMYSK  458 (702)
Q Consensus       387 ~~----~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  458 (702)
                      ..    .+++++|.+.|++..+.|   +...+..+...+..    .++.++|...++...+.+   +...+..+..+|..
T Consensus       194 ~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~  267 (490)
T 2xm6_A          194 SRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQFRLGYILEQ  267 (490)
T ss_dssp             HHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHH
T ss_pred             hcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHC
Confidence            66    677888888888777654   34455555555543    677888888887777654   34455566777776


Q ss_pred             ----cCCHHHHHHHHhhCCC-CCHHHHHHHHHHHHHc-----CChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccC--
Q 005329          459 ----CGSIKEASQIFYETES-DDIVSWTAMINGYAEH-----GYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAG--  526 (702)
Q Consensus       459 ----~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g--  526 (702)
                          .++.++|...|++..+ .+...+..+...|...     +++++|+..|++..+.|   +...+..+...+...|  
T Consensus       268 g~~~~~d~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~~g~~  344 (490)
T 2xm6_A          268 GLAGAKEPLKALEWYRKSAEQGNSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG---DATAQANLGAIYFRLGSE  344 (490)
T ss_dssp             TTTSSCCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHSCCH
T ss_pred             CCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCc
Confidence                7899999999988664 4677888888888887     89999999999998865   3456666766666645  


Q ss_pred             -cHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHh----cCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHH
Q 005329          527 -LVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCR----AGRLSDAENMIENMPHQKDDVVWSTLLRACMV----QGDVN  597 (702)
Q Consensus       527 -~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~  597 (702)
                       +.++|.++|++..+.    .+...+..|...|..    .+++++|..+|++.....+...+..|...|..    .++.+
T Consensus       345 ~~~~~A~~~~~~a~~~----~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~~~~a~~~Lg~~y~~g~g~~~d~~  420 (490)
T 2xm6_A          345 EEHKKAVEWFRKAAAK----GEKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQGLSAAQVQLGEIYYYGLGVERDYV  420 (490)
T ss_dssp             HHHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHH
T ss_pred             ccHHHHHHHHHHHHHC----CCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHcCCCCCCCHH
Confidence             889999999998764    367788889999988    89999999999998877788899999999988    89999


Q ss_pred             HHHHHHHHHHHhCCC---CchhHHHHHHHHHhc
Q 005329          598 CGRHTAEKILELHPS---CAGTHITLANIYAAK  627 (702)
Q Consensus       598 ~A~~~~~~~~~~~p~---~~~~~~~l~~~~~~~  627 (702)
                      +|...|+++.+.+|+   ++.....|+.++...
T Consensus       421 ~A~~~~~~A~~~~~~~~~~~~a~~~l~~~~~~~  453 (490)
T 2xm6_A          421 QAWAWFDTASTNDMNLFGTENRNITEKKLTAKQ  453 (490)
T ss_dssp             HHHHHHHHHHHHHCCHHHHHHHHHHHTTSCHHH
T ss_pred             HHHHHHHHHHHCCCCCcCCHHHHHHHHhcCHhH
Confidence            999999999999954   777777787776653

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.78  E-value=2.7e-15  Score=159.09  Aligned_cols=353  Identities=11%  Similarity=0.050  Sum_probs=297.8

Q ss_pred             CCCcchHHHHHHHHHh----cCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHc----cCchHHHHHHHHHHHHhCCCC
Q 005329          272 TRDVISWTTIITSYVQ----MGEEENAFDAFVRMQESDVKPNEYTFAAIISASAN----LARIQWGEQLHAHVLRLGLVD  343 (702)
Q Consensus       272 ~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~  343 (702)
                      ..+..++..+...|..    .+++++|+..|++..+.|   +...+..+...+..    .++.++|...|+...+.|   
T Consensus        36 ~g~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---  109 (490)
T 2xm6_A           36 SGEAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---  109 (490)
T ss_dssp             TTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---
T ss_pred             CCCHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---
Confidence            3466777778888887    899999999999998875   56677777788887    899999999999998875   


Q ss_pred             chHHHHHHHHHHHh----cCCHHHHHHHHhcCCCC-ChhhHHHHHHHHHc----CCChHHHHHHHHHHHHCCCCCCHHHH
Q 005329          344 SLSVANSIMAMYSK----CGQLTSTSIVFHGMIRR-DIISWSTIIGGYSQ----GGYEEEAFEYLALMRREGPRPNEFAF  414 (702)
Q Consensus       344 ~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~-~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~~~  414 (702)
                      +...+..|...|..    .+++++|+..|+...+. +..++..|...|..    .+++++|++.|++..+.|   +...+
T Consensus       110 ~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a~  186 (490)
T 2xm6_A          110 LPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQGRDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWSC  186 (490)
T ss_dssp             CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHH
T ss_pred             CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHH
Confidence            55667778888888    88999999999987544 66788888888887    789999999999998865   56667


Q ss_pred             HHHHHHHcc----cCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHh----cCCHHHHHHHHhhCCC-CCHHHHHHHHH
Q 005329          415 ASVLSVCGN----MAILEQGKQIHAHVMSIGLERTAMIKSALINMYSK----CGSIKEASQIFYETES-DDIVSWTAMIN  485 (702)
Q Consensus       415 ~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~-~~~~~~~~li~  485 (702)
                      ..+...+..    .++.++|...+....+.+   +...+..+..+|..    .+++++|..+|++..+ .+...+..+..
T Consensus       187 ~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~lg~  263 (490)
T 2xm6_A          187 NQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQGNSIAQFRLGY  263 (490)
T ss_dssp             HHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTTCHHHHHHHHH
T ss_pred             HHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            777777766    799999999999998865   45667778888886    8999999999998654 56778888888


Q ss_pred             HHHH----cCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhcc-----CcHHHHHHHHHHhHHhhCCCCChhhHHHHHH
Q 005329          486 GYAE----HGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHA-----GLVDLGFHYFNLMSDKYGFVPSKEHYGCMID  556 (702)
Q Consensus       486 ~~~~----~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~-----g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~  556 (702)
                      .|..    .+++++|++.|++..+.|   +...+..+...+...     +++++|...|++..+. +   +...+..|..
T Consensus       264 ~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~-~---~~~a~~~lg~  336 (490)
T 2xm6_A          264 ILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQ-G---DATAQANLGA  336 (490)
T ss_dssp             HHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHT-T---CHHHHHHHHH
T ss_pred             HHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhc-C---CHHHHHHHHH
Confidence            8888    899999999999998764   445666677777766     8999999999998764 3   4567888888


Q ss_pred             HHHhcC---CHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHh---
Q 005329          557 LLCRAG---RLSDAENMIENMPHQKDDVVWSTLLRACMV----QGDVNCGRHTAEKILELHPSCAGTHITLANIYAA---  626 (702)
Q Consensus       557 ~~~~~g---~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~---  626 (702)
                      .|...|   ++++|..+|++.....++..+..+...|..    .+++++|...++++.+.+  ++..+..|+.+|..   
T Consensus       337 ~y~~~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~--~~~a~~~Lg~~y~~g~g  414 (490)
T 2xm6_A          337 IYFRLGSEEEHKKAVEWFRKAAAKGEKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQG--LSAAQVQLGEIYYYGLG  414 (490)
T ss_dssp             HHHHSCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHTSS
T ss_pred             HHHhCCCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCC--CHHHHHHHHHHHHcCCC
Confidence            888866   889999999998877788999999999998    899999999999999864  68899999999998   


Q ss_pred             -cCChHHHHHHHHHHHhCCC
Q 005329          627 -KGRWREAAEVRKMMRSKGV  645 (702)
Q Consensus       627 -~g~~~~A~~~~~~~~~~~~  645 (702)
                       .+++++|..++++..+.+.
T Consensus       415 ~~~d~~~A~~~~~~A~~~~~  434 (490)
T 2xm6_A          415 VERDYVQAWAWFDTASTNDM  434 (490)
T ss_dssp             SCCCHHHHHHHHHHHHHHHC
T ss_pred             CCCCHHHHHHHHHHHHHCCC
Confidence             8999999999999998774

>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=99.78  E-value=3.5e-17  Score=162.60  Aligned_cols=284  Identities=13%  Similarity=0.136  Sum_probs=116.3

Q ss_pred             cCCChhHHHHHhccCCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhccCChHHHHHHHHH
Q 005329          155 KLGKIELGCRVFDEMPLRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSGALNFGREIHTI  234 (702)
Q Consensus       155 ~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~  234 (702)
                      +.|++++|.+.++++..|  .+|..|..++.+.|++++|++.|.+      .+|..+|..++.++...|++++|..+++.
T Consensus        15 ~~~~ld~A~~fae~~~~~--~vWs~La~A~l~~g~~~eAIdsfik------a~D~~~y~~V~~~ae~~g~~EeAi~yl~~   86 (449)
T 1b89_A           15 HIGNLDRAYEFAERCNEP--AVWSQLAKAQLQKGMVKEAIDSYIK------ADDPSSYMEVVQAANTSGNWEELVKYLQM   86 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhCCCh--HHHHHHHHHHHHcCCHHHHHHHHHc------CCCHHHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            667888888888888655  4888888888888888888888865      35777888888888888888888888877


Q ss_pred             HHHhCCCCchhHHHHHHHHhhhCCChHHHHHHHhccCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHH
Q 005329          235 MLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMSTRDVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFA  314 (702)
Q Consensus       235 ~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~  314 (702)
                      .++.  .+++.+.+.|+.+|.+.|+++++.++++.   |+..+|+.+...|...|.+++|...|..+         ..|.
T Consensus        87 ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~~---pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~~  152 (449)
T 1b89_A           87 ARKK--ARESYVETELIFALAKTNRLAELEEFING---PNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFG  152 (449)
T ss_dssp             ------------------------CHHHHTTTTTC---C----------------CTTTHHHHHHHT---------TCHH
T ss_pred             HHHh--CccchhHHHHHHHHHHhCCHHHHHHHHcC---CcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhHH
Confidence            7764  45567788888889999988888877753   67778888888899999999999998876         4788


Q ss_pred             HHHHHHHccCchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhhHHHHHHHHHcCCChHH
Q 005329          315 AIISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIRRDIISWSTIIGGYSQGGYEEE  394 (702)
Q Consensus       315 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  394 (702)
                      .+..++.+.|+++.|.+.+..+      .++.+|..++.+|...|+++.|......+. .++.....++..|.+.|++++
T Consensus       153 ~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~-~~ad~l~~lv~~Yek~G~~eE  225 (449)
T 1b89_A          153 RLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV-VHADELEELINYYQDRGYFEE  225 (449)
T ss_dssp             HHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT-TCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHHH-hCHhhHHHHHHHHHHCCCHHH
Confidence            8888888888888888888877      367888888888888888888877777654 344445568888888888888


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHcc--cCcHHHHHHHHHHHHHhCCCC------ChhHHHHHHHHHHhcCCHHHHH
Q 005329          395 AFEYLALMRREGPRPNEFAFASVLSVCGN--MAILEQGKQIHAHVMSIGLER------TAMIKSALINMYSKCGSIKEAS  466 (702)
Q Consensus       395 a~~~~~~m~~~g~~p~~~~~~~ll~~~~~--~~~~~~a~~~~~~~~~~~~~~------~~~~~~~li~~~~~~g~~~~A~  466 (702)
                      |..+++...... +.....|+-+-..+++  .++..+..+.|..  +.+++|      +...|..++..|...++++.|.
T Consensus       226 ai~lLe~aL~le-~ah~~~ftel~il~~ky~p~k~~ehl~~~~~--~ini~k~~~~~~~~~~w~e~~~ly~~~~e~d~A~  302 (449)
T 1b89_A          226 LITMLEAALGLE-RAHMGMFTELAILYSKFKPQKMREHLELFWS--RVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAI  302 (449)
T ss_dssp             HHHHHHHHTTST-TCCHHHHHHHHHHHHTTCHHHHHHHHHHHST--TSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHhCCc-HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH--HhcCcHHHHHHHHHHHHHHHHHHHHhhchHHHHH
Confidence            888888876543 3334445444433333  3334443333321  112222      2344555666666666666665


Q ss_pred             HHHh
Q 005329          467 QIFY  470 (702)
Q Consensus       467 ~~~~  470 (702)
                      ...-
T Consensus       303 ~tm~  306 (449)
T 1b89_A          303 ITMM  306 (449)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5433

>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=99.77  E-value=2.5e-17  Score=168.04  Aligned_cols=280  Identities=10%  Similarity=-0.033  Sum_probs=214.6

Q ss_pred             HhcCCHHHHHH-HHhcCCCC-------ChhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcH
Q 005329          356 SKCGQLTSTSI-VFHGMIRR-------DIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAIL  427 (702)
Q Consensus       356 ~~~g~~~~a~~-~~~~~~~~-------~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~  427 (702)
                      .-.|++++|.. .|++....       +...+..+...+.+.|++++|...|+++.+.. +.+...+..+..++...|++
T Consensus        36 ~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~  114 (368)
T 1fch_A           36 PWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQE  114 (368)
T ss_dssp             ----------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCH
Confidence            34467777777 77655221       24567778888888888888888888887753 33556777777888888888


Q ss_pred             HHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCC--C-CHHHHHH---------------HHHHHHH
Q 005329          428 EQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETES--D-DIVSWTA---------------MINGYAE  489 (702)
Q Consensus       428 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~---------------li~~~~~  489 (702)
                      +.|...++.+.+.. +.+...+..+...|...|++++|...|+++..  | +...+..               .+..+..
T Consensus       115 ~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  193 (368)
T 1fch_A          115 LLAISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLS  193 (368)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHH
T ss_pred             HHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHhhhhcccHHHHHHHHHhh
Confidence            88888888887765 33566777788888888888888888887542  1 2222211               1333348


Q ss_pred             cCChHHHHHHHHHchhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHH
Q 005329          490 HGYSQEAIHLFEKVPMVGLRP-DSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDA  567 (702)
Q Consensus       490 ~g~~~~A~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A  567 (702)
                      .|++++|+..|+++.+..... +..++..+...+...|++++|...|+++.+.   .|+ ...+..++.++.+.|++++|
T Consensus       194 ~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~---~~~~~~~~~~l~~~~~~~g~~~~A  270 (368)
T 1fch_A          194 DSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV---RPNDYLLWNKLGATLANGNQSEEA  270 (368)
T ss_dssp             HHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             cccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CcCCHHHHHHHHHHHHHcCCHHHH
Confidence            899999999999998753111 4778899999999999999999999999865   454 78899999999999999999


Q ss_pred             HHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCC-----------chhHHHHHHHHHhcCChHHHH
Q 005329          568 ENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSC-----------AGTHITLANIYAAKGRWREAA  634 (702)
Q Consensus       568 ~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~-----------~~~~~~l~~~~~~~g~~~~A~  634 (702)
                      ...++++..  +.+..++..++..+...|++++|...+++++++.|++           ...|..++.+|...|++++|.
T Consensus       271 ~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  350 (368)
T 1fch_A          271 VAAYRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYG  350 (368)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHH
T ss_pred             HHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChHhHH
Confidence            999999876  4567899999999999999999999999999999887           789999999999999999999


Q ss_pred             HHHHHH
Q 005329          635 EVRKMM  640 (702)
Q Consensus       635 ~~~~~~  640 (702)
                      .++++.
T Consensus       351 ~~~~~~  356 (368)
T 1fch_A          351 AADARD  356 (368)
T ss_dssp             HHHTTC
T ss_pred             HhHHHH
Confidence            887643

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.77  E-value=2.7e-15  Score=160.80  Aligned_cols=413  Identities=9%  Similarity=0.006  Sum_probs=278.7

Q ss_pred             CCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhhhCCChHHHHHHHhccCC--CCcchHHHHHH
Q 005329          206 QGDSYTFAIVLKASADSGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMST--RDVISWTTIIT  283 (702)
Q Consensus       206 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~  283 (702)
                      +-|...|..++.. ...|+++.|..+|+.+.+.. +.+...|..++..+.+.|++++|..+|++...  |++..|..++.
T Consensus        10 P~~~~~w~~l~~~-~~~~~~~~a~~~~e~al~~~-P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~p~~~lw~~~~~   87 (530)
T 2ooe_A           10 PYDLDAWSILIRE-AQNQPIDKARKTYERLVAQF-PSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKVLHIDLWKCYLS   87 (530)
T ss_dssp             TTCHHHHHHHHHH-HHSSCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTCCCHHHHHHHHH
T ss_pred             CCCHHHHHHHHHH-HHhCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCChHHHHHHHH
Confidence            3366677777774 66788999999999888763 55677888888888888999999999988764  56666666664


Q ss_pred             H-HHhcCChhHHHH----HHHHHHHC-CCCCC-hhhHHHHHHHHHc---------cCchHHHHHHHHHHHHhCCCCchHH
Q 005329          284 S-YVQMGEEENAFD----AFVRMQES-DVKPN-EYTFAAIISASAN---------LARIQWGEQLHAHVLRLGLVDSLSV  347 (702)
Q Consensus       284 ~-~~~~g~~~~a~~----~~~~m~~~-g~~p~-~~t~~~ll~~~~~---------~~~~~~a~~~~~~~~~~~~~~~~~~  347 (702)
                      . ....|+.+.|.+    +|++.... |..|+ ...|...+.....         .|+++.|..+|+...+....+...+
T Consensus        88 ~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~P~~~~~~~  167 (530)
T 2ooe_A           88 YVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVNPMINIEQL  167 (530)
T ss_dssp             HHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTSCCTTHHHH
T ss_pred             HHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhchhhhHHHH
Confidence            2 234577776665    66655442 54443 3444444444333         5677778888877776211111223


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhcCCCCChhhHHHHHHHHHcCCChHHHHHHHHHHH------HCC---CCCCH-------
Q 005329          348 ANSIMAMYSKCGQLTSTSIVFHGMIRRDIISWSTIIGGYSQGGYEEEAFEYLALMR------REG---PRPNE-------  411 (702)
Q Consensus       348 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~------~~g---~~p~~-------  411 (702)
                      |..........|. ..+..++.                 ...+++..|..++.++.      +..   +.|+.       
T Consensus       168 ~~~~~~~e~~~~~-~~~~~~l~-----------------~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~  229 (530)
T 2ooe_A          168 WRDYNKYEEGINI-HLAKKMIE-----------------DRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQ  229 (530)
T ss_dssp             HHHHHHHHHHHCH-HHHHHHHH-----------------TTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHH
T ss_pred             HHHHHHHHHhhch-hHHHHHHH-----------------HhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHHHH
Confidence            3322221111110 01111110                 12344556666555422      111   23331       


Q ss_pred             -HHHHHHHHHHcc----cCcH----HHHHHHHHHHHHhCCCCChhHHHHHHHHHHh-------cCCHH-------HHHHH
Q 005329          412 -FAFASVLSVCGN----MAIL----EQGKQIHAHVMSIGLERTAMIKSALINMYSK-------CGSIK-------EASQI  468 (702)
Q Consensus       412 -~~~~~ll~~~~~----~~~~----~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~-------~g~~~-------~A~~~  468 (702)
                       ..|...+.....    .++.    +.+..+++.+.... +.++..|..++..+.+       .|+++       +|..+
T Consensus       230 ~~~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~  308 (530)
T 2ooe_A          230 VDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANI  308 (530)
T ss_dssp             HHHHHHHHHHHHHCSSCCSCSHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCccCCcchhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHH
Confidence             233333322211    1222    36667788877753 3467777778877775       68876       89999


Q ss_pred             HhhCCC---C-CHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCH--HHHHHHHHHHhccCcHHHHHHHHHHhHHhh
Q 005329          469 FYETES---D-DIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDS--VTFMGVLTACSHAGLVDLGFHYFNLMSDKY  542 (702)
Q Consensus       469 ~~~~~~---~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~  542 (702)
                      |++..+   | +...|..++..+.+.|++++|..+|+++.+.  .|+.  ..|..++..+.+.|++++|.++|++..+. 
T Consensus       309 ~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~-  385 (530)
T 2ooe_A          309 YERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARED-  385 (530)
T ss_dssp             HHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTC-
T ss_pred             HHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhc-
Confidence            998763   3 5789999999999999999999999999984  5643  47888888888999999999999999743 


Q ss_pred             CCCCC-hhhHHHHHHH-HHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCch---
Q 005329          543 GFVPS-KEHYGCMIDL-LCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAG---  615 (702)
Q Consensus       543 ~~~p~-~~~~~~l~~~-~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~---  615 (702)
                        .|+ ...|...+.. +...|+.++|..+|++...  +.+...|..++..+...|+.++|..+|+++++..|.++.   
T Consensus       386 --~~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~  463 (530)
T 2ooe_A          386 --ARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSG  463 (530)
T ss_dssp             --TTCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCH
T ss_pred             --cCCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHCCCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHH
Confidence              444 3334333322 3468999999999998877  446889999999999999999999999999999876665   


Q ss_pred             -hHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 005329          616 -THITLANIYAAKGRWREAAEVRKMMRSKG  644 (702)
Q Consensus       616 -~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  644 (702)
                       .|...+......|+.+.+..+.+++.+.-
T Consensus       464 ~lw~~~~~~e~~~G~~~~~~~~~~r~~~~~  493 (530)
T 2ooe_A          464 EIWARFLAFESNIGDLASILKVEKRRFTAF  493 (530)
T ss_dssp             HHHHHHHHHHHHSSCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence             77788888888999999999999987753

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.77  E-value=1.4e-16  Score=155.53  Aligned_cols=269  Identities=10%  Similarity=-0.014  Sum_probs=193.7

Q ss_pred             HHhcCCHHHHHHHHhcCCCCCh----hhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHH
Q 005329          355 YSKCGQLTSTSIVFHGMIRRDI----ISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQG  430 (702)
Q Consensus       355 ~~~~g~~~~a~~~~~~~~~~~~----~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a  430 (702)
                      ....|+++.|+..++.....++    .....+..+|...|+++.|+..++.    ...|+..++..+...+...++.+.|
T Consensus         9 ~~~~g~y~~ai~~~~~~~~~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~----~~~~~~~a~~~la~~~~~~~~~~~A   84 (291)
T 3mkr_A            9 AFYIGSYQQCINEAQRVKPSSPERDVERDVFLYRAYLAQRKYGVVLDEIKP----SSAPELQAVRMFAEYLASHSRRDAI   84 (291)
T ss_dssp             HHHTTCHHHHHHHHHHSCCCSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT----TSCHHHHHHHHHHHHHHCSTTHHHH
T ss_pred             HHHHHHHHHHHHHHHhcccCCchhhHHHHHHHHHHHHHCCCHHHHHHHhcc----cCChhHHHHHHHHHHHcCCCcHHHH
Confidence            3445666666666555433221    2334455666666666666654433    1344555666666666666666666


Q ss_pred             HHHHHHHHHhCCCC-ChhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCC
Q 005329          431 KQIHAHVMSIGLER-TAMIKSALINMYSKCGSIKEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLR  509 (702)
Q Consensus       431 ~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~  509 (702)
                      .+.++.+...+..| +...+..+...+...|++++|++.+++  ..+...+..++..+.+.|++++|.+.|+++.+.  .
T Consensus        85 ~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~--~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~--~  160 (291)
T 3mkr_A           85 VAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ--GDSLECMAMTVQILLKLDRLDLARKELKKMQDQ--D  160 (291)
T ss_dssp             HHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT--CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--C
T ss_pred             HHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh--C
Confidence            66666666555333 444556677889999999999999998  567889999999999999999999999999875  4


Q ss_pred             CCHHHH---HHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCC-C-CCHHHHH
Q 005329          510 PDSVTF---MGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPH-Q-KDDVVWS  584 (702)
Q Consensus       510 p~~~~~---~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~-p~~~~~~  584 (702)
                      |+....   ..++..+...|++++|..+|+++.+.  .+.+...++.++.++.+.|++++|...|+++.. . .+..++.
T Consensus       161 p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~--~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~p~~~~~l~  238 (291)
T 3mkr_A          161 EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK--CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDSGHPETLI  238 (291)
T ss_dssp             TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH--SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHH
Confidence            654321   12333444568999999999999876  244588899999999999999999999999877 4 4678999


Q ss_pred             HHHHHHHhcCCHHH-HHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHH
Q 005329          585 TLLRACMVQGDVNC-GRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVR  637 (702)
Q Consensus       585 ~l~~~~~~~g~~~~-A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~  637 (702)
                      .++..+...|+.++ +.++++++++++|+++.+..    ...+.+.++++..-|
T Consensus       239 ~l~~~~~~~g~~~eaa~~~~~~~~~~~P~~~~~~d----~~~~~~~fd~~~~~~  288 (291)
T 3mkr_A          239 NLVVLSQHLGKPPEVTNRYLSQLKDAHRSHPFIKE----YRAKENDFDRLVLQY  288 (291)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHH----HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHHhCCCChHHHH----HHHHHHHHHHHHHHc
Confidence            99999999999875 67899999999999987654    455666666655443

>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=99.76  E-value=7.9e-17  Score=160.09  Aligned_cols=286  Identities=12%  Similarity=0.115  Sum_probs=106.9

Q ss_pred             hCCChHHHHHHHhccCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCchHHHHHHHHH
Q 005329          256 KCGKLDYSLRLFERMSTRDVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAH  335 (702)
Q Consensus       256 ~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~  335 (702)
                      +.|++++|.++++++..|  .+|..++.++.+.|++++|++.|.+      .+|..+|..++.++...|++++|+.++..
T Consensus        15 ~~~~ld~A~~fae~~~~~--~vWs~La~A~l~~g~~~eAIdsfik------a~D~~~y~~V~~~ae~~g~~EeAi~yl~~   86 (449)
T 1b89_A           15 HIGNLDRAYEFAERCNEP--AVWSQLAKAQLQKGMVKEAIDSYIK------ADDPSSYMEVVQAANTSGNWEELVKYLQM   86 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhCCCh--HHHHHHHHHHHHcCCHHHHHHHHHc------CCCHHHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            445566666666666443  3666666666666666666666643      24555666666666666666666665555


Q ss_pred             HHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHH
Q 005329          336 VLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIRRDIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFA  415 (702)
Q Consensus       336 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~  415 (702)
                      .++.  .+++.+.+.++.+|.+.|+++++.++++.   |+..+|+.++..|...|++++|..+|..+         ..|.
T Consensus        87 ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~~---pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~~  152 (449)
T 1b89_A           87 ARKK--ARESYVETELIFALAKTNRLAELEEFING---PNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFG  152 (449)
T ss_dssp             ------------------------CHHHHTTTTTC---C----------------CTTTHHHHHHHT---------TCHH
T ss_pred             HHHh--CccchhHHHHHHHHHHhCCHHHHHHHHcC---CcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhHH
Confidence            5542  33355566666666666666666655543   44556666666666666666666666654         2456


Q ss_pred             HHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCHHHHHHHHHHHHHcCChHH
Q 005329          416 SVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETESDDIVSWTAMINGYAEHGYSQE  495 (702)
Q Consensus       416 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  495 (702)
                      .+..++.+.|+++.|.+.+..+      .++.+|..++.+|...|+++.|......+. .++.-...++..|.+.|++++
T Consensus       153 ~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~-~~ad~l~~lv~~Yek~G~~eE  225 (449)
T 1b89_A          153 RLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV-VHADELEELINYYQDRGYFEE  225 (449)
T ss_dssp             HHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT-TCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHHH-hCHhhHHHHHHHHHHCCCHHH
Confidence            6666666666666666666655      245666666666777777777766555543 333334457777777888888


Q ss_pred             HHHHHHHchhCCCCCCHHHHHHHHHHHh--ccCcHHHHHHHHHHhHHhhCCCC------ChhhHHHHHHHHHhcCCHHHH
Q 005329          496 AIHLFEKVPMVGLRPDSVTFMGVLTACS--HAGLVDLGFHYFNLMSDKYGFVP------SKEHYGCMIDLLCRAGRLSDA  567 (702)
Q Consensus       496 A~~~~~~m~~~g~~p~~~~~~~ll~~~~--~~g~~~~A~~~~~~~~~~~~~~p------~~~~~~~l~~~~~~~g~~~~A  567 (702)
                      |+.+++...... +.-...|+.+.-+++  +-++..+.++.|.   .+.+++|      +...|..++..|...++++.|
T Consensus       226 ai~lLe~aL~le-~ah~~~ftel~il~~ky~p~k~~ehl~~~~---~~ini~k~~~~~~~~~~w~e~~~ly~~~~e~d~A  301 (449)
T 1b89_A          226 LITMLEAALGLE-RAHMGMFTELAILYSKFKPQKMREHLELFW---SRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNA  301 (449)
T ss_dssp             HHHHHHHHTTST-TCCHHHHHHHHHHHHTTCHHHHHHHHHHHS---TTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHhCCc-HHHHHHHHHHHHHHHhcCHHHHHHHHHHHH---HHhcCcHHHHHHHHHHHHHHHHHHHHhhchHHHH
Confidence            888877766432 222334544444443  3344444444444   2224455      367788888888888888887


Q ss_pred             HHHHHhC
Q 005329          568 ENMIENM  574 (702)
Q Consensus       568 ~~~~~~~  574 (702)
                      ....-+-
T Consensus       302 ~~tm~~h  308 (449)
T 1b89_A          302 IITMMNH  308 (449)
T ss_dssp             HHHHHHS
T ss_pred             HHHHHhC
Confidence            7765544

>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=99.75  E-value=3.8e-17  Score=166.69  Aligned_cols=314  Identities=11%  Similarity=-0.009  Sum_probs=226.7

Q ss_pred             CCHHHHHHHHhcCCCCChhhHHHHHHHHHcCCChHHHHH-HHHHHHHCCC-CC--CHHHHHHHHHHHcccCcHHHHHHHH
Q 005329          359 GQLTSTSIVFHGMIRRDIISWSTIIGGYSQGGYEEEAFE-YLALMRREGP-RP--NEFAFASVLSVCGNMAILEQGKQIH  434 (702)
Q Consensus       359 g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~-~~~~m~~~g~-~p--~~~~~~~ll~~~~~~~~~~~a~~~~  434 (702)
                      +.++.+...|+.+...+..       ++...|++++|+. .+++...... .|  +...+..+...+...|+++.|...+
T Consensus        15 ~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~   87 (368)
T 1fch_A           15 DFWDKLQAELEEMAKRDAE-------AHPWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLF   87 (368)
T ss_dssp             --------------------------------------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHcCCch-------hhHHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHH
Confidence            3444455555555443322       3345588899988 8876654321 11  2345667888899999999999999


Q ss_pred             HHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCC
Q 005329          435 AHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETE---SDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPD  511 (702)
Q Consensus       435 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  511 (702)
                      +.+.+.. +.+...+..+..+|...|++++|...|+++.   +.+..++..+..++...|++++|++.++++....  |+
T Consensus        88 ~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~  164 (368)
T 1fch_A           88 EAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELKPDNQTALMALAVSFTNESLQRQACEILRDWLRYT--PA  164 (368)
T ss_dssp             HHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS--TT
T ss_pred             HHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--cC
Confidence            9999875 3467788889999999999999999999765   4578899999999999999999999999998753  33


Q ss_pred             H-HHHHH---------------HHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCC
Q 005329          512 S-VTFMG---------------VLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMP  575 (702)
Q Consensus       512 ~-~~~~~---------------ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  575 (702)
                      . ..+..               .+..+...|++++|.+.|+++.+...-.++..++..++.+|.+.|++++|...++++.
T Consensus       165 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al  244 (368)
T 1fch_A          165 YAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAAL  244 (368)
T ss_dssp             TGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            2 22221               2333448899999999999998662222247889999999999999999999999987


Q ss_pred             C--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhCCCccCCeeeE
Q 005329          576 H--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKGVIKEPGWSR  653 (702)
Q Consensus       576 ~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  653 (702)
                      .  +.+..+|..++..+...|++++|+..++++++.+|+++..+..++.+|.+.|++++|...++++.+..+.....   
T Consensus       245 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~---  321 (368)
T 1fch_A          245 SVRPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGP---  321 (368)
T ss_dssp             HHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------
T ss_pred             HhCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCc---
Confidence            6  44678999999999999999999999999999999999999999999999999999999999998743321100   


Q ss_pred             EEECCEEEEEEcCCCCCCChhHHHHHHHHHHHHhcCCCCCCccc
Q 005329          654 IKVKDQVSAFVSSDRRHSQGEDIYRMLDLLASRESDIDDLDSLV  697 (702)
Q Consensus       654 ~~~~~~~~~~~~~~~~~p~~~~~~~~l~~l~~~~~~~~~~~~~~  697 (702)
                                  ....+|....++..++.+....|+...+..+.
T Consensus       322 ------------~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  353 (368)
T 1fch_A          322 ------------RGEGGAMSENIWSTLRLALSMLGQSDAYGAAD  353 (368)
T ss_dssp             ---------------CCCCCHHHHHHHHHHHHHHTCGGGHHHHH
T ss_pred             ------------cccccchhhHHHHHHHHHHHHhCChHhHHHhH
Confidence                        01235677889999999999999876655443

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.75  E-value=1.1e-16  Score=156.23  Aligned_cols=247  Identities=9%  Similarity=0.004  Sum_probs=204.2

Q ss_pred             HHHHHcCCChHHHHHHHHHHHHCCCCCCH--HHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcC
Q 005329          383 IGGYSQGGYEEEAFEYLALMRREGPRPNE--FAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCG  460 (702)
Q Consensus       383 i~~~~~~g~~~~a~~~~~~m~~~g~~p~~--~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  460 (702)
                      |......|++..|+..++....  ..|+.  .....+..++...|+++.|...++.    .-+|+...+..+...+...+
T Consensus         6 ~~~~~~~g~y~~ai~~~~~~~~--~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~----~~~~~~~a~~~la~~~~~~~   79 (291)
T 3mkr_A            6 VKNAFYIGSYQQCINEAQRVKP--SSPERDVERDVFLYRAYLAQRKYGVVLDEIKP----SSAPELQAVRMFAEYLASHS   79 (291)
T ss_dssp             HHHHHHTTCHHHHHHHHHHSCC--CSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT----TSCHHHHHHHHHHHHHHCST
T ss_pred             HHHHHHHHHHHHHHHHHHhccc--CCchhhHHHHHHHHHHHHHCCCHHHHHHHhcc----cCChhHHHHHHHHHHHcCCC
Confidence            3455678999999999887644  34443  3445667899999999999876543    24556778888999999999


Q ss_pred             CHHHHHHHHhhCC----CC-CHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHH
Q 005329          461 SIKEASQIFYETE----SD-DIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYF  535 (702)
Q Consensus       461 ~~~~A~~~~~~~~----~~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~  535 (702)
                      +.++|.+.++++.    .| +...+..+..++...|++++|++.+++      +.+...+..++..+.+.|++++|.+.|
T Consensus        80 ~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l  153 (291)
T 3mkr_A           80 RRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKEL  153 (291)
T ss_dssp             THHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            9999999999863    23 667788888999999999999999987      467778889999999999999999999


Q ss_pred             HHhHHhhCCCCChhhH---HHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC
Q 005329          536 NLMSDKYGFVPSKEHY---GCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELH  610 (702)
Q Consensus       536 ~~~~~~~~~~p~~~~~---~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  610 (702)
                      +.+.+.   .|+....   ..++..+...|++++|..+|+++..  +++...|+.++.++...|++++|++.++++++.+
T Consensus       154 ~~~~~~---~p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~  230 (291)
T 3mkr_A          154 KKMQDQ---DEDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKCSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD  230 (291)
T ss_dssp             HHHHHH---CTTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHhh---CcCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            999865   4663221   2334555566999999999999977  5678899999999999999999999999999999


Q ss_pred             CCCchhHHHHHHHHHhcCChHH-HHHHHHHHHhCC
Q 005329          611 PSCAGTHITLANIYAAKGRWRE-AAEVRKMMRSKG  644 (702)
Q Consensus       611 p~~~~~~~~l~~~~~~~g~~~~-A~~~~~~~~~~~  644 (702)
                      |+++.++..++.++...|+.++ +.++++++.+..
T Consensus       231 p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~  265 (291)
T 3mkr_A          231 SGHPETLINLVVLSQHLGKPPEVTNRYLSQLKDAH  265 (291)
T ss_dssp             TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC
T ss_pred             CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhC
Confidence            9999999999999999999987 578999988754

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.74  E-value=1e-15  Score=161.92  Aligned_cols=384  Identities=9%  Similarity=-0.050  Sum_probs=201.9

Q ss_pred             chhHHHHHHHHhhhCCChHHHHHHHhccC-----------CC-CcchHHHHHHHHHhcCChhHHHHHHHHHHHC-----C
Q 005329          243 VSFVANSLATMYSKCGKLDYSLRLFERMS-----------TR-DVISWTTIITSYVQMGEEENAFDAFVRMQES-----D  305 (702)
Q Consensus       243 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~-----------~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-----g  305 (702)
                      ....|+.|...+...|++++|++.|++..           .+ ...+|+.+...|...|++++|...+++..+.     +
T Consensus        50 ~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~  129 (472)
T 4g1t_A           50 KATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSS  129 (472)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhccc
Confidence            34567777777777888887777776542           11 3446777777777777777777777766432     1


Q ss_pred             -CCC-ChhhHHHHHHHHHc--cCchHHHHHHHHHHHHhCCCCchHHHHHHHHHH---HhcCCHHHHHHHHhcCC---CCC
Q 005329          306 -VKP-NEYTFAAIISASAN--LARIQWGEQLHAHVLRLGLVDSLSVANSIMAMY---SKCGQLTSTSIVFHGMI---RRD  375 (702)
Q Consensus       306 -~~p-~~~t~~~ll~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~---~~~g~~~~a~~~~~~~~---~~~  375 (702)
                       ..+ ...++.....++..  .+++++|...|+.+.+.. +.+...+..+...+   ...++.++|++.+++..   ..+
T Consensus       130 ~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~-p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~p~~  208 (472)
T 4g1t_A          130 PYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKK-PKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLNPDN  208 (472)
T ss_dssp             SSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHCSSC
T ss_pred             ccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcCCcc
Confidence             111 12334433333332  345667777777666654 22333333333332   23344555555555432   123


Q ss_pred             hhhHHHHHHHHHc----CCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHH
Q 005329          376 IISWSTIIGGYSQ----GGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSA  451 (702)
Q Consensus       376 ~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  451 (702)
                      ..++..+...+..    .|++++|.+.+++..... +.+...+..+...+...|+++.|...+..+.+..+. +..++..
T Consensus       209 ~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~  286 (472)
T 4g1t_A          209 QYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYIPN-NAYLHCQ  286 (472)
T ss_dssp             HHHHHHHHHHHHHCC------CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhCCC-hHHHHHH
Confidence            3344444333332    244555666665555432 223344455555555555666665555555554321 2333333


Q ss_pred             HHHHHHhcCCHHHHHHHHhhCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHH
Q 005329          452 LINMYSKCGSIKEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLG  531 (702)
Q Consensus       452 li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A  531 (702)
                      +..+|...+....+..      .      ..........+.++.|...+++..+.. +.+..++..+...+...|++++|
T Consensus       287 lg~~y~~~~~~~~~~~------~------~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~lg~~~~~~~~~~~A  353 (472)
T 4g1t_A          287 IGCCYRAKVFQVMNLR------E------NGMYGKRKLLELIGHAVAHLKKADEAN-DNLFRVCSILASLHALADQYEEA  353 (472)
T ss_dssp             HHHHHHHHHHHHHHC------------------CHHHHHHHHHHHHHHHHHHHHHC-TTTCCCHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHhhhHH------H------HHHHHHHHHHhhHHHHHHHHHHHhhcC-CchhhhhhhHHHHHHHhccHHHH
Confidence            4433322111100000      0      000001111234677888888877642 33446788888899999999999


Q ss_pred             HHHHHHhHHhhCCCCChh----hHHHHHHH-HHhcCCHHHHHHHHHhCCC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 005329          532 FHYFNLMSDKYGFVPSKE----HYGCMIDL-LCRAGRLSDAENMIENMPH-QKDDVVWSTLLRACMVQGDVNCGRHTAEK  605 (702)
Q Consensus       532 ~~~~~~~~~~~~~~p~~~----~~~~l~~~-~~~~g~~~~A~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~A~~~~~~  605 (702)
                      .+.|++..+.   .|+..    .+..+... +...|++++|+..|++... .|+...+.         +....+..++++
T Consensus       354 ~~~~~kaL~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~~~~~~~~---------~~~~~l~~~~~~  421 (472)
T 4g1t_A          354 EYYFQKEFSK---ELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKINQKSREKE---------KMKDKLQKIAKM  421 (472)
T ss_dssp             HHHHHHHHHS---CCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHSCCCCHHHH---------HHHHHHHHHHHH
T ss_pred             HHHHHHHHhc---CCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcccHHHH---------HHHHHHHHHHHH
Confidence            9999988754   34422    23333332 3467899999999988765 55543322         223456678888


Q ss_pred             HHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhCCCccCCeeeEE
Q 005329          606 ILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKGVIKEPGWSRI  654 (702)
Q Consensus       606 ~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  654 (702)
                      .++.+|+++.+|..||.+|...|++++|++.++++.+.+.....+.+|+
T Consensus       422 ~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~a~~~~  470 (472)
T 4g1t_A          422 RLSKNGADSEALHVLAFLQELNEKMQQADEDSERGLESGSLIPSASSWN  470 (472)
T ss_dssp             HHHHCC-CTTHHHHHHHHHHHHHHCC-----------------------
T ss_pred             HHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcHhhcC
Confidence            9999999999999999999999999999999999998776655555554

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.74  E-value=7.4e-15  Score=157.43  Aligned_cols=406  Identities=9%  Similarity=0.052  Sum_probs=282.3

Q ss_pred             CCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHH
Q 005329          172 RNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSGALNFGREIHTIMLKRGFDVVSFVANSLA  251 (702)
Q Consensus       172 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  251 (702)
                      .+...|..++. +.+.|++++|..+|+++.+. .+.+...|...+..+.+.|+++.|..+|+.+++..  |+...|..++
T Consensus        11 ~~~~~w~~l~~-~~~~~~~~~a~~~~e~al~~-~P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~--p~~~lw~~~~   86 (530)
T 2ooe_A           11 YDLDAWSILIR-EAQNQPIDKARKTYERLVAQ-FPSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKV--LHIDLWKCYL   86 (530)
T ss_dssp             TCHHHHHHHHH-HHHSSCHHHHHHHHHHHHTT-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTC--CCHHHHHHHH
T ss_pred             CCHHHHHHHHH-HHHhCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC--CChHHHHHHH
Confidence            46778999998 58899999999999999875 34466678899999999999999999999999874  5777777777


Q ss_pred             HHh-hhCCChHHHHH----HHhccC------CCCcchHHHHHHHHHh---------cCChhHHHHHHHHHHHCCCCCCh-
Q 005329          252 TMY-SKCGKLDYSLR----LFERMS------TRDVISWTTIITSYVQ---------MGEEENAFDAFVRMQESDVKPNE-  310 (702)
Q Consensus       252 ~~~-~~~g~~~~A~~----~~~~~~------~~~~~~~~~li~~~~~---------~g~~~~a~~~~~~m~~~g~~p~~-  310 (702)
                      ... ...|+.+.|.+    +|+...      .++...|...+.....         .|+++.|..+|++..+.   |+. 
T Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~---P~~~  163 (530)
T 2ooe_A           87 SYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVN---PMIN  163 (530)
T ss_dssp             HHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTS---CCTT
T ss_pred             HHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhc---hhhh
Confidence            533 35677777665    666542      1355678877776654         68899999999999873   432 


Q ss_pred             --hhHHHHHHHHHccCchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHhc----------C---CCCC
Q 005329          311 --YTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHG----------M---IRRD  375 (702)
Q Consensus       311 --~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~----------~---~~~~  375 (702)
                        ..|..........|. ..+..++.                     .+.+++..|..++..          .   ..|+
T Consensus       164 ~~~~~~~~~~~e~~~~~-~~~~~~l~---------------------~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~  221 (530)
T 2ooe_A          164 IEQLWRDYNKYEEGINI-HLAKKMIE---------------------DRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQ  221 (530)
T ss_dssp             HHHHHHHHHHHHHHHCH-HHHHHHHH---------------------TTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC
T ss_pred             HHHHHHHHHHHHHhhch-hHHHHHHH---------------------HhhHHHHHHHHHHHHHHHHHHHhccccccCCCC
Confidence              222221111100110 01111110                     012233333333322          1   0111


Q ss_pred             --------hhhHHHHHHHHHcC----CCh----HHHHHHHHHHHHCCCCCCHHHHHHHHHHHcc-------cCcHH----
Q 005329          376 --------IISWSTIIGGYSQG----GYE----EEAFEYLALMRREGPRPNEFAFASVLSVCGN-------MAILE----  428 (702)
Q Consensus       376 --------~~~~~~li~~~~~~----g~~----~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~-------~~~~~----  428 (702)
                              ...|...+......    ++.    .++..+|++..... +-+...|......+.+       .|+.+    
T Consensus       222 ~~~~~~~~~~~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~  300 (530)
T 2ooe_A          222 NTPQEAQQVDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKL  300 (530)
T ss_dssp             --CCHHHHHHHHHHHHHHHHHCSSCCSCSHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHH
T ss_pred             CChhHHHHHHHHHHHHHHHHcCCccCCcchhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhh
Confidence                    23455444332221    232    46777888887742 2345566666665554       68876    


Q ss_pred             ---HHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCC--C-CH-HHHHHHHHHHHHcCChHHHHHHHH
Q 005329          429 ---QGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETES--D-DI-VSWTAMINGYAEHGYSQEAIHLFE  501 (702)
Q Consensus       429 ---~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~~-~~~~~li~~~~~~g~~~~A~~~~~  501 (702)
                         .|..+++...+.-.+.+...+..++..+.+.|++++|..+|+++.+  | +. ..|..++..+.+.|++++|.++|+
T Consensus       301 ~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~  380 (530)
T 2ooe_A          301 FSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFK  380 (530)
T ss_dssp             HHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSSSSCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCccccCchHHHHHHHHHHHHhcCHHHHHHHHH
Confidence               8888888887633345678888899999999999999999998652  3 33 589999999999999999999999


Q ss_pred             HchhCCCCCC-HHHHHHHHHH-HhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC-C
Q 005329          502 KVPMVGLRPD-SVTFMGVLTA-CSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH-Q  577 (702)
Q Consensus       502 ~m~~~g~~p~-~~~~~~ll~~-~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~  577 (702)
                      +..+.  +|+ ...|...... +...|+.++|..+|+...+.   .|+ ...|..++..+.+.|+.++|..+|+++.. .
T Consensus       381 ~Al~~--~~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~---~p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~  455 (530)
T 2ooe_A          381 KARED--ARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKK---YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSG  455 (530)
T ss_dssp             HHHTC--TTCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHH---HTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSC
T ss_pred             HHHhc--cCCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHH---CCCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhcc
Confidence            99874  333 3333332222 33589999999999999876   454 78899999999999999999999999865 2


Q ss_pred             C-----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCC
Q 005329          578 K-----DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPS  612 (702)
Q Consensus       578 p-----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~  612 (702)
                      |     ....|...+......|+.+.+..+.+++.+..|+
T Consensus       456 ~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~~~p~  495 (530)
T 2ooe_A          456 SLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAFRE  495 (530)
T ss_dssp             CSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHTHH
T ss_pred             CCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCch
Confidence            2     2448888888888999999999999999999884

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.74  E-value=1.1e-16  Score=163.17  Aligned_cols=260  Identities=10%  Similarity=-0.047  Sum_probs=206.3

Q ss_pred             ChhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHH
Q 005329          375 DIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALIN  454 (702)
Q Consensus       375 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  454 (702)
                      +...|..+...+.+.|++++|...|+++.+.. +.+...+..+...+...|+++.|...++.+.+.. +.+...+..+..
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~  141 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAV  141 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHH
Confidence            44567778888888888888888888887753 3356677788888888888888888888888765 335677788888


Q ss_pred             HHHhcCCHHHHHHHHhhCCCCC-------------HHHHHHHHHHHHHcCChHHHHHHHHHchhCCCC-CCHHHHHHHHH
Q 005329          455 MYSKCGSIKEASQIFYETESDD-------------IVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLR-PDSVTFMGVLT  520 (702)
Q Consensus       455 ~~~~~g~~~~A~~~~~~~~~~~-------------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~~~~~~~ll~  520 (702)
                      +|...|++++|...|+++.+.+             ...+..+...+...|++++|++.|+++.+.... ++..++..+..
T Consensus       142 ~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~  221 (365)
T 4eqf_A          142 SYTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGV  221 (365)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHH
T ss_pred             HHHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHH
Confidence            8888888888888888765311             223445678889999999999999999875311 15778999999


Q ss_pred             HHhccCcHHHHHHHHHHhHHhhCCCC-ChhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CC-CHHHHHHHHHHHHhcCCHH
Q 005329          521 ACSHAGLVDLGFHYFNLMSDKYGFVP-SKEHYGCMIDLLCRAGRLSDAENMIENMPH-QK-DDVVWSTLLRACMVQGDVN  597 (702)
Q Consensus       521 ~~~~~g~~~~A~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p-~~~~~~~l~~~~~~~g~~~  597 (702)
                      .+...|++++|.+.|+++.+.   .| +..++..++.+|...|++++|...|+++.. .| +..++..++..|...|+++
T Consensus       222 ~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~  298 (365)
T 4eqf_A          222 LFHLSGEFNRAIDAFNAALTV---RPEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPGFIRSRYNLGISCINLGAYR  298 (365)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCH
T ss_pred             HHHHCCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCHH
Confidence            999999999999999999865   45 488899999999999999999999999877 44 5889999999999999999


Q ss_pred             HHHHHHHHHHHhCCC------------CchhHHHHHHHHHhcCChHHHHHHHHH
Q 005329          598 CGRHTAEKILELHPS------------CAGTHITLANIYAAKGRWREAAEVRKM  639 (702)
Q Consensus       598 ~A~~~~~~~~~~~p~------------~~~~~~~l~~~~~~~g~~~~A~~~~~~  639 (702)
                      +|...+++++++.|+            +...|..++.++...|+.+.|....++
T Consensus       299 ~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          299 EAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             HHHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             HHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence            999999999999876            367899999999999999998887654

>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=99.72  E-value=2.6e-16  Score=157.43  Aligned_cols=257  Identities=8%  Similarity=-0.098  Sum_probs=179.8

Q ss_pred             HHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHh
Q 005329          379 WSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSK  458 (702)
Q Consensus       379 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~  458 (702)
                      +..+...+...|++++|..+|+++.+.. +.+...+..+...+...|+++.|...++.+.+.. +.+...+..+...|..
T Consensus        24 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~  101 (327)
T 3cv0_A           24 PMEEGLSMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTN  101 (327)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHHHHHH
Confidence            3444444455555555555555544432 1233344444445555555555555555554442 2234444455555555


Q ss_pred             cCCHHHHHHHHhhCCC---CCHHHHHHH--------------HH-HHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHH
Q 005329          459 CGSIKEASQIFYETES---DDIVSWTAM--------------IN-GYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLT  520 (702)
Q Consensus       459 ~g~~~~A~~~~~~~~~---~~~~~~~~l--------------i~-~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~  520 (702)
                      .|++++|...|+++..   .+...+..+              .. .+...|++++|.+.++++.+.. +.+...+..+..
T Consensus       102 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~  180 (327)
T 3cv0_A          102 EHNANAALASLRAWLLSQPQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMN-PNDAQLHASLGV  180 (327)
T ss_dssp             TTCHHHHHHHHHHHHHTSTTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhCCccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhC-CCCHHHHHHHHH
Confidence            5555555555554431   111112111              22 3667888999999999988753 446778888999


Q ss_pred             HHhccCcHHHHHHHHHHhHHhhCCCC-ChhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHH
Q 005329          521 ACSHAGLVDLGFHYFNLMSDKYGFVP-SKEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVN  597 (702)
Q Consensus       521 ~~~~~g~~~~A~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~  597 (702)
                      .+...|++++|.+.++++.+.   .| +...+..++..+...|++++|...++++..  +.+..++..++..+...|+++
T Consensus       181 ~~~~~~~~~~A~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~g~~~  257 (327)
T 3cv0_A          181 LYNLSNNYDSAAANLRRAVEL---RPDDAQLWNKLGATLANGNRPQEALDAYNRALDINPGYVRVMYNMAVSYSNMSQYD  257 (327)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHhccHHHHHHHHHHHHHh---CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhccHH
Confidence            999999999999999999865   44 478899999999999999999999999876  446788999999999999999


Q ss_pred             HHHHHHHHHHHhCCC------------CchhHHHHHHHHHhcCChHHHHHHHHHHH
Q 005329          598 CGRHTAEKILELHPS------------CAGTHITLANIYAAKGRWREAAEVRKMMR  641 (702)
Q Consensus       598 ~A~~~~~~~~~~~p~------------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  641 (702)
                      +|...++++++..|+            ++..+..++.++.+.|++++|..++++..
T Consensus       258 ~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l  313 (327)
T 3cv0_A          258 LAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQNV  313 (327)
T ss_dssp             HHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCCS
T ss_pred             HHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            999999999999998            78899999999999999999999887543

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.71  E-value=4.2e-16  Score=158.72  Aligned_cols=232  Identities=11%  Similarity=-0.007  Sum_probs=195.8

Q ss_pred             CHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCHHHHHHHHHH
Q 005329          410 NEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETE---SDDIVSWTAMING  486 (702)
Q Consensus       410 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~  486 (702)
                      +...+..+...+.+.|+++.|...++.+.+... .+...+..+..+|...|++++|...|+++.   +.+..+|..+..+
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~  142 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQDP-GDAEAWQFLGITQAENENEQAAIVALQRCLELQPNNLKALMALAVS  142 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCc-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHH
Confidence            334577778889999999999999999998763 467888999999999999999999999876   3568899999999


Q ss_pred             HHHcCChHHHHHHHHHchhCCCCCCH-H----------HHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHH
Q 005329          487 YAEHGYSQEAIHLFEKVPMVGLRPDS-V----------TFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMI  555 (702)
Q Consensus       487 ~~~~g~~~~A~~~~~~m~~~g~~p~~-~----------~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~  555 (702)
                      |...|++++|+..|+++.+.  .|+. .          .+..+...+...|++++|.++|+++.+...-.++...+..++
T Consensus       143 ~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~  220 (365)
T 4eqf_A          143 YTNTSHQQDACEALKNWIKQ--NPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLG  220 (365)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--CHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHH
T ss_pred             HHccccHHHHHHHHHHHHHh--CccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHH
Confidence            99999999999999999874  3432 2          223457788999999999999999987622222578899999


Q ss_pred             HHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHH
Q 005329          556 DLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREA  633 (702)
Q Consensus       556 ~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A  633 (702)
                      ..|...|++++|...++++..  +.+..+|..++..|...|++++|+..++++++.+|+++..+..++.+|...|++++|
T Consensus       221 ~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A  300 (365)
T 4eqf_A          221 VLFHLSGEFNRAIDAFNAALTVRPEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPGFIRSRYNLGISCINLGAYREA  300 (365)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCHHHH
Confidence            999999999999999999877  456889999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhCC
Q 005329          634 AEVRKMMRSKG  644 (702)
Q Consensus       634 ~~~~~~~~~~~  644 (702)
                      ...++++.+..
T Consensus       301 ~~~~~~al~~~  311 (365)
T 4eqf_A          301 VSNFLTALSLQ  311 (365)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHhC
Confidence            99999998753

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.67  E-value=1.4e-14  Score=153.20  Aligned_cols=383  Identities=11%  Similarity=-0.017  Sum_probs=237.0

Q ss_pred             CCChhhHHHHHHHHhccCChHHHHHHHHHHHHh-----C---CCCchhHHHHHHHHhhhCCChHHHHHHHhccC------
Q 005329          206 QGDSYTFAIVLKASADSGALNFGREIHTIMLKR-----G---FDVVSFVANSLATMYSKCGKLDYSLRLFERMS------  271 (702)
Q Consensus       206 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----~---~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~------  271 (702)
                      ......|+.+...+...|+.++|.+.|++..+.     +   .+....+|+.+...|...|++++|...+++..      
T Consensus        48 ~~~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~  127 (472)
T 4g1t_A           48 EFKATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKF  127 (472)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHS
T ss_pred             hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhc
Confidence            334557888989999999999999999988763     1   12234678899999999999999999887653      


Q ss_pred             -CC----CcchHHHHHHHHHhc--CChhHHHHHHHHHHHCCCCCCh-hhHHHHHHH---HHccCchHHHHHHHHHHHHhC
Q 005329          272 -TR----DVISWTTIITSYVQM--GEEENAFDAFVRMQESDVKPNE-YTFAAIISA---SANLARIQWGEQLHAHVLRLG  340 (702)
Q Consensus       272 -~~----~~~~~~~li~~~~~~--g~~~~a~~~~~~m~~~g~~p~~-~t~~~ll~~---~~~~~~~~~a~~~~~~~~~~~  340 (702)
                       .+    ...++..+..++...  +++++|++.|++..+.  .|+. ..+..+...   +...++.++|.+.++...+..
T Consensus       128 ~~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~--~p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~  205 (472)
T 4g1t_A          128 SSPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEK--KPKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN  205 (472)
T ss_dssp             CCSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC
T ss_pred             ccccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC
Confidence             11    234566555555554  5789999999999875  3543 344444333   445677788999999888875


Q ss_pred             CCCchHHHHHHHHHHHh----cCCHHHHHHHHhcC---CCCChhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCC-HH
Q 005329          341 LVDSLSVANSIMAMYSK----CGQLTSTSIVFHGM---IRRDIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPN-EF  412 (702)
Q Consensus       341 ~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~---~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~-~~  412 (702)
                       +.+..++..+...+..    .+++++|.+.+++.   ...+..++..+...|...|++++|+..+++..+.  .|+ ..
T Consensus       206 -p~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~  282 (472)
T 4g1t_A          206 -PDNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKAPGVTDVLRSAAKFYRRKDEPDKAIELLKKALEY--IPNNAY  282 (472)
T ss_dssp             -SSCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHH
T ss_pred             -CcchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHh--CCChHH
Confidence             3455556555555544    46788999999876   3346778899999999999999999999999885  444 44


Q ss_pred             HHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCHHHHHHHHHHHHH
Q 005329          413 AFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETE---SDDIVSWTAMINGYAE  489 (702)
Q Consensus       413 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~  489 (702)
                      .+..+...+...+....+         ..       ...........+..+.|...|++..   ..+...+..+...+..
T Consensus       283 ~~~~lg~~y~~~~~~~~~---------~~-------~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~lg~~~~~  346 (472)
T 4g1t_A          283 LHCQIGCCYRAKVFQVMN---------LR-------ENGMYGKRKLLELIGHAVAHLKKADEANDNLFRVCSILASLHAL  346 (472)
T ss_dssp             HHHHHHHHHHHHHHHHHH---------C-------------CHHHHHHHHHHHHHHHHHHHHHCTTTCCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhh---------HH-------HHHHHHHHHHHhhHHHHHHHHHHHhhcCCchhhhhhhHHHHHHH
Confidence            555444433221111000         00       0001111112234567777777654   3456678889999999


Q ss_pred             cCChHHHHHHHHHchhCCCCCCHH--HHHHHHH-HHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHH
Q 005329          490 HGYSQEAIHLFEKVPMVGLRPDSV--TFMGVLT-ACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSD  566 (702)
Q Consensus       490 ~g~~~~A~~~~~~m~~~g~~p~~~--~~~~ll~-~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~  566 (702)
                      .|++++|++.|++..+....|...  .+..+.. .....|+.++|++.|++..+   +.|+........         ..
T Consensus       347 ~~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~---i~~~~~~~~~~~---------~~  414 (472)
T 4g1t_A          347 ADQYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVK---INQKSREKEKMK---------DK  414 (472)
T ss_dssp             TTCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHH---SCCCCHHHHHHH---------HH
T ss_pred             hccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHh---cCcccHHHHHHH---------HH
Confidence            999999999999998754333221  2333332 23567999999999998874   566643332222         23


Q ss_pred             HHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHH
Q 005329          567 AENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLA  621 (702)
Q Consensus       567 A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~  621 (702)
                      +..+++....  +.+..+|..++..+...|++++|++.|+++++++|.+|.++.-+|
T Consensus       415 l~~~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~a~~~~G  471 (472)
T 4g1t_A          415 LQKIAKMRLSKNGADSEALHVLAFLQELNEKMQQADEDSERGLESGSLIPSASSWNG  471 (472)
T ss_dssp             HHHHHHHHHHHCC-CTTHHHHHHHHHHHHHHCC------------------------
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcHhhcCC
Confidence            3344444333  456789999999999999999999999999999998888776655

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.67  E-value=2.9e-15  Score=139.58  Aligned_cols=194  Identities=14%  Similarity=0.050  Sum_probs=158.0

Q ss_pred             CCChhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHH
Q 005329          443 ERTAMIKSALINMYSKCGSIKEASQIFYETE---SDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVL  519 (702)
Q Consensus       443 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll  519 (702)
                      +++...+..+...+.+.|++++|...|++..   +.+...|..+..++.+.|++++|+..|++..+.. +.+...+..+.
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg   80 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKENPQDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVLS   80 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHH
Confidence            4556677778888999999999999999765   3467889999999999999999999999998753 33557888888


Q ss_pred             HHHhcc-----------CcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CCCHHHHHHH
Q 005329          520 TACSHA-----------GLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH-QKDDVVWSTL  586 (702)
Q Consensus       520 ~~~~~~-----------g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~~~~~~~l  586 (702)
                      ..+...           |++++|+..|++..+.   .|+ ...+..+..+|...|++++|+..|+++.. ..+...+..+
T Consensus        81 ~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~---~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~l  157 (217)
T 2pl2_A           81 EAYVALYRQAEDRERGKGYLEQALSVLKDAERV---NPRYAPLHLQRGLVYALLGERDKAEASLKQALALEDTPEIRSAL  157 (217)
T ss_dssp             HHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHH
T ss_pred             HHHHHhhhhhhhhcccccCHHHHHHHHHHHHHh---CcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcccchHHHHHH
Confidence            999999           9999999999999854   665 78889999999999999999999998765 4677899999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHH
Q 005329          587 LRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMM  640 (702)
Q Consensus       587 ~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  640 (702)
                      +.++...|++++|+..++++++.+|+++..+..++.++...|++++|...+++.
T Consensus       158 a~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~  211 (217)
T 2pl2_A          158 AELYLSMGRLDEALAQYAKALEQAPKDLDLRVRYASALLLKGKAEEAARAAALE  211 (217)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTC--------------
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999999998765

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.65  E-value=1.2e-14  Score=139.68  Aligned_cols=225  Identities=13%  Similarity=0.023  Sum_probs=168.7

Q ss_pred             hhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHH
Q 005329          377 ISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMY  456 (702)
Q Consensus       377 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  456 (702)
                      ..|..+...+...|++++|+..|+++.+..  .+...+..+..++...|+++.|...+..+.+.....            
T Consensus         6 ~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~------------   71 (258)
T 3uq3_A            6 DKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREM------------   71 (258)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHT------------
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCccc------------
Confidence            345556666666666666666666666554  444445444444555555555554444433321000            


Q ss_pred             HhcCCHHHHHHHHhhCCCCC----HHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHH
Q 005329          457 SKCGSIKEASQIFYETESDD----IVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGF  532 (702)
Q Consensus       457 ~~~g~~~~A~~~~~~~~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~  532 (702)
                                       .++    ..+|..+...+...|++++|+..|+++.+.  .|+.       ..+...|++++|.
T Consensus        72 -----------------~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~-------~~~~~~~~~~~a~  125 (258)
T 3uq3_A           72 -----------------RADYKVISKSFARIGNAYHKLGDLKKTIEYYQKSLTE--HRTA-------DILTKLRNAEKEL  125 (258)
T ss_dssp             -----------------TCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCH-------HHHHHHHHHHHHH
T ss_pred             -----------------ccchHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhc--Cchh-------HHHHHHhHHHHHH
Confidence                             011    467778888888999999999999888873  4553       3455678899999


Q ss_pred             HHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Q 005329          533 HYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILEL  609 (702)
Q Consensus       533 ~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  609 (702)
                      +.++.+...   .|+ ...+..++..+...|++++|...++++..  +.+..++..++..+...|++++|+..++++++.
T Consensus       126 ~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~  202 (258)
T 3uq3_A          126 KKAEAEAYV---NPEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEK  202 (258)
T ss_dssp             HHHHHHHHC---CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHc---CcchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence            999988743   554 77888899999999999999999999876  456788999999999999999999999999999


Q ss_pred             CCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 005329          610 HPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKG  644 (702)
Q Consensus       610 ~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  644 (702)
                      +|+++..+..++.+|...|++++|...++++.+..
T Consensus       203 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~  237 (258)
T 3uq3_A          203 DPNFVRAYIRKATAQIAVKEYASALETLDAARTKD  237 (258)
T ss_dssp             CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC
Confidence            99999999999999999999999999999987743

>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=99.65  E-value=4.8e-14  Score=140.82  Aligned_cols=265  Identities=10%  Similarity=-0.019  Sum_probs=140.3

Q ss_pred             cchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCchHHHHHHHHHHHHhCCCCchHHHHHHHHH
Q 005329          275 VISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAM  354 (702)
Q Consensus       275 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  354 (702)
                      ...|..+...+...|++++|...|+++.+.. +.+...+..+...+...|++++|...++.+.+.. +.           
T Consensus        21 ~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~-----------   87 (327)
T 3cv0_A           21 HENPMEEGLSMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PK-----------   87 (327)
T ss_dssp             SSCHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TT-----------
T ss_pred             hHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cC-----------
Confidence            3445566666666777777777776666542 2234445555555555555555555555555442 12           


Q ss_pred             HHhcCCHHHHHHHHhcCCCCChhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHH-HHHHH-------------HH-
Q 005329          355 YSKCGQLTSTSIVFHGMIRRDIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEF-AFASV-------------LS-  419 (702)
Q Consensus       355 ~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~-~~~~l-------------l~-  419 (702)
                                          +..++..+...+...|++++|...++++.+..  |+.. .+..+             .. 
T Consensus        88 --------------------~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~  145 (327)
T 3cv0_A           88 --------------------DIAVHAALAVSHTNEHNANAALASLRAWLLSQ--PQYEQLGSVNLQADVDIDDLNVQSED  145 (327)
T ss_dssp             --------------------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS--TTTTTC--------------------
T ss_pred             --------------------CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CccHHHHHHHhHHHHHHHHHHHHHHh
Confidence                                33445555555556666666666666655532  2111 11111             01 


Q ss_pred             -HHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCHHHHHHHHHHHHHcCChHHHHH
Q 005329          420 -VCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIH  498 (702)
Q Consensus       420 -~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  498 (702)
                       .+...|+++.|...++.+.+..                                +.+...+..+...+...|++++|.+
T Consensus       146 ~~~~~~~~~~~A~~~~~~~~~~~--------------------------------~~~~~~~~~la~~~~~~~~~~~A~~  193 (327)
T 3cv0_A          146 FFFAAPNEYRECRTLLHAALEMN--------------------------------PNDAQLHASLGVLYNLSNNYDSAAA  193 (327)
T ss_dssp             CCTTSHHHHHHHHHHHHHHHHHS--------------------------------TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHhhC--------------------------------CCCHHHHHHHHHHHHHhccHHHHHH
Confidence             1334444455555444444332                                1234455555555555566666666


Q ss_pred             HHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCC-ChhhHHHHHHHHHhcCCHHHHHHHHHhCCC-
Q 005329          499 LFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVP-SKEHYGCMIDLLCRAGRLSDAENMIENMPH-  576 (702)
Q Consensus       499 ~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-  576 (702)
                      .++++.+.. +.+...+..+...+...|++++|.+.|+++.+.   .| +...+..++.++.+.|++++|...++++.. 
T Consensus       194 ~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~---~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  269 (327)
T 3cv0_A          194 NLRRAVELR-PDDAQLWNKLGATLANGNRPQEALDAYNRALDI---NPGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYM  269 (327)
T ss_dssp             HHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc---CCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            665555432 223445555666666666666666666665543   23 255556666666666666666666665544 


Q ss_pred             CC-------------CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC
Q 005329          577 QK-------------DDVVWSTLLRACMVQGDVNCGRHTAEKILELH  610 (702)
Q Consensus       577 ~p-------------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  610 (702)
                      .|             +...|..+..++...|++++|..+++++++..
T Consensus       270 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~  316 (327)
T 3cv0_A          270 QVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQNVEPF  316 (327)
T ss_dssp             HTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCCSHHH
T ss_pred             CCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhc
Confidence            22             24566666666666666666666666555543

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.63  E-value=1.2e-16  Score=171.18  Aligned_cols=130  Identities=12%  Similarity=0.080  Sum_probs=114.9

Q ss_pred             CchhHHHHHHHhhhcCCChhHHHHHhccCC-------CCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHH
Q 005329          141 NSVFVGSALLDMYTKLGKIELGCRVFDEMP-------LRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFA  213 (702)
Q Consensus       141 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~-------~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~  213 (702)
                      .-..+||++|++|++.|++++|.++|++|.       .||++|||+||.+|++.|++++|.++|++|.+.|+.||..||+
T Consensus       125 ~~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYn  204 (1134)
T 3spa_A          125 GQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYA  204 (1134)
T ss_dssp             HHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHH
T ss_pred             hHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHH
Confidence            345689999999999999999999997753       6899999999999999999999999999999999999999999


Q ss_pred             HHHHHHhccCCh-HHHHHHHHHHHHhCCCCchhHHHHHHHHhhhCCChHHHHHHHhcc
Q 005329          214 IVLKASADSGAL-NFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERM  270 (702)
Q Consensus       214 ~ll~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~  270 (702)
                      ++|.++++.|+. +.|.++|++|.+.|+.||..+|++++....+.+-++.+.++...+
T Consensus       205 tLI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~vL~~Vrkv~P~f  262 (1134)
T 3spa_A          205 AALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTF  262 (1134)
T ss_dssp             HHHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHHHHHHHGGGCCCC
T ss_pred             HHHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHHHHHHHHHhCccc
Confidence            999999999985 789999999999999999999999988777665555444444444

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.61  E-value=1.6e-14  Score=138.82  Aligned_cols=234  Identities=10%  Similarity=0.020  Sum_probs=177.0

Q ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHhcCCC--CChhhHHHHHHHHHcCCChHHHHHHHHHHHHCCC--CCC----HHHHHH
Q 005329          345 LSVANSIMAMYSKCGQLTSTSIVFHGMIR--RDIISWSTIIGGYSQGGYEEEAFEYLALMRREGP--RPN----EFAFAS  416 (702)
Q Consensus       345 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~--~p~----~~~~~~  416 (702)
                      ...+..+...+...|++++|+..|++..+  .+...|..+..++...|++++|+..+++..+...  .|+    ...+..
T Consensus         5 a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~   84 (258)
T 3uq3_A            5 ADKEKAEGNKFYKARQFDEAIEHYNKAWELHKDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFAR   84 (258)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhhccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHH
Confidence            46788899999999999999999988732  6778899999999999999999999999876421  112    244444


Q ss_pred             HHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCHHHHHHHHHHHHHcCChHHH
Q 005329          417 VLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETESDDIVSWTAMINGYAEHGYSQEA  496 (702)
Q Consensus       417 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  496 (702)
                      +...+...|+++.|...++.+.+..                                 |+       ...+...|++++|
T Consensus        85 l~~~~~~~~~~~~A~~~~~~a~~~~---------------------------------~~-------~~~~~~~~~~~~a  124 (258)
T 3uq3_A           85 IGNAYHKLGDLKKTIEYYQKSLTEH---------------------------------RT-------ADILTKLRNAEKE  124 (258)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC---------------------------------CC-------HHHHHHHHHHHHH
T ss_pred             HHHHHHHcccHHHHHHHHHHHHhcC---------------------------------ch-------hHHHHHHhHHHHH
Confidence            4455555555555555555444432                                 22       1235556777888


Q ss_pred             HHHHHHchhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCC-ChhhHHHHHHHHHhcCCHHHHHHHHHhC
Q 005329          497 IHLFEKVPMVGLRP-DSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVP-SKEHYGCMIDLLCRAGRLSDAENMIENM  574 (702)
Q Consensus       497 ~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~  574 (702)
                      ...++++...  .| +...+..+...+...|++++|.+.|+++.+.   .| +...+..++.++.+.|++++|...++++
T Consensus       125 ~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~---~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a  199 (258)
T 3uq3_A          125 LKKAEAEAYV--NPEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKR---APEDARGYSNRAAALAKLMSFPEAIADCNKA  199 (258)
T ss_dssp             HHHHHHHHHC--CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHc--CcchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhc---CcccHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            8888887764  34 3457777888888889999999999888765   34 4778888899999999999999999888


Q ss_pred             CC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC------CCCchhHHHHHHH
Q 005329          575 PH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELH------PSCAGTHITLANI  623 (702)
Q Consensus       575 ~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~------p~~~~~~~~l~~~  623 (702)
                      ..  +.+...|..++..+...|++++|...+++++++.      |++...+..+..+
T Consensus       200 l~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~p~~~~~~~~l~~~  256 (258)
T 3uq3_A          200 IEKDPNFVRAYIRKATAQIAVKEYASALETLDAARTKDAEVNNGSSAREIDQLYYKA  256 (258)
T ss_dssp             HHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTTTHHHHHHHHHHT
T ss_pred             HHhCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhChhhcCCCchHHHHHHHHHh
Confidence            76  4457788999999999999999999999999998      8777777666543

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.60  E-value=6.5e-16  Score=165.62  Aligned_cols=129  Identities=9%  Similarity=0.062  Sum_probs=105.4

Q ss_pred             chhHHHHHHHHhhhCCChHHHHHHHhccC-------CCCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHH
Q 005329          243 VSFVANSLATMYSKCGKLDYSLRLFERMS-------TRDVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAA  315 (702)
Q Consensus       243 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~-------~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~  315 (702)
                      -..+|++||++||+.|++++|.++|++|.       .||+.+||+||.+|++.|++++|.++|++|.+.|+.||..||++
T Consensus       126 ~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYnt  205 (1134)
T 3spa_A          126 QQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAA  205 (1134)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHH
Confidence            34578888888888888888888886653       57888899999999999999999999999999999999999999


Q ss_pred             HHHHHHccCch-HHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHhcC
Q 005329          316 IISASANLARI-QWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGM  371 (702)
Q Consensus       316 ll~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  371 (702)
                      +|.++++.|+. +.|.+++++|.+.|+.||..+|+.++..+.+.+-++.+.++...+
T Consensus       206 LI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~vL~~Vrkv~P~f  262 (1134)
T 3spa_A          206 ALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTF  262 (1134)
T ss_dssp             HHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHHHHHHHGGGCCCC
T ss_pred             HHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHHHHHHHHHhCccc
Confidence            99999998874 788899999999999999999998887777665555555554443

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.59  E-value=1.2e-13  Score=133.85  Aligned_cols=244  Identities=11%  Similarity=-0.037  Sum_probs=164.2

Q ss_pred             HHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCC--hhHHHHHHHHHH
Q 005329          380 STIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERT--AMIKSALINMYS  457 (702)
Q Consensus       380 ~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~li~~~~  457 (702)
                      ......+...|++++|+..|++..+... .+...+..+...+...|+++.|...++.+.+....++  ...+..+...+.
T Consensus         7 ~~~a~~~~~~~~~~~A~~~~~~~l~~~p-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~   85 (272)
T 3u4t_A            7 FRYADFLFKNNNYAEAIEVFNKLEAKKY-NSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILM   85 (272)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHHHHTTC-CCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHH
Confidence            3344555556666666666666555321 1222444455555566666666666666555321111  223566777777


Q ss_pred             hcCCHHHHHHHHhhCC---CCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHH
Q 005329          458 KCGSIKEASQIFYETE---SDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHY  534 (702)
Q Consensus       458 ~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~  534 (702)
                      ..|++++|...|++..   +.+...|..+...|...|++++|++.|++..+.. +.+...+..+...+...+++++|.+.
T Consensus        86 ~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~  164 (272)
T 3u4t_A           86 KKGQDSLAIQQYQAAVDRDTTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYYYNKEYVKADSS  164 (272)
T ss_dssp             HTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HcccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHHHHHHHHHHHHH
Confidence            7788888887777654   3456788888888889999999999998888652 33455666666344455699999999


Q ss_pred             HHHhHHhhCCCCC-hhhHHHHHHHHHhcCC---HHHHHHHHHhCCC----CCC------HHHHHHHHHHHHhcCCHHHHH
Q 005329          535 FNLMSDKYGFVPS-KEHYGCMIDLLCRAGR---LSDAENMIENMPH----QKD------DVVWSTLLRACMVQGDVNCGR  600 (702)
Q Consensus       535 ~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~----~p~------~~~~~~l~~~~~~~g~~~~A~  600 (702)
                      |+.+.+.   .|+ ...+..+..++...|+   +++|...++++..    .|+      ..+|..++..|...|++++|.
T Consensus       165 ~~~a~~~---~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  241 (272)
T 3u4t_A          165 FVKVLEL---KPNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKAD  241 (272)
T ss_dssp             HHHHHHH---STTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHh---CccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            9988755   455 6777778888888887   7777777777655    243      257778889999999999999


Q ss_pred             HHHHHHHHhCCCCchhHHHHHHHHHhcC
Q 005329          601 HTAEKILELHPSCAGTHITLANIYAAKG  628 (702)
Q Consensus       601 ~~~~~~~~~~p~~~~~~~~l~~~~~~~g  628 (702)
                      +.++++++++|+++..+..+..+....+
T Consensus       242 ~~~~~al~~~p~~~~a~~~l~~~~~~~~  269 (272)
T 3u4t_A          242 AAWKNILALDPTNKKAIDGLKMKLEHHH  269 (272)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHC-------
T ss_pred             HHHHHHHhcCccHHHHHHHhhhhhcccc
Confidence            9999999999999998888877665554

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.59  E-value=2.2e-13  Score=142.02  Aligned_cols=377  Identities=9%  Similarity=0.011  Sum_probs=202.6

Q ss_pred             HHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhhhCCCh---HHHHHHHhccCCCCcchHHHHHHHHHhcC---
Q 005329          216 LKASADSGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKL---DYSLRLFERMSTRDVISWTTIITSYVQMG---  289 (702)
Q Consensus       216 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~---~~A~~~~~~~~~~~~~~~~~li~~~~~~g---  289 (702)
                      ...+.+.|++++|.++|+...+.|.   ...+..|...|...|+.   ++|...|++..+.++..+..+...+...+   
T Consensus        10 a~~~~~~g~~~~A~~~~~~aa~~g~---~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~~~~A~~~Lg~~~~~~~~~~   86 (452)
T 3e4b_A           10 ANEALKRGDTVTAQQNYQQLAELGY---SEAQVGLADIQVGTRDPAQIKQAEATYRAAADTSPRAQARLGRLLAAKPGAT   86 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTC---CTGGGTCC----------------------------CHHHHHHHHHTC--CC
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHCCC---HHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhCCHHHHHHHHHHHHhCCCCC
Confidence            3344556677777777777766652   22333445555556666   77777777776556666766666555554   


Q ss_pred             --ChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCchH---HHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCH---
Q 005329          290 --EEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQ---WGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQL---  361 (702)
Q Consensus       290 --~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~---~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~---  361 (702)
                        ++++|+..|++..+.|.   ...+..+...|...+..+   .+.+.+......|.   ......+...|...+.+   
T Consensus        87 ~~~~~~A~~~~~~Aa~~g~---~~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g~---~~a~~~Lg~~y~~~~~~~~~  160 (452)
T 3e4b_A           87 EAEHHEAESLLKKAFANGE---GNTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAGY---PEAGLAQVLLYRTQGTYDQH  160 (452)
T ss_dssp             HHHHHHHHHHHHHHHHTTC---SSCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHTC---TTHHHHHHHHHHHHTCGGGG
T ss_pred             CcCHHHHHHHHHHHHHCCC---HHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCCC---HHHHHHHHHHHHcCCCcccC
Confidence              66788888888887663   224555555555544433   33444444444442   34455566666666643   


Q ss_pred             -HHHHHHHhcCCCCChhhHHHHHHHHHcCC---ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHH
Q 005329          362 -TSTSIVFHGMIRRDIISWSTIIGGYSQGG---YEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHV  437 (702)
Q Consensus       362 -~~a~~~~~~~~~~~~~~~~~li~~~~~~g---~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~  437 (702)
                       +.+..+++.....+..++..|...|...|   +.++|++.|++..+.|. ++...+..+...+...             
T Consensus       161 ~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~-~~a~~~~~Lg~~y~~g-------------  226 (452)
T 3e4b_A          161 LDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGT-VTAQRVDSVARVLGDA-------------  226 (452)
T ss_dssp             HHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTC-SCHHHHHHHHHHHTCG-------------
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCC-HHHHHHHHHHHHHhCC-------------
Confidence             34444555555555667777777777777   77777777777776653 2333222233333222             


Q ss_pred             HHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCHHHHHHHHHH-H--HHcCChHHHHHHHHHchhCCCCCCHHH
Q 005329          438 MSIGLERTAMIKSALINMYSKCGSIKEASQIFYETESDDIVSWTAMING-Y--AEHGYSQEAIHLFEKVPMVGLRPDSVT  514 (702)
Q Consensus       438 ~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~-~--~~~g~~~~A~~~~~~m~~~g~~p~~~~  514 (702)
                                        ....+++++|...|++....++..+..+... +  ...+++++|++.|++..+.|   +...
T Consensus       227 ------------------~~~~~d~~~A~~~~~~aa~g~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A  285 (452)
T 3e4b_A          227 ------------------TLGTPDEKTAQALLEKIAPGYPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRA  285 (452)
T ss_dssp             ------------------GGSSCCHHHHHHHHHHHGGGSTHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHH
T ss_pred             ------------------CCCCCCHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHH
Confidence                              0111455555555555442244455555555 3  34677777777777777655   4445


Q ss_pred             HHHHHHHHhccC-----cHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHh----cCCHHHHHHHHHhCCCCCCHHHHHH
Q 005329          515 FMGVLTACSHAG-----LVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCR----AGRLSDAENMIENMPHQKDDVVWST  585 (702)
Q Consensus       515 ~~~ll~~~~~~g-----~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~p~~~~~~~  585 (702)
                      +..+...|. .|     ++++|.++|++..     .-+...+..|...|..    ..++++|..+|++.....+......
T Consensus       286 ~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-----~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~~~A~~~  359 (452)
T 3e4b_A          286 ELLLGKLYY-EGKWVPADAKAAEAHFEKAV-----GREVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNGQNSADFA  359 (452)
T ss_dssp             HHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-----TTCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTCTTHHHH
T ss_pred             HHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-----CCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhChHHHHHH
Confidence            555555554 44     7777877777664     2245666667766665    3377888888887776656666667


Q ss_pred             HHHHHHh----cCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 005329          586 LLRACMV----QGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRS  642 (702)
Q Consensus       586 l~~~~~~----~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  642 (702)
                      |...|..    ..+.++|...++++.+.++.........+......++..+|..+.++-.+
T Consensus       360 Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g~~~a~~~l~~l~~~~~~~~~~~a~~~~~~~~~  420 (452)
T 3e4b_A          360 IAQLFSQGKGTKPDPLNAYVFSQLAKAQDTPEANDLATQLEAPLTPAQRAEGQRLVQQELA  420 (452)
T ss_dssp             HHHHHHSCTTBCCCHHHHHHHHHHHHTTCCHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHH
Confidence            7777653    45788888888888877653333222222222333456666666665544

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.58  E-value=1.5e-13  Score=133.48  Aligned_cols=241  Identities=6%  Similarity=-0.108  Sum_probs=183.7

Q ss_pred             cCCChHHHHHHHHHHHHCCCC--C-CHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHH
Q 005329          388 QGGYEEEAFEYLALMRREGPR--P-NEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKE  464 (702)
Q Consensus       388 ~~g~~~~a~~~~~~m~~~g~~--p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  464 (702)
                      ..|++++|+..|+++.+....  | +...+..+...+...|+++.|...++.+.+... .+...+..+...|...|++++
T Consensus        17 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~la~~~~~~~~~~~   95 (275)
T 1xnf_A           17 PTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRP-DMPEVFNYLGIYLTQAGNFDA   95 (275)
T ss_dssp             CCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHTTCHHH
T ss_pred             ccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcCC-CcHHHHHHHHHHHHHccCHHH
Confidence            356777788877777765321  1 344566667777777888888888877777643 356677778888888899999


Q ss_pred             HHHHHhhCC---CCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHh
Q 005329          465 ASQIFYETE---SDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDK  541 (702)
Q Consensus       465 A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~  541 (702)
                      |...|++..   +.+...+..+..++...|++++|...|+++.+.  .|+.......+..+...|++++|...++.....
T Consensus        96 A~~~~~~al~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~  173 (275)
T 1xnf_A           96 AYEAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEK  173 (275)
T ss_dssp             HHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCccccHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            988888765   346788999999999999999999999999874  455555555555667789999999999888765


Q ss_pred             hCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCCC-C-----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCch
Q 005329          542 YGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPHQ-K-----DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAG  615 (702)
Q Consensus       542 ~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-p-----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~  615 (702)
                        .+++... ..++..+...++.++|...++++... |     +...+..++..+...|++++|...++++++.+|++..
T Consensus       174 --~~~~~~~-~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~  250 (275)
T 1xnf_A          174 --SDKEQWG-WNIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNFV  250 (275)
T ss_dssp             --SCCCSTH-HHHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTCH
T ss_pred             --CCcchHH-HHHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCchhHH
Confidence              2333444 44777888889999999999998772 2     2578889999999999999999999999999997755


Q ss_pred             hHHHHHHHHHhcCChHHHHHHH
Q 005329          616 THITLANIYAAKGRWREAAEVR  637 (702)
Q Consensus       616 ~~~~l~~~~~~~g~~~~A~~~~  637 (702)
                      .+   +.++...|++++|++.+
T Consensus       251 ~~---~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          251 EH---RYALLELSLLGQDQDDL  269 (275)
T ss_dssp             HH---HHHHHHHHHHHHC----
T ss_pred             HH---HHHHHHHHHHHhhHHHH
Confidence            44   67788899999998776

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.58  E-value=9.5e-14  Score=129.24  Aligned_cols=193  Identities=13%  Similarity=0.101  Sum_probs=161.9

Q ss_pred             CCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHH
Q 005329          475 DDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGC  553 (702)
Q Consensus       475 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~  553 (702)
                      ++...+..+...+...|++++|+..|++..+.. +.+...+..+...+...|++++|+..|+++.+.   .|+ ...+..
T Consensus         3 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~---~P~~~~a~~~   78 (217)
T 2pl2_A            3 TAEQNPLRLGVQLYALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVAR---TPRYLGGYMV   78 (217)
T ss_dssp             -CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHH
T ss_pred             CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCcHHHHHH
Confidence            456778889999999999999999999998753 446678889999999999999999999999865   665 788899


Q ss_pred             HHHHHHhc-----------CCHHHHHHHHHhCCC-CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHH
Q 005329          554 MIDLLCRA-----------GRLSDAENMIENMPH-QK-DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITL  620 (702)
Q Consensus       554 l~~~~~~~-----------g~~~~A~~~~~~~~~-~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l  620 (702)
                      +..++...           |++++|+..+++... .| +...|..++..+...|++++|+..++++++++ +++..+..+
T Consensus        79 lg~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~l  157 (217)
T 2pl2_A           79 LSEAYVALYRQAEDRERGKGYLEQALSVLKDAERVNPRYAPLHLQRGLVYALLGERDKAEASLKQALALE-DTPEIRSAL  157 (217)
T ss_dssp             HHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCHHHHHHH
T ss_pred             HHHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc-cchHHHHHH
Confidence            99999999           999999999999877 44 57899999999999999999999999999999 899999999


Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCccCCeeeEEEECCEEEEEEcCCCCCCChhHHHHHHHHHHHHhcCCCCCCcccc
Q 005329          621 ANIYAAKGRWREAAEVRKMMRSKGVIKEPGWSRIKVKDQVSAFVSSDRRHSQGEDIYRMLDLLASRESDIDDLDSLVH  698 (702)
Q Consensus       621 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~l~~l~~~~~~~~~~~~~~~  698 (702)
                      +.+|...|++++|+..++++.+.                          +|....++..++.+....++..++...+.
T Consensus       158 a~~~~~~g~~~~A~~~~~~al~~--------------------------~P~~~~~~~~la~~~~~~g~~~~A~~~~~  209 (217)
T 2pl2_A          158 AELYLSMGRLDEALAQYAKALEQ--------------------------APKDLDLRVRYASALLLKGKAEEAARAAA  209 (217)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHH--------------------------STTCHHHHHHHHHHHTC------------
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHh--------------------------CCCChHHHHHHHHHHHHccCHHHHHHHHH
Confidence            99999999999999999998863                          47778888999999888888877766654

>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=99.56  E-value=1.2e-12  Score=127.00  Aligned_cols=224  Identities=12%  Similarity=0.010  Sum_probs=158.5

Q ss_pred             ChhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHH
Q 005329          375 DIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALIN  454 (702)
Q Consensus       375 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  454 (702)
                      +..++..+...+...|++++|+..|++..+.+   +...+..+                                   ..
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l-----------------------------------g~   46 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNL-----------------------------------GV   46 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHH-----------------------------------HH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHH-----------------------------------HH
Confidence            45566666777777777777777777766522   22333333                                   34


Q ss_pred             HHHh----cCCHHHHHHHHhhCCC-CCHHHHHHHHHHHHH----cCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhc-
Q 005329          455 MYSK----CGSIKEASQIFYETES-DDIVSWTAMINGYAE----HGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSH-  524 (702)
Q Consensus       455 ~~~~----~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~-  524 (702)
                      .|..    .+++++|...|++..+ .++..+..+...|..    .+++++|+..|++..+.+   +...+..+...+.. 
T Consensus        47 ~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~  123 (273)
T 1ouv_A           47 LYYQGQGVEKNLKKAASFYAKACDLNYSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDG  123 (273)
T ss_dssp             HHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHC
T ss_pred             HHHcCCCcCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcC
Confidence            4444    5555555555554332 255566666777777    777778877777777654   55667777777777 


Q ss_pred             ---cCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHh----cCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----c
Q 005329          525 ---AGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCR----AGRLSDAENMIENMPHQKDDVVWSTLLRACMV----Q  593 (702)
Q Consensus       525 ---~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~----~  593 (702)
                         .+++++|.+.|++..+. +   +...+..+...|..    .+++++|...|++.....+...+..+...+..    .
T Consensus       124 ~~~~~~~~~A~~~~~~a~~~-~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~  199 (273)
T 1ouv_A          124 KVVTRDFKKAVEYFTKACDL-N---DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLKDSPGCFNAGNMYHHGEGAT  199 (273)
T ss_dssp             SSSCCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSC
T ss_pred             CCcccCHHHHHHHHHHHHhc-C---cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCC
Confidence               78888888888887654 2   45667777777777    78888888888877665567778888888888    8


Q ss_pred             CCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHh----cCChHHHHHHHHHHHhCCC
Q 005329          594 GDVNCGRHTAEKILELHPSCAGTHITLANIYAA----KGRWREAAEVRKMMRSKGV  645 (702)
Q Consensus       594 g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~  645 (702)
                      +++++|...++++++.+|  +..+..++.+|..    .|++++|.+++++..+.|.
T Consensus       200 ~~~~~A~~~~~~a~~~~~--~~a~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~~~  253 (273)
T 1ouv_A          200 KNFKEALARYSKACELEN--GGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGA  253 (273)
T ss_dssp             CCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTC
T ss_pred             ccHHHHHHHHHHHHhCCC--HHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHHcCC
Confidence            888888888888888866  6778888888888    8888888888888877654

>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=99.56  E-value=2.1e-13  Score=130.57  Aligned_cols=196  Identities=8%  Similarity=-0.047  Sum_probs=153.4

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHh
Q 005329          447 MIKSALINMYSKCGSIKEASQIFYETE---SDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACS  523 (702)
Q Consensus       447 ~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~  523 (702)
                      ..+..+...+...|++++|...|+++.   ..+...+..+...+...|++++|.+.++++.+.. +.+...+..+...+.
T Consensus        38 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~  116 (252)
T 2ho1_A           38 DAYIQLGLGYLQRGNTEQAKVPLRKALEIDPSSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGFLY  116 (252)
T ss_dssp             HHHHHHHHHHHHTTCTGGGHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcCCChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHH
Confidence            345556667777777777777777654   3456777888888888888888888888887653 335667777888888


Q ss_pred             ccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHH
Q 005329          524 HAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGR  600 (702)
Q Consensus       524 ~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~  600 (702)
                      ..|++++|.++++++.+. +..|+ ...+..++.++...|++++|...++++..  +.+...+..++..+...|++++|.
T Consensus       117 ~~g~~~~A~~~~~~~~~~-~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  195 (252)
T 2ho1_A          117 EQKRYEEAYQRLLEASQD-TLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNRNQPSVALEMADLLYKEREYVPAR  195 (252)
T ss_dssp             HTTCHHHHHHHHHHHTTC-TTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHhHHHHHHHHHHHHHhC-ccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCCHHHHH
Confidence            888888888888888751 34554 66777888888888888888888888766  345778888888888899999999


Q ss_pred             HHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 005329          601 HTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKG  644 (702)
Q Consensus       601 ~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  644 (702)
                      ..++++++..|.+...+..++.++...|++++|.++++++.+..
T Consensus       196 ~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~  239 (252)
T 2ho1_A          196 QYYDLFAQGGGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLY  239 (252)
T ss_dssp             HHHHHHHTTSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHhCcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC
Confidence            99999988888888888888889999999999999888887643

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.55  E-value=2.9e-13  Score=141.15  Aligned_cols=345  Identities=10%  Similarity=0.018  Sum_probs=230.3

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCch---HHHHHHHHHHHHhCCCCchHHHHHHHHHHH
Q 005329          280 TIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARI---QWGEQLHAHVLRLGLVDSLSVANSIMAMYS  356 (702)
Q Consensus       280 ~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~---~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  356 (702)
                      .+...+.+.|++++|+++|++..+.|   +...+..+...+...|+.   ++|...|+...+.    +...+..+...+.
T Consensus         8 ~la~~~~~~g~~~~A~~~~~~aa~~g---~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~----~~~A~~~Lg~~~~   80 (452)
T 3e4b_A            8 RLANEALKRGDTVTAQQNYQQLAELG---YSEAQVGLADIQVGTRDPAQIKQAEATYRAAADT----SPRAQARLGRLLA   80 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHT---CCTGGGTCC--------------------------------CHHHHHHHHH
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC----CHHHHHHHHHHHH
Confidence            35667788999999999999998876   333344455555667777   8999999888755    4444555666455


Q ss_pred             hcC-----CHHHHHHHHhcCCCC-ChhhHHHHHHHHHcCCChH---HHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcH
Q 005329          357 KCG-----QLTSTSIVFHGMIRR-DIISWSTIIGGYSQGGYEE---EAFEYLALMRREGPRPNEFAFASVLSVCGNMAIL  427 (702)
Q Consensus       357 ~~g-----~~~~a~~~~~~~~~~-~~~~~~~li~~~~~~g~~~---~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~  427 (702)
                      ..+     ++++|...|++..++ +..++..|...|...+...   ++.+.+......|..   .....+...+...+.+
T Consensus        81 ~~~~~~~~~~~~A~~~~~~Aa~~g~~~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g~~---~a~~~Lg~~y~~~~~~  157 (452)
T 3e4b_A           81 AKPGATEAEHHEAESLLKKAFANGEGNTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAGYP---EAGLAQVLLYRTQGTY  157 (452)
T ss_dssp             TC--CCHHHHHHHHHHHHHHHHTTCSSCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHTCT---THHHHHHHHHHHHTCG
T ss_pred             hCCCCCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCCCH---HHHHHHHHHHHcCCCc
Confidence            544     778999999887554 4557888888888766544   455555555555532   2333444555555544


Q ss_pred             HHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcC---CHHHHHHHHhhCC---CCCHHHHHHHHHHHHHc----CChHHHH
Q 005329          428 EQGKQIHAHVMSIGLERTAMIKSALINMYSKCG---SIKEASQIFYETE---SDDIVSWTAMINGYAEH----GYSQEAI  497 (702)
Q Consensus       428 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g---~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~----g~~~~A~  497 (702)
                      +.+........+.-...++..+..+..+|...|   +.++|...|++..   .++...+..+...|...    +++++|+
T Consensus       158 ~~~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~~a~~~~~Lg~~y~~g~~~~~d~~~A~  237 (452)
T 3e4b_A          158 DQHLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGTVTAQRVDSVARVLGDATLGTPDEKTAQ  237 (452)
T ss_dssp             GGGHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCSCHHHHHHHHHHHTCGGGSSCCHHHHH
T ss_pred             ccCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCCCHHHHH
Confidence            333333222222222333447788999999999   8999999998765   34455557777777654    7999999


Q ss_pred             HHHHHchhCCCCCCHHHHHHHHHH-H--hccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcC-----CHHHHHH
Q 005329          498 HLFEKVPMVGLRPDSVTFMGVLTA-C--SHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAG-----RLSDAEN  569 (702)
Q Consensus       498 ~~~~~m~~~g~~p~~~~~~~ll~~-~--~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g-----~~~~A~~  569 (702)
                      +.|++.. .|   +...+..+... +  ...+++++|.++|++..+. |   +...+..|...|. .|     ++++|..
T Consensus       238 ~~~~~aa-~g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~-g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~  308 (452)
T 3e4b_A          238 ALLEKIA-PG---YPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAA-D---QPRAELLLGKLYY-EGKWVPADAKAAEA  308 (452)
T ss_dssp             HHHHHHG-GG---STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHH-HCSSSCCCHHHHHH
T ss_pred             HHHHHHc-CC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHC-C---CHHHHHHHHHHHH-cCCCCCCCHHHHHH
Confidence            9999987 33   44455555555 3  5689999999999998765 4   6777888888887 55     9999999


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHh----cCChHHHHHHHHHHH
Q 005329          570 MIENMPHQKDDVVWSTLLRACMV----QGDVNCGRHTAEKILELHPSCAGTHITLANIYAA----KGRWREAAEVRKMMR  641 (702)
Q Consensus       570 ~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~  641 (702)
                      +|++.. +.+...+..|...|..    ..++++|...|+++.+.  .++.....|+.+|..    ..+.++|..++++..
T Consensus       309 ~~~~Aa-~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~--g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~  385 (452)
T 3e4b_A          309 HFEKAV-GREVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARN--GQNSADFAIAQLFSQGKGTKPDPLNAYVFSQLAK  385 (452)
T ss_dssp             HHHTTT-TTCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTT--TCTTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHH
T ss_pred             HHHHHh-CCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhh--ChHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHH
Confidence            999999 7788899999888776    34999999999998774  567889999999986    458999999999999


Q ss_pred             hCCCc
Q 005329          642 SKGVI  646 (702)
Q Consensus       642 ~~~~~  646 (702)
                      +.|..
T Consensus       386 ~~g~~  390 (452)
T 3e4b_A          386 AQDTP  390 (452)
T ss_dssp             TTCCH
T ss_pred             HCCCH
Confidence            88754

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.55  E-value=1e-13  Score=131.85  Aligned_cols=197  Identities=12%  Similarity=0.105  Sum_probs=148.7

Q ss_pred             ChhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHH
Q 005329          445 TAMIKSALINMYSKCGSIKEASQIFYETE---SDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTA  521 (702)
Q Consensus       445 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~  521 (702)
                      ....+..+...+...|++++|...|+++.   ..+...+..+...+...|++++|+..++++.+.. +.+...+..+...
T Consensus        22 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~  100 (243)
T 2q7f_A           22 ASMTGGQQMGRGSEFGDYEKAAEAFTKAIEENKEDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGNV  100 (243)
T ss_dssp             --------------------CCTTHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHHH
Confidence            34455666777778888888888887764   2467788888888999999999999998888753 3456778888888


Q ss_pred             HhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHH
Q 005329          522 CSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCG  599 (702)
Q Consensus       522 ~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A  599 (702)
                      +...|++++|.++++++.+.  .+.+...+..++..+.+.|++++|...++++..  +.+...+..++..+...|++++|
T Consensus       101 ~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  178 (243)
T 2q7f_A          101 YVVKEMYKEAKDMFEKALRA--GMENGDLFYMLGTVLVKLEQPKLALPYLQRAVELNENDTEARFQFGMCLANEGMLDEA  178 (243)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--TCCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHHH
T ss_pred             HHHhccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHcCCHHHH
Confidence            89999999999999988765  123477788888999999999999999988766  44677888899999999999999


Q ss_pred             HHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 005329          600 RHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKG  644 (702)
Q Consensus       600 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  644 (702)
                      +..++++++..|+++..+..++.+|...|++++|...++++.+..
T Consensus       179 ~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  223 (243)
T 2q7f_A          179 LSQFAAVTEQDPGHADAFYNAGVTYAYKENREKALEMLDKAIDIQ  223 (243)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHccC
Confidence            999999999999999999999999999999999999999987743

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.55  E-value=4.6e-13  Score=125.49  Aligned_cols=196  Identities=13%  Similarity=0.048  Sum_probs=157.7

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHH
Q 005329          446 AMIKSALINMYSKCGSIKEASQIFYETE---SDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTAC  522 (702)
Q Consensus       446 ~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~  522 (702)
                      ...+..+...+...|++++|...|+++.   +.+...+..+...+...|++++|.+.++++.+.. +.+..++..+...+
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~   86 (225)
T 2vq2_A            8 SNIKTQLAMEYMRGQDYRQATASIEDALKSDPKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGWFL   86 (225)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHHHH
Confidence            4455566777777777887777777654   3456778888888888899999999888887653 34567788888888


Q ss_pred             hcc-CcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHH
Q 005329          523 SHA-GLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNC  598 (702)
Q Consensus       523 ~~~-g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~  598 (702)
                      ... |++++|...++.+.+. +..|+ ...+..++.++...|++++|...++++..  +.+...+..++..+...|++++
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~  165 (225)
T 2vq2_A           87 CGRLNRPAESMAYFDKALAD-PTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQPQFPPAFKELARTKMLAGQLGD  165 (225)
T ss_dssp             HTTTCCHHHHHHHHHHHHTS-TTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHhcCcHHHHHHHHHHHHcC-cCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHcCCHHH
Confidence            888 9999999999988762 34454 67788888889999999999999888766  3457788888889999999999


Q ss_pred             HHHHHHHHHHhCC-CCchhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 005329          599 GRHTAEKILELHP-SCAGTHITLANIYAAKGRWREAAEVRKMMRSK  643 (702)
Q Consensus       599 A~~~~~~~~~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  643 (702)
                      |...++++++..| .++..+..++.++...|+.++|..+++.+.+.
T Consensus       166 A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  211 (225)
T 2vq2_A          166 ADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQAN  211 (225)
T ss_dssp             HHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh
Confidence            9999999999999 88888888888899999999999998888754

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.54  E-value=3.4e-13  Score=122.05  Aligned_cols=165  Identities=14%  Similarity=0.076  Sum_probs=145.3

Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHH
Q 005329          476 DIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCM  554 (702)
Q Consensus       476 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l  554 (702)
                      +...|..+...|...|++++|++.|++..+.. +-+...+..+..++...|++++|...+..+...   .|+ ...+..+
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~   79 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVL---DTTSAEAYYIL   79 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc---CchhHHHHHHH
Confidence            56788889999999999999999999988753 335578888999999999999999999998754   444 6777888


Q ss_pred             HHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHH
Q 005329          555 IDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWRE  632 (702)
Q Consensus       555 ~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  632 (702)
                      ...+...++++.|...+++...  +.+...+..++..+...|++++|++.++++++.+|.++.++..++.+|.+.|++++
T Consensus        80 ~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~~~~  159 (184)
T 3vtx_A           80 GSANFMIDEKQAAIDALQRAIALNTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGLRDE  159 (184)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCCHHH
Confidence            8899999999999999988776  44677899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhCC
Q 005329          633 AAEVRKMMRSKG  644 (702)
Q Consensus       633 A~~~~~~~~~~~  644 (702)
                      |++.++++.+..
T Consensus       160 A~~~~~~al~~~  171 (184)
T 3vtx_A          160 AVKYFKKALEKE  171 (184)
T ss_dssp             HHHHHHHHHHTT
T ss_pred             HHHHHHHHHhCC
Confidence            999999998754

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.53  E-value=4e-13  Score=130.21  Aligned_cols=226  Identities=9%  Similarity=-0.014  Sum_probs=185.5

Q ss_pred             HHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCC--CC----HHHHHHHHHHH
Q 005329          414 FASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETES--DD----IVSWTAMINGY  487 (702)
Q Consensus       414 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~----~~~~~~li~~~  487 (702)
                      +......+...|+++.|...++.+.+.... +...+..+..+|...|++++|...|++..+  ++    ..+|..+...+
T Consensus         6 ~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~   84 (272)
T 3u4t_A            6 EFRYADFLFKNNNYAEAIEVFNKLEAKKYN-SPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKIL   84 (272)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHHHTTCC-CSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHH
Confidence            344556788899999999999999886533 455777788899999999999999987654  22    33588999999


Q ss_pred             HHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHH
Q 005329          488 AEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSD  566 (702)
Q Consensus       488 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~  566 (702)
                      ...|++++|++.|++..+.. +.+...+..+...+...|++++|.+.|++..+   ..|+ ...+..+...+...+++++
T Consensus        85 ~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~---~~~~~~~~~~~l~~~~~~~~~~~~  160 (272)
T 3u4t_A           85 MKKGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIR---PTTTDPKVFYELGQAYYYNKEYVK  160 (272)
T ss_dssp             HHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCC---SSCCCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHcccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhh---cCCCcHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999998753 34557889999999999999999999998874   4665 6777777734445569999


Q ss_pred             HHHHHHhCCC-CC-CHHHHHHHHHHHHhcCC---HHHHHHHHHHHHHhC---CCC-----chhHHHHHHHHHhcCChHHH
Q 005329          567 AENMIENMPH-QK-DDVVWSTLLRACMVQGD---VNCGRHTAEKILELH---PSC-----AGTHITLANIYAAKGRWREA  633 (702)
Q Consensus       567 A~~~~~~~~~-~p-~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~---p~~-----~~~~~~l~~~~~~~g~~~~A  633 (702)
                      |...|+++.. .| +...+..++..+...|+   +++|...++++++..   |+.     ...|..++.+|...|++++|
T Consensus       161 A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  240 (272)
T 3u4t_A          161 ADSSFVKVLELKPNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKA  240 (272)
T ss_dssp             HHHHHHHHHHHSTTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHhCccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHH
Confidence            9999999877 44 47788888888888888   888999999999876   532     25888899999999999999


Q ss_pred             HHHHHHHHhCC
Q 005329          634 AEVRKMMRSKG  644 (702)
Q Consensus       634 ~~~~~~~~~~~  644 (702)
                      .++++++.+..
T Consensus       241 ~~~~~~al~~~  251 (272)
T 3u4t_A          241 DAAWKNILALD  251 (272)
T ss_dssp             HHHHHHHHHHC
T ss_pred             HHHHHHHHhcC
Confidence            99999998743

>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=99.52  E-value=3.9e-12  Score=123.28  Aligned_cols=227  Identities=9%  Similarity=-0.076  Sum_probs=176.2

Q ss_pred             chHHHHHHHHHHHhcCCHHHHHHHHhcCCCC-ChhhHHHHHHHHHc----CCChHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 005329          344 SLSVANSIMAMYSKCGQLTSTSIVFHGMIRR-DIISWSTIIGGYSQ----GGYEEEAFEYLALMRREGPRPNEFAFASVL  418 (702)
Q Consensus       344 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll  418 (702)
                      +...+..+...|...|++++|+..|++..++ +..++..+...|..    .+++++|+..|++..+.+   +...+..+.
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg   81 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLLG   81 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHHHHH
Confidence            5667788999999999999999999988655 56788889999999    999999999999988765   445555544


Q ss_pred             HHHcc----cCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCHHHHHHHHHHHHH----c
Q 005329          419 SVCGN----MAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETESDDIVSWTAMINGYAE----H  490 (702)
Q Consensus       419 ~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~----~  490 (702)
                      ..+..    .++.++|...++...+.                                  .+...+..+...|..    .
T Consensus        82 ~~~~~g~~~~~~~~~A~~~~~~a~~~----------------------------------~~~~a~~~lg~~~~~~~~~~  127 (273)
T 1ouv_A           82 NLYYSGQGVSQNTNKALQYYSKACDL----------------------------------KYAEGCASLGGIYHDGKVVT  127 (273)
T ss_dssp             HHHHHTSSSCCCHHHHHHHHHHHHHT----------------------------------TCHHHHHHHHHHHHHCSSSC
T ss_pred             HHHhCCCCcccCHHHHHHHHHHHHHc----------------------------------CCccHHHHHHHHHHcCCCcc
Confidence            44444    45555555544444332                                  245566667777777    7


Q ss_pred             CChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhc----cCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHh----cC
Q 005329          491 GYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSH----AGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCR----AG  562 (702)
Q Consensus       491 g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~----~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g  562 (702)
                      +++++|+..|++..+.+   +...+..+...+..    .+++++|...|++..+. +   +...+..+..+|..    .+
T Consensus       128 ~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~-~---~~~a~~~lg~~~~~g~~~~~  200 (273)
T 1ouv_A          128 RDFKKAVEYFTKACDLN---DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDL-K---DSPGCFNAGNMYHHGEGATK  200 (273)
T ss_dssp             CCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHTCSSCC
T ss_pred             cCHHHHHHHHHHHHhcC---cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC-C---CHHHHHHHHHHHHcCCCCCc
Confidence            88888888888888755   45566667777776    88999999999988754 2   46778888889988    99


Q ss_pred             CHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHhCCCCc
Q 005329          563 RLSDAENMIENMPHQKDDVVWSTLLRACMV----QGDVNCGRHTAEKILELHPSCA  614 (702)
Q Consensus       563 ~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~p~~~  614 (702)
                      ++++|...+++.....+...+..+...|..    .+++++|...++++.+.+|+++
T Consensus       201 ~~~~A~~~~~~a~~~~~~~a~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a  256 (273)
T 1ouv_A          201 NFKEALARYSKACELENGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGAKGA  256 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTCHHH
T ss_pred             cHHHHHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHHcCCHHH
Confidence            999999999988775557888889999988    9999999999999999998543

>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=99.51  E-value=1.2e-12  Score=132.06  Aligned_cols=245  Identities=9%  Similarity=0.022  Sum_probs=187.2

Q ss_pred             hhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHcccCc-HHHHHHHHHHHHHhCCCCChhHHHHHH
Q 005329          376 IISWSTIIGGYSQGGYEEEAFEYLALMRREGPRP-NEFAFASVLSVCGNMAI-LEQGKQIHAHVMSIGLERTAMIKSALI  453 (702)
Q Consensus       376 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~li  453 (702)
                      ..+|..+...+.+.|++++|+..+++..+.  .| +...|..+..++...|+ +++|...++.+++.... +...|..+.
T Consensus        97 ~~a~~~lg~~~~~~g~~~~Al~~~~~al~l--~P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~-~~~a~~~~g  173 (382)
T 2h6f_A           97 RDVYDYFRAVLQRDERSERAFKLTRDAIEL--NAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPK-NYQVWHHRR  173 (382)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-CHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHh--CccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCC-CHHHHHHHH
Confidence            346677777777788888888888887774  33 34566666677777775 88888888777776533 566777788


Q ss_pred             HHHHhcCCHHHHHHHHhhCC---CCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhc-cCcHH
Q 005329          454 NMYSKCGSIKEASQIFYETE---SDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSH-AGLVD  529 (702)
Q Consensus       454 ~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~-~g~~~  529 (702)
                      .++...|++++|+..|+++.   ..+...|..+..++...|++++|+..|+++++.. +-+...|+.+..++.. .|..+
T Consensus       174 ~~~~~~g~~~eAl~~~~kal~ldP~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~-P~~~~a~~~lg~~l~~l~~~~~  252 (382)
T 2h6f_A          174 VLVEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYND  252 (382)
T ss_dssp             HHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSCS
T ss_pred             HHHHHccCHHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCcch
Confidence            88888888888888888765   3577888899999999999999999999988753 3356788888888877 56546


Q ss_pred             HH-----HHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcC--CHHHHHHHHHhCCC-CCCHHHHHHHHHHHHhcC------
Q 005329          530 LG-----FHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAG--RLSDAENMIENMPH-QKDDVVWSTLLRACMVQG------  594 (702)
Q Consensus       530 ~A-----~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g--~~~~A~~~~~~~~~-~p~~~~~~~l~~~~~~~g------  594 (702)
                      +|     ++.|+++++.   .|+ ...|..+..++...|  ++++|.+.++++.. +.+...+..++..|...|      
T Consensus       253 eA~~~~el~~~~~Al~l---~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~~~~p~~~~al~~La~~~~~~~~~~~~~  329 (382)
T 2h6f_A          253 RAVLEREVQYTLEMIKL---VPHNESAWNYLKGILQDRGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDN  329 (382)
T ss_dssp             HHHHHHHHHHHHHHHHH---STTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCSS
T ss_pred             HHHHHHHHHHHHHHHHH---CCCCHHHHHHHHHHHHccCccchHHHHHHHHHhccCCCCHHHHHHHHHHHHHHhcccccc
Confidence            66     5778887754   665 778888888888888  68899998888733 345678888888888764      


Q ss_pred             ---CHHHHHHHHHHH-HHhCCCCchhHHHHHHHHHhc
Q 005329          595 ---DVNCGRHTAEKI-LELHPSCAGTHITLANIYAAK  627 (702)
Q Consensus       595 ---~~~~A~~~~~~~-~~~~p~~~~~~~~l~~~~~~~  627 (702)
                         ..++|+++++++ .+++|.....|..++..+..+
T Consensus       330 ~~~~~~~A~~~~~~l~~~~DP~r~~~w~~~~~~l~~~  366 (382)
T 2h6f_A          330 KEDILNKALELCEILAKEKDTIRKEYWRYIGRSLQSK  366 (382)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHH
Confidence               258899999999 899998888898888776654

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.50  E-value=3.2e-13  Score=139.41  Aligned_cols=195  Identities=16%  Similarity=0.078  Sum_probs=125.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhhCCC-----CC----HHHHHHHHHHHHHcCC--------------------hHHHHH
Q 005329          448 IKSALINMYSKCGSIKEASQIFYETES-----DD----IVSWTAMINGYAEHGY--------------------SQEAIH  498 (702)
Q Consensus       448 ~~~~li~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~g~--------------------~~~A~~  498 (702)
                      .+..+...|...|++++|...+++..+     ++    ..++..+...|...|+                    +++|.+
T Consensus        89 ~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~  168 (406)
T 3sf4_A           89 ASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVD  168 (406)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHH
Confidence            344455555555555555555554331     11    2356666666777777                    777777


Q ss_pred             HHHHchhC----CCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC----hhhHHHHHHHHHhcCCHHHHHH
Q 005329          499 LFEKVPMV----GLRPD-SVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS----KEHYGCMIDLLCRAGRLSDAEN  569 (702)
Q Consensus       499 ~~~~m~~~----g~~p~-~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~  569 (702)
                      .+++....    +-.|. ..++..+...+...|++++|.+.+++..+...-.++    ..++..++.+|...|++++|..
T Consensus       169 ~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~  248 (406)
T 3sf4_A          169 FYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASE  248 (406)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHH
Confidence            76665431    11121 235666777777888888888888777643211122    3367777778888888888888


Q ss_pred             HHHhCCC----CCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCC------chhHHHHHHHHHhcCChHHHHH
Q 005329          570 MIENMPH----QKD----DVVWSTLLRACMVQGDVNCGRHTAEKILELHPSC------AGTHITLANIYAAKGRWREAAE  635 (702)
Q Consensus       570 ~~~~~~~----~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~------~~~~~~l~~~~~~~g~~~~A~~  635 (702)
                      .+++...    .++    ..++..++..+...|++++|...++++++..+..      ...+..++.+|...|++++|..
T Consensus       249 ~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~  328 (406)
T 3sf4_A          249 YYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMH  328 (406)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            8777654    111    4566777778888888888888888888765433      4577788888888888888888


Q ss_pred             HHHHHHh
Q 005329          636 VRKMMRS  642 (702)
Q Consensus       636 ~~~~~~~  642 (702)
                      ++++..+
T Consensus       329 ~~~~al~  335 (406)
T 3sf4_A          329 FAEKHLE  335 (406)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            8887765

>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=99.50  E-value=1.3e-12  Score=131.72  Aligned_cols=226  Identities=9%  Similarity=0.028  Sum_probs=193.5

Q ss_pred             HHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCC-HHHHHHHHhhCC---CCCHHHHHHHHHHH
Q 005329          412 FAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGS-IKEASQIFYETE---SDDIVSWTAMINGY  487 (702)
Q Consensus       412 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~-~~~A~~~~~~~~---~~~~~~~~~li~~~  487 (702)
                      ..|..+...+...|++++|...++.+++... .+...|+.+..++...|+ +++|+..|+++.   ..+...|..+..++
T Consensus        98 ~a~~~lg~~~~~~g~~~~Al~~~~~al~l~P-~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~~~~a~~~~g~~~  176 (382)
T 2h6f_A           98 DVYDYFRAVLQRDERSERAFKLTRDAIELNA-ANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLV  176 (382)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCChHHHHHHHHHHHHhCc-cCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHH
Confidence            3566667778888999999999999998763 357788889999999997 999999999876   35788999999999


Q ss_pred             HHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHh-cCCHH
Q 005329          488 AEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCR-AGRLS  565 (702)
Q Consensus       488 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~-~g~~~  565 (702)
                      ...|++++|+..|+++++.. +-+...|..+..++...|++++|++.|+++++.   .|+ ...|+.+..++.+ .|..+
T Consensus       177 ~~~g~~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l---~P~~~~a~~~lg~~l~~l~~~~~  252 (382)
T 2h6f_A          177 EWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKE---DVRNNSVWNQRYFVISNTTGYND  252 (382)
T ss_dssp             HHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCSCS
T ss_pred             HHccCHHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHhcCcch
Confidence            99999999999999999853 346678999999999999999999999999865   665 8889999999999 66657


Q ss_pred             HH-----HHHHHhCCC-CC-CHHHHHHHHHHHHhcC--CHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcC--------
Q 005329          566 DA-----ENMIENMPH-QK-DDVVWSTLLRACMVQG--DVNCGRHTAEKILELHPSCAGTHITLANIYAAKG--------  628 (702)
Q Consensus       566 ~A-----~~~~~~~~~-~p-~~~~~~~l~~~~~~~g--~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g--------  628 (702)
                      +|     +..++++.. .| +...|..+...+...|  ++++|++.++++ +.+|+++..+..++++|.+.|        
T Consensus       253 eA~~~~el~~~~~Al~l~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~~p~~~~al~~La~~~~~~~~~~~~~~~  331 (382)
T 2h6f_A          253 RAVLEREVQYTLEMIKLVPHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QPSHSSPYLIAFLVDIYEDMLENQCDNKE  331 (382)
T ss_dssp             HHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TTTCCCHHHHHHHHHHHHHHHHTTCSSHH
T ss_pred             HHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHccCccchHHHHHHHHHh-ccCCCCHHHHHHHHHHHHHHhcccccchH
Confidence            77     477888766 44 6779999999999888  689999999998 889999999999999999975        


Q ss_pred             -ChHHHHHHHHHH-HhC
Q 005329          629 -RWREAAEVRKMM-RSK  643 (702)
Q Consensus       629 -~~~~A~~~~~~~-~~~  643 (702)
                       .+++|+++++++ .+.
T Consensus       332 ~~~~~A~~~~~~l~~~~  348 (382)
T 2h6f_A          332 DILNKALELCEILAKEK  348 (382)
T ss_dssp             HHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHh
Confidence             358999999998 553

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.50  E-value=4.6e-13  Score=127.28  Aligned_cols=214  Identities=14%  Similarity=0.080  Sum_probs=146.6

Q ss_pred             hhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHH
Q 005329          376 IISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINM  455 (702)
Q Consensus       376 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  455 (702)
                      ...|..+...+...|++++|...|+++.+.. +.+.                                   ..+..+...
T Consensus        23 ~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-~~~~-----------------------------------~~~~~la~~   66 (243)
T 2q7f_A           23 SMTGGQQMGRGSEFGDYEKAAEAFTKAIEEN-KEDA-----------------------------------IPYINFANL   66 (243)
T ss_dssp             -------------------CCTTHHHHHTTC-TTCH-----------------------------------HHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhCHHHHHHHHHHHHHhC-cccH-----------------------------------HHHHHHHHH
Confidence            3455556666666666666666666665532 1123                                   333445555


Q ss_pred             HHhcCCHHHHHHHHhhCC---CCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHH
Q 005329          456 YSKCGSIKEASQIFYETE---SDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGF  532 (702)
Q Consensus       456 ~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~  532 (702)
                      +...|++++|...|+++.   ..+...+..+...+...|++++|.+.++++.+.. +.+...+..+...+...|++++|.
T Consensus        67 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~  145 (243)
T 2q7f_A           67 LSSVNELERALAFYDKALELDSSAATAYYGAGNVYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLAL  145 (243)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHH
Confidence            555666666666655543   2356777888888888999999999998888753 446678888888899999999999


Q ss_pred             HHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC
Q 005329          533 HYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELH  610 (702)
Q Consensus       533 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  610 (702)
                      ++++++.+.  .+.+...+..++..+.+.|++++|...++++..  +.+..++..++..+...|++++|...++++++.+
T Consensus       146 ~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  223 (243)
T 2q7f_A          146 PYLQRAVEL--NENDTEARFQFGMCLANEGMLDEALSQFAAVTEQDPGHADAFYNAGVTYAYKENREKALEMLDKAIDIQ  223 (243)
T ss_dssp             HHHHHHHHH--CTTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHC
T ss_pred             HHHHHHHHh--CCccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHccC
Confidence            999998765  123477888999999999999999999998876  4457789999999999999999999999999999


Q ss_pred             CCCchhHHHHHHHHHhcC
Q 005329          611 PSCAGTHITLANIYAAKG  628 (702)
Q Consensus       611 p~~~~~~~~l~~~~~~~g  628 (702)
                      |+++..+..++.+....|
T Consensus       224 p~~~~~~~~~~~l~~~~~  241 (243)
T 2q7f_A          224 PDHMLALHAKKLLGHHHH  241 (243)
T ss_dssp             TTCHHHHHHHTC------
T ss_pred             cchHHHHHHHHHHHhhcc
Confidence            999998888776655443

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.49  E-value=3.2e-13  Score=139.78  Aligned_cols=261  Identities=11%  Similarity=0.039  Sum_probs=173.7

Q ss_pred             HHHHHHcCCChHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHcccCcHHHHHHHHHHHHHh----C-CCCChhHHHHH
Q 005329          382 IIGGYSQGGYEEEAFEYLALMRREGPRPNE----FAFASVLSVCGNMAILEQGKQIHAHVMSI----G-LERTAMIKSAL  452 (702)
Q Consensus       382 li~~~~~~g~~~~a~~~~~~m~~~g~~p~~----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~-~~~~~~~~~~l  452 (702)
                      +...+...|++++|+..|+++.+.+.. +.    ..+..+...+...|+++.|...++.+.+.    + .+.....+..+
T Consensus        54 ~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l  132 (411)
T 4a1s_A           54 EGERLCNAGDCRAGVAFFQAAIQAGTE-DLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGNL  132 (411)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHhCcHHHHHHHHHHHHHhccc-ChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHH
Confidence            344444555555555555555443211 11    23444444455555555555555444332    1 11123445556


Q ss_pred             HHHHHhcCCHHHHHHHHhhCCC---------CCHHHHHHHHHHHHHcCC-----------------hHHHHHHHHHchhC
Q 005329          453 INMYSKCGSIKEASQIFYETES---------DDIVSWTAMINGYAEHGY-----------------SQEAIHLFEKVPMV  506 (702)
Q Consensus       453 i~~~~~~g~~~~A~~~~~~~~~---------~~~~~~~~li~~~~~~g~-----------------~~~A~~~~~~m~~~  506 (702)
                      ...|...|++++|...|++...         ....++..+...|...|+                 +++|++.+++..+.
T Consensus       133 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~  212 (411)
T 4a1s_A          133 GNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKL  212 (411)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHH
Confidence            6666677777777666665432         123467777788888888                 88888888776531


Q ss_pred             ----CCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC----hhhHHHHHHHHHhcCCHHHHHHHHHhCCC-
Q 005329          507 ----GLRPD-SVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS----KEHYGCMIDLLCRAGRLSDAENMIENMPH-  576 (702)
Q Consensus       507 ----g~~p~-~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-  576 (702)
                          +-.+. ..++..+...+...|++++|.+.+++..+...-.++    ...+..+..+|...|++++|...++++.. 
T Consensus       213 ~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  292 (411)
T 4a1s_A          213 MRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLAL  292 (411)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHH
Confidence                11122 246777888889999999999999988654211112    23778889999999999999999988765 


Q ss_pred             ---CC----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCC------chhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 005329          577 ---QK----DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSC------AGTHITLANIYAAKGRWREAAEVRKMMRSK  643 (702)
Q Consensus       577 ---~p----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  643 (702)
                         .+    ...++..++..+...|++++|...++++++..+..      ...+..++.+|...|++++|..+++++.+.
T Consensus       293 ~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  372 (411)
T 4a1s_A          293 AVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAEQHLQL  372 (411)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence               11    25678888999999999999999999999875433      458889999999999999999999998763

>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=99.49  E-value=4.5e-12  Score=121.19  Aligned_cols=205  Identities=16%  Similarity=0.035  Sum_probs=155.1

Q ss_pred             hhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHH
Q 005329          376 IISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINM  455 (702)
Q Consensus       376 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  455 (702)
                      ...|..+...+...|++++|...|+++.+.. +.+...+..                                   +...
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~-----------------------------------la~~   80 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAA-----------------------------------LAVV   80 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHH-----------------------------------HHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHH-----------------------------------HHHH
Confidence            4566777777777777777777777776542 123333433                                   4445


Q ss_pred             HHhcCCHHHHHHHHhhCC---CCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCC-HHHHHHHHHHHhccCcHHHH
Q 005329          456 YSKCGSIKEASQIFYETE---SDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPD-SVTFMGVLTACSHAGLVDLG  531 (702)
Q Consensus       456 ~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~~~~A  531 (702)
                      |...|++++|.+.|+++.   ..+...+..+...+...|++++|.+.++++.+.+..|+ ...+..+...+...|++++|
T Consensus        81 ~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  160 (252)
T 2ho1_A           81 FQTEMEPKLADEEYRKALASDSRNARVLNNYGGFLYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQA  160 (252)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHH
Confidence            555555555555555433   23566777788888889999999999988887334553 45778888889999999999


Q ss_pred             HHHHHHhHHhhCCCC-ChhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 005329          532 FHYFNLMSDKYGFVP-SKEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILE  608 (702)
Q Consensus       532 ~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  608 (702)
                      .+.++++.+.   .| +...+..++..+...|++++|...++++..  +.+...+..+...+...|++++|.+.++++++
T Consensus       161 ~~~~~~~~~~---~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~  237 (252)
T 2ho1_A          161 KEYFEKSLRL---NRNQPSVALEMADLLYKEREYVPARQYYDLFAQGGGQNARSLLLGIRLAKVFEDRDTAASYGLQLKR  237 (252)
T ss_dssp             HHHHHHHHHH---CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhc---CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            9999998765   34 477888999999999999999999998866  45677888889999999999999999999999


Q ss_pred             hCCCCchhHHH
Q 005329          609 LHPSCAGTHIT  619 (702)
Q Consensus       609 ~~p~~~~~~~~  619 (702)
                      ..|+++.....
T Consensus       238 ~~p~~~~~~~~  248 (252)
T 2ho1_A          238 LYPGSLEYQEF  248 (252)
T ss_dssp             HCTTSHHHHHH
T ss_pred             HCCCCHHHHHH
Confidence            99988776543

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.48  E-value=6.5e-13  Score=133.01  Aligned_cols=261  Identities=15%  Similarity=0.079  Sum_probs=173.3

Q ss_pred             HHHHHcCCChHHHHHHHHHHHHCCCCCC---HHHHHHHHHHHcccCcHHHHHHHHHHHHHh----CCCC-ChhHHHHHHH
Q 005329          383 IGGYSQGGYEEEAFEYLALMRREGPRPN---EFAFASVLSVCGNMAILEQGKQIHAHVMSI----GLER-TAMIKSALIN  454 (702)
Q Consensus       383 i~~~~~~g~~~~a~~~~~~m~~~g~~p~---~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~li~  454 (702)
                      ...+...|++++|...|+++.+......   ...+..+...+...|+++.|...++.+.+.    +..+ ....+..+..
T Consensus        12 g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~   91 (338)
T 3ro2_A           12 GERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGN   91 (338)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHH
Confidence            3444445555555555555544321100   123444444455555555555554443321    1111 2334555666


Q ss_pred             HHHhcCCHHHHHHHHhhCCC-----CC----HHHHHHHHHHHHHcCC--------------------hHHHHHHHHHchh
Q 005329          455 MYSKCGSIKEASQIFYETES-----DD----IVSWTAMINGYAEHGY--------------------SQEAIHLFEKVPM  505 (702)
Q Consensus       455 ~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~g~--------------------~~~A~~~~~~m~~  505 (702)
                      .|...|++++|...+++..+     ++    ..++..+...+...|+                    +++|.+.+++...
T Consensus        92 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~  171 (338)
T 3ro2_A           92 TLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLS  171 (338)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHH
Confidence            67777777777776665431     12    2367777788888888                    8888888877543


Q ss_pred             C----CCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC----hhhHHHHHHHHHhcCCHHHHHHHHHhCCC
Q 005329          506 V----GLRPD-SVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS----KEHYGCMIDLLCRAGRLSDAENMIENMPH  576 (702)
Q Consensus       506 ~----g~~p~-~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  576 (702)
                      .    +-.|. ...+..+...+...|++++|.+.+++..+...-.++    ...+..++..+...|++++|...+++...
T Consensus       172 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  251 (338)
T 3ro2_A          172 LVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLL  251 (338)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            1    11121 246777888889999999999999987654211122    34778889999999999999999988765


Q ss_pred             ----CCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCC------chhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 005329          577 ----QKD----DVVWSTLLRACMVQGDVNCGRHTAEKILELHPSC------AGTHITLANIYAAKGRWREAAEVRKMMRS  642 (702)
Q Consensus       577 ----~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  642 (702)
                          .++    ..++..++..+...|++++|...++++++..|..      ...+..++.+|.+.|++++|..+++++.+
T Consensus       252 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  331 (338)
T 3ro2_A          252 LARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  331 (338)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence                122    5577888999999999999999999999876433      44888999999999999999999999887


Q ss_pred             C
Q 005329          643 K  643 (702)
Q Consensus       643 ~  643 (702)
                      .
T Consensus       332 ~  332 (338)
T 3ro2_A          332 I  332 (338)
T ss_dssp             C
T ss_pred             H
Confidence            4

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.48  E-value=1e-12  Score=127.48  Aligned_cols=220  Identities=11%  Similarity=-0.013  Sum_probs=182.1

Q ss_pred             HcccCcHHHHHHHHHHHHHhCCC---CChhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCHHHHHHHHHHHHHcCChH
Q 005329          421 CGNMAILEQGKQIHAHVMSIGLE---RTAMIKSALINMYSKCGSIKEASQIFYETE---SDDIVSWTAMINGYAEHGYSQ  494 (702)
Q Consensus       421 ~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~  494 (702)
                      ....|+++.|...++.+.+....   .+...+..+...+...|++++|...|+++.   +.+...|..+...+...|+++
T Consensus        15 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~   94 (275)
T 1xnf_A           15 LQPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFD   94 (275)
T ss_dssp             CCCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHH
T ss_pred             cCccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHccCHH
Confidence            34568899999999999886432   246778889999999999999999999875   357889999999999999999


Q ss_pred             HHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhC
Q 005329          495 EAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENM  574 (702)
Q Consensus       495 ~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~  574 (702)
                      +|+..|+++.+.. +.+...+..+...+...|++++|.+.|+++.+.   .|+..........+...|++++|...+++.
T Consensus        95 ~A~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~---~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  170 (275)
T 1xnf_A           95 AAYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD---DPNDPFRSLWLYLAEQKLDEKQAKEVLKQH  170 (275)
T ss_dssp             HHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHh---CCCChHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            9999999998753 345678899999999999999999999999864   566555555566667889999999999776


Q ss_pred             CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCC----CchhHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 005329          575 PH-QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPS----CAGTHITLANIYAAKGRWREAAEVRKMMRSKG  644 (702)
Q Consensus       575 ~~-~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  644 (702)
                      .. .|+......++..+...++.++|...++++++..|.    ++..+..++.+|...|++++|...++++.+..
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  245 (275)
T 1xnf_A          171 FEKSDKEQWGWNIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN  245 (275)
T ss_dssp             HHHSCCCSTHHHHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HhcCCcchHHHHHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC
Confidence            65 333333344777788889999999999999887663    37899999999999999999999999998754

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.47  E-value=7e-13  Score=139.14  Aligned_cols=190  Identities=8%  Similarity=-0.015  Sum_probs=164.3

Q ss_pred             ChhHHHHHHHHHHhcCCH-HHHHHHHhhCC---CCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHH
Q 005329          445 TAMIKSALINMYSKCGSI-KEASQIFYETE---SDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLT  520 (702)
Q Consensus       445 ~~~~~~~li~~~~~~g~~-~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~  520 (702)
                      +...+..+...|...|++ ++|++.|++..   ..+...|..+..+|...|++++|.+.|++..+.  .|+...+..+..
T Consensus       101 ~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~lg~  178 (474)
T 4abn_A          101 EAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEPELVEAWNQLGEVYWKKGDVTSAHTCFSGALTH--CKNKVSLQNLSM  178 (474)
T ss_dssp             CHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT--CCCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCHHHHHHHHH
Confidence            455566666677777777 77777777654   345778999999999999999999999999874  577788889999


Q ss_pred             HHhcc---------CcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhc--------CCHHHHHHHHHhCCC-CC---
Q 005329          521 ACSHA---------GLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRA--------GRLSDAENMIENMPH-QK---  578 (702)
Q Consensus       521 ~~~~~---------g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~--------g~~~~A~~~~~~~~~-~p---  578 (702)
                      .+...         |++++|++.|+++.+.   .|+ ...|..+..+|...        |++++|...|+++.. .|   
T Consensus       179 ~~~~~~~~~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~  255 (474)
T 4abn_A          179 VLRQLQTDSGDEHSRHVMDSVRQAKLAVQM---DVLDGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKVDRKAS  255 (474)
T ss_dssp             HHTTCCCSCHHHHHHHHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHCGGGG
T ss_pred             HHHHhccCChhhhhhhHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHhCCCcc
Confidence            99999         9999999999999865   565 88899999999998        999999999999887 55   


Q ss_pred             -CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHH
Q 005329          579 -DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKM  639 (702)
Q Consensus       579 -~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  639 (702)
                       +...|..++.++...|++++|.+.|+++++++|+++..+..++.++...|++++|++.+++
T Consensus       256 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~a~~~l~~~~~~lg~~~eAi~~~~~  317 (474)
T 4abn_A          256 SNPDLHLNRATLHKYEESYGEALEGFSQAAALDPAWPEPQQREQQLLEFLSRLTSLLESKGK  317 (474)
T ss_dssp             GCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             cCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence             7889999999999999999999999999999999999999999999999999999875543

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.47  E-value=1.2e-11  Score=115.74  Aligned_cols=207  Identities=13%  Similarity=0.066  Sum_probs=154.0

Q ss_pred             ChhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHH
Q 005329          375 DIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALIN  454 (702)
Q Consensus       375 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  454 (702)
                      +...|..+...+...|++++|...|+++.+.. +.+...                                   +..+..
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~-----------------------------------~~~l~~   50 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKSD-PKNELA-----------------------------------WLVRAE   50 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHH-----------------------------------HHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-ccchHH-----------------------------------HHHHHH
Confidence            34456666666666777777777666665532 112333                                   344555


Q ss_pred             HHHhcCCHHHHHHHHhhCC---CCCHHHHHHHHHHHHHc-CChHHHHHHHHHchhCCCCCC-HHHHHHHHHHHhccCcHH
Q 005329          455 MYSKCGSIKEASQIFYETE---SDDIVSWTAMINGYAEH-GYSQEAIHLFEKVPMVGLRPD-SVTFMGVLTACSHAGLVD  529 (702)
Q Consensus       455 ~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~-g~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~~~  529 (702)
                      .|...|++++|...|+++.   ..+...+..+...+... |++++|...++++.+.+..|+ ...+..+...+...|+++
T Consensus        51 ~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  130 (225)
T 2vq2_A           51 IYQYLKVNDKAQESFRQALSIKPDSAEINNNYGWFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFG  130 (225)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHH
Confidence            5555566666666555543   23566777888888888 999999999988887333444 467888888899999999


Q ss_pred             HHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC--C-CCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 005329          530 LGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH--Q-KDDVVWSTLLRACMVQGDVNCGRHTAEK  605 (702)
Q Consensus       530 ~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-p~~~~~~~l~~~~~~~g~~~~A~~~~~~  605 (702)
                      +|.+.++++.+.   .|+ ...+..++.++.+.|++++|...++++..  + .+...+..+...+...|+.+.|...++.
T Consensus       131 ~A~~~~~~~~~~---~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  207 (225)
T 2vq2_A          131 LAEAYLKRSLAA---QPQFPPAFKELARTKMLAGQLGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQ  207 (225)
T ss_dssp             HHHHHHHHHHHH---STTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh---CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHH
Confidence            999999998765   454 77888999999999999999999998876  4 5677788888888999999999999999


Q ss_pred             HHHhCCCCchhHHHH
Q 005329          606 ILELHPSCAGTHITL  620 (702)
Q Consensus       606 ~~~~~p~~~~~~~~l  620 (702)
                      +.+..|+++.....+
T Consensus       208 ~~~~~p~~~~~~~~l  222 (225)
T 2vq2_A          208 LQANFPYSEELQTVL  222 (225)
T ss_dssp             HHHHCTTCHHHHHHH
T ss_pred             HHHhCCCCHHHHHHh
Confidence            999999888776554

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.45  E-value=2.8e-12  Score=132.27  Aligned_cols=155  Identities=14%  Similarity=0.052  Sum_probs=117.1

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHchhCCC-CCC----HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC----h
Q 005329          478 VSWTAMINGYAEHGYSQEAIHLFEKVPMVGL-RPD----SVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS----K  548 (702)
Q Consensus       478 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~----~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~----~  548 (702)
                      .++..+...+...|++++|...+++..+... .++    ..++..+...+...|++++|...+++..+...-.++    .
T Consensus       188 ~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  267 (406)
T 3sf4_A          188 RAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEA  267 (406)
T ss_dssp             HHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHH
Confidence            4667777888888888888888887664210 112    236777888888999999999999887643211112    5


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHhCCC----CCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC------CCCc
Q 005329          549 EHYGCMIDLLCRAGRLSDAENMIENMPH----QKD----DVVWSTLLRACMVQGDVNCGRHTAEKILELH------PSCA  614 (702)
Q Consensus       549 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~------p~~~  614 (702)
                      .++..++..|...|++++|...++++..    .++    ..++..++..+...|++++|...+++++++.      +...
T Consensus       268 ~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  347 (406)
T 3sf4_A          268 QSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISREVGDKSGEL  347 (406)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCcchh
Confidence            5778889999999999999999988765    122    5578889999999999999999999999874      3335


Q ss_pred             hhHHHHHHHHHhcCChHH
Q 005329          615 GTHITLANIYAAKGRWRE  632 (702)
Q Consensus       615 ~~~~~l~~~~~~~g~~~~  632 (702)
                      .++..++.++...|+...
T Consensus       348 ~~~~~l~~~~~~~g~~~~  365 (406)
T 3sf4_A          348 TARLNLSDLQMVLGLSYS  365 (406)
T ss_dssp             HHHHHHHHHHHHHHTTSC
T ss_pred             HHHHHHHHHHHHhhHhHH
Confidence            678889999998887643

>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=99.42  E-value=4e-12  Score=119.44  Aligned_cols=182  Identities=9%  Similarity=0.020  Sum_probs=103.9

Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHH
Q 005329          476 DIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCM  554 (702)
Q Consensus       476 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l  554 (702)
                      |+..+......+...|++++|++.|++..+...+++...+..+..++...|++++|++.|++..+   ..|+ ...+..+
T Consensus         6 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~---~~p~~~~~~~~l   82 (228)
T 4i17_A            6 DPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIK---KNYNLANAYIGK   82 (228)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---TTCSHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHH---hCcchHHHHHHH
Confidence            33444555555555555555555555555433224444444455555555555555555555542   2343 4455555


Q ss_pred             HHHHHhcCCHHHHHHHHHhCCC-CC-CH-------HHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCC--CchhHHHHHHH
Q 005329          555 IDLLCRAGRLSDAENMIENMPH-QK-DD-------VVWSTLLRACMVQGDVNCGRHTAEKILELHPS--CAGTHITLANI  623 (702)
Q Consensus       555 ~~~~~~~g~~~~A~~~~~~~~~-~p-~~-------~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~--~~~~~~~l~~~  623 (702)
                      +.+|...|++++|...+++... .| +.       ..|..++..+...|++++|++.++++++.+|+  ++..+..++.+
T Consensus        83 ~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~  162 (228)
T 4i17_A           83 SAAYRDMKNNQEYIATLTEGIKAVPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVTSKKWKTDALYSLGVL  162 (228)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcCCCcccHHHHHHHHHH
Confidence            5555555555555555555544 22 22       33455555555566666666666666666665  55566666666


Q ss_pred             HHhcCCh---------------------------HHHHHHHHHHHhCCCccCCeeeEEEECCEEEEEEcCCCCCCChhHH
Q 005329          624 YAAKGRW---------------------------REAAEVRKMMRSKGVIKEPGWSRIKVKDQVSAFVSSDRRHSQGEDI  676 (702)
Q Consensus       624 ~~~~g~~---------------------------~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~  676 (702)
                      |...|+.                           ++|...+++..+.                          .|...++
T Consensus       163 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~l--------------------------~p~~~~~  216 (228)
T 4i17_A          163 FYNNGADVLRKATPLASSNKEKYASEKAKADAAFKKAVDYLGEAVTL--------------------------SPNRTEI  216 (228)
T ss_dssp             HHHHHHHHHHHHGGGTTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------------------------CTTCHHH
T ss_pred             HHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHhhc--------------------------CCCCHHH
Confidence            6555555                           8999999988773                          3666777


Q ss_pred             HHHHHHHHHH
Q 005329          677 YRMLDLLASR  686 (702)
Q Consensus       677 ~~~l~~l~~~  686 (702)
                      ...+..+...
T Consensus       217 ~~~l~~i~~~  226 (228)
T 4i17_A          217 KQMQDQVKAM  226 (228)
T ss_dssp             HHHHHHHHTT
T ss_pred             HHHHHHHHHh
Confidence            7777776543

>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=99.42  E-value=1.5e-09  Score=116.94  Aligned_cols=416  Identities=9%  Similarity=0.028  Sum_probs=258.4

Q ss_pred             CCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhccCC---hHHHHHHHHHHHHhC-CCCchhHH
Q 005329          172 RNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSGA---LNFGREIHTIMLKRG-FDVVSFVA  247 (702)
Q Consensus       172 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~---~~~a~~~~~~~~~~~-~~~~~~~~  247 (702)
                      .|..+|..++..+.+.+.++.+..+|+++... .+.....|...+..-.+.++   ++.+.++|+..+... .+|++..|
T Consensus        64 ~d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~-fP~~~~lW~~Yi~~E~~~~~~~~~~~v~~lfeRal~~~~~~~sv~LW  142 (679)
T 4e6h_A           64 TDIFLYVKLLKHHVSLKQWKQVYETFDKLHDR-FPLMANIWCMRLSLEFDKMEELDAAVIEPVLARCLSKELGNNDLSLW  142 (679)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTC--CCCHHHHHHHHHHHTCSSSCCCCHHHH
T ss_pred             CCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHHhcCCCCCHHHH
Confidence            46778888888888888888888888888765 44555566666766667777   888888888887764 13677777


Q ss_pred             HHHHHHhhhCCCh--------HHHHHHHhccC------CC-CcchHHHHHHHHHh---------cCChhHHHHHHHHHHH
Q 005329          248 NSLATMYSKCGKL--------DYSLRLFERMS------TR-DVISWTTIITSYVQ---------MGEEENAFDAFVRMQE  303 (702)
Q Consensus       248 ~~li~~~~~~g~~--------~~A~~~~~~~~------~~-~~~~~~~li~~~~~---------~g~~~~a~~~~~~m~~  303 (702)
                      ...+....+.++.        +.+.++|+...      .+ +...|...+.....         .++++.+..+|++...
T Consensus       143 ~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~eeq~~~~~~R~iy~raL~  222 (679)
T 4e6h_A          143 LSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEEQQRVQYIRKLYKTLLC  222 (679)
T ss_dssp             HHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHHHHhHHHHHHHHHHHHHh
Confidence            7776655554443        23345665421      12 23456666654332         2345667777777664


Q ss_pred             CCCCCChhhHHHHHHHHHccCchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHhc-------CC----
Q 005329          304 SDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHG-------MI----  372 (702)
Q Consensus       304 ~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~-------~~----  372 (702)
                      .....-..+|..... +.+.-+...+.+++.+..                     .+++.|...+.+       +.    
T Consensus       223 iP~~~~~~~w~~Y~~-fe~~~~~~~a~~~~~e~~---------------------~~y~~Ar~~~~e~~~~~~~l~r~~p  280 (679)
T 4e6h_A          223 QPMDCLESMWQRYTQ-WEQDVNQLTARRHIGELS---------------------AQYMNARSLYQDWLNITKGLKRNLP  280 (679)
T ss_dssp             SCCSSHHHHHHHHHH-HHHHHCTTTHHHHHHHHH---------------------HHHHHHHHHHHHHHHHTTTCCCCCC
T ss_pred             CccHHHHHHHHHHHH-HHHhcCcchHHHHHHHhh---------------------HHHHHHHHHHHHHHHHHHhHhhccc
Confidence            211111122211111 111001111112111110                     111122222211       10    


Q ss_pred             C----------C--------ChhhHHHHHHHHHcCC-------ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcH
Q 005329          373 R----------R--------DIISWSTIIGGYSQGG-------YEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAIL  427 (702)
Q Consensus       373 ~----------~--------~~~~~~~li~~~~~~g-------~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~  427 (702)
                      .          |        ....|...+.---..+       ..+.+..+|++.... +.-....|.....-+...|+.
T Consensus       281 ~~~~~~~~~~~p~~~~~~~~ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~-~p~~~~lW~~ya~~~~~~~~~  359 (679)
T 4e6h_A          281 ITLNQATESNLPKPNEYDVQQLLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQH-VCFAPEIWFNMANYQGEKNTD  359 (679)
T ss_dssp             SSSTTCCTTTSCCTTCCCHHHHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHH-TTTCHHHHHHHHHHHHHHSCC
T ss_pred             cccccchhccCCCCchhHHHHHHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHH-cCCCHHHHHHHHHHHHhcCcH
Confidence            0          0        0134555544333222       123456677777764 233555666666666677888


Q ss_pred             HHHH-HHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCC-------------C------------CHHHHH
Q 005329          428 EQGK-QIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETES-------------D------------DIVSWT  481 (702)
Q Consensus       428 ~~a~-~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-------------~------------~~~~~~  481 (702)
                      +.|. .+++..... .+.+...+-.++...-+.|+++.|..+|+++..             |            ....|.
T Consensus       360 ~~a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi  438 (679)
T 4e6h_A          360 STVITKYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYC  438 (679)
T ss_dssp             TTHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHH
Confidence            8886 899888864 345666777788888899999999999987653             2            123688


Q ss_pred             HHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhc-cCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHh
Q 005329          482 AMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSH-AGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCR  560 (702)
Q Consensus       482 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~-~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~  560 (702)
                      ..+....+.|..+.|..+|.+..+.-..+....|...+..-.+ .++.+.|..+|+...+.+  .-+...+...++....
T Consensus       439 ~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~~--p~~~~~w~~y~~fe~~  516 (679)
T 4e6h_A          439 VYMNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYHISKDTKTACKVLELGLKYF--ATDGEYINKYLDFLIY  516 (679)
T ss_dssp             HHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHH--TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHC--CCchHHHHHHHHHHHh
Confidence            8888888889999999999999875111223334322222223 356899999999998873  2245666788888889


Q ss_pred             cCCHHHHHHHHHhCCC-CC----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCc
Q 005329          561 AGRLSDAENMIENMPH-QK----DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCA  614 (702)
Q Consensus       561 ~g~~~~A~~~~~~~~~-~p----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~  614 (702)
                      .|+.+.|..+|+++.. .|    ....|...+..-...|+.+.+..+.+++.+..|+++
T Consensus       517 ~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~P~~~  575 (679)
T 4e6h_A          517 VNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEKFPEVN  575 (679)
T ss_dssp             HTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHSTTCC
T ss_pred             CCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCc
Confidence            9999999999999887 33    346888888888899999999999999999999765

>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=99.42  E-value=3.2e-12  Score=139.28  Aligned_cols=162  Identities=17%  Similarity=0.178  Sum_probs=147.2

Q ss_pred             CHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHH
Q 005329          476 DIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPD-SVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGC  553 (702)
Q Consensus       476 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~  553 (702)
                      +..+|+.|..+|.+.|++++|++.|++..+.  .|+ ...+..+..++.+.|++++|++.|+++.+.   .|+ ...|..
T Consensus         8 ~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l--~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l---~P~~~~a~~n   82 (723)
T 4gyw_A            8 HADSLNNLANIKREQGNIEEAVRLYRKALEV--FPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI---SPTFADAYSN   82 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHH
Confidence            4568889999999999999999999999874  554 578999999999999999999999999854   676 889999


Q ss_pred             HHHHHHhcCCHHHHHHHHHhCCC-CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChH
Q 005329          554 MIDLLCRAGRLSDAENMIENMPH-QK-DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWR  631 (702)
Q Consensus       554 l~~~~~~~g~~~~A~~~~~~~~~-~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~  631 (702)
                      +..+|.+.|++++|++.|+++.+ .| +..+|..++.++...|++++|++.|+++++++|+++..+..|+.+|...|+++
T Consensus        83 Lg~~l~~~g~~~~A~~~~~kAl~l~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~~~~a~~~L~~~l~~~g~~~  162 (723)
T 4gyw_A           83 MGNTLKEMQDVQGALQCYTRAIQINPAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPDFPDAYCNLAHCLQIVCDWT  162 (723)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCCT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHhhhhhHHHhcccHH
Confidence            99999999999999999999877 44 67899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHh
Q 005329          632 EAAEVRKMMRS  642 (702)
Q Consensus       632 ~A~~~~~~~~~  642 (702)
                      +|.+.++++.+
T Consensus       163 ~A~~~~~kal~  173 (723)
T 4gyw_A          163 DYDERMKKLVS  173 (723)
T ss_dssp             THHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999988865

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.41  E-value=6.1e-12  Score=113.66  Aligned_cols=166  Identities=12%  Similarity=0.036  Sum_probs=144.0

Q ss_pred             ChhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHH
Q 005329          445 TAMIKSALINMYSKCGSIKEASQIFYETE---SDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTA  521 (702)
Q Consensus       445 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~  521 (702)
                      +..+|..+...|.+.|++++|+..|++..   +.++.+|..+..+|...|++++|+..+++..... +.+...+..+...
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~   82 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGSA   82 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHHH
Confidence            55678888999999999999999998865   3577899999999999999999999999988753 3455677778888


Q ss_pred             HhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHH
Q 005329          522 CSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNC  598 (702)
Q Consensus       522 ~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~  598 (702)
                      +...++++.|.+.+......   .|+ ...+..+..+|.+.|++++|++.|++...  +.+..+|..++.++...|++++
T Consensus        83 ~~~~~~~~~a~~~~~~a~~~---~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~~~~  159 (184)
T 3vtx_A           83 NFMIDEKQAAIDALQRAIAL---NTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGLRDE  159 (184)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHh---CccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCCHHH
Confidence            89999999999999998754   454 78889999999999999999999999877  4467899999999999999999


Q ss_pred             HHHHHHHHHHhCCCCc
Q 005329          599 GRHTAEKILELHPSCA  614 (702)
Q Consensus       599 A~~~~~~~~~~~p~~~  614 (702)
                      |++.++++++++|+++
T Consensus       160 A~~~~~~al~~~p~~a  175 (184)
T 3vtx_A          160 AVKYFKKALEKEEKKA  175 (184)
T ss_dssp             HHHHHHHHHHTTHHHH
T ss_pred             HHHHHHHHHhCCccCH
Confidence            9999999999999654

>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=99.39  E-value=2.5e-11  Score=109.56  Aligned_cols=163  Identities=18%  Similarity=0.089  Sum_probs=136.0

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCC-ChhhHHHHHH
Q 005329          478 VSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVP-SKEHYGCMID  556 (702)
Q Consensus       478 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p-~~~~~~~l~~  556 (702)
                      ..+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|.++++.+.+.   .| +...+..++.
T Consensus         9 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~~~~~a~   84 (186)
T 3as5_A            9 VYYRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLAD---APDNVKVATVLGL   84 (186)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhc---CCCCHHHHHHHHH
Confidence            356667777888888888888888877642 345667778888888888999999888888754   34 4777888888


Q ss_pred             HHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHH
Q 005329          557 LLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAA  634 (702)
Q Consensus       557 ~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~  634 (702)
                      .+...|++++|...++++..  +.+...+..++..+...|++++|...++++++..|.++..+..++.++...|++++|.
T Consensus        85 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~  164 (186)
T 3as5_A           85 TYVQVQKYDLAVPLLIKVAEANPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPNEGKVHRAIAFSYEQMGRHEEAL  164 (186)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHhcCcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCHHHHH
Confidence            88999999999999888766  4567788889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhCC
Q 005329          635 EVRKMMRSKG  644 (702)
Q Consensus       635 ~~~~~~~~~~  644 (702)
                      ..++++.+..
T Consensus       165 ~~~~~~~~~~  174 (186)
T 3as5_A          165 PHFKKANELD  174 (186)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHcC
Confidence            9999987643

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.38  E-value=6.7e-12  Score=131.64  Aligned_cols=179  Identities=12%  Similarity=-0.006  Sum_probs=157.9

Q ss_pred             HHHHHHHHhhCC---CCCHHHHHHHHHHHHHcCCh-HHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHH
Q 005329          462 IKEASQIFYETE---SDDIVSWTAMINGYAEHGYS-QEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNL  537 (702)
Q Consensus       462 ~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~-~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~  537 (702)
                      ++++...++...   ..+...+..+...+...|++ ++|++.|++..+.. +-+...+..+..++...|++++|.+.|++
T Consensus        84 ~~~al~~l~~~~~~~~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~  162 (474)
T 4abn_A           84 MEKTLQQMEEVLGSAQVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCFSG  162 (474)
T ss_dssp             HHHHHHHHHHHHTTCCCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccCchhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            455555665443   34778999999999999999 99999999998753 33567899999999999999999999999


Q ss_pred             hHHhhCCCCChhhHHHHHHHHHhc---------CCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhc--------CCHHH
Q 005329          538 MSDKYGFVPSKEHYGCMIDLLCRA---------GRLSDAENMIENMPH--QKDDVVWSTLLRACMVQ--------GDVNC  598 (702)
Q Consensus       538 ~~~~~~~~p~~~~~~~l~~~~~~~---------g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~--------g~~~~  598 (702)
                      +.   .+.|+...+..+..+|...         |++++|...++++..  +.+...|..++.+|...        |++++
T Consensus       163 al---~~~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~  239 (474)
T 4abn_A          163 AL---THCKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDVLDGRSWYILGNAYLSLYFNTGQNPKISQQ  239 (474)
T ss_dssp             HH---TTCCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHTTCCHHHHHH
T ss_pred             HH---hhCCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHhhccccchHHH
Confidence            98   4578888899999999999         999999999999877  44688999999999998        99999


Q ss_pred             HHHHHHHHHHhCC---CCchhHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 005329          599 GRHTAEKILELHP---SCAGTHITLANIYAAKGRWREAAEVRKMMRSKG  644 (702)
Q Consensus       599 A~~~~~~~~~~~p---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  644 (702)
                      |+..++++++++|   .++..|..++.+|...|++++|.+.++++.+..
T Consensus       240 A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~  288 (474)
T 4abn_A          240 ALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALD  288 (474)
T ss_dssp             HHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            9999999999999   999999999999999999999999999998743

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.36  E-value=7.4e-12  Score=128.01  Aligned_cols=193  Identities=11%  Similarity=0.067  Sum_probs=128.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhCCC-----C-----CHHHHHHHHHHHHHcCChHHHHHHHHHchhC----CCCCC-HH
Q 005329          449 KSALINMYSKCGSIKEASQIFYETES-----D-----DIVSWTAMINGYAEHGYSQEAIHLFEKVPMV----GLRPD-SV  513 (702)
Q Consensus       449 ~~~li~~~~~~g~~~~A~~~~~~~~~-----~-----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p~-~~  513 (702)
                      +..+...|...|++++|...+++..+     +     ...+++.+..+|...|++++|+..|++..+.    +-.+. ..
T Consensus       146 ~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  225 (383)
T 3ulq_A          146 FFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGR  225 (383)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHH
Confidence            34444455555555555554444321     1     1246677777888888888888888776642    11111 13


Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHhHHhh---CCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC------CCC-HHH
Q 005329          514 TFMGVLTACSHAGLVDLGFHYFNLMSDKY---GFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH------QKD-DVV  582 (702)
Q Consensus       514 ~~~~ll~~~~~~g~~~~A~~~~~~~~~~~---~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~------~p~-~~~  582 (702)
                      ++..+...+...|++++|.+.+++..+..   +..|+ ..++..++.+|.+.|++++|...+++...      .|. ...
T Consensus       226 ~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  305 (383)
T 3ulq_A          226 TLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSE  305 (383)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            67778888888888888888888776521   12133 66778888888888998888888887755      111 223


Q ss_pred             HHHHHHHHHhcCC---HHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 005329          583 WSTLLRACMVQGD---VNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRS  642 (702)
Q Consensus       583 ~~~l~~~~~~~g~---~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  642 (702)
                      +..+...+...|+   +++|...+++. ...|.....+..++.+|...|++++|..+++++.+
T Consensus       306 ~~~l~~~~~~~~~~~~~~~al~~~~~~-~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          306 FEFLKSLYLSGPDEEAIQGFFDFLESK-MLYADLEDFAIDVAKYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHHHHHTSSCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCcHHHHHHHHHHHHHC-cCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            4567777778888   67777777665 22344566788899999999999999999988865

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.35  E-value=1.3e-11  Score=127.59  Aligned_cols=272  Identities=13%  Similarity=-0.014  Sum_probs=179.9

Q ss_pred             hHHHHHHHHHccCchHHHHHHHHHHHHhCCCCc---hHHHHHHHHHHHhcCCHHHHHHHHhcCCCC---------ChhhH
Q 005329          312 TFAAIISASANLARIQWGEQLHAHVLRLGLVDS---LSVANSIMAMYSKCGQLTSTSIVFHGMIRR---------DIISW  379 (702)
Q Consensus       312 t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---------~~~~~  379 (702)
                      .+..+...+...|++++|...++.+.+.+....   ..++..+...|...|++++|+..|++..+.         ...++
T Consensus        50 ~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~  129 (411)
T 4a1s_A           50 ELALEGERLCNAGDCRAGVAFFQAAIQAGTEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSS  129 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHhCcHHHHHHHHHHHHHhcccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHH
Confidence            344455667788888888888888887743221   146677777788888888888777765221         23456


Q ss_pred             HHHHHHHHcCCChHHHHHHHHHHHHCC----CCC-CHHHHHHHHHHHcccCc----------HHHHHHHHHHHHHhCCCC
Q 005329          380 STIIGGYSQGGYEEEAFEYLALMRREG----PRP-NEFAFASVLSVCGNMAI----------LEQGKQIHAHVMSIGLER  444 (702)
Q Consensus       380 ~~li~~~~~~g~~~~a~~~~~~m~~~g----~~p-~~~~~~~ll~~~~~~~~----------~~~a~~~~~~~~~~~~~~  444 (702)
                      ..+...|...|++++|...+++..+..    ..| ...++..+...+...|+          .+.+...           
T Consensus       130 ~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~-----------  198 (411)
T 4a1s_A          130 GNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEA-----------  198 (411)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHH-----------
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHH-----------
Confidence            667777777777777777777765421    011 11233333344444444          0000000           


Q ss_pred             ChhHHHHHHHHHHhcCCHHHHHHHHhhCC-------CC--CHHHHHHHHHHHHHcCChHHHHHHHHHchhCCC-CCC---
Q 005329          445 TAMIKSALINMYSKCGSIKEASQIFYETE-------SD--DIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGL-RPD---  511 (702)
Q Consensus       445 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~-------~~--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~---  511 (702)
                                       +++|...+++..       .+  ...++..+...+...|++++|+..+++..+... .++   
T Consensus       199 -----------------~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~  261 (411)
T 4a1s_A          199 -----------------LTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAA  261 (411)
T ss_dssp             -----------------HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHH
T ss_pred             -----------------HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHH
Confidence                             444444444322       11  234677788888888888888888888764210 011   


Q ss_pred             -HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC----hhhHHHHHHHHHhcCCHHHHHHHHHhCCC----CCC---
Q 005329          512 -SVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS----KEHYGCMIDLLCRAGRLSDAENMIENMPH----QKD---  579 (702)
Q Consensus       512 -~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~p~---  579 (702)
                       ...+..+...+...|++++|.+.++++.+...-..+    ..++..+..+|...|++++|...++++..    .++   
T Consensus       262 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~  341 (411)
T 4a1s_A          262 ERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIG  341 (411)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHH
Confidence             136778888899999999999999887654211111    56778889999999999999999988765    112   


Q ss_pred             -HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCC
Q 005329          580 -DVVWSTLLRACMVQGDVNCGRHTAEKILELHP  611 (702)
Q Consensus       580 -~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p  611 (702)
                       ..++..+...+...|++++|.+.+++++++.+
T Consensus       342 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~  374 (411)
T 4a1s_A          342 EARACWSLGNAHSAIGGHERALKYAEQHLQLAX  374 (411)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHh
Confidence             34778889999999999999999999999876

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.34  E-value=8.4e-11  Score=120.14  Aligned_cols=229  Identities=10%  Similarity=-0.020  Sum_probs=154.9

Q ss_pred             HHHHHcCCChHHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCC------CChhHHHH
Q 005329          383 IGGYSQGGYEEEAFEYLALMRRE----GPRP-NEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLE------RTAMIKSA  451 (702)
Q Consensus       383 i~~~~~~g~~~~a~~~~~~m~~~----g~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~------~~~~~~~~  451 (702)
                      ...+...|++++|+..|++..+.    +-.+ ...++..+...+...|+++.|...+....+....      ....+++.
T Consensus       110 g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~  189 (383)
T 3ulq_A          110 GMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHSL  189 (383)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHHH
Confidence            33444555555555555555432    1011 1224444455555555555555555555432111      01235566


Q ss_pred             HHHHHHhcCCHHHHHHHHhhCCC-----CC----HHHHHHHHHHHHHcCChHHHHHHHHHchhC----CCCCC-HHHHHH
Q 005329          452 LINMYSKCGSIKEASQIFYETES-----DD----IVSWTAMINGYAEHGYSQEAIHLFEKVPMV----GLRPD-SVTFMG  517 (702)
Q Consensus       452 li~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p~-~~~~~~  517 (702)
                      +...|...|++++|...|++..+     ++    ..++..+..+|...|++++|++.+++..+.    +..|+ ..++..
T Consensus       190 lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  269 (383)
T 3ulq_A          190 FATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFL  269 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHH
Confidence            77777888888888877776542     12    247888899999999999999999888762    33243 457888


Q ss_pred             HHHHHhccCcHHHHHHHHHHhHHhhCC--CCC-hhhHHHHHHHHHhcCC---HHHHHHHHHhCCCCC-CHHHHHHHHHHH
Q 005329          518 VLTACSHAGLVDLGFHYFNLMSDKYGF--VPS-KEHYGCMIDLLCRAGR---LSDAENMIENMPHQK-DDVVWSTLLRAC  590 (702)
Q Consensus       518 ll~~~~~~g~~~~A~~~~~~~~~~~~~--~p~-~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~p-~~~~~~~l~~~~  590 (702)
                      +...+...|++++|.+.+++..+...-  .|. ...+..+...+...|+   +++|..++++....| ....+..++..|
T Consensus       270 l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~~~~~~~~~~~~~la~~y  349 (383)
T 3ulq_A          270 ITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESKMLYADLEDFAIDVAKYY  349 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHH
Confidence            999999999999999999987654211  121 3346678888999999   899999999986533 345778899999


Q ss_pred             HhcCCHHHHHHHHHHHHHhCC
Q 005329          591 MVQGDVNCGRHTAEKILELHP  611 (702)
Q Consensus       591 ~~~g~~~~A~~~~~~~~~~~p  611 (702)
                      ...|++++|...+++++++..
T Consensus       350 ~~~g~~~~A~~~~~~al~~~~  370 (383)
T 3ulq_A          350 HERKNFQKASAYFLKVEQVRQ  370 (383)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHT
T ss_pred             HHCCCHHHHHHHHHHHHHHHH
Confidence            999999999999999998753

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.34  E-value=2e-12  Score=127.98  Aligned_cols=238  Identities=11%  Similarity=0.105  Sum_probs=138.6

Q ss_pred             ChhhHHHHHHHHHcCCChHHHHHHHHHHHHC-------CCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHHh------C
Q 005329          375 DIISWSTIIGGYSQGGYEEEAFEYLALMRRE-------GPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSI------G  441 (702)
Q Consensus       375 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-------g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~------~  441 (702)
                      +..++..+...+...|++++|..+++++.+.       ........+..+...+...|+++.|...++.+.+.      +
T Consensus        26 ~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~  105 (311)
T 3nf1_A           26 RLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGK  105 (311)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCC
Confidence            3457788888899999999999999888762       11222334555556666666666666666555432      1


Q ss_pred             CCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHchhC------CCCCC-HHH
Q 005329          442 LERTAMIKSALINMYSKCGSIKEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMV------GLRPD-SVT  514 (702)
Q Consensus       442 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------g~~p~-~~~  514 (702)
                      ..+                              ....++..+...+...|++++|...++++.+.      +-.|+ ...
T Consensus       106 ~~~------------------------------~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~  155 (311)
T 3nf1_A          106 DHP------------------------------AVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQ  155 (311)
T ss_dssp             TCH------------------------------HHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             CCh------------------------------HHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHH
Confidence            111                              11234555555566666666666666555432      11222 235


Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHhHHhh-----CCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC----------CC
Q 005329          515 FMGVLTACSHAGLVDLGFHYFNLMSDKY-----GFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH----------QK  578 (702)
Q Consensus       515 ~~~ll~~~~~~g~~~~A~~~~~~~~~~~-----~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----------~p  578 (702)
                      +..+...+...|++++|.++++++.+..     +..|. ...+..++.+|...|++++|...++++..          .+
T Consensus       156 ~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  235 (311)
T 3nf1_A          156 LNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDD  235 (311)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC----
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCc
Confidence            6666667777777777777777665431     11222 44566677777777777777777766553          01


Q ss_pred             -------CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 005329          579 -------DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRS  642 (702)
Q Consensus       579 -------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  642 (702)
                             ....+..+...+...+.+.++...++++....|..+..+..++.+|.+.|++++|.++++++.+
T Consensus       236 ~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          236 ENKPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             --CCHHHHHHHHHHC-------CCSCCCC---------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence                   1112223333344556677777788888888888888899999999999999999999988765

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.34  E-value=3.3e-11  Score=120.48  Aligned_cols=272  Identities=13%  Similarity=0.028  Sum_probs=174.3

Q ss_pred             HHHHHHHHHccCchHHHHHHHHHHHHhCCCCc---hHHHHHHHHHHHhcCCHHHHHHHHhcCCCC---------ChhhHH
Q 005329          313 FAAIISASANLARIQWGEQLHAHVLRLGLVDS---LSVANSIMAMYSKCGQLTSTSIVFHGMIRR---------DIISWS  380 (702)
Q Consensus       313 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---------~~~~~~  380 (702)
                      +......+...|++++|...++.+.+......   ..++..+...|...|++++|...+++....         ...++.
T Consensus         8 l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~   87 (338)
T 3ro2_A            8 LALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASG   87 (338)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHH
Confidence            33445567788888888888888887643211   356667777788888888887777665221         234566


Q ss_pred             HHHHHHHcCCChHHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHcccCc-------------HHHHHHHHHHHHHhCC
Q 005329          381 TIIGGYSQGGYEEEAFEYLALMRREGP-RPN----EFAFASVLSVCGNMAI-------------LEQGKQIHAHVMSIGL  442 (702)
Q Consensus       381 ~li~~~~~~g~~~~a~~~~~~m~~~g~-~p~----~~~~~~ll~~~~~~~~-------------~~~a~~~~~~~~~~~~  442 (702)
                      .+...+...|++++|...+++..+... .++    ..++..+...+...|+             .+.+...         
T Consensus        88 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~---------  158 (338)
T 3ro2_A           88 NLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNA---------  158 (338)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHH---------
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHH---------
Confidence            667777777777777777776654210 111    1133333344444444             0000000         


Q ss_pred             CCChhHHHHHHHHHHhcCCHHHHHHHHhhCCC-----C----CHHHHHHHHHHHHHcCChHHHHHHHHHchhCCC-CCC-
Q 005329          443 ERTAMIKSALINMYSKCGSIKEASQIFYETES-----D----DIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGL-RPD-  511 (702)
Q Consensus       443 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~-  511 (702)
                                         +++|...+++...     +    ....+..+...+...|++++|...+++..+... .++ 
T Consensus       159 -------------------~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~  219 (338)
T 3ro2_A          159 -------------------LQAAVDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDK  219 (338)
T ss_dssp             -------------------HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCH
T ss_pred             -------------------HHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCCh
Confidence                               4444444433221     1    134667777788888888888888887664210 111 


Q ss_pred             ---HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC----hhhHHHHHHHHHhcCCHHHHHHHHHhCCC----CCC-
Q 005329          512 ---SVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS----KEHYGCMIDLLCRAGRLSDAENMIENMPH----QKD-  579 (702)
Q Consensus       512 ---~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~p~-  579 (702)
                         ..++..+...+...|++++|.+.+++..+...-.++    ..++..+...+...|++++|...++++..    .++ 
T Consensus       220 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~  299 (338)
T 3ro2_A          220 AAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDR  299 (338)
T ss_dssp             HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCc
Confidence               236777888888999999999999887653211112    55677888999999999999999988765    112 


Q ss_pred             ---HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCC
Q 005329          580 ---DVVWSTLLRACMVQGDVNCGRHTAEKILELHPS  612 (702)
Q Consensus       580 ---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~  612 (702)
                         ..++..+...+...|++++|...+++++++.+.
T Consensus       300 ~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~  335 (338)
T 3ro2_A          300 IGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISRE  335 (338)
T ss_dssp             HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC---
T ss_pred             HHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHh
Confidence               447788899999999999999999999998763

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.33  E-value=2.2e-10  Score=113.00  Aligned_cols=182  Identities=13%  Similarity=0.112  Sum_probs=78.5

Q ss_pred             HHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCC--C-CHH-HHHHHHHHHHHcCChHHHHHHHHHc
Q 005329          428 EQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETES--D-DIV-SWTAMINGYAEHGYSQEAIHLFEKV  503 (702)
Q Consensus       428 ~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~~~-~~~~li~~~~~~g~~~~A~~~~~~m  503 (702)
                      ++|..+++...+.-.+.+...+..++..+.+.|++++|..+|++..+  | +.. .|..++..+.+.|++++|..+|++.
T Consensus        81 ~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a  160 (308)
T 2ond_A           81 DEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKA  160 (308)
T ss_dssp             HHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccccCccHHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            44444444444421122333444444444444555555554444332  1 122 4444444445555555555555554


Q ss_pred             hhCCCCCCHHHHHHHHHHHh-ccCcHHHHHHHHHHhHHhhCCCC-ChhhHHHHHHHHHhcCCHHHHHHHHHhCCC----C
Q 005329          504 PMVGLRPDSVTFMGVLTACS-HAGLVDLGFHYFNLMSDKYGFVP-SKEHYGCMIDLLCRAGRLSDAENMIENMPH----Q  577 (702)
Q Consensus       504 ~~~g~~p~~~~~~~ll~~~~-~~g~~~~A~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~  577 (702)
                      .+.. +++...|........ ..|++++|.++|+.+.+.   .| +...|..++..+.+.|++++|..+|+++..    +
T Consensus       161 ~~~~-p~~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~---~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~  236 (308)
T 2ond_A          161 REDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKK---YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLP  236 (308)
T ss_dssp             HTST-TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH---HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSC
T ss_pred             HhcC-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCC
Confidence            4421 112222222211111 134555555555554433   22 244444444455555555555555544433    1


Q ss_pred             C--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCC
Q 005329          578 K--DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSC  613 (702)
Q Consensus       578 p--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~  613 (702)
                      |  ....|..++......|+.+.|..+++++++..|++
T Consensus       237 p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~~~~p~~  274 (308)
T 2ond_A          237 PEKSGEIWARFLAFESNIGDLASILKVEKRRFTAFREE  274 (308)
T ss_dssp             GGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHTTTT
T ss_pred             HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHcccc
Confidence            1  23344444444445555555555555555555443

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.32  E-value=1e-09  Score=111.59  Aligned_cols=258  Identities=14%  Similarity=0.027  Sum_probs=162.9

Q ss_pred             HHHcCCChHHHHHHHHHHHHCCCCCCHH----HHHHHHHHHcccCcHHHHHHHHHHHHHhCCC-CC----hhHHHHHHHH
Q 005329          385 GYSQGGYEEEAFEYLALMRREGPRPNEF----AFASVLSVCGNMAILEQGKQIHAHVMSIGLE-RT----AMIKSALINM  455 (702)
Q Consensus       385 ~~~~~g~~~~a~~~~~~m~~~g~~p~~~----~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~----~~~~~~li~~  455 (702)
                      .+...|++++|...+++........+..    .+..+...+...|+++.|...++........ .+    ...+..+...
T Consensus        23 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~  102 (373)
T 1hz4_A           23 VAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEI  102 (373)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH
Confidence            3444555555555555554432211211    2333334445556666666555554432110 01    1224456666


Q ss_pred             HHhcCCHHHHHHHHhhCCC----------C-CHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCC--C--CHHHHHHHHH
Q 005329          456 YSKCGSIKEASQIFYETES----------D-DIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLR--P--DSVTFMGVLT  520 (702)
Q Consensus       456 ~~~~g~~~~A~~~~~~~~~----------~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~--p--~~~~~~~ll~  520 (702)
                      +...|++++|...+++...          + ....+..+...+...|++++|...+++.....-.  +  ...++..+..
T Consensus       103 ~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~  182 (373)
T 1hz4_A          103 LFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQ  182 (373)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHHHH
Confidence            7777777777777765431          1 1235666777888889999999888887643211  1  1245677778


Q ss_pred             HHhccCcHHHHHHHHHHhHHhhCCCCChhhHH-----HHHHHHHhcCCHHHHHHHHHhCCC-CCC-----HHHHHHHHHH
Q 005329          521 ACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYG-----CMIDLLCRAGRLSDAENMIENMPH-QKD-----DVVWSTLLRA  589 (702)
Q Consensus       521 ~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~-----~l~~~~~~~g~~~~A~~~~~~~~~-~p~-----~~~~~~l~~~  589 (702)
                      .+...|++++|...+++......-......+.     ..+..+...|++++|...+++... .|.     ...+..+...
T Consensus       183 ~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la~~  262 (373)
T 1hz4_A          183 CSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARA  262 (373)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHHHHH
Confidence            88889999999999988765421111111222     233457789999999999998876 221     2356677888


Q ss_pred             HHhcCCHHHHHHHHHHHHHhCCCC------chhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 005329          590 CMVQGDVNCGRHTAEKILELHPSC------AGTHITLANIYAAKGRWREAAEVRKMMRS  642 (702)
Q Consensus       590 ~~~~g~~~~A~~~~~~~~~~~p~~------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  642 (702)
                      +...|++++|...++++++..+..      ...+..++.++...|++++|...+++...
T Consensus       263 ~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~  321 (373)
T 1hz4_A          263 QILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  321 (373)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            889999999999999998765321      24677789999999999999999888765

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.31  E-value=1.9e-10  Score=113.34  Aligned_cols=179  Identities=11%  Similarity=0.039  Sum_probs=149.0

Q ss_pred             HHHHHHHHhhCCC----CCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCH-H-HHHHHHHHHhccCcHHHHHHHH
Q 005329          462 IKEASQIFYETES----DDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDS-V-TFMGVLTACSHAGLVDLGFHYF  535 (702)
Q Consensus       462 ~~~A~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~-~~~~ll~~~~~~g~~~~A~~~~  535 (702)
                      .++|..+|++...    .+...|..++..+...|++++|.++|+++.+  +.|+. . .|..++..+.+.|++++|..+|
T Consensus        80 ~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~  157 (308)
T 2ond_A           80 SDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLA--IEDIDPTLVYIQYMKFARRAEGIKSGRMIF  157 (308)
T ss_dssp             HHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--SSSSCTHHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHHh--ccccCccHHHHHHHHHHHHhcCHHHHHHHH
Confidence            3899999987543    3567899999999999999999999999997  45653 3 7888999999999999999999


Q ss_pred             HHhHHhhCCCCC-hhhHHHHHHHHH-hcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--
Q 005329          536 NLMSDKYGFVPS-KEHYGCMIDLLC-RAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILEL--  609 (702)
Q Consensus       536 ~~~~~~~~~~p~-~~~~~~l~~~~~-~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--  609 (702)
                      +++.+.   .|+ ...|...+.... ..|++++|..+|+++..  +.+...|..++..+...|++++|..+|+++++.  
T Consensus       158 ~~a~~~---~p~~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~  234 (308)
T 2ond_A          158 KKARED---ARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGS  234 (308)
T ss_dssp             HHHHTS---TTCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSS
T ss_pred             HHHHhc---CCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccC
Confidence            999843   444 555544443322 37999999999999877  456789999999999999999999999999996  


Q ss_pred             -CCC-CchhHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 005329          610 -HPS-CAGTHITLANIYAAKGRWREAAEVRKMMRSKGV  645 (702)
Q Consensus       610 -~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  645 (702)
                       .|+ ....|..++..+.+.|+.++|..+++++.+..+
T Consensus       235 l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~~~~p  272 (308)
T 2ond_A          235 LPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAFR  272 (308)
T ss_dssp             SCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHTT
T ss_pred             CCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHcc
Confidence             453 667899999999999999999999999988654

>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=99.29  E-value=2.8e-08  Score=106.96  Aligned_cols=148  Identities=11%  Similarity=0.018  Sum_probs=90.8

Q ss_pred             ChhHHHHHHHHhhhCCCCCCCHHHHHHHHHHhhccCCchhhhHHHHHHHHhcCCCchhHHHHHHHhhhcCCC---hhHHH
Q 005329           87 DSIEALALFSRVWVEPQMNMDPFILSLALKACALNVNVNYGESLHGYTVKTGFVNSVFVGSALLDMYTKLGK---IELGC  163 (702)
Q Consensus        87 ~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~---~~~A~  163 (702)
                      ...+.+..|++....+  +-|...|..++..+...+.++.+..+++.++.. ++.+...|...+..-.+.|+   ++.+.
T Consensus        47 ~~~d~i~~lE~~l~~n--p~d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~-fP~~~~lW~~Yi~~E~~~~~~~~~~~v~  123 (679)
T 4e6h_A           47 DESDVIGKLNDMIEEQ--PTDIFLYVKLLKHHVSLKQWKQVYETFDKLHDR-FPLMANIWCMRLSLEFDKMEELDAAVIE  123 (679)
T ss_dssp             CCSCHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTC--CCCHHHHH
T ss_pred             CCHHHHHHHHHHHHHC--cCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHhhCCcchHHHHH
Confidence            3444555555555443  567778888888888888888888888888776 35566777777777777777   88888


Q ss_pred             HHhccCC--C---CCcchHHHHHHHHHhCCCh--------HHHHHHHHHHHH-CCC-CCCh-hhHHHHHHHHhc------
Q 005329          164 RVFDEMP--L---RNVVSWTAIITGLVRAGHN--------KEGLIYFAEMWR-SKE-QGDS-YTFAIVLKASAD------  221 (702)
Q Consensus       164 ~~~~~~~--~---~~~~~~~~li~~~~~~~~~--------~~a~~~~~~m~~-~~~-~p~~-~~~~~ll~~~~~------  221 (702)
                      .+|++..  .   |++..|..-+....+.++.        +.+.++|+.... .|. .|+. ..|...+.....      
T Consensus       124 ~lfeRal~~~~~~~sv~LW~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~  203 (679)
T 4e6h_A          124 PVLARCLSKELGNNDLSLWLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNK  203 (679)
T ss_dssp             HHHHHHTCSSSCCCCHHHHHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSH
T ss_pred             HHHHHHHHhcCCCCCHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCc
Confidence            8887654  2   6666777766655554443        223356665543 344 4433 345555544321      


Q ss_pred             ---cCChHHHHHHHHHHHH
Q 005329          222 ---SGALNFGREIHTIMLK  237 (702)
Q Consensus       222 ---~~~~~~a~~~~~~~~~  237 (702)
                         .++++.+..+|+.++.
T Consensus       204 ~eeq~~~~~~R~iy~raL~  222 (679)
T 4e6h_A          204 FEEQQRVQYIRKLYKTLLC  222 (679)
T ss_dssp             HHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHhHHHHHHHHHHHHHh
Confidence               2335566666766664

>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=99.28  E-value=1.6e-10  Score=108.45  Aligned_cols=205  Identities=8%  Similarity=0.016  Sum_probs=131.4

Q ss_pred             CHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCHHHHHHHHHH
Q 005329          410 NEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETE---SDDIVSWTAMING  486 (702)
Q Consensus       410 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~  486 (702)
                      |...+......+...|++++|...++.+.+...+++...+..+..++...|++++|...|++..   +.+...|..+..+
T Consensus         6 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~   85 (228)
T 4i17_A            6 DPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYNLANAYIGKSAA   85 (228)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCSHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcchHHHHHHHHHH
Confidence            4456666667777777888888877777776654555555557777777777777777777654   2345567777777


Q ss_pred             HHHcCChHHHHHHHHHchhCCCCCCH-------HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC---hhhHHHHHH
Q 005329          487 YAEHGYSQEAIHLFEKVPMVGLRPDS-------VTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS---KEHYGCMID  556 (702)
Q Consensus       487 ~~~~g~~~~A~~~~~~m~~~g~~p~~-------~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~---~~~~~~l~~  556 (702)
                      +...|++++|+..+++..+.. +.+.       ..|..+...+...|++++|++.|+++.   .+.|+   ...+..+..
T Consensus        86 ~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al---~~~p~~~~~~~~~~l~~  161 (228)
T 4i17_A           86 YRDMKNNQEYIATLTEGIKAV-PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHAT---DVTSKKWKTDALYSLGV  161 (228)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT---TSSCHHHHHHHHHHHHH
T ss_pred             HHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHH---hcCCCcccHHHHHHHHH
Confidence            777777777777777776532 2233       335556666667777777777777765   33554   455566666


Q ss_pred             HHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHH
Q 005329          557 LLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYA  625 (702)
Q Consensus       557 ~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  625 (702)
                      +|...|+.     +++++..  ..+...+....  ....+.+++|+..++++++++|+++.+...+..+..
T Consensus       162 ~~~~~~~~-----~~~~a~~~~~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l~p~~~~~~~~l~~i~~  225 (228)
T 4i17_A          162 LFYNNGAD-----VLRKATPLASSNKEKYASEK--AKADAAFKKAVDYLGEAVTLSPNRTEIKQMQDQVKA  225 (228)
T ss_dssp             HHHHHHHH-----HHHHHGGGTTTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHT
T ss_pred             HHHHHHHH-----HHHHHHhcccCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhcCCCCHHHHHHHHHHHH
Confidence            66554432     2222222  12223332222  234455799999999999999999988888876643

>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=99.26  E-value=7.8e-11  Score=128.42  Aligned_cols=157  Identities=16%  Similarity=0.167  Sum_probs=139.8

Q ss_pred             CCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CC-CHHHHH
Q 005329          509 RPD-SVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH-QK-DDVVWS  584 (702)
Q Consensus       509 ~p~-~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p-~~~~~~  584 (702)
                      .|+ ...++.+...+...|++++|++.|+++.+.   .|+ ...|..+..+|.+.|++++|+..|+++.+ .| +..+|.
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 CPTHADSLNNLANIKREQGNIEEAVRLYRKALEV---FPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFADAYS   81 (723)
T ss_dssp             -CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHH
Confidence            454 468999999999999999999999999854   676 88999999999999999999999999877 44 578999


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhCCCccCCeeeEEEECCEEEEEE
Q 005329          585 TLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKGVIKEPGWSRIKVKDQVSAFV  664 (702)
Q Consensus       585 ~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  664 (702)
                      .++.++...|++++|++.|+++++++|+++..|..++.+|.+.|++++|++.++++.+.                     
T Consensus        82 nLg~~l~~~g~~~~A~~~~~kAl~l~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l---------------------  140 (723)
T 4gyw_A           82 NMGNTLKEMQDVQGALQCYTRAIQINPAFADAHSNLASIHKDSGNIPEAIASYRTALKL---------------------  140 (723)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---------------------
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---------------------
Confidence            99999999999999999999999999999999999999999999999999999998873                     


Q ss_pred             cCCCCCCChhHHHHHHHHHHHHhcCCCCCC
Q 005329          665 SSDRRHSQGEDIYRMLDLLASRESDIDDLD  694 (702)
Q Consensus       665 ~~~~~~p~~~~~~~~l~~l~~~~~~~~~~~  694 (702)
                           +|...+.+..++.+....++|.++.
T Consensus       141 -----~P~~~~a~~~L~~~l~~~g~~~~A~  165 (723)
T 4gyw_A          141 -----KPDFPDAYCNLAHCLQIVCDWTDYD  165 (723)
T ss_dssp             -----CSCCHHHHHHHHHHHHHTTCCTTHH
T ss_pred             -----CCCChHHHhhhhhHHHhcccHHHHH
Confidence                 4667778888888888888776654

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.26  E-value=1.2e-11  Score=122.34  Aligned_cols=246  Identities=8%  Similarity=0.042  Sum_probs=154.7

Q ss_pred             CchHHHHHHHHHHHhcCCHHHHHHHHhcCCC--------C---ChhhHHHHHHHHHcCCChHHHHHHHHHHHHC------
Q 005329          343 DSLSVANSIMAMYSKCGQLTSTSIVFHGMIR--------R---DIISWSTIIGGYSQGGYEEEAFEYLALMRRE------  405 (702)
Q Consensus       343 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--------~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~------  405 (702)
                      ....++..+...|...|++++|...|+++.+        .   ...++..+...|...|++++|...+++....      
T Consensus        25 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~  104 (311)
T 3nf1_A           25 ARLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLG  104 (311)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhC
Confidence            3467788999999999999999999998744        2   3457888999999999999999999998764      


Q ss_pred             CCCC-CHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCHHHHHHHH
Q 005329          406 GPRP-NEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETESDDIVSWTAMI  484 (702)
Q Consensus       406 g~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li  484 (702)
                      +..| ....+..+...+...|+++.|...++.+.+....                        .+..-.......+..+.
T Consensus       105 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~------------------------~~~~~~~~~~~~~~~la  160 (311)
T 3nf1_A          105 KDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREK------------------------VLGKDHPDVAKQLNNLA  160 (311)
T ss_dssp             TTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHH------------------------HHCTTCHHHHHHHHHHH
T ss_pred             CCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHH------------------------hcCCCChHHHHHHHHHH
Confidence            2223 2346666777777788888888777766543100                        00000000123455566


Q ss_pred             HHHHHcCChHHHHHHHHHchhC------CCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhh------CCCCC-hhh
Q 005329          485 NGYAEHGYSQEAIHLFEKVPMV------GLRPD-SVTFMGVLTACSHAGLVDLGFHYFNLMSDKY------GFVPS-KEH  550 (702)
Q Consensus       485 ~~~~~~g~~~~A~~~~~~m~~~------g~~p~-~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~------~~~p~-~~~  550 (702)
                      ..+...|++++|++.++++.+.      +..|+ ..++..+...+...|++++|.++++++.+..      ...+. ...
T Consensus       161 ~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  240 (311)
T 3nf1_A          161 LLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPI  240 (311)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHH
Confidence            6666667777777666666542      11232 2466777777888888888888888776431      11222 111


Q ss_pred             ------HHHHHHHHHhcCCHHHHHHHHHhCCC-CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCC
Q 005329          551 ------YGCMIDLLCRAGRLSDAENMIENMPH-QK-DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPS  612 (702)
Q Consensus       551 ------~~~l~~~~~~~g~~~~A~~~~~~~~~-~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~  612 (702)
                            +..+...+...+.+.+|...++.... .| ...++..++..|...|++++|.+.+++++++.|+
T Consensus       241 ~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~~~  310 (311)
T 3nf1_A          241 WMHAEEREECKGKQKDGTSFGEYGGWYKACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMRSRKQ  310 (311)
T ss_dssp             HHHHHHHHHC-------CCSCCCC---------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhc
Confidence                  22223334445556666666666655 23 4568889999999999999999999999998774

>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=99.26  E-value=3.5e-10  Score=101.91  Aligned_cols=167  Identities=11%  Similarity=-0.014  Sum_probs=144.1

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhhCCC---CCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHh
Q 005329          447 MIKSALINMYSKCGSIKEASQIFYETES---DDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACS  523 (702)
Q Consensus       447 ~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~  523 (702)
                      ..+..+...+...|++++|...|+++.+   .+...+..+...+...|++++|...++++.+.. +.+...+..+...+.
T Consensus         9 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~   87 (186)
T 3as5_A            9 VYYRDKGISHAKAGRYSQAVMLLEQVYDADAFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTYV   87 (186)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHTTTCCTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhCccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHH
Confidence            3455677888899999999999998874   467889999999999999999999999998753 446678888999999


Q ss_pred             ccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHH
Q 005329          524 HAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRH  601 (702)
Q Consensus       524 ~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~  601 (702)
                      ..|++++|.++++++.+.  .+.+...+..++.++...|++++|...++++..  +.+...+..++..+...|++++|..
T Consensus        88 ~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~  165 (186)
T 3as5_A           88 QVQKYDLAVPLLIKVAEA--NPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPNEGKVHRAIAFSYEQMGRHEEALP  165 (186)
T ss_dssp             HHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHhc--CcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCHHHHHH
Confidence            999999999999999865  233578888999999999999999999999876  4467889999999999999999999


Q ss_pred             HHHHHHHhCCCCchh
Q 005329          602 TAEKILELHPSCAGT  616 (702)
Q Consensus       602 ~~~~~~~~~p~~~~~  616 (702)
                      .++++++..|++...
T Consensus       166 ~~~~~~~~~~~~~~~  180 (186)
T 3as5_A          166 HFKKANELDEGASVE  180 (186)
T ss_dssp             HHHHHHHHHHCCCGG
T ss_pred             HHHHHHHcCCCchhh
Confidence            999999999877643

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.24  E-value=1.3e-10  Score=118.50  Aligned_cols=193  Identities=13%  Similarity=0.101  Sum_probs=124.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhCCC-----C-----CHHHHHHHHHHHHHcCChHHHHHHHHHchhC----CCCC-CHH
Q 005329          449 KSALINMYSKCGSIKEASQIFYETES-----D-----DIVSWTAMINGYAEHGYSQEAIHLFEKVPMV----GLRP-DSV  513 (702)
Q Consensus       449 ~~~li~~~~~~g~~~~A~~~~~~~~~-----~-----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p-~~~  513 (702)
                      +..+...|...|+++.|...+++..+     +     ...+++.+..+|...|++++|.+.|++..+.    +-++ ...
T Consensus       144 ~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~  223 (378)
T 3q15_A          144 HFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAI  223 (378)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            34455555555555555555544321     1     1346667777788888888888877776542    1111 123


Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHhHHhhC--CCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC------CCC-HHHH
Q 005329          514 TFMGVLTACSHAGLVDLGFHYFNLMSDKYG--FVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH------QKD-DVVW  583 (702)
Q Consensus       514 ~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~--~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~------~p~-~~~~  583 (702)
                      ++..+...+...|++++|.+.+++..+...  ..|. ..++..++.++.+.|++++|...+++...      .|. ...+
T Consensus       224 ~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  303 (378)
T 3q15_A          224 SLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELF  303 (378)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            667777888888888888888887765110  1233 56677788888888888888888877644      122 2345


Q ss_pred             HHHHHHHHhcCC---HHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 005329          584 STLLRACMVQGD---VNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRS  642 (702)
Q Consensus       584 ~~l~~~~~~~g~---~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  642 (702)
                      ..+...+...|+   +.+|...+++. ...|.....+..++.+|...|++++|..+++++.+
T Consensus       304 ~~l~~ly~~~~~~~~~~~al~~~~~~-~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          304 LFLQAVYKETVDERKIHDLLSYFEKK-NLHAYIEACARSAAAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHHHHHSSSCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCcHHHHHHHHHHHHhC-CChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            555666667777   66666666652 12244456777889999999999999998888765

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.23  E-value=2.7e-09  Score=108.62  Aligned_cols=229  Identities=14%  Similarity=0.044  Sum_probs=159.2

Q ss_pred             HHHHHHcCCChHHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHcccCcHHHHHHHHHHHHHhCC-----C-CChhHHH
Q 005329          382 IIGGYSQGGYEEEAFEYLALMRREGP-RPN----EFAFASVLSVCGNMAILEQGKQIHAHVMSIGL-----E-RTAMIKS  450 (702)
Q Consensus       382 li~~~~~~g~~~~a~~~~~~m~~~g~-~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-----~-~~~~~~~  450 (702)
                      ....+...|++++|+..|++..+... .++    ..++..+...+...|+++.|...+....+...     . ....+++
T Consensus       107 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  186 (378)
T 3q15_A          107 RGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLF  186 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHH
T ss_pred             HHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHH
Confidence            33445566777777777766654210 111    23455555666667777777766666554211     1 1234566


Q ss_pred             HHHHHHHhcCCHHHHHHHHhhCCC-----CC----HHHHHHHHHHHHHcCChHHHHHHHHHchhC----CCCCCHHHHHH
Q 005329          451 ALINMYSKCGSIKEASQIFYETES-----DD----IVSWTAMINGYAEHGYSQEAIHLFEKVPMV----GLRPDSVTFMG  517 (702)
Q Consensus       451 ~li~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p~~~~~~~  517 (702)
                      .+...|...|++++|.+.|++..+     ++    ..++..+..+|...|++++|++.+++..+.    +.+....++..
T Consensus       187 ~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  266 (378)
T 3q15_A          187 VIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFG  266 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHH
Confidence            677788888888888887776542     12    346788889999999999999999888761    22223567888


Q ss_pred             HHHHHhccCcHHHHHHHHHHhHHhhCCCCC---hhhHHHHHHHHHhcCC---HHHHHHHHHhCCCCC-CHHHHHHHHHHH
Q 005329          518 VLTACSHAGLVDLGFHYFNLMSDKYGFVPS---KEHYGCMIDLLCRAGR---LSDAENMIENMPHQK-DDVVWSTLLRAC  590 (702)
Q Consensus       518 ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~---~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~p-~~~~~~~l~~~~  590 (702)
                      +...+...|++++|.+.+++..+...-.++   ...+..+...+...|+   +++|..++++....| ....+..++..|
T Consensus       267 la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~~~~~~~~~~~~~la~~y  346 (378)
T 3q15_A          267 LSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKKNLHAYIEACARSAAAVF  346 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhCCChhHHHHHHHHHHHHH
Confidence            899999999999999999998765322222   3456667777888888   899999999865533 345677889999


Q ss_pred             HhcCCHHHHHHHHHHHHHhC
Q 005329          591 MVQGDVNCGRHTAEKILELH  610 (702)
Q Consensus       591 ~~~g~~~~A~~~~~~~~~~~  610 (702)
                      ...|++++|...++++++..
T Consensus       347 ~~~g~~~~A~~~~~~al~~~  366 (378)
T 3q15_A          347 ESSCHFEQAAAFYRKVLKAQ  366 (378)
T ss_dssp             HHTTCHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHH
Confidence            99999999999999998753

>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=99.22  E-value=5.4e-11  Score=102.98  Aligned_cols=121  Identities=10%  Similarity=-0.023  Sum_probs=82.8

Q ss_pred             HHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCC
Q 005329          519 LTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGD  595 (702)
Q Consensus       519 l~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~  595 (702)
                      ...+...|++++|++.+....   ...|+ ...+..+..+|.+.|++++|++.|+++..  +.+..+|..++..+...|+
T Consensus         4 G~~~~~~~~~e~ai~~~~~a~---~~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~   80 (150)
T 4ga2_A            4 GSMRRSKADVERYIASVQGST---PSPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQERDPKAHRFLGLLYELEEN   80 (150)
T ss_dssp             ---CCCHHHHHHHHHHHHHHS---CSHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHcChHHHHHHHHHHhc---ccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCc
Confidence            344556677777777777664   23444 44555677777777777777777777665  3356677777777777777


Q ss_pred             HHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHH-HHHHHh
Q 005329          596 VNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEV-RKMMRS  642 (702)
Q Consensus       596 ~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~-~~~~~~  642 (702)
                      +++|+..|+++++++|+++..+..++.+|.+.|++++|.+. ++++.+
T Consensus        81 ~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~  128 (150)
T 4ga2_A           81 TDKAVECYRRSVELNPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAK  128 (150)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence            77777777777777777777777777777777777765554 466654

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.22  E-value=3.2e-10  Score=108.87  Aligned_cols=84  Identities=13%  Similarity=0.081  Sum_probs=68.6

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHhCCCC---chhHHHHHHHHHhc----------CChHHHHHHHHHHHhCCCccCCe
Q 005329          584 STLLRACMVQGDVNCGRHTAEKILELHPSC---AGTHITLANIYAAK----------GRWREAAEVRKMMRSKGVIKEPG  650 (702)
Q Consensus       584 ~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~---~~~~~~l~~~~~~~----------g~~~~A~~~~~~~~~~~~~~~~~  650 (702)
                      ..++..+...|++++|+..++++++..|++   +..+..++.+|...          |++++|...++++.+..+     
T Consensus       152 ~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~p-----  226 (261)
T 3qky_A          152 YEAARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFP-----  226 (261)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHCT-----
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHCC-----
Confidence            567888999999999999999999999985   45889999999977          999999999999987532     


Q ss_pred             eeEEEECCEEEEEEcCCCCCCChhHHHHHHHHHHHHhcCC
Q 005329          651 WSRIKVKDQVSAFVSSDRRHSQGEDIYRMLDLLASRESDI  690 (702)
Q Consensus       651 ~~~~~~~~~~~~~~~~~~~~p~~~~~~~~l~~l~~~~~~~  690 (702)
                                        .+|...+....+..+....+..
T Consensus       227 ------------------~~~~~~~a~~~l~~~~~~~~~~  248 (261)
T 3qky_A          227 ------------------DSPLLRTAEELYTRARQRLTEL  248 (261)
T ss_dssp             ------------------TCTHHHHHHHHHHHHHHHHHHH
T ss_pred             ------------------CChHHHHHHHHHHHHHHHHHHh
Confidence                              2355566677777777776665

>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=99.15  E-value=5.9e-11  Score=102.74  Aligned_cols=142  Identities=8%  Similarity=-0.037  Sum_probs=115.9

Q ss_pred             HHHHHHHcCChHHHHHHHHHchhCCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHh
Q 005329          483 MINGYAEHGYSQEAIHLFEKVPMVGLRPD-SVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCR  560 (702)
Q Consensus       483 li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~  560 (702)
                      |...+...|++++|++.+++....  .|+ ...+..+...|...|++++|++.|++..+.   .|+ ...|..+..+|.+
T Consensus         3 LG~~~~~~~~~e~ai~~~~~a~~~--~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~---~p~~~~a~~~lg~~~~~   77 (150)
T 4ga2_A            3 LGSMRRSKADVERYIASVQGSTPS--PRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINV---QERDPKAHRFLGLLYEL   77 (150)
T ss_dssp             ----CCCHHHHHHHHHHHHHHSCS--HHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHH
T ss_pred             hHHHHHHcChHHHHHHHHHHhccc--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHH
Confidence            344455667888888888887653  343 346667888899999999999999998854   665 8889999999999


Q ss_pred             cCCHHHHHHHHHhCCC-CC-CHHHHHHHHHHHHhcCCHHHHHHH-HHHHHHhCCCCchhHHHHHHHHHhcCC
Q 005329          561 AGRLSDAENMIENMPH-QK-DDVVWSTLLRACMVQGDVNCGRHT-AEKILELHPSCAGTHITLANIYAAKGR  629 (702)
Q Consensus       561 ~g~~~~A~~~~~~~~~-~p-~~~~~~~l~~~~~~~g~~~~A~~~-~~~~~~~~p~~~~~~~~l~~~~~~~g~  629 (702)
                      .|++++|...|+++.. .| +..+|..++..+...|++++|.+. ++++++++|+++.+|...+.++...|+
T Consensus        78 ~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A           78 EENTDKAVECYRRSVELNPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFPGSPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             TTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTTCHHHHHHHHHHHHTCCC
T ss_pred             cCchHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCc
Confidence            9999999999999877 44 578999999999999998776655 699999999999999999999998886

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.13  E-value=2.9e-09  Score=99.38  Aligned_cols=180  Identities=12%  Similarity=0.034  Sum_probs=109.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhhCCC--CC----HHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHH----HHHH
Q 005329          448 IKSALINMYSKCGSIKEASQIFYETES--DD----IVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSV----TFMG  517 (702)
Q Consensus       448 ~~~~li~~~~~~g~~~~A~~~~~~~~~--~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~----~~~~  517 (702)
                      .+..+...+.+.|++++|...|+++..  |+    ...+..+..++.+.|++++|+..|+++.+.  .|+..    .+..
T Consensus         6 ~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~--~P~~~~~~~a~~~   83 (225)
T 2yhc_A            6 EIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRL--NPTHPNIDYVMYM   83 (225)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCTTHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--CcCCCcHHHHHHH
Confidence            334455566666777777777666542  21    235556666666677777777777666653  23221    2333


Q ss_pred             HHHHHhc------------------cCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCCCC
Q 005329          518 VLTACSH------------------AGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPHQK  578 (702)
Q Consensus       518 ll~~~~~------------------~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p  578 (702)
                      +..++..                  .|++++|...|+++.+.   .|+ ...+........-.+..              
T Consensus        84 ~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~---~P~~~~a~~a~~~l~~~~~~~--------------  146 (225)
T 2yhc_A           84 RGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRG---YPNSQYTTDATKRLVFLKDRL--------------  146 (225)
T ss_dssp             HHHHHHHHHC--------------CCHHHHHHHHHHHHHHTT---CTTCTTHHHHHHHHHHHHHHH--------------
T ss_pred             HHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHH---CcCChhHHHHHHHHHHHHHHH--------------
Confidence            3333332                  34555555555555432   333 21111111100000000              


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCc---hhHHHHHHHHHhcCChHHHHHHHHHHHhCCCcc
Q 005329          579 DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCA---GTHITLANIYAAKGRWREAAEVRKMMRSKGVIK  647 (702)
Q Consensus       579 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  647 (702)
                       ......++..+...|++++|+..++++++..|+++   ..+..++.+|.+.|++++|.+.++.+...++..
T Consensus       147 -~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~~~  217 (225)
T 2yhc_A          147 -AKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSSNT  217 (225)
T ss_dssp             -HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCSCC
T ss_pred             -HHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCc
Confidence             01113466778899999999999999999999886   579999999999999999999999998876644

>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=99.12  E-value=9.4e-10  Score=106.73  Aligned_cols=222  Identities=13%  Similarity=0.164  Sum_probs=144.6

Q ss_pred             cccCcHHHHHHHHHHHHHh-------CCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCC-----------CCHHHHHHH
Q 005329          422 GNMAILEQGKQIHAHVMSI-------GLERTAMIKSALINMYSKCGSIKEASQIFYETES-----------DDIVSWTAM  483 (702)
Q Consensus       422 ~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----------~~~~~~~~l  483 (702)
                      ...|+++.|...+++..+.       ..+....++..+...|...|++++|...|++...           ....++..+
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            3567777777777666542       2223456777788888888888888888876541           124567778


Q ss_pred             HHHHHHcCChHHHHHHHHHchhC------CCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhh-----CCCCC-hhh
Q 005329          484 INGYAEHGYSQEAIHLFEKVPMV------GLRP-DSVTFMGVLTACSHAGLVDLGFHYFNLMSDKY-----GFVPS-KEH  550 (702)
Q Consensus       484 i~~~~~~g~~~~A~~~~~~m~~~------g~~p-~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~-----~~~p~-~~~  550 (702)
                      ...|...|++++|.+.+++....      .-.| ...++..+...+...|++++|.++++++.+..     +-.|+ ..+
T Consensus        92 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  171 (283)
T 3edt_B           92 AVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKT  171 (283)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHH
Confidence            88888888888888888887653      1123 23567777888888888888888888876431     11222 566


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhCCC----------CC-CHHHHHHHHHHHHhcCC------HHHHHHHHHHHHHhCCCC
Q 005329          551 YGCMIDLLCRAGRLSDAENMIENMPH----------QK-DDVVWSTLLRACMVQGD------VNCGRHTAEKILELHPSC  613 (702)
Q Consensus       551 ~~~l~~~~~~~g~~~~A~~~~~~~~~----------~p-~~~~~~~l~~~~~~~g~------~~~A~~~~~~~~~~~p~~  613 (702)
                      +..++.+|...|++++|..+++++..          .+ ....|..+...+...+.      +..+...++......|..
T Consensus       172 ~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  251 (283)
T 3edt_B          172 KNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPTV  251 (283)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHHH
Confidence            77788888888888888888877654          11 12233333333333222      333333333333334556


Q ss_pred             chhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 005329          614 AGTHITLANIYAAKGRWREAAEVRKMMRSK  643 (702)
Q Consensus       614 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  643 (702)
                      +..+..++.+|...|++++|..+++++.+.
T Consensus       252 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~  281 (283)
T 3edt_B          252 NTTLRSLGALYRRQGKLEAAHTLEDCASRN  281 (283)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            678999999999999999999999998763

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.11  E-value=9.5e-09  Score=97.92  Aligned_cols=174  Identities=7%  Similarity=-0.039  Sum_probs=101.7

Q ss_pred             HHHHHhhCC---CCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHhHH
Q 005329          465 ASQIFYETE---SDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRP-DSVTFMGVLTACSHAGLVDLGFHYFNLMSD  540 (702)
Q Consensus       465 A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~  540 (702)
                      |...|++..   .++...+..+..++...|++++|++++.+.+..|-.+ +...+..++..+.+.|+.+.|.+.++.|.+
T Consensus        85 a~~~l~~l~~~~~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~  164 (310)
T 3mv2_B           85 NIEELENLLKDKQNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTN  164 (310)
T ss_dssp             CCHHHHHTTTTSCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            445555443   2344444566666667777777777776665443212 234555666666777777777777777653


Q ss_pred             hhCCCC-----ChhhHHHHHHH--HHhcC--CHHHHHHHHHhCCC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh-
Q 005329          541 KYGFVP-----SKEHYGCMIDL--LCRAG--RLSDAENMIENMPH-QKDDVVWSTLLRACMVQGDVNCGRHTAEKILEL-  609 (702)
Q Consensus       541 ~~~~~p-----~~~~~~~l~~~--~~~~g--~~~~A~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-  609 (702)
                      .   .|     +..+...|+.+  ....|  ++.+|..+|+++.. .|+..+-..++.++.+.|++++|++.++.+.+. 
T Consensus       165 ~---~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~~  241 (310)
T 3mv2_B          165 A---IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQTFPTWKTQLGLLNLHLQQRNIAEAQGIVELLLSDY  241 (310)
T ss_dssp             H---SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTTSCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSHH
T ss_pred             c---CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhc
Confidence            3   45     23333344433  22233  67777777777655 344233333444666777777777777766655 


Q ss_pred             ---------CCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 005329          610 ---------HPSCAGTHITLANIYAAKGRWREAAEVRKMMRSK  643 (702)
Q Consensus       610 ---------~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  643 (702)
                               +|+++.++.+++.+....|+  +|.++++++.+.
T Consensus       242 p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~  282 (310)
T 3mv2_B          242 YSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKL  282 (310)
T ss_dssp             HHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHT
T ss_pred             ccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHh
Confidence                     36677777666666666665  667777777664

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.11  E-value=4.1e-10  Score=109.93  Aligned_cols=187  Identities=11%  Similarity=0.072  Sum_probs=127.9

Q ss_pred             HHHhcCCHHHHHHHHhhCCC-------C--CHHHHHHHHHHHHHcCChHHHHHHHHHchhCCC---CCC--HHHHHHHHH
Q 005329          455 MYSKCGSIKEASQIFYETES-------D--DIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGL---RPD--SVTFMGVLT  520 (702)
Q Consensus       455 ~~~~~g~~~~A~~~~~~~~~-------~--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~---~p~--~~~~~~ll~  520 (702)
                      .|...|++++|...|.+...       +  ...+|+.+..+|...|++++|+..|++..+...   .+.  ..++..+..
T Consensus        46 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~  125 (292)
T 1qqe_A           46 IYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGE  125 (292)
T ss_dssp             HHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            45556666666666554331       1  135677788888888888888888877764210   111  246778888


Q ss_pred             HHhcc-CcHHHHHHHHHHhHHhhCCCCC----hhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CCC---H-----HHHHHH
Q 005329          521 ACSHA-GLVDLGFHYFNLMSDKYGFVPS----KEHYGCMIDLLCRAGRLSDAENMIENMPH-QKD---D-----VVWSTL  586 (702)
Q Consensus       521 ~~~~~-g~~~~A~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~---~-----~~~~~l  586 (702)
                      .|... |++++|++.|++..+...-..+    ..++..++..+.+.|++++|+..|+++.. .|+   .     ..|..+
T Consensus       126 ~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~l  205 (292)
T 1qqe_A          126 ILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKK  205 (292)
T ss_dssp             HHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHH
T ss_pred             HHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHH
Confidence            88886 9999999999988754211111    35678889999999999999999998765 222   1     156778


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHhCCCCchh-----HHHHHHHHH--hcCChHHHHHHHHHHH
Q 005329          587 LRACMVQGDVNCGRHTAEKILELHPSCAGT-----HITLANIYA--AKGRWREAAEVRKMMR  641 (702)
Q Consensus       587 ~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~-----~~~l~~~~~--~~g~~~~A~~~~~~~~  641 (702)
                      +.++...|++++|+..++++++++|.....     +..++..+.  ..+++++|+..++++.
T Consensus       206 g~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~  267 (292)
T 1qqe_A          206 GLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFM  267 (292)
T ss_dssp             HHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSS
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCC
Confidence            888999999999999999999999876553     344566664  4577888888886543

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.11  E-value=7.4e-10  Score=92.35  Aligned_cols=99  Identities=10%  Similarity=0.084  Sum_probs=75.0

Q ss_pred             CCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHH
Q 005329          544 FVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITL  620 (702)
Q Consensus       544 ~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l  620 (702)
                      +.|+ ...+...+..|.+.|++++|++.|+++..  +.+...|..++.++...|++++|+..++++++++|+++..|..+
T Consensus         8 inP~~a~~~~~~G~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~l   87 (126)
T 4gco_A            8 INPELAQEEKNKGNEYFKKGDYPTAMRHYNEAVKRDPENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGYIRK   87 (126)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHHHHH
Confidence            4555 45666677777777777777777777665  34566777777778888888888888888888888888888888


Q ss_pred             HHHHHhcCChHHHHHHHHHHHh
Q 005329          621 ANIYAAKGRWREAAEVRKMMRS  642 (702)
Q Consensus       621 ~~~~~~~g~~~~A~~~~~~~~~  642 (702)
                      +.+|...|++++|++.++++.+
T Consensus        88 g~~~~~~~~~~~A~~~~~~al~  109 (126)
T 4gco_A           88 AACLVAMREWSKAQRAYEDALQ  109 (126)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHH
Confidence            8888888888888888877765

>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=99.08  E-value=2.9e-09  Score=89.95  Aligned_cols=128  Identities=21%  Similarity=0.257  Sum_probs=91.7

Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHh
Q 005329          515 FMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMV  592 (702)
Q Consensus       515 ~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~  592 (702)
                      +..+...+...|++++|..+++.+.+. . +.+...+..++..+...|++++|..+++++..  +.+...+..++..+..
T Consensus         4 ~~~l~~~~~~~~~~~~A~~~~~~~~~~-~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~   81 (136)
T 2fo7_A            4 WYNLGNAYYKQGDYDEAIEYYQKALEL-D-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYK   81 (136)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHH-C-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHc-C-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCCCchHHHHHHHHHHHH
Confidence            444555566666666666666666543 1 12355566666666677777777777666554  3355677778888888


Q ss_pred             cCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 005329          593 QGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKG  644 (702)
Q Consensus       593 ~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  644 (702)
                      .|++++|...++++++..|.++..+..++.++...|++++|...++++.+..
T Consensus        82 ~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  133 (136)
T 2fo7_A           82 QGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD  133 (136)
T ss_dssp             TTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHS
T ss_pred             hcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHHHHccC
Confidence            8888888888888888888888888888888888899999988888877643

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.08  E-value=7.5e-09  Score=98.62  Aligned_cols=181  Identities=10%  Similarity=0.093  Sum_probs=131.9

Q ss_pred             HHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCC-----CCHHHHHHHHHHHHHcCChHHHHHHHHHch
Q 005329          430 GKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETES-----DDIVSWTAMINGYAEHGYSQEAIHLFEKVP  504 (702)
Q Consensus       430 a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  504 (702)
                      +...++.....+ .++......+..++...|++++|++++.+...     .+...+..++..+.+.|+.+.|.+.+++|.
T Consensus        85 a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~  163 (310)
T 3mv2_B           85 NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYT  163 (310)
T ss_dssp             CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            344455444433 33444445677788888889999888887632     245677888899999999999999999998


Q ss_pred             hCCCCC-----CHHHHHHHHHH--HhccC--cHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCC
Q 005329          505 MVGLRP-----DSVTFMGVLTA--CSHAG--LVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMP  575 (702)
Q Consensus       505 ~~g~~p-----~~~~~~~ll~~--~~~~g--~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  575 (702)
                      +  ..|     +..+...+..+  ....|  ++..|..+|+++.++   .|+..+-..+..++.+.|++++|.+.++.+.
T Consensus       164 ~--~~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~---~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~  238 (310)
T 3mv2_B          164 N--AIEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT---FPTWKTQLGLLNLHLQQRNIAEAQGIVELLL  238 (310)
T ss_dssp             H--HSCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT---SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             h--cCccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh---CCCcccHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            7  367     35566666666  33334  899999999999754   4553344445558999999999999998654


Q ss_pred             C------------CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHH
Q 005329          576 H------------QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHI  618 (702)
Q Consensus       576 ~------------~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~  618 (702)
                      +            +.++.++..++......|+  .|.++++++.+..|+++.+..
T Consensus       239 ~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~P~hp~i~d  291 (310)
T 3mv2_B          239 SDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLDHEHAFIKH  291 (310)
T ss_dssp             SHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTTCCCHHHHH
T ss_pred             HhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhCCCChHHHH
Confidence            4            2355667677767677787  889999999999999987664

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.07  E-value=2.8e-09  Score=102.23  Aligned_cols=186  Identities=12%  Similarity=0.023  Sum_probs=135.2

Q ss_pred             ChhHHHHHHHHHHhcCCHHHHHHHHhhCCC--C-C---HHHHHHHHHHHHHcCChHHHHHHHHHchhCCC-CCC-HHHHH
Q 005329          445 TAMIKSALINMYSKCGSIKEASQIFYETES--D-D---IVSWTAMINGYAEHGYSQEAIHLFEKVPMVGL-RPD-SVTFM  516 (702)
Q Consensus       445 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~-~~~~~  516 (702)
                      +...+-.+...+.+.|++++|...|+++..  | +   ...+..+..+|...|++++|+..|++..+... .|. ...+.
T Consensus        14 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~   93 (261)
T 3qky_A           14 SPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEY   93 (261)
T ss_dssp             SHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHH
Confidence            344444566677777888888888877653  2 3   56777788888888888888888888876421 112 24566


Q ss_pred             HHHHHHhc--------cCcHHHHHHHHHHhHHhhCCCCC-hhhH-----------------HHHHHHHHhcCCHHHHHHH
Q 005329          517 GVLTACSH--------AGLVDLGFHYFNLMSDKYGFVPS-KEHY-----------------GCMIDLLCRAGRLSDAENM  570 (702)
Q Consensus       517 ~ll~~~~~--------~g~~~~A~~~~~~~~~~~~~~p~-~~~~-----------------~~l~~~~~~~g~~~~A~~~  570 (702)
                      .+..++..        .|++++|+..|+++.+.   .|+ ....                 ..++.+|.+.|++++|+..
T Consensus        94 ~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~---~p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~  170 (261)
T 3qky_A           94 ERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDR---YPNHELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAAVT  170 (261)
T ss_dssp             HHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHH---CTTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHhcccccccchhHHHHHHHHHHHHHH---CcCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHH
Confidence            66777777        88888888888888765   343 2333                 5568889999999999999


Q ss_pred             HHhCCC-CCC----HHHHHHHHHHHHhc----------CCHHHHHHHHHHHHHhCCCCch---hHHHHHHHHHhcCChHH
Q 005329          571 IENMPH-QKD----DVVWSTLLRACMVQ----------GDVNCGRHTAEKILELHPSCAG---THITLANIYAAKGRWRE  632 (702)
Q Consensus       571 ~~~~~~-~p~----~~~~~~l~~~~~~~----------g~~~~A~~~~~~~~~~~p~~~~---~~~~l~~~~~~~g~~~~  632 (702)
                      |+++.. .|+    ...+..++.++...          |++++|+..++++++..|+++.   ....+..++.+.|++++
T Consensus       171 ~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~l~~~~~~~~~~~~  250 (261)
T 3qky_A          171 YEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFPDSPLLRTAEELYTRARQRLTELEG  250 (261)
T ss_dssp             HHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHHHHhhh
Confidence            999876 343    45777888888766          8999999999999999998864   45556666666665554


Q ss_pred             H
Q 005329          633 A  633 (702)
Q Consensus       633 A  633 (702)
                      +
T Consensus       251 ~  251 (261)
T 3qky_A          251 D  251 (261)
T ss_dssp             C
T ss_pred             h
Confidence            3

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.06  E-value=3.1e-09  Score=103.25  Aligned_cols=177  Identities=8%  Similarity=-0.053  Sum_probs=142.4

Q ss_pred             HHHHHHHHhhCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHh
Q 005329          462 IKEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDK  541 (702)
Q Consensus       462 ~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~  541 (702)
                      .+.....+......+...+..+...+...|++++|...|++..+.. +-+...+..+...+...|++++|.+.++++...
T Consensus       102 ~~~l~~~l~~~lp~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~  180 (287)
T 3qou_A          102 EEAIRALLDXVLPREEELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ  180 (287)
T ss_dssp             HHHHHHHHHHHSCCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG
T ss_pred             HHHHHHHHHHHcCCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh
Confidence            3444555555555566677788888999999999999999988752 335568888899999999999999999988744


Q ss_pred             hCCCCChhhHH-HHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCC--chh
Q 005329          542 YGFVPSKEHYG-CMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSC--AGT  616 (702)
Q Consensus       542 ~~~~p~~~~~~-~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~--~~~  616 (702)
                         .|+..... .....+...++.++|...+++...  +.+...+..+...+...|++++|+..++++++.+|++  ...
T Consensus       181 ---~p~~~~~~~~~~~~l~~~~~~~~a~~~l~~al~~~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a  257 (287)
T 3qou_A          181 ---DQDTRYQGLVAQIELLXQAADTPEIQQLQQQVAENPEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQT  257 (287)
T ss_dssp             ---GCSHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHH
T ss_pred             ---hcchHHHHHHHHHHHHhhcccCccHHHHHHHHhcCCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchH
Confidence               56644332 233346677888889999888776  4467899999999999999999999999999999988  889


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHh
Q 005329          617 HITLANIYAAKGRWREAAEVRKMMRS  642 (702)
Q Consensus       617 ~~~l~~~~~~~g~~~~A~~~~~~~~~  642 (702)
                      +..++.+|...|+.++|...+++...
T Consensus       258 ~~~l~~~~~~~g~~~~a~~~~r~al~  283 (287)
T 3qou_A          258 RXTFQEILAALGTGDALASXYRRQLY  283 (287)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCCCcHHHHHHHHHH
Confidence            99999999999999999998887653

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.06  E-value=5.8e-08  Score=98.54  Aligned_cols=121  Identities=11%  Similarity=0.164  Sum_probs=65.2

Q ss_pred             HHHHcCChHHHHHHHHHchhCCCCCC---HHHHHHHHHHHhccCcHHHHHHHHHHhHHhh---CCCCC-hhhHHHHHHHH
Q 005329          486 GYAEHGYSQEAIHLFEKVPMVGLRPD---SVTFMGVLTACSHAGLVDLGFHYFNLMSDKY---GFVPS-KEHYGCMIDLL  558 (702)
Q Consensus       486 ~~~~~g~~~~A~~~~~~m~~~g~~p~---~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~---~~~p~-~~~~~~l~~~~  558 (702)
                      .+...|++++|...+++.......++   ...+..+...+...|++++|...++.+....   +..++ ...+..+..++
T Consensus       224 ~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~  303 (373)
T 1hz4_A          224 YWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLY  303 (373)
T ss_dssp             HHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHH
Confidence            35566777777777666654321111   1234555666667777777777776654321   21222 23556667777


Q ss_pred             HhcCCHHHHHHHHHhCCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCC
Q 005329          559 CRAGRLSDAENMIENMPHQ-KDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPS  612 (702)
Q Consensus       559 ~~~g~~~~A~~~~~~~~~~-p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~  612 (702)
                      ...|+.++|...+++...- +.    ......+...|  +....+++.+....|.
T Consensus       304 ~~~g~~~~A~~~l~~al~~~~~----~g~~~~~~~~g--~~~~~ll~~~~~~~~~  352 (373)
T 1hz4_A          304 WQAGRKSDAQRVLLDALKLANR----TGFISHFVIEG--EAMAQQLRQLIQLNTL  352 (373)
T ss_dssp             HHHTCHHHHHHHHHHHHHHHHH----HCCCHHHHTTH--HHHHHHHHHHHHTTCS
T ss_pred             HHhCCHHHHHHHHHHHHHHhcc----ccHHHHHHHcc--HHHHHHHHHHHhCCCC
Confidence            7777777777777766541 10    01112223333  4555566666666653

>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=99.05  E-value=5.8e-10  Score=122.39  Aligned_cols=168  Identities=11%  Similarity=-0.021  Sum_probs=99.3

Q ss_pred             HhcCCHHHHHHHHhhCC-----------CCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhcc
Q 005329          457 SKCGSIKEASQIFYETE-----------SDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHA  525 (702)
Q Consensus       457 ~~~g~~~~A~~~~~~~~-----------~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~  525 (702)
                      ...|++++|++.|++..           ..+...+..+..++...|++++|++.|+++.+.. +-+...+..+..++...
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~  480 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDFSESVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELLT  480 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHHc
Confidence            44555555555555443           2344556666666666666666666666666532 22345566666666666


Q ss_pred             CcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHH
Q 005329          526 GLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHT  602 (702)
Q Consensus       526 g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~  602 (702)
                      |++++|++.|+++.+.   .|+ ...+..+..+|.+.|++++ ...|+++..  +.+...|..++.++...|++++|++.
T Consensus       481 g~~~~A~~~~~~al~l---~P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~  556 (681)
T 2pzi_A          481 GDYDSATKHFTEVLDT---FPGELAPKLALAATAELAGNTDE-HKFYQTVWSTNDGVISAAFGLARARSAEGDRVGAVRT  556 (681)
T ss_dssp             TCHHHHHHHHHHHHHH---STTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHh---CCCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCCchHHHHHHHHHHHHHcCCHHHHHHH
Confidence            6666666666666543   443 5556666666666666666 666666554  23455666666666666666666666


Q ss_pred             HHHHHHhCCCCchhHHHHHHHHHhcCC
Q 005329          603 AEKILELHPSCAGTHITLANIYAAKGR  629 (702)
Q Consensus       603 ~~~~~~~~p~~~~~~~~l~~~~~~~g~  629 (702)
                      |+++++++|++...+..++.++...|+
T Consensus       557 ~~~al~l~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          557 LDEVPPTSRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HHTSCTTSTTHHHHHHHHHHHTC----
T ss_pred             HHhhcccCcccHHHHHHHHHHHHccCC
Confidence            666666666666666666666655444

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=99.04  E-value=1e-09  Score=94.30  Aligned_cols=102  Identities=8%  Similarity=-0.058  Sum_probs=92.2

Q ss_pred             CCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHH
Q 005329          543 GFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHIT  619 (702)
Q Consensus       543 ~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~  619 (702)
                      .+.|+ ...+..+...+.+.|++++|...|+++..  +.+...|..++.++...|++++|+..|+++++++|+++..|..
T Consensus        30 ~l~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~~~~~~~~  109 (151)
T 3gyz_A           30 AIPDDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYDFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKNDYTPVFH  109 (151)
T ss_dssp             CSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSSCCHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCCCcHHHHH
Confidence            55665 66788888999999999999999999877  4468899999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCC
Q 005329          620 LANIYAAKGRWREAAEVRKMMRSKG  644 (702)
Q Consensus       620 l~~~~~~~g~~~~A~~~~~~~~~~~  644 (702)
                      ++.+|...|++++|+..|+++.+..
T Consensus       110 lg~~~~~lg~~~eA~~~~~~al~l~  134 (151)
T 3gyz_A          110 TGQCQLRLKAPLKAKECFELVIQHS  134 (151)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            9999999999999999999998754

>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=99.03  E-value=1.7e-08  Score=92.98  Aligned_cols=172  Identities=10%  Similarity=-0.009  Sum_probs=142.0

Q ss_pred             HHHHHhhCC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccC----cHHHHHHHHHHhH
Q 005329          465 ASQIFYETE-SDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAG----LVDLGFHYFNLMS  539 (702)
Q Consensus       465 A~~~~~~~~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g----~~~~A~~~~~~~~  539 (702)
                      |.+.|++.. ..++..+..+...|...+++++|++.|++..+.|   +...+..+...|.. +    ++++|.++|++..
T Consensus         5 A~~~~~~aa~~g~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~   80 (212)
T 3rjv_A            5 PGSQYQQQAEAGDRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAEKAV   80 (212)
T ss_dssp             TTHHHHHHHHTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHH
Confidence            334444332 3467788888888888999999999999988765   55667777777777 6    8999999999986


Q ss_pred             HhhCCCCChhhHHHHHHHHHh----cCCHHHHHHHHHhCCCCCC----HHHHHHHHHHHHh----cCCHHHHHHHHHHHH
Q 005329          540 DKYGFVPSKEHYGCMIDLLCR----AGRLSDAENMIENMPHQKD----DVVWSTLLRACMV----QGDVNCGRHTAEKIL  607 (702)
Q Consensus       540 ~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~p~----~~~~~~l~~~~~~----~g~~~~A~~~~~~~~  607 (702)
                      +.    -+...+..|...|..    .+++++|..+|++.....+    +..+..|...|..    .+++++|+..++++.
T Consensus        81 ~~----g~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~  156 (212)
T 3rjv_A           81 EA----GSKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSS  156 (212)
T ss_dssp             HT----TCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHH
T ss_pred             HC----CCHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHH
Confidence            54    257788888888887    8899999999999988443    7899999999988    889999999999999


Q ss_pred             HhCCCCchhHHHHHHHHHhc-C-----ChHHHHHHHHHHHhCCC
Q 005329          608 ELHPSCAGTHITLANIYAAK-G-----RWREAAEVRKMMRSKGV  645 (702)
Q Consensus       608 ~~~p~~~~~~~~l~~~~~~~-g-----~~~~A~~~~~~~~~~~~  645 (702)
                      +. |.++..+..|+.+|... |     ++++|..++++..+.|.
T Consensus       157 ~~-~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          157 SL-SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             HT-SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTC
T ss_pred             Hc-CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCC
Confidence            98 66888999999999865 3     89999999999988764

>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=99.03  E-value=2.2e-09  Score=95.86  Aligned_cols=156  Identities=10%  Similarity=0.032  Sum_probs=98.5

Q ss_pred             HHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHH-HHhc
Q 005329          483 MINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDL-LCRA  561 (702)
Q Consensus       483 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~-~~~~  561 (702)
                      +...+...|++++|+..|++..+.. +.+...+..+...+...|++++|...++.+...   .|+...+..+... +...
T Consensus        12 ~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~---~p~~~~~~~~~~~~~~~~   87 (176)
T 2r5s_A           12 QVSELLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPLE---YQDNSYKSLIAKLELHQQ   87 (176)
T ss_dssp             HHHHHHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGG---GCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhc---cCChHHHHHHHHHHHHhh
Confidence            3444555555566655555555421 223345555555555566666666666555432   2322222211111 1122


Q ss_pred             CCHHHHHHHHHhCCC-CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCC--chhHHHHHHHHHhcCChHHHHHHH
Q 005329          562 GRLSDAENMIENMPH-QK-DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSC--AGTHITLANIYAAKGRWREAAEVR  637 (702)
Q Consensus       562 g~~~~A~~~~~~~~~-~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~--~~~~~~l~~~~~~~g~~~~A~~~~  637 (702)
                      +...+|...+++... .| +...+..++..+...|++++|+..++++++.+|+.  +..+..++.++...|+.++|...+
T Consensus        88 ~~~~~a~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~~y  167 (176)
T 2r5s_A           88 AAESPELKRLEQELAANPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIASKY  167 (176)
T ss_dssp             HTSCHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHHHH
T ss_pred             cccchHHHHHHHHHHhCCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHHHH
Confidence            222345666666655 44 57788889999999999999999999999999865  558999999999999999999998


Q ss_pred             HHHHh
Q 005329          638 KMMRS  642 (702)
Q Consensus       638 ~~~~~  642 (702)
                      ++...
T Consensus       168 ~~al~  172 (176)
T 2r5s_A          168 RRQLY  172 (176)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            87654

>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=99.00  E-value=3.5e-09  Score=114.23  Aligned_cols=159  Identities=9%  Similarity=-0.015  Sum_probs=125.4

Q ss_pred             cCCHHHHHHHHhhCCC---CCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHH
Q 005329          459 CGSIKEASQIFYETES---DDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYF  535 (702)
Q Consensus       459 ~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~  535 (702)
                      .|++++|.+.|++..+   .+...|..+...+...|++++|.+.|++..+.. +.+...+..+...+...|++++|.+.|
T Consensus         2 ~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~   80 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHRPQDFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVLL   80 (568)
T ss_dssp             -------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            4788999999988763   467889999999999999999999999998753 335678888999999999999999999


Q ss_pred             HHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhc---CCHHHHHHHHHHHHHh
Q 005329          536 NLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQ---GDVNCGRHTAEKILEL  609 (702)
Q Consensus       536 ~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~---g~~~~A~~~~~~~~~~  609 (702)
                      ++..+.   .|+ ...+..+..+|.+.|++++|.+.++++..  +.+...+..++..+...   |++++|.+.++++++.
T Consensus        81 ~~al~~---~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~  157 (568)
T 2vsy_A           81 QQASDA---APEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQ  157 (568)
T ss_dssp             HHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHH
T ss_pred             HHHHhc---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhc
Confidence            999865   454 78889999999999999999999999876  34577888999999999   9999999999999999


Q ss_pred             CCCCchhHHHHH
Q 005329          610 HPSCAGTHITLA  621 (702)
Q Consensus       610 ~p~~~~~~~~l~  621 (702)
                      +|.+...+..++
T Consensus       158 ~p~~~~~~~~l~  169 (568)
T 2vsy_A          158 GVGAVEPFAFLS  169 (568)
T ss_dssp             TCCCSCHHHHTT
T ss_pred             CCcccChHHHhC
Confidence            999998888877

>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=98.99  E-value=1.9e-09  Score=92.81  Aligned_cols=102  Identities=12%  Similarity=0.011  Sum_probs=88.8

Q ss_pred             CCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHH
Q 005329          543 GFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHIT  619 (702)
Q Consensus       543 ~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~  619 (702)
                      .+.|+ ...+..+...+.+.|++++|...|+++..  +.+...|..++.++...|++++|+..++++++++|+++..+..
T Consensus        15 ~~~p~~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~   94 (148)
T 2vgx_A           15 EISSDTLEQLYSLAFNQYQSGXYEDAHXVFQALCVLDHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIXEPRFPFH   94 (148)
T ss_dssp             TCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHH
T ss_pred             cCCHhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHH
Confidence            44554 66677788889999999999999998766  4467888999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCC
Q 005329          620 LANIYAAKGRWREAAEVRKMMRSKG  644 (702)
Q Consensus       620 l~~~~~~~g~~~~A~~~~~~~~~~~  644 (702)
                      ++.+|...|++++|...++++.+..
T Consensus        95 lg~~~~~~g~~~~A~~~~~~al~~~  119 (148)
T 2vgx_A           95 AAECLLQXGELAEAESGLFLAQELI  119 (148)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            9999999999999999999987643

>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=98.98  E-value=1.4e-08  Score=85.52  Aligned_cols=131  Identities=21%  Similarity=0.292  Sum_probs=108.3

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHH
Q 005329          479 SWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLL  558 (702)
Q Consensus       479 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~  558 (702)
                      .|..+...+...|++++|..+++++.+.+ +.+...+..+...+...|++++|..+++++... . +.+...+..++..+
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~-~-~~~~~~~~~l~~~~   79 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL-D-PRSAEAWYNLGNAY   79 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH-C-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHH-C-CCchHHHHHHHHHH
Confidence            46677888888899999999998887653 345667788888888899999999999988755 1 23467788888999


Q ss_pred             HhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCC
Q 005329          559 CRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPS  612 (702)
Q Consensus       559 ~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~  612 (702)
                      ...|++++|...++++..  +.+...+..++..+...|++++|...++++++.+|+
T Consensus        80 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~  135 (136)
T 2fo7_A           80 YKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPR  135 (136)
T ss_dssp             HTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHSTT
T ss_pred             HHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHHHHccCCC
Confidence            999999999999988766  346778888999999999999999999999999885

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=98.98  E-value=7e-09  Score=101.12  Aligned_cols=172  Identities=10%  Similarity=-0.018  Sum_probs=140.0

Q ss_pred             CHHHHHHHHhhCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHchhC----CCCCC-HHHHHHHHHHHhccCcHHHHHHHH
Q 005329          461 SIKEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMV----GLRPD-SVTFMGVLTACSHAGLVDLGFHYF  535 (702)
Q Consensus       461 ~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p~-~~~~~~ll~~~~~~g~~~~A~~~~  535 (702)
                      ++++|...|++.           +..|...|++++|++.|++..+.    |-+++ ..+|+.+..+|...|++++|+..|
T Consensus        32 ~~~~A~~~~~~a-----------~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~  100 (292)
T 1qqe_A           32 KFEEAADLCVQA-----------ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSL  100 (292)
T ss_dssp             HHHHHHHHHHHH-----------HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHH-----------HHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            588888877654           56788899999999999887652    32222 358889999999999999999999


Q ss_pred             HHhHHhhCCCCC----hhhHHHHHHHHHhc-CCHHHHHHHHHhCCC-CC---C----HHHHHHHHHHHHhcCCHHHHHHH
Q 005329          536 NLMSDKYGFVPS----KEHYGCMIDLLCRA-GRLSDAENMIENMPH-QK---D----DVVWSTLLRACMVQGDVNCGRHT  602 (702)
Q Consensus       536 ~~~~~~~~~~p~----~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~-~p---~----~~~~~~l~~~~~~~g~~~~A~~~  602 (702)
                      ++..+...-..+    ..++..+..+|... |++++|+..|++... .|   +    ..++..++..+...|++++|+..
T Consensus       101 ~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~  180 (292)
T 1qqe_A          101 ENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDI  180 (292)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHH
Confidence            988754211112    45788899999996 999999999998876 12   1    35788899999999999999999


Q ss_pred             HHHHHHhCCCCch-------hHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 005329          603 AEKILELHPSCAG-------THITLANIYAAKGRWREAAEVRKMMRSK  643 (702)
Q Consensus       603 ~~~~~~~~p~~~~-------~~~~l~~~~~~~g~~~~A~~~~~~~~~~  643 (702)
                      ++++++..|++..       .+..++.++...|++++|+..+++..+.
T Consensus       181 ~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l  228 (292)
T 1qqe_A          181 YSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSE  228 (292)
T ss_dssp             HHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC
T ss_pred             HHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            9999999987754       5788999999999999999999998764

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.96  E-value=1.4e-08  Score=98.67  Aligned_cols=154  Identities=12%  Similarity=-0.003  Sum_probs=129.5

Q ss_pred             CCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CCCHHHHHHH
Q 005329          509 RPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH-QKDDVVWSTL  586 (702)
Q Consensus       509 ~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~~~~~~~l  586 (702)
                      +.+...+..+...+...|++++|.+.|+++.+.   .|+ ...+..++.++.+.|++++|...++++.. .|+.......
T Consensus       114 p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~---~P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~~~  190 (287)
T 3qou_A          114 PREEELXAQQAMQLMQESNYTDALPLLXDAWQL---SNQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQDQDTRYQGLV  190 (287)
T ss_dssp             CCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---TTSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGGCSHHHHHHH
T ss_pred             CCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHh---CCcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhhcchHHHHHH
Confidence            344466777888899999999999999999865   665 78889999999999999999999999987 5665544333


Q ss_pred             H-HHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhCCCccCCeeeEEEECCEEEEEEc
Q 005329          587 L-RACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKGVIKEPGWSRIKVKDQVSAFVS  665 (702)
Q Consensus       587 ~-~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  665 (702)
                      . ..+...++.+.|++.++++++.+|+++..+..++.+|...|++++|+..++++.+..                     
T Consensus       191 ~~~~l~~~~~~~~a~~~l~~al~~~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~---------------------  249 (287)
T 3qou_A          191 AQIELLXQAADTPEIQQLQQQVAENPEDAALATQLALQLHQVGRNEEALELLFGHLRXD---------------------  249 (287)
T ss_dssp             HHHHHHHHHTSCHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---------------------
T ss_pred             HHHHHHhhcccCccHHHHHHHHhcCCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcc---------------------
Confidence            3 336688888999999999999999999999999999999999999999999998743                     


Q ss_pred             CCCCCCCh--hHHHHHHHHHHHHhcCCC
Q 005329          666 SDRRHSQG--EDIYRMLDLLASRESDID  691 (702)
Q Consensus       666 ~~~~~p~~--~~~~~~l~~l~~~~~~~~  691 (702)
                           |..  ...+..+..+....|+..
T Consensus       250 -----p~~~~~~a~~~l~~~~~~~g~~~  272 (287)
T 3qou_A          250 -----LTAADGQTRXTFQEILAALGTGD  272 (287)
T ss_dssp             -----TTGGGGHHHHHHHHHHHHHCTTC
T ss_pred             -----cccccchHHHHHHHHHHHcCCCC
Confidence                 444  677888888888888754

>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=98.95  E-value=4e-09  Score=115.76  Aligned_cols=152  Identities=9%  Similarity=-0.007  Sum_probs=135.0

Q ss_pred             HHcCChHHHHHHHHHch--------hCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHH
Q 005329          488 AEHGYSQEAIHLFEKVP--------MVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLL  558 (702)
Q Consensus       488 ~~~g~~~~A~~~~~~m~--------~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~  558 (702)
                      ...|++++|++.+++..        +. -+.+...+..+..++...|++++|++.|+++.+.   .|+ ...|..+..+|
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~-~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~---~p~~~~a~~~lg~~~  477 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVD-FSESVELPLMEVRALLDLGDVAKATRKLDDLAER---VGWRWRLVWYRAVAE  477 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------C-CTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---HCCCHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccc-cccchhHHHHHHHHHHhcCCHHHHHHHHHHHhcc---CcchHHHHHHHHHHH
Confidence            67899999999999987        32 1334567888899999999999999999999865   564 78899999999


Q ss_pred             HhcCCHHHHHHHHHhCCC-CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHH
Q 005329          559 CRAGRLSDAENMIENMPH-QK-DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEV  636 (702)
Q Consensus       559 ~~~g~~~~A~~~~~~~~~-~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~  636 (702)
                      ...|++++|...|+++.. .| +...|..++.++...|++++ ++.|+++++++|++...|..++.+|.+.|++++|+..
T Consensus       478 ~~~g~~~~A~~~~~~al~l~P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~  556 (681)
T 2pzi_A          478 LLTGDYDSATKHFTEVLDTFPGELAPKLALAATAELAGNTDE-HKFYQTVWSTNDGVISAAFGLARARSAEGDRVGAVRT  556 (681)
T ss_dssp             HHHTCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCCchHHHHHHHHHHHHHcCCHHHHHHH
Confidence            999999999999999877 44 67889999999999999999 9999999999999999999999999999999999999


Q ss_pred             HHHHHhCC
Q 005329          637 RKMMRSKG  644 (702)
Q Consensus       637 ~~~~~~~~  644 (702)
                      ++++.+..
T Consensus       557 ~~~al~l~  564 (681)
T 2pzi_A          557 LDEVPPTS  564 (681)
T ss_dssp             HHTSCTTS
T ss_pred             HHhhcccC
Confidence            99877644

>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=98.95  E-value=1.1e-08  Score=99.16  Aligned_cols=206  Identities=8%  Similarity=0.004  Sum_probs=116.1

Q ss_pred             hhhHHHHHHHHHcCCChHHHHHHHHHHHHC------CCCC-CHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhH
Q 005329          376 IISWSTIIGGYSQGGYEEEAFEYLALMRRE------GPRP-NEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMI  448 (702)
Q Consensus       376 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~------g~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  448 (702)
                      ..++..+...|...|++++|+..+++..+.      +..| ...++..+...+...|++++|...+..+.+..       
T Consensus        43 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-------  115 (283)
T 3edt_B           43 ATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIR-------  115 (283)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHH-------
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHH-------
Confidence            345566666666666666666666666542      1112 12234444444444444444444444433210       


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhCCCC----CHHHHHHHHHHHHHcCChHHHHHHHHHchhC------CCCCC-HHHHHH
Q 005329          449 KSALINMYSKCGSIKEASQIFYETESD----DIVSWTAMINGYAEHGYSQEAIHLFEKVPMV------GLRPD-SVTFMG  517 (702)
Q Consensus       449 ~~~li~~~~~~g~~~~A~~~~~~~~~~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------g~~p~-~~~~~~  517 (702)
                                           ++...+    ...++..+...+...|++++|...++++.+.      +-.|+ ..++..
T Consensus       116 ---------------------~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~  174 (283)
T 3edt_B          116 ---------------------EKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNN  174 (283)
T ss_dssp             ---------------------HHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHH
T ss_pred             ---------------------HHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHH
Confidence                                 000001    2345667777777788888888887777653      11232 356778


Q ss_pred             HHHHHhccCcHHHHHHHHHHhHHhh------CCCCC-hhhHHHHHHHHHhcC------CHHHHHHHHHhCCC-CC-CHHH
Q 005329          518 VLTACSHAGLVDLGFHYFNLMSDKY------GFVPS-KEHYGCMIDLLCRAG------RLSDAENMIENMPH-QK-DDVV  582 (702)
Q Consensus       518 ll~~~~~~g~~~~A~~~~~~~~~~~------~~~p~-~~~~~~l~~~~~~~g------~~~~A~~~~~~~~~-~p-~~~~  582 (702)
                      +...+...|++++|.++++++.+..      ...+. ...+..+...+...+      .+.++...++.... .| ...+
T Consensus       175 la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  254 (283)
T 3edt_B          175 LASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPTVNTT  254 (283)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHHHHHH
Confidence            8888888999999999888876531      12232 334444444433322      34455555555544 22 3457


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHh
Q 005329          583 WSTLLRACMVQGDVNCGRHTAEKILEL  609 (702)
Q Consensus       583 ~~~l~~~~~~~g~~~~A~~~~~~~~~~  609 (702)
                      +..++..|...|++++|...++++++.
T Consensus       255 ~~~la~~~~~~g~~~~A~~~~~~al~~  281 (283)
T 3edt_B          255 LRSLGALYRRQGKLEAAHTLEDCASRN  281 (283)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            888999999999999999999999875

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.94  E-value=1.4e-08  Score=93.41  Aligned_cols=127  Identities=7%  Similarity=0.015  Sum_probs=98.5

Q ss_pred             HHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHh
Q 005329          482 AMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCR  560 (702)
Q Consensus       482 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~  560 (702)
                      .+..+|...|++++|+..|++..+.. +-+...+..+...+...|++++|.+.|+++.+.   .|+ ...+..+..+|..
T Consensus        59 ~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~---~P~~~~a~~~lg~~~~~  134 (208)
T 3urz_A           59 ELALAYKKNRNYDKAYLFYKELLQKA-PNNVDCLEACAEMQVCRGQEKDALRMYEKILQL---EADNLAANIFLGNYYYL  134 (208)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc---CCCCHHHHHHHHHHHHH
Confidence            38888999999999999999988753 335678888999999999999999999999854   665 7788888888876


Q ss_pred             cCC--HHHHHHHHHhCCC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCC
Q 005329          561 AGR--LSDAENMIENMPH-QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPS  612 (702)
Q Consensus       561 ~g~--~~~A~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~  612 (702)
                      .|.  .+.+...++.... .|....+..++.++...|++++|+..|++++++.|+
T Consensus       135 ~~~~~~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~P~  189 (208)
T 3urz_A          135 TAEQEKKKLETDYKKLSSPTKMQYARYRDGLSKLFTTRYEKARNSLQKVILRFPS  189 (208)
T ss_dssp             HHHHHHHHHHHHHC---CCCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTTSCC
T ss_pred             HhHHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC
Confidence            654  4456667776654 233335556677778889999999999999999995

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.94  E-value=7.8e-09  Score=86.07  Aligned_cols=114  Identities=11%  Similarity=0.042  Sum_probs=99.3

Q ss_pred             CCCCH-HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHH
Q 005329          508 LRPDS-VTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVW  583 (702)
Q Consensus       508 ~~p~~-~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~  583 (702)
                      +.|+. ..+......+.+.|++++|++.|++..+.   .|+ ...|..+..+|.+.|++++|+..++++..  +.+...|
T Consensus         8 inP~~a~~~~~~G~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~   84 (126)
T 4gco_A            8 INPELAQEEKNKGNEYFKKGDYPTAMRHYNEAVKR---DPENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGY   84 (126)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             HCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHH
Confidence            45554 46778888899999999999999998854   554 88889999999999999999999999877  4567899


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHH
Q 005329          584 STLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIY  624 (702)
Q Consensus       584 ~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~  624 (702)
                      ..++.++...|++++|++.|+++++++|++...+..|+.++
T Consensus        85 ~~lg~~~~~~~~~~~A~~~~~~al~l~P~~~~a~~~l~~~l  125 (126)
T 4gco_A           85 IRKAACLVAMREWSKAQRAYEDALQVDPSNEEAREGVRNCL  125 (126)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHC
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHCcCCHHHHHHHHHhc
Confidence            99999999999999999999999999999999998887653

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.93  E-value=6.6e-09  Score=95.54  Aligned_cols=157  Identities=11%  Similarity=0.082  Sum_probs=118.0

Q ss_pred             HHHHHHHHcCChHHHHHHHHHchhCCCCCC-HHHHHH----------------HHHHHhccCcHHHHHHHHHHhHHhhCC
Q 005329          482 AMINGYAEHGYSQEAIHLFEKVPMVGLRPD-SVTFMG----------------VLTACSHAGLVDLGFHYFNLMSDKYGF  544 (702)
Q Consensus       482 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~----------------ll~~~~~~g~~~~A~~~~~~~~~~~~~  544 (702)
                      .....+...|++++|+..|++..+.  .|+ ...+..                +..++...|++++|+..|++..+.   
T Consensus         9 ~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~---   83 (208)
T 3urz_A            9 QKVSAAIEAGQNGQAVSYFRQTIAL--NIDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQK---   83 (208)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--CHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHh--CCCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH---
Confidence            3444556667777777777776653  343 234444                888899999999999999999865   


Q ss_pred             CCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CC-CHHHHHHHHHHHHhcCC--HHHHHHHHHHHHHhCCCCchhHHH
Q 005329          545 VPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH-QK-DDVVWSTLLRACMVQGD--VNCGRHTAEKILELHPSCAGTHIT  619 (702)
Q Consensus       545 ~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p-~~~~~~~l~~~~~~~g~--~~~A~~~~~~~~~~~p~~~~~~~~  619 (702)
                      .|+ ...+..+..+|...|++++|...|+++.. .| +..+|..++..+...|+  .+.+...++++....| ....+..
T Consensus        84 ~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~a~~~  162 (208)
T 3urz_A           84 APNNVDCLEACAEMQVCRGQEKDALRMYEKILQLEADNLAANIFLGNYYYLTAEQEKKKLETDYKKLSSPTK-MQYARYR  162 (208)
T ss_dssp             CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHHHHC---CCCH-HHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhCCCc-hhHHHHH
Confidence            565 88899999999999999999999999877 44 67889999988876653  4566677777654333 2335677


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCC
Q 005329          620 LANIYAAKGRWREAAEVRKMMRSKG  644 (702)
Q Consensus       620 l~~~~~~~g~~~~A~~~~~~~~~~~  644 (702)
                      ++.++...|++++|+..++++.+..
T Consensus       163 ~g~~~~~~~~~~~A~~~~~~al~l~  187 (208)
T 3urz_A          163 DGLSKLFTTRYEKARNSLQKVILRF  187 (208)
T ss_dssp             HHHHHHHHHTHHHHHHHHHHHTTTS
T ss_pred             HHHHHHHccCHHHHHHHHHHHHHhC
Confidence            8999999999999999999998754

>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=98.90  E-value=2.7e-08  Score=91.86  Aligned_cols=129  Identities=9%  Similarity=-0.062  Sum_probs=89.0

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHH
Q 005329          478 VSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMID  556 (702)
Q Consensus       478 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~  556 (702)
                      ..+..+...+...|++++|+..|++..    .|+...+..+...+...|++++|.+.|++..+.   .|+ ...+..++.
T Consensus         7 ~~~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~---~~~~~~~~~~lg~   79 (213)
T 1hh8_A            7 ISLWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINR---DKHLAVAYFQRGM   79 (213)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CccchHHHHHHHH
Confidence            345556667777788888888777764    456677777777777777788887777777654   343 566777777


Q ss_pred             HHHhcCCHHHHHHHHHhCCC-CC-C----------------HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCC
Q 005329          557 LLCRAGRLSDAENMIENMPH-QK-D----------------DVVWSTLLRACMVQGDVNCGRHTAEKILELHPSC  613 (702)
Q Consensus       557 ~~~~~g~~~~A~~~~~~~~~-~p-~----------------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~  613 (702)
                      +|...|++++|...|+++.. .| +                ...+..++.++...|++++|.+.++++++..|++
T Consensus        80 ~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~  154 (213)
T 1hh8_A           80 LYYQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEP  154 (213)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSG
T ss_pred             HHHHcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCccc
Confidence            77777777777777766644 11 1                2566667777777777777777777777777754

>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=98.90  E-value=1.6e-07  Score=91.56  Aligned_cols=161  Identities=8%  Similarity=-0.062  Sum_probs=124.9

Q ss_pred             HHHHHHHHcCChHHHHHHHHHchhCC-CCCCHH----HHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC----hhhHH
Q 005329          482 AMINGYAEHGYSQEAIHLFEKVPMVG-LRPDSV----TFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS----KEHYG  552 (702)
Q Consensus       482 ~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~----~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~----~~~~~  552 (702)
                      ..+..+...|++++|.+++++..+.. ..|+..    .+..+...+...|++++|+..|+.+.+...-.++    ..+++
T Consensus        80 ~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~  159 (293)
T 3u3w_A           80 DQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIEN  159 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHH
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHH
Confidence            34667888999999999999987632 122221    2334666677888999999999999863111223    23688


Q ss_pred             HHHHHHHhcCCHHHHHHHHHhCCC--------CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCC------chhH
Q 005329          553 CMIDLLCRAGRLSDAENMIENMPH--------QK-DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSC------AGTH  617 (702)
Q Consensus       553 ~l~~~~~~~g~~~~A~~~~~~~~~--------~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~------~~~~  617 (702)
                      .++.+|...|++++|..+++++..        .+ ...++..++..|...|++++|...+++++++.+..      +.+|
T Consensus       160 ~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~  239 (293)
T 3u3w_A          160 AIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLY  239 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHH
Confidence            999999999999999999988763        11 23478899999999999999999999999876433      6789


Q ss_pred             HHHHHHHHhcCC-hHHHHHHHHHHHh
Q 005329          618 ITLANIYAAKGR-WREAAEVRKMMRS  642 (702)
Q Consensus       618 ~~l~~~~~~~g~-~~~A~~~~~~~~~  642 (702)
                      ..++.+|.+.|+ +++|.+.++++..
T Consensus       240 ~~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          240 YQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            999999999995 6999999998865

>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=98.88  E-value=2.7e-08  Score=97.70  Aligned_cols=218  Identities=11%  Similarity=0.101  Sum_probs=150.7

Q ss_pred             CCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHH
Q 005329          389 GGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQI  468 (702)
Q Consensus       389 ~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  468 (702)
                      .|++++|.+++++..+... ..         .+...++++.|...+..+               ...|...|++++|...
T Consensus         4 ~~~~~eA~~~~~~a~k~~~-~~---------~~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~~   58 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEKYLK-TS---------FMKWKPDYDSAASEYAKA---------------AVAFKNAKQLEQAKDA   58 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-CC---------SSSCSCCHHHHHHHHHHH---------------HHHHHHTTCHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHcc-cc---------ccCCCCCHHHHHHHHHHH---------------HHHHHHcCCHHHHHHH
Confidence            4566777777776654311 10         011145666666665543               3456677777777777


Q ss_pred             HhhCCC-----CC----HHHHHHHHHHHHHcCChHHHHHHHHHchhC----CCCCC--HHHHHHHHHHHhccCcHHHHHH
Q 005329          469 FYETES-----DD----IVSWTAMINGYAEHGYSQEAIHLFEKVPMV----GLRPD--SVTFMGVLTACSHAGLVDLGFH  533 (702)
Q Consensus       469 ~~~~~~-----~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p~--~~~~~~ll~~~~~~g~~~~A~~  533 (702)
                      |.+...     .+    ..+|+.+..+|...|++++|+..|++..+.    | .|.  ..++..+...|.. |++++|++
T Consensus        59 ~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g-~~~~~a~~~~~lg~~~~~-g~~~~A~~  136 (307)
T 2ifu_A           59 YLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENG-TPDTAAMALDRAGKLMEP-LDLSKAVH  136 (307)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTT-CHHHHHHHHHHHHHHHTT-TCHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcC-CHHHHHHHHHHHHHHHHc-CCHHHHHH
Confidence            765432     11    347788888999999999999999887642    2 222  2467788888888 99999999


Q ss_pred             HHHHhHHhhCCCCC----hhhHHHHHHHHHhcCCHHHHHHHHHhCCC----CCC----HHHHHHHHHHHHhcCCHHHHHH
Q 005329          534 YFNLMSDKYGFVPS----KEHYGCMIDLLCRAGRLSDAENMIENMPH----QKD----DVVWSTLLRACMVQGDVNCGRH  601 (702)
Q Consensus       534 ~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~p~----~~~~~~l~~~~~~~g~~~~A~~  601 (702)
                      .|++..+...-..+    ..++..+..+|.+.|++++|+..|+++..    .+.    ...+..++..+...|++++|..
T Consensus       137 ~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~  216 (307)
T 2ifu_A          137 LYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQK  216 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            99988754211111    46788899999999999999999998866    122    2366677778888899999999


Q ss_pred             HHHHHHHhCCCCchh-----HHHHHHHHHhcCChHHHHH
Q 005329          602 TAEKILELHPSCAGT-----HITLANIYAAKGRWREAAE  635 (702)
Q Consensus       602 ~~~~~~~~~p~~~~~-----~~~l~~~~~~~g~~~~A~~  635 (702)
                      .+++++ +.|.....     ...++..+ ..|+.+++.+
T Consensus       217 ~~~~al-~~p~~~~~~e~~~l~~l~~~~-~~~d~~~~~~  253 (307)
T 2ifu_A          217 CVRESY-SIPGFSGSEDCAALEDLLQAY-DEQDEEQLLR  253 (307)
T ss_dssp             HHHHHT-TSTTSTTSHHHHHHHHHHHHH-HTTCHHHHHH
T ss_pred             HHHHHh-CCCCCCCCHHHHHHHHHHHHH-HhcCHHHHHH
Confidence            999999 98876543     34455555 5677766655

>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=98.88  E-value=1.3e-08  Score=100.06  Aligned_cols=197  Identities=9%  Similarity=-0.013  Sum_probs=151.5

Q ss_pred             ccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCHHHHHHHHHHHHHcCChHHHHHHHHH
Q 005329          423 NMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEK  502 (702)
Q Consensus       423 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  502 (702)
                      ..|++++|.+++++..+.... +         .+...+++++|...|.+           ....|...|++++|...|.+
T Consensus         3 ~~~~~~eA~~~~~~a~k~~~~-~---------~~~~~~~~~~A~~~~~~-----------a~~~~~~~g~~~~A~~~~~~   61 (307)
T 2ifu_A            3 AAQKISEAHEHIAKAEKYLKT-S---------FMKWKPDYDSAASEYAK-----------AAVAFKNAKQLEQAKDAYLQ   61 (307)
T ss_dssp             CHHHHHHHHHHHHHHHHHHCC-C---------SSSCSCCHHHHHHHHHH-----------HHHHHHHTTCHHHHHHHHHH
T ss_pred             ccchHHHHHHHHHHHHHHccc-c---------ccCCCCCHHHHHHHHHH-----------HHHHHHHcCCHHHHHHHHHH
Confidence            357888999988887764321 1         01115788888887664           46778899999999999988


Q ss_pred             chhC----CCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCC--CC--hhhHHHHHHHHHhcCCHHHHHHHHHh
Q 005329          503 VPMV----GLRPD-SVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFV--PS--KEHYGCMIDLLCRAGRLSDAENMIEN  573 (702)
Q Consensus       503 m~~~----g~~p~-~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~--p~--~~~~~~l~~~~~~~g~~~~A~~~~~~  573 (702)
                      ..+.    +-.+. ..+|..+...|...|++++|++.|++..+.+.-.  |.  ..++..+..+|.. |++++|+..|++
T Consensus        62 al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~  140 (307)
T 2ifu_A           62 EAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQ  140 (307)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHH
Confidence            7642    21111 2478888889999999999999999876542111  11  4677888999988 999999999998


Q ss_pred             CCC--C--C----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCc------hhHHHHHHHHHhcCChHHHHHHHHH
Q 005329          574 MPH--Q--K----DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCA------GTHITLANIYAAKGRWREAAEVRKM  639 (702)
Q Consensus       574 ~~~--~--p----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~------~~~~~l~~~~~~~g~~~~A~~~~~~  639 (702)
                      ...  +  .    ...++..++..+...|++++|+..+++++++.|.+.      ..+..++.++...|++++|...+++
T Consensus       141 Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~  220 (307)
T 2ifu_A          141 AAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRE  220 (307)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            765  1  1    146788899999999999999999999999876543      3677888899999999999999999


Q ss_pred             HH
Q 005329          640 MR  641 (702)
Q Consensus       640 ~~  641 (702)
                      ..
T Consensus       221 al  222 (307)
T 2ifu_A          221 SY  222 (307)
T ss_dssp             HT
T ss_pred             Hh
Confidence            87

>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=98.86  E-value=4.2e-08  Score=87.36  Aligned_cols=153  Identities=16%  Similarity=0.127  Sum_probs=119.2

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CCCHHHHHHHHHH-H
Q 005329          514 TFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH-QKDDVVWSTLLRA-C  590 (702)
Q Consensus       514 ~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~~~~~~~l~~~-~  590 (702)
                      .+......+...|++++|...|+++.+.   .|+ ...+..+..++.+.|++++|...++++.. .|+...+..+... +
T Consensus         8 ~~~~~a~~~~~~g~~~~A~~~~~~al~~---~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~   84 (176)
T 2r5s_A            8 QLLKQVSELLQQGEHAQALNVIQTLSDE---LQSRGDVKLAKADCLLETKQFELAQELLATIPLEYQDNSYKSLIAKLEL   84 (176)
T ss_dssp             THHHHHHHHHHTTCHHHHHHHHHTSCHH---HHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGGCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHH---CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhccCChHHHHHHHHHHH
Confidence            3455667788999999999999998754   565 78889999999999999999999999987 4544433333222 2


Q ss_pred             HhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhCCCccCCeeeEEEECCEEEEEEcCCCCC
Q 005329          591 MVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKGVIKEPGWSRIKVKDQVSAFVSSDRRH  670 (702)
Q Consensus       591 ~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  670 (702)
                      ...++...|+..++++++.+|+++..+..++.++...|++++|...++++.+..+.                        
T Consensus        85 ~~~~~~~~a~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~------------------------  140 (176)
T 2r5s_A           85 HQQAAESPELKRLEQELAANPDNFELACELAVQYNQVGRDEEALELLWNILKVNLG------------------------  140 (176)
T ss_dssp             HHHHTSCHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTT------------------------
T ss_pred             HhhcccchHHHHHHHHHHhCCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcc------------------------
Confidence            23334446899999999999999999999999999999999999999999875431                        


Q ss_pred             CChhHHHHHHHHHHHHhcCCCCC
Q 005329          671 SQGEDIYRMLDLLASRESDIDDL  693 (702)
Q Consensus       671 p~~~~~~~~l~~l~~~~~~~~~~  693 (702)
                      +.....+..+..+....|+..++
T Consensus       141 ~~~~~a~~~l~~~~~~~g~~~~A  163 (176)
T 2r5s_A          141 AQDGEVKKTFMDILSALGQGNAI  163 (176)
T ss_dssp             TTTTHHHHHHHHHHHHHCSSCHH
T ss_pred             cChHHHHHHHHHHHHHhCCCCcH
Confidence            12245677788888877776443

>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=98.86  E-value=3.4e-08  Score=106.43  Aligned_cols=150  Identities=11%  Similarity=0.013  Sum_probs=94.1

Q ss_pred             CChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHH
Q 005329          491 GYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAEN  569 (702)
Q Consensus       491 g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~  569 (702)
                      |++++|++.|++..+.. +.+...+..+...+...|++++|.+.|++..+   ..|+ ...+..+..+|...|++++|..
T Consensus         3 g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~~~lg~~~~~~g~~~~A~~   78 (568)
T 2vsy_A            3 ADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLA---LHPGHPEAVARLGRVRWTQQRHAEAAV   78 (568)
T ss_dssp             -------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHT---TSTTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            56677777777766532 22355667777777777777777777777763   3554 6667777777777777777777


Q ss_pred             HHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhc---CChHHHHHHHHHHHhCC
Q 005329          570 MIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAK---GRWREAAEVRKMMRSKG  644 (702)
Q Consensus       570 ~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~---g~~~~A~~~~~~~~~~~  644 (702)
                      .+++...  +.+...+..++..+...|++++|.+.++++++.+|+++..+..++.++...   |++++|.+.++++.+.+
T Consensus        79 ~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~~  158 (568)
T 2vsy_A           79 LLQQASDAAPEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQG  158 (568)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHT
T ss_pred             HHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhcC
Confidence            7777655  334567777777777777777777777777777777777777777777777   77777777777765543

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.84  E-value=1e-07  Score=93.02  Aligned_cols=164  Identities=7%  Similarity=-0.100  Sum_probs=124.6

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHchhCCCCCC-H----HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC----hh
Q 005329          479 SWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPD-S----VTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS----KE  549 (702)
Q Consensus       479 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~----~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~----~~  549 (702)
                      .+...+..+...|++++|.+.+++..+.....+ .    ..+..+...+...|++++|.+.+++..+...-..+    ..
T Consensus        77 ~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~  156 (293)
T 2qfc_A           77 QFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLY  156 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHH
Confidence            444566778889999999999988776432211 1    12334555667888999999999988643111112    44


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHhCCC----CCC-----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCC------Cc
Q 005329          550 HYGCMIDLLCRAGRLSDAENMIENMPH----QKD-----DVVWSTLLRACMVQGDVNCGRHTAEKILELHPS------CA  614 (702)
Q Consensus       550 ~~~~l~~~~~~~g~~~~A~~~~~~~~~----~p~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~------~~  614 (702)
                      +++.++..|...|++++|...++++..    .|+     ..++..++..|...|++++|+..+++++++.++      -.
T Consensus       157 ~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~  236 (293)
T 2qfc_A          157 IENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIG  236 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHH
Confidence            788899999999999999999988763    222     258889999999999999999999999987532      16


Q ss_pred             hhHHHHHHHHHhcCChHHH-HHHHHHHHh
Q 005329          615 GTHITLANIYAAKGRWREA-AEVRKMMRS  642 (702)
Q Consensus       615 ~~~~~l~~~~~~~g~~~~A-~~~~~~~~~  642 (702)
                      .+|..++.+|.+.|++++| ..+++++..
T Consensus       237 ~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~  265 (293)
T 2qfc_A          237 QLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCcHHHHHHHHHHHHH
Confidence            7889999999999999999 777887754

>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=98.82  E-value=4.6e-08  Score=81.49  Aligned_cols=119  Identities=15%  Similarity=0.050  Sum_probs=97.0

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHH
Q 005329          548 KEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYA  625 (702)
Q Consensus       548 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  625 (702)
                      ...+..++..+.+.|++++|...|++...  +.+...|..++.++...|++++|+..++++++++|+++..+..++.++.
T Consensus         4 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~   83 (126)
T 3upv_A            4 AEEARLEGKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQI   83 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHH
Confidence            34566778888889999999999888776  4467888999999999999999999999999999999999999999999


Q ss_pred             hcCChHHHHHHHHHHHhCCCccCCeeeEEEECCEEEEEEcCCCCCCChhHHHHHHHHHHHH
Q 005329          626 AKGRWREAAEVRKMMRSKGVIKEPGWSRIKVKDQVSAFVSSDRRHSQGEDIYRMLDLLASR  686 (702)
Q Consensus       626 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~l~~l~~~  686 (702)
                      ..|++++|...++++.+..+..                    ...|...++...+..+..+
T Consensus        84 ~~~~~~~A~~~~~~al~~~p~~--------------------~~~p~~~~~~~~l~~~~~~  124 (126)
T 3upv_A           84 AVKEYASALETLDAARTKDAEV--------------------NNGSSAREIDQLYYKASQQ  124 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHH--------------------HTTTTHHHHHHHHHHHHHH
T ss_pred             HHhCHHHHHHHHHHHHHhCccc--------------------CCchhHHHHHHHHHHHHHh
Confidence            9999999999999987743110                    1236777777777776554

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.81  E-value=1.9e-08  Score=85.87  Aligned_cols=101  Identities=13%  Similarity=-0.014  Sum_probs=85.3

Q ss_pred             CCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHH
Q 005329          543 GFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHIT  619 (702)
Q Consensus       543 ~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~  619 (702)
                      .+.|+ ...+..+...+.+.|++++|...|+++..  +.+...|..++.++...|++++|+..++++++++|+++..+..
T Consensus        12 ~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~   91 (142)
T 2xcb_A           12 GLSEDTLEQLYALGFNQYQAGKWDDAQKIFQALCMLDHYDARYFLGLGACRQSLGLYEQALQSYSYGALMDINEPRFPFH   91 (142)
T ss_dssp             TCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHH
Confidence            34454 55666777888888999999998888766  4467788888999999999999999999999999999999999


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhC
Q 005329          620 LANIYAAKGRWREAAEVRKMMRSK  643 (702)
Q Consensus       620 l~~~~~~~g~~~~A~~~~~~~~~~  643 (702)
                      ++.+|...|++++|...++++.+.
T Consensus        92 lg~~~~~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           92 AAECHLQLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHh
Confidence            999999999999999999988764

>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=98.78  E-value=9.2e-08  Score=84.03  Aligned_cols=126  Identities=11%  Similarity=0.057  Sum_probs=102.8

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCC-ChhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHH
Q 005329          514 TFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVP-SKEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRAC  590 (702)
Q Consensus       514 ~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~  590 (702)
                      .+..+...+...|++++|...|+...+.   .| +...+..++.++...|++++|...+++...  +.+...|..++..+
T Consensus        15 ~~~~~a~~~~~~~~~~~A~~~~~~al~~---~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~   91 (166)
T 1a17_A           15 ELKTQANDYFKAKDYENAIKFYSQAIEL---NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASN   91 (166)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH---STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHh---CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHH
Confidence            4556666777788888888888887754   34 477778888888888888888888888766  34677888999999


Q ss_pred             HhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHH--HHhcCChHHHHHHHHHHHh
Q 005329          591 MVQGDVNCGRHTAEKILELHPSCAGTHITLANI--YAAKGRWREAAEVRKMMRS  642 (702)
Q Consensus       591 ~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~--~~~~g~~~~A~~~~~~~~~  642 (702)
                      ...|++++|...++++++.+|.+...+..+..+  +...|++++|...+++...
T Consensus        92 ~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  145 (166)
T 1a17_A           92 MALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHKRS  145 (166)
T ss_dssp             HHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHcccchHH
Confidence            999999999999999999999999888555554  8889999999999887654

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.78  E-value=6.4e-06  Score=86.03  Aligned_cols=366  Identities=9%  Similarity=-0.003  Sum_probs=201.6

Q ss_pred             CC-ChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhhhCCC-hHHHH
Q 005329          187 AG-HNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGK-LDYSL  264 (702)
Q Consensus       187 ~~-~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~-~~~A~  264 (702)
                      .| +.+.|..+|+.+...  -|.              ++.+.+..+|+..+..  .|+...|...+....+.++ .+...
T Consensus         7 ~~~~i~~aR~vyer~l~~--~P~--------------~~~e~~~~iferal~~--~ps~~LW~~Y~~f~~~~~~~~~~i~   68 (493)
T 2uy1_A            7 MGVELSSPSAIMEHARRL--YMS--------------KDYRSLESLFGRCLKK--SYNLDLWMLYIEYVRKVSQKKFKLY   68 (493)
T ss_dssp             -----CCHHHHHHHHHHH--HHT--------------TCHHHHHHHHHHHSTT--CCCHHHHHHHHHHHHHHC----CTH
T ss_pred             cCcchHHHHHHHHHHHHH--CCC--------------CCHHHHHHHHHHHhcc--CCCHHHHHHHHHHHHHhCchHHHHH
Confidence            45 377777777777653  222              8899999999988885  5688888888877766653 34455


Q ss_pred             HHHhccC------CCCcchHHHHHHHHH----hcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHH---ccCchHHHHH
Q 005329          265 RLFERMS------TRDVISWTTIITSYV----QMGEEENAFDAFVRMQESDVKPNEYTFAAIISASA---NLARIQWGEQ  331 (702)
Q Consensus       265 ~~~~~~~------~~~~~~~~~li~~~~----~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~---~~~~~~~a~~  331 (702)
                      .+|+...      ..+...|...+.-+.    .+++.+.+..+|++....  ++.  .+..+-..|.   ...+...+..
T Consensus        69 ~~fe~al~~vg~d~~s~~iW~~Yi~f~~~~~~~~~~~~~vR~iy~rAL~~--P~~--~~~~lw~~Y~~fE~~~~~~~~~~  144 (493)
T 2uy1_A           69 EVYEFTLGQFENYWDSYGLYKEYIEEEGKIEDEQTRIEKIRNGYMRALQT--PMG--SLSELWKDFENFELELNKITGKK  144 (493)
T ss_dssp             HHHHHHHHHSTTCTTCHHHHHHHHHHTSSCSSHHHHHHHHHHHHHHHHTS--CCT--THHHHHHHHHHHHHHHCHHHHHH
T ss_pred             HHHHHHHHHcCCCcccHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHHhC--hhh--hHHHHHHHHHHHHHHhccccHHH
Confidence            5565432      124566666666543    235677788888888763  221  1122222221   1111222222


Q ss_pred             HHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHhcCC----CCChhhHHHHHHHHHcCC--C-----hHHHHHHHH
Q 005329          332 LHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMI----RRDIISWSTIIGGYSQGG--Y-----EEEAFEYLA  400 (702)
Q Consensus       332 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~----~~~~~~~~~li~~~~~~g--~-----~~~a~~~~~  400 (702)
                      +.....                     +.+..|..+++.+.    ..+...|...+.--...+  -     .+.+..+|+
T Consensus       145 ~~~~~~---------------------~~y~~ar~~y~~~~~~~~~~s~~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~ye  203 (493)
T 2uy1_A          145 IVGDTL---------------------PIFQSSFQRYQQIQPLIRGWSVKNAARLIDLEMENGMKLGGRPHESRMHFIHN  203 (493)
T ss_dssp             HHHHHH---------------------HHHHHHHHHHHHHHHHHHTCSHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHH
T ss_pred             HHHHHh---------------------HHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhcCCccCcchhhHHHHHHHHH
Confidence            222211                     11122222222111    112334544444322211  0     345667777


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHH-HHHHhhCC------
Q 005329          401 LMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEA-SQIFYETE------  473 (702)
Q Consensus       401 ~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A-~~~~~~~~------  473 (702)
                      ++.... +.+...|...+.-+.+.|+.+.|..+++.....  +.+...+..    |....+.++. ..+.+...      
T Consensus       204 ~al~~~-p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l~~~----y~~~~e~~~~~~~l~~~~~~~~~~~  276 (493)
T 2uy1_A          204 YILDSF-YYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFLSLY----YGLVMDEEAVYGDLKRKYSMGEAES  276 (493)
T ss_dssp             HHHHHT-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHHH----HHHHTTCTHHHHHHHHHTC------
T ss_pred             HHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHHHHH----HHhhcchhHHHHHHHHHHHhhccch
Confidence            777643 334555666666667778888888888888877  333333322    2221111111 11111110      


Q ss_pred             ------CCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhc-cCcHHHHHHHHHHhHHhhCCCC
Q 005329          474 ------SDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSH-AGLVDLGFHYFNLMSDKYGFVP  546 (702)
Q Consensus       474 ------~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~-~g~~~~A~~~~~~~~~~~~~~p  546 (702)
                            ......|...+....+.++.+.|..+|++. .. .+.+...|......-.. .++.+.|..+|+...+.++-  
T Consensus       277 ~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~-~~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~~~--  352 (493)
T 2uy1_A          277 AEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GN-EGVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKHPD--  352 (493)
T ss_dssp             ----CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TT-SCCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHCTT--
T ss_pred             hhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hC-CCCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCCC--
Confidence                  001245666666666777888888888888 22 11233344322211112 33688888888888776322  


Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 005329          547 SKEHYGCMIDLLCRAGRLSDAENMIENMPHQKDDVVWSTLLRACMVQGDVNCGRHTAEKILE  608 (702)
Q Consensus       547 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  608 (702)
                      ++..+...++...+.|+.+.|..+|+++..  ....|...+..-...|+.+.+..+++++.+
T Consensus       353 ~~~~~~~yid~e~~~~~~~~aR~l~er~~k--~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          353 STLLKEEFFLFLLRIGDEENARALFKRLEK--TSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHSCC--BHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--HHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            244556667777788888888888888843  567787777777788888888888888875

>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=98.77  E-value=3.1e-08  Score=88.40  Aligned_cols=120  Identities=10%  Similarity=0.075  Sum_probs=96.3

Q ss_pred             HhccCcHHHHHHHHHHhHHhhCCCC-ChhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHH-HHhcCCH-
Q 005329          522 CSHAGLVDLGFHYFNLMSDKYGFVP-SKEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRA-CMVQGDV-  596 (702)
Q Consensus       522 ~~~~g~~~~A~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~-~~~~g~~-  596 (702)
                      +...|++++|...++...+.   .| +...+..++.+|...|++++|...|+++..  +.+...+..++.. +...|++ 
T Consensus        20 ~~~~~~~~~A~~~~~~al~~---~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~l~~~~~~~~   96 (177)
T 2e2e_A           20 FASQQNPEAQLQALQDKIRA---NPQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRGENAELYAALATVLYYQASQHM   96 (177)
T ss_dssp             CC-----CCCCHHHHHHHHH---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCC
T ss_pred             hhhccCHHHHHHHHHHHHHh---CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCCcc
Confidence            34567888888888887754   34 467888888888889999999998888776  4467788888888 7788888 


Q ss_pred             -HHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 005329          597 -NCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKG  644 (702)
Q Consensus       597 -~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  644 (702)
                       ++|+..++++++.+|+++..+..++.+|...|++++|...++++.+..
T Consensus        97 ~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  145 (177)
T 2e2e_A           97 TAQTRAMIDKALALDSNEITALMLLASDAFMQANYAQAIELWQKVMDLN  145 (177)
T ss_dssp             CHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC
T ss_pred             hHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhC
Confidence             999999999999999999999999999999999999999999988754

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.77  E-value=1.8e-07  Score=87.09  Aligned_cols=184  Identities=11%  Similarity=-0.079  Sum_probs=133.4

Q ss_pred             HHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCC--hhHHHHHHHHHHhcCCHHHHHHHHhhCCC--C-CH---HHHHHH
Q 005329          412 FAFASVLSVCGNMAILEQGKQIHAHVMSIGLERT--AMIKSALINMYSKCGSIKEASQIFYETES--D-DI---VSWTAM  483 (702)
Q Consensus       412 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~~---~~~~~l  483 (702)
                      ..+......+...|++++|...++.+.+......  ...+..+..+|.+.|++++|...|+++.+  | +.   ..+..+
T Consensus         5 ~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~~   84 (225)
T 2yhc_A            5 NEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYMR   84 (225)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHHH
Confidence            3445566778889999999999999998754322  35677789999999999999999998762  3 22   245556


Q ss_pred             HHHHHH------------------cCChHHHHHHHHHchhCCCCCCHH-HHHHHHHHHhccCcHHHHHHHHHHhHHhhCC
Q 005329          484 INGYAE------------------HGYSQEAIHLFEKVPMVGLRPDSV-TFMGVLTACSHAGLVDLGFHYFNLMSDKYGF  544 (702)
Q Consensus       484 i~~~~~------------------~g~~~~A~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~  544 (702)
                      ..++..                  .|++++|+..|+++++.  .|+.. .......          ...+...+.     
T Consensus        85 g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~P~~~~a~~a~~~----------l~~~~~~~~-----  147 (225)
T 2yhc_A           85 GLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRG--YPNSQYTTDATKR----------LVFLKDRLA-----  147 (225)
T ss_dssp             HHHHHHHHC--------------CCHHHHHHHHHHHHHHTT--CTTCTTHHHHHHH----------HHHHHHHHH-----
T ss_pred             HHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHH--CcCChhHHHHHHH----------HHHHHHHHH-----
Confidence            666654                  57899999999999975  45543 2222111          011111111     


Q ss_pred             CCChhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CCCH----HHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchh
Q 005329          545 VPSKEHYGCMIDLLCRAGRLSDAENMIENMPH-QKDD----VVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGT  616 (702)
Q Consensus       545 ~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~  616 (702)
                          .....++..|.+.|++++|...|+++.. .|+.    ..+..++.++.+.|+.++|++.++.+....|++...
T Consensus       148 ----~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~~~~~~  220 (225)
T 2yhc_A          148 ----KYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSSNTLEH  220 (225)
T ss_dssp             ----HHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCSCCCCC
T ss_pred             ----HHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCchhh
Confidence                1223567889999999999999999876 4442    568889999999999999999999999999977654

>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=98.74  E-value=7.3e-08  Score=95.78  Aligned_cols=127  Identities=13%  Similarity=0.009  Sum_probs=102.1

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC----------------hhhHHHHHHHHHhcCCHHHHHHHHHhCCC
Q 005329          513 VTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS----------------KEHYGCMIDLLCRAGRLSDAENMIENMPH  576 (702)
Q Consensus       513 ~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~----------------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  576 (702)
                      ..+..+...+...|++++|+..|+++.+.   .|+                ...|..+..+|.+.|++++|+..++++..
T Consensus       148 ~~~~~~g~~~~~~g~~~~A~~~y~~Al~~---~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~  224 (336)
T 1p5q_A          148 TIVKERGTVYFKEGKYKQALLQYKKIVSW---LEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALE  224 (336)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHH---TTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHH---hhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            34455555555566666666666655533   233                36788899999999999999999998877


Q ss_pred             --CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHH-HHHHHHHHh
Q 005329          577 --QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREA-AEVRKMMRS  642 (702)
Q Consensus       577 --~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A-~~~~~~~~~  642 (702)
                        +.+...|..++.++...|++++|+..|+++++++|++...+..++.++...|++++| ...+++|.+
T Consensus       225 ~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~~~  293 (336)
T 1p5q_A          225 LDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRIRRQLAREKKLYANMFE  293 (336)
T ss_dssp             HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence              446789999999999999999999999999999999999999999999999999999 456666643

>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=98.74  E-value=2.3e-07  Score=85.54  Aligned_cols=123  Identities=11%  Similarity=0.035  Sum_probs=68.4

Q ss_pred             HHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcC
Q 005329          517 GVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQG  594 (702)
Q Consensus       517 ~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g  594 (702)
                      .+...+...|++++|.+.|+++.     .|+...+..++.+|.+.|++++|...+++...  +.+...|..++..+...|
T Consensus        11 ~~g~~~~~~~~~~~A~~~~~~a~-----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~lg~~~~~~~   85 (213)
T 1hh8_A           11 NEGVLAADKKDWKGALDAFSAVQ-----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYYQTE   85 (213)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHTSS-----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHc-----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcc
Confidence            34444555556666665555442     34455555555555566666666655555544  234445555555555666


Q ss_pred             CHHHHHHHHHHHHHhCCCCc----------------hhHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 005329          595 DVNCGRHTAEKILELHPSCA----------------GTHITLANIYAAKGRWREAAEVRKMMRSKG  644 (702)
Q Consensus       595 ~~~~A~~~~~~~~~~~p~~~----------------~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  644 (702)
                      ++++|++.++++++..|.+.                ..+..++.+|...|++++|...++++.+..
T Consensus        86 ~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  151 (213)
T 1hh8_A           86 KYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMK  151 (213)
T ss_dssp             CHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             cHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcC
Confidence            66666666666665555544                555556666666666666666655555543

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.74  E-value=8.3e-08  Score=80.63  Aligned_cols=115  Identities=12%  Similarity=0.025  Sum_probs=86.7

Q ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCC-ChhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHH
Q 005329          512 SVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVP-SKEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLR  588 (702)
Q Consensus       512 ~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~  588 (702)
                      ...+..+...+...|++++|.+.|+++.+   ..| +...+..++.++...|++++|...++++..  +.+...+..++.
T Consensus        16 ~~~~~~~~~~~~~~~~~~~A~~~~~~al~---~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~   92 (133)
T 2lni_A           16 ALMVKNKGNECFQKGDYPQAMKHYTEAIK---RNPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKAA   92 (133)
T ss_dssp             HHHHHHHHHHHHHTTCSHHHHHHHHHHHT---TCTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHH---cCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHHH
Confidence            34566666677777777777777777653   344 366677777777777777777777777655  345677888888


Q ss_pred             HHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCC
Q 005329          589 ACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGR  629 (702)
Q Consensus       589 ~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  629 (702)
                      .+...|++++|...++++++.+|.+...+..++.++...|+
T Consensus        93 ~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~  133 (133)
T 2lni_A           93 ALEAMKDYTKAMDVYQKALDLDSSCKEAADGYQRCMMAQYN  133 (133)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCGGGTHHHHHHHHHHHHHTC
T ss_pred             HHHHHhhHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhcC
Confidence            88888999999999999999999888888888888887764

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.72  E-value=1.4e-07  Score=78.80  Aligned_cols=116  Identities=10%  Similarity=-0.016  Sum_probs=96.6

Q ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCC-ChhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHH
Q 005329          512 SVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVP-SKEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLR  588 (702)
Q Consensus       512 ~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~  588 (702)
                      ...+..+...+...|+++.|.+.|+++...   .| +...+..++.++...|++++|...+++...  +.+...+..++.
T Consensus        12 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~   88 (131)
T 2vyi_A           12 AERLKTEGNEQMKVENFEAAVHFYGKAIEL---NPANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPAYSKAYGRMGL   88 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHccCHHHHHHHHHHHHHc---CCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCccCHHHHHHHHH
Confidence            346667777778888888888888887754   34 467778888888888899998888888766  345778888999


Q ss_pred             HHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCCh
Q 005329          589 ACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRW  630 (702)
Q Consensus       589 ~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  630 (702)
                      .+...|++++|...++++++..|+++..+..++.++...|++
T Consensus        89 ~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           89 ALSSLNKHVEAVAYYKKALELDPDNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTTC
T ss_pred             HHHHhCCHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHhcC
Confidence            999999999999999999999999999999999999988875

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.72  E-value=7.3e-08  Score=78.06  Aligned_cols=98  Identities=12%  Similarity=0.061  Sum_probs=87.0

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCC--CchhHHHHHHH
Q 005329          548 KEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPS--CAGTHITLANI  623 (702)
Q Consensus       548 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~--~~~~~~~l~~~  623 (702)
                      ...+..++..+...|++++|...++++..  +.+...|..++..+...|++++|...++++++..|.  +...+..++.+
T Consensus         6 ~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~~~   85 (112)
T 2kck_A            6 PEEYYLEGVLQYDAGNYTESIDLFEKAIQLDPEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKADA   85 (112)
T ss_dssp             TTGGGGHHHHHHSSCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHHHH
Confidence            56677788888889999999998888766  446778889999999999999999999999999999  99999999999


Q ss_pred             HHhc-CChHHHHHHHHHHHhCCC
Q 005329          624 YAAK-GRWREAAEVRKMMRSKGV  645 (702)
Q Consensus       624 ~~~~-g~~~~A~~~~~~~~~~~~  645 (702)
                      +... |++++|.+.++++.+..+
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~~p  108 (112)
T 2kck_A           86 LRYIEGKEVEAEIAEARAKLEHH  108 (112)
T ss_dssp             HTTCSSCSHHHHHHHHHHGGGCC
T ss_pred             HHHHhCCHHHHHHHHHHHhhccc
Confidence            9999 999999999999987654

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.71  E-value=5.1e-08  Score=80.41  Aligned_cols=96  Identities=13%  Similarity=0.004  Sum_probs=85.8

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHh
Q 005329          549 EHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAA  626 (702)
Q Consensus       549 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~  626 (702)
                      ..+..++..+.+.|++++|...|+++..  +.+...|..++.++...|++++|+..++++++++|+++..+..++.+|..
T Consensus        18 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~~~   97 (121)
T 1hxi_A           18 ENPMEEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTN   97 (121)
T ss_dssp             SCHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            3456677888999999999999999877  44788999999999999999999999999999999999999999999999


Q ss_pred             cCChHHHHHHHHHHHhCC
Q 005329          627 KGRWREAAEVRKMMRSKG  644 (702)
Q Consensus       627 ~g~~~~A~~~~~~~~~~~  644 (702)
                      .|++++|+..++++.+..
T Consensus        98 ~g~~~~A~~~~~~al~~~  115 (121)
T 1hxi_A           98 EHNANAALASLRAWLLSQ  115 (121)
T ss_dssp             HHHHHHHHHHHHHHHC--
T ss_pred             cCCHHHHHHHHHHHHHhC
Confidence            999999999999988754

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.71  E-value=2e-07  Score=77.10  Aligned_cols=115  Identities=19%  Similarity=0.229  Sum_probs=90.4

Q ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHH
Q 005329          512 SVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRA  589 (702)
Q Consensus       512 ~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~  589 (702)
                      ...+..+...+...|++++|.++++++.+.  .+.+...+..++..+.+.|++++|..+++++..  +.+..++..++..
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~   86 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALEL--DPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNA   86 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHH
Confidence            345666777777788888888888877654  122466777788888888888888888887765  3466788888888


Q ss_pred             HHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcC
Q 005329          590 CMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKG  628 (702)
Q Consensus       590 ~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  628 (702)
                      +...|++++|...++++++.+|.++..+..++.++...|
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  125 (125)
T 1na0_A           87 YYKQGDYDEAIEYYQKALELDPNNAEAKQNLGNAKQKQG  125 (125)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHC
T ss_pred             HHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhcc
Confidence            999999999999999999999999999988888887654

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.71  E-value=1.8e-07  Score=78.49  Aligned_cols=96  Identities=13%  Similarity=0.046  Sum_probs=89.1

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHH
Q 005329          548 KEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYA  625 (702)
Q Consensus       548 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  625 (702)
                      ...+..++..+...|++++|...++++..  +.+...+..++..+...|++++|+..++++++.+|.++..+..++.+|.
T Consensus        16 ~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~   95 (133)
T 2lni_A           16 ALMVKNKGNECFQKGDYPQAMKHYTEAIKRNPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKAAALE   95 (133)
T ss_dssp             HHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHHHHHH
Confidence            67788899999999999999999999876  3467899999999999999999999999999999999999999999999


Q ss_pred             hcCChHHHHHHHHHHHhC
Q 005329          626 AKGRWREAAEVRKMMRSK  643 (702)
Q Consensus       626 ~~g~~~~A~~~~~~~~~~  643 (702)
                      ..|++++|...++++.+.
T Consensus        96 ~~~~~~~A~~~~~~~~~~  113 (133)
T 2lni_A           96 AMKDYTKAMDVYQKALDL  113 (133)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HHhhHHHHHHHHHHHHHh
Confidence            999999999999998764

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.71  E-value=3e-07  Score=86.37  Aligned_cols=182  Identities=10%  Similarity=-0.016  Sum_probs=135.3

Q ss_pred             hcCCHHHHHHHHhhCC---CCCHHHHHHH-------HHHHHHcCChHHHHHHHHHchhCCCCCCH---------------
Q 005329          458 KCGSIKEASQIFYETE---SDDIVSWTAM-------INGYAEHGYSQEAIHLFEKVPMVGLRPDS---------------  512 (702)
Q Consensus       458 ~~g~~~~A~~~~~~~~---~~~~~~~~~l-------i~~~~~~g~~~~A~~~~~~m~~~g~~p~~---------------  512 (702)
                      ..++...|.+.|.++.   +.....|..+       ..++...++..+++..+.+-..  +.|+.               
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 LPMSEARSLDLFTEITNYDESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQ--ISMSTLNARIAIGGLYGDIT   95 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTT--CCGGGGCCEEECCTTTCCCE
T ss_pred             cCCCHHHHHHHHHHHHHhChhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhc--CChhhhhhhhccCCcccccc
Confidence            4678888888888766   2355678777       5666666667777666666554  22222               


Q ss_pred             -------HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCCCCCH----H
Q 005329          513 -------VTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPHQKDD----V  581 (702)
Q Consensus       513 -------~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~----~  581 (702)
                             .....+...+...|++++|.+.|+.+..   ..|+......+...+.+.|++++|+..|+.....|+.    .
T Consensus        96 ~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~---~~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~d~~~~~~  172 (282)
T 4f3v_A           96 YPVTSPLAITMGFAACEAAQGNYADAMEALEAAPV---AGSEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWPDKFLAGA  172 (282)
T ss_dssp             EECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCC---TTCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCSCHHHHHH
T ss_pred             cccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHh---cCCchHHHHHHHHHHHHcCCHHHHHHHHHHhhccCCcccHHH
Confidence                   1233456667889999999999988864   3465336666777889999999999999877664433    3


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHhC--CC-CchhHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 005329          582 VWSTLLRACMVQGDVNCGRHTAEKILELH--PS-CAGTHITLANIYAAKGRWREAAEVRKMMRSKG  644 (702)
Q Consensus       582 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  644 (702)
                      .+..++.++...|++++|+..|+++....  |. .+.....++.++.+.|+.++|...|+++....
T Consensus       173 a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~  238 (282)
T 4f3v_A          173 AGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTH  238 (282)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            67788889999999999999999998543  44 45678899999999999999999999998754

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.71  E-value=2.6e-07  Score=77.14  Aligned_cols=117  Identities=10%  Similarity=0.059  Sum_probs=103.3

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHH
Q 005329          548 KEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYA  625 (702)
Q Consensus       548 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  625 (702)
                      ...+..++..+...|++++|...++++..  +.+...+..++..+...|++++|...++++++..|+++..+..++.++.
T Consensus        12 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (131)
T 2vyi_A           12 AERLKTEGNEQMKVENFEAAVHFYGKAIELNPANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPAYSKAYGRMGLALS   91 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHccCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCccCHHHHHHHHHHHH
Confidence            66778889999999999999999999876  4467889999999999999999999999999999999999999999999


Q ss_pred             hcCChHHHHHHHHHHHhCCCccCCeeeEEEECCEEEEEEcCCCCCCChhHHHHHHHHHHHHhcCC
Q 005329          626 AKGRWREAAEVRKMMRSKGVIKEPGWSRIKVKDQVSAFVSSDRRHSQGEDIYRMLDLLASRESDI  690 (702)
Q Consensus       626 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~l~~l~~~~~~~  690 (702)
                      ..|++++|...++++.+.                          .|.....+..+..+....++.
T Consensus        92 ~~~~~~~A~~~~~~~~~~--------------------------~p~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           92 SLNKHVEAVAYYKKALEL--------------------------DPDNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HTTCHHHHHHHHHHHHHH--------------------------STTCHHHHHHHHHHHHHHTTC
T ss_pred             HhCCHHHHHHHHHHHHhc--------------------------CccchHHHHHHHHHHHHHhcC
Confidence            999999999999998764                          355667778888887777664

>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=98.69  E-value=5.8e-08  Score=93.82  Aligned_cols=191  Identities=13%  Similarity=0.003  Sum_probs=134.3

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHH
Q 005329          446 AMIKSALINMYSKCGSIKEASQIFYETE---SDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTAC  522 (702)
Q Consensus       446 ~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~  522 (702)
                      ...+..+...+.+.|++++|...|++..   ..+...|..+..+|...|++++|+..+++..+.. +.+...+..+..++
T Consensus         4 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~   82 (281)
T 2c2l_A            4 AQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQCQ   82 (281)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            3455667777888888888888888765   3477888899999999999999999999988742 33556888888999


Q ss_pred             hccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 005329          523 SHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPHQKDDVVWSTLLRACMVQGDVNCGRH  601 (702)
Q Consensus       523 ~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~  601 (702)
                      ...|++++|...|+++.+.   .|+ ...+...+....+..+...... ......+++......+...  ..|++++|++
T Consensus        83 ~~~g~~~~A~~~~~~al~l---~p~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~i~~~l~~l--~~~~~~~A~~  156 (281)
T 2c2l_A           83 LEMESYDEAIANLQRAYSL---AKEQRLNFGDDIPSALRIAKKKRWNS-IEERRIHQESELHSYLTRL--IAAERERELE  156 (281)
T ss_dssp             HHTTCHHHHHHHHHHHHHH---HHHTTCCCCSHHHHHHHHHHHHHHHH-HHHTCCCCCCHHHHHHHHH--HHHHHHHHHT
T ss_pred             HHcCCHHHHHHHHHHHHHh---CccchhhHHHHHHHHHHHHHHHHHHH-HHHHHHhhhHHHHHHHHHH--HHHHHHHHHH
Confidence            9999999999999988754   332 1112222222222221111111 2222333444444444332  3799999999


Q ss_pred             HHHHHHHhCCCCchhHHHHHHHHHhc-CChHHHHHHHHHHHhC
Q 005329          602 TAEKILELHPSCAGTHITLANIYAAK-GRWREAAEVRKMMRSK  643 (702)
Q Consensus       602 ~~~~~~~~~p~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~  643 (702)
                      .++++++.+|++......+...+.+. +++++|.++|+++.+.
T Consensus       157 ~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~~  199 (281)
T 2c2l_A          157 ECQRNHEGHEDDGHIRAQQACIEAKHDKYMADMDELFSQVDEK  199 (281)
T ss_dssp             TTSGGGTTTSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSCT
T ss_pred             HHHhhhccccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence            99999999998888888888888777 7899999999988763

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.68  E-value=3.1e-07  Score=75.91  Aligned_cols=96  Identities=23%  Similarity=0.281  Sum_probs=88.5

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHH
Q 005329          548 KEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYA  625 (702)
Q Consensus       548 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  625 (702)
                      ...+..++..+...|++++|...++++..  +.+..++..++..+...|++++|...++++++..|.++..+..++.+|.
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~   88 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYY   88 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHH
Confidence            56788889999999999999999999876  4467789999999999999999999999999999999999999999999


Q ss_pred             hcCChHHHHHHHHHHHhC
Q 005329          626 AKGRWREAAEVRKMMRSK  643 (702)
Q Consensus       626 ~~g~~~~A~~~~~~~~~~  643 (702)
                      ..|++++|..+++++.+.
T Consensus        89 ~~~~~~~A~~~~~~~~~~  106 (125)
T 1na0_A           89 KQGDYDEAIEYYQKALEL  106 (125)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHh
Confidence            999999999999998764

>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=98.68  E-value=7.4e-07  Score=81.91  Aligned_cols=160  Identities=9%  Similarity=-0.090  Sum_probs=122.2

Q ss_pred             ChhHHHHHHHHHHhcCCHHHHHHHHhhCCC-CCHHHHHHHHHHHHHcC----ChHHHHHHHHHchhCCCCCCHHHHHHHH
Q 005329          445 TAMIKSALINMYSKCGSIKEASQIFYETES-DDIVSWTAMINGYAEHG----YSQEAIHLFEKVPMVGLRPDSVTFMGVL  519 (702)
Q Consensus       445 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~~g----~~~~A~~~~~~m~~~g~~p~~~~~~~ll  519 (702)
                      ++..+..+...|...+++++|...|++..+ .++..+..|...|.. +    ++++|+++|++..+.|   +...+..|.
T Consensus        17 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~~g---~~~a~~~Lg   92 (212)
T 3rjv_A           17 DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQGDGDALALLAQLKIR-NPQQADYPQARQLAEKAVEAG---SKSGEIVLA   92 (212)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHHTT---CHHHHHHHH
T ss_pred             CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHCC---CHHHHHHHH
Confidence            344555566667777777777777776553 466677777777776 6    8889999998887654   456677777


Q ss_pred             HHHhc----cCcHHHHHHHHHHhHHhhCCCCC---hhhHHHHHHHHHh----cCCHHHHHHHHHhCCCC-CCHHHHHHHH
Q 005329          520 TACSH----AGLVDLGFHYFNLMSDKYGFVPS---KEHYGCMIDLLCR----AGRLSDAENMIENMPHQ-KDDVVWSTLL  587 (702)
Q Consensus       520 ~~~~~----~g~~~~A~~~~~~~~~~~~~~p~---~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~-p~~~~~~~l~  587 (702)
                      ..|..    .+++++|.++|++..+.   .|+   +..+..|..+|..    .+++++|..+|++.... ++...+..|.
T Consensus        93 ~~y~~g~g~~~d~~~A~~~~~~A~~~---~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~a~~~Lg  169 (212)
T 3rjv_A           93 RVLVNRQAGATDVAHAITLLQDAARD---SESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSLSRTGYAEYWAG  169 (212)
T ss_dssp             HHHTCGGGSSCCHHHHHHHHHHHTSS---TTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHTSCTTHHHHHHH
T ss_pred             HHHHcCCCCccCHHHHHHHHHHHHHc---CCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHcCCCHHHHHHHH
Confidence            77776    78999999999988743   443   6788888888888    78999999999998764 6777888888


Q ss_pred             HHHHhc-C-----CHHHHHHHHHHHHHhCC
Q 005329          588 RACMVQ-G-----DVNCGRHTAEKILELHP  611 (702)
Q Consensus       588 ~~~~~~-g-----~~~~A~~~~~~~~~~~p  611 (702)
                      ..|... |     +.++|...++++.+.+.
T Consensus       170 ~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          170 MMFQQGEKGFIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             HHHHHCBTTTBCCCHHHHHHHHHHHHHHTC
T ss_pred             HHHHcCCCCCCCCCHHHHHHHHHHHHHcCC
Confidence            887653 3     89999999999998865

>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=98.67  E-value=2.6e-07  Score=75.48  Aligned_cols=96  Identities=16%  Similarity=0.106  Sum_probs=72.2

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHH
Q 005329          548 KEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYA  625 (702)
Q Consensus       548 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  625 (702)
                      ...+..++..+...|++++|...+++...  +.+...+..++..+...|++++|...++++++.+|.++..+..++.++.
T Consensus         4 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~   83 (118)
T 1elw_A            4 VNELKEKGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALE   83 (118)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence            34556666777777777777777777655  3356677777777778888888888888888888888888888888888


Q ss_pred             hcCChHHHHHHHHHHHhC
Q 005329          626 AKGRWREAAEVRKMMRSK  643 (702)
Q Consensus       626 ~~g~~~~A~~~~~~~~~~  643 (702)
                      ..|++++|...+++..+.
T Consensus        84 ~~~~~~~A~~~~~~~~~~  101 (118)
T 1elw_A           84 FLNRFEEAKRTYEEGLKH  101 (118)
T ss_dssp             HTTCHHHHHHHHHHHHTT
T ss_pred             HHhhHHHHHHHHHHHHHc
Confidence            888888888888777653

>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=98.66  E-value=7.6e-08  Score=80.16  Aligned_cols=94  Identities=7%  Similarity=-0.029  Sum_probs=74.9

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCch-------hHHH
Q 005329          549 EHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAG-------THIT  619 (702)
Q Consensus       549 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~-------~~~~  619 (702)
                      ..+..++..+.+.|++++|+..|+++..  +.+...|..++.+|...|++++|++.++++++++|++..       +|..
T Consensus         9 ~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~   88 (127)
T 4gcn_A            9 IAEKDLGNAAYKQKDFEKAHVHYDKAIELDPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSR   88 (127)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHH
Confidence            4456677888888888888888888766  345678888888888888888888888888888876643       6777


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHh
Q 005329          620 LANIYAAKGRWREAAEVRKMMRS  642 (702)
Q Consensus       620 l~~~~~~~g~~~~A~~~~~~~~~  642 (702)
                      ++.++...|++++|++.+++..+
T Consensus        89 lg~~~~~~~~~~~A~~~~~kal~  111 (127)
T 4gcn_A           89 AGNAFQKQNDLSLAVQWFHRSLS  111 (127)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHh
Confidence            88888888899999988888765

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.65  E-value=1.8e-05  Score=76.17  Aligned_cols=227  Identities=11%  Similarity=0.035  Sum_probs=136.7

Q ss_pred             CCChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHcccC--cHHHHHHHHHHHHHhCCCCChhHHHHHHHHH----Hhc--
Q 005329          389 GGYEEEAFEYLALMRREGPRPNEF-AFASVLSVCGNMA--ILEQGKQIHAHVMSIGLERTAMIKSALINMY----SKC--  459 (702)
Q Consensus       389 ~g~~~~a~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~----~~~--  459 (702)
                      ....++|+++++.+..  +.|+.. .++.--..+...+  +++++...++.+.....+ +..+++.-...+    ...  
T Consensus        46 ~e~s~~aL~~t~~~L~--~nP~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk-~y~aW~~R~~iL~~~~~~l~~  122 (306)
T 3dra_A           46 EEYSERALHITELGIN--ELASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEK-NYQIWNYRQLIIGQIMELNNN  122 (306)
T ss_dssp             TCCSHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTT-CCHHHHHHHHHHHHHHHHTTT
T ss_pred             CCCCHHHHHHHHHHHH--HCcHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcc-cHHHHHHHHHHHHHHHHhccc
Confidence            3344567777776666  344433 3333334444455  666666666666655432 222332222222    233  


Q ss_pred             -CCHHHHHHHHhhCC---CCCHHHHHHHHHHHHHcCChH--HHHHHHHHchhCCCCCCHHHHHHHHHHHhccCc------
Q 005329          460 -GSIKEASQIFYETE---SDDIVSWTAMINGYAEHGYSQ--EAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGL------  527 (702)
Q Consensus       460 -g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~--~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~------  527 (702)
                       +++++++.+++++.   ..+..+|+--.-++.+.|+++  ++++.++++++.. +-|...|+.-...+...+.      
T Consensus       123 ~~~~~~EL~~~~~~l~~~pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d-~~N~sAW~~R~~ll~~l~~~~~~~~  201 (306)
T 3dra_A          123 DFDPYREFDILEAMLSSDPKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTD-LKNNSAWSHRFFLLFSKKHLATDNT  201 (306)
T ss_dssp             CCCTHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHSSGGGCCHHH
T ss_pred             cCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccchhhh
Confidence             56777777777665   346667766666667777777  7888888877653 3355566555555555554      


Q ss_pred             HHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHH-HHHHHHhCCC-----CCCHHHHHHHHHHHHhcCCHHHHH
Q 005329          528 VDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSD-AENMIENMPH-----QKDDVVWSTLLRACMVQGDVNCGR  600 (702)
Q Consensus       528 ~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~-A~~~~~~~~~-----~p~~~~~~~l~~~~~~~g~~~~A~  600 (702)
                      ++++++.++.+...   .|+ ...|+.+..++.+.|+..+ +..+.++...     ..+...+..++..+.+.|+.++|+
T Consensus       202 ~~eEl~~~~~aI~~---~p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~  278 (306)
T 3dra_A          202 IDEELNYVKDKIVK---CPQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESR  278 (306)
T ss_dssp             HHHHHHHHHHHHHH---CSSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHHh---CCCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHH
Confidence            77777777777654   443 6667777777777776433 4456665543     235667777777777777777788


Q ss_pred             HHHHHHHH-hCCCCchhHHHHHH
Q 005329          601 HTAEKILE-LHPSCAGTHITLAN  622 (702)
Q Consensus       601 ~~~~~~~~-~~p~~~~~~~~l~~  622 (702)
                      ++++.+.+ .+|.....|...+.
T Consensus       279 ~~~~~l~~~~Dpir~~yW~~~~~  301 (306)
T 3dra_A          279 TVYDLLKSKYNPIRSNFWDYQIS  301 (306)
T ss_dssp             HHHHHHHHTTCGGGHHHHHHHHH
T ss_pred             HHHHHHHhccChHHHHHHHHHHh
Confidence            88877776 67776666665543

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.64  E-value=2.7e-06  Score=82.02  Aligned_cols=211  Identities=11%  Similarity=0.079  Sum_probs=165.7

Q ss_pred             HHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcC--CHHHHHHHHhhCCC---CCHHHHHHHHHHH----HHc---CChH
Q 005329          427 LEQGKQIHAHVMSIGLERTAMIKSALINMYSKCG--SIKEASQIFYETES---DDIVSWTAMINGY----AEH---GYSQ  494 (702)
Q Consensus       427 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g--~~~~A~~~~~~~~~---~~~~~~~~li~~~----~~~---g~~~  494 (702)
                      .++|....+.++..+.. ....++.-...+...|  ++++++..++.+..   .+..+|+.-...+    ...   ++++
T Consensus        49 s~~aL~~t~~~L~~nP~-~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk~y~aW~~R~~iL~~~~~~l~~~~~~~  127 (306)
T 3dra_A           49 SERALHITELGINELAS-HYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEKNYQIWNYRQLIIGQIMELNNNDFDPY  127 (306)
T ss_dssp             SHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTTCCHHHHHHHHHHHHHHHHTTTCCCTH
T ss_pred             CHHHHHHHHHHHHHCcH-HHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcccHHHHHHHHHHHHHHHHhccccCCHH
Confidence            35777778887776533 4556676777777778  99999999998763   4556776655555    555   7899


Q ss_pred             HHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHH--HHHHHHHHhHHhhCCCC-ChhhHHHHHHHHHhcCC------HH
Q 005329          495 EAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVD--LGFHYFNLMSDKYGFVP-SKEHYGCMIDLLCRAGR------LS  565 (702)
Q Consensus       495 ~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~--~A~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~------~~  565 (702)
                      +++.+++++.+.. +-|...|+.-...+...|.++  +++++++.+.+.   .| |...|+.-..++.+.|.      ++
T Consensus       128 ~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~---d~~N~sAW~~R~~ll~~l~~~~~~~~~~  203 (306)
T 3dra_A          128 REFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDT---DLKNNSAWSHRFFLLFSKKHLATDNTID  203 (306)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHSSGGGCCHHHHH
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHhccccchhhhHH
Confidence            9999999999753 446778877777777788887  999999999865   44 46677766666767676      89


Q ss_pred             HHHHHHHhCCC--CCCHHHHHHHHHHHHhcCC-HHHHHHHHHHHHHhC---CCCchhHHHHHHHHHhcCChHHHHHHHHH
Q 005329          566 DAENMIENMPH--QKDDVVWSTLLRACMVQGD-VNCGRHTAEKILELH---PSCAGTHITLANIYAAKGRWREAAEVRKM  639 (702)
Q Consensus       566 ~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~-~~~A~~~~~~~~~~~---p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  639 (702)
                      +++++++++..  +.+...|+.+...+.+.|+ .+.+....+++++++   |.++..+..++.+|.+.|+.++|.++++.
T Consensus       204 eEl~~~~~aI~~~p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~~  283 (306)
T 3dra_A          204 EELNYVKDKIVKCPQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYDL  283 (306)
T ss_dssp             HHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHH
Confidence            99999988876  4578899999999888887 444667888888776   88999999999999999999999999999


Q ss_pred             HHh
Q 005329          640 MRS  642 (702)
Q Consensus       640 ~~~  642 (702)
                      +.+
T Consensus       284 l~~  286 (306)
T 3dra_A          284 LKS  286 (306)
T ss_dssp             HHH
T ss_pred             HHh
Confidence            875

>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=98.64  E-value=6.4e-08  Score=83.14  Aligned_cols=115  Identities=7%  Similarity=-0.070  Sum_probs=93.7

Q ss_pred             HHHchhCCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCC-ChhhHHHHHHHHHhcCCHHHHHHHHHhCCC-
Q 005329          500 FEKVPMVGLRPD-SVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVP-SKEHYGCMIDLLCRAGRLSDAENMIENMPH-  576 (702)
Q Consensus       500 ~~~m~~~g~~p~-~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-  576 (702)
                      |+++..  +.|+ ...+..+...+...|++++|...|+.+...   .| +...|..+..+|...|++++|+..|+++.. 
T Consensus        10 ~~~al~--~~p~~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l   84 (148)
T 2vgx_A           10 IAMLNE--ISSDTLEQLYSLAFNQYQSGXYEDAHXVFQALCVL---DHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVM   84 (148)
T ss_dssp             HHHHTT--CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHc--CCHhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHc---CcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            444443  3453 356777788888999999999999998754   55 477888899999999999999999999876 


Q ss_pred             -CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHH
Q 005329          577 -QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHIT  619 (702)
Q Consensus       577 -~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~  619 (702)
                       +.+...+..++.++...|++++|+..|++++++.|+++.....
T Consensus        85 ~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~  128 (148)
T 2vgx_A           85 DIXEPRFPFHAAECLLQXGELAEAESGLFLAQELIANXPEFXEL  128 (148)
T ss_dssp             STTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCGGGHHH
T ss_pred             CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCCcchHH
Confidence             4467788999999999999999999999999999988776443

>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=98.64  E-value=2e-08  Score=91.49  Aligned_cols=96  Identities=13%  Similarity=-0.013  Sum_probs=76.3

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHh
Q 005329          549 EHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAA  626 (702)
Q Consensus       549 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~  626 (702)
                      ..+..+..+|.+.|++++|+..++++..  +.+...+..++.++...|++++|+..++++++++|+++..+..++.++..
T Consensus        89 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~  168 (198)
T 2fbn_A           89 SCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSYELCVNK  168 (198)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHH
Confidence            5777888889999999999999988876  44677899999999999999999999999999999999999999999999


Q ss_pred             cCChHHHH-HHHHHHHhCC
Q 005329          627 KGRWREAA-EVRKMMRSKG  644 (702)
Q Consensus       627 ~g~~~~A~-~~~~~~~~~~  644 (702)
                      .|+.+++. ..+..+...+
T Consensus       169 ~~~~~~~~~~~~~~~f~~~  187 (198)
T 2fbn_A          169 LKEARKKDKLTFGGMFDKG  187 (198)
T ss_dssp             HHHHHC-------------
T ss_pred             HHHHHHHHHHHHHHHhccc
Confidence            99888877 5566555443

>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=98.63  E-value=2.6e-07  Score=78.09  Aligned_cols=98  Identities=12%  Similarity=0.029  Sum_probs=84.7

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHH
Q 005329          547 SKEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIY  624 (702)
Q Consensus       547 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~  624 (702)
                      +...+..++..+...|++++|...|++...  +.+...|..++..+...|++++|+..++++++.+|+++..+..++.+|
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~   87 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQCQ   87 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHHHHHHHHHHH
Confidence            467778888888888888888888888766  345778888999999999999999999999999999999999999999


Q ss_pred             HhcCChHHHHHHHHHHHhCC
Q 005329          625 AAKGRWREAAEVRKMMRSKG  644 (702)
Q Consensus       625 ~~~g~~~~A~~~~~~~~~~~  644 (702)
                      ...|++++|...++++.+..
T Consensus        88 ~~~~~~~~A~~~~~~a~~~~  107 (137)
T 3q49_B           88 LEMESYDEAIANLQRAYSLA  107 (137)
T ss_dssp             HHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHhhHHHHHHHHHHHHHHC
Confidence            99999999999999887643

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.62  E-value=2.2e-07  Score=81.49  Aligned_cols=108  Identities=14%  Similarity=0.036  Sum_probs=74.4

Q ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCC-ChhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHH
Q 005329          512 SVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVP-SKEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLR  588 (702)
Q Consensus       512 ~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~  588 (702)
                      ...+..+...+...|++++|++.|++..+.   .| +...|..+..+|.+.|++++|+..|+++..  +.+...|..++.
T Consensus        11 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~   87 (164)
T 3sz7_A           11 SDKLKSEGNAAMARKEYSKAIDLYTQALSI---APANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPKYSKAWSRLGL   87 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            345666667777777777777777777644   44 366677777777777777777777777665  334667777777


Q ss_pred             HHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHH
Q 005329          589 ACMVQGDVNCGRHTAEKILELHPSCAGTHITLAN  622 (702)
Q Consensus       589 ~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~  622 (702)
                      ++...|++++|+..++++++++|++...+...+.
T Consensus        88 ~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l  121 (164)
T 3sz7_A           88 ARFDMADYKGAKEAYEKGIEAEGNGGSDAMKRGL  121 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHSSSCCHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHhCCCchHHHHHHHH
Confidence            7777777777777777777777777765555443

>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=98.62  E-value=4e-06  Score=81.52  Aligned_cols=158  Identities=9%  Similarity=-0.083  Sum_probs=121.7

Q ss_pred             HHHHHHhcCCHHHHHHHHhhCCCC---CH------HHHHHHHHHHHHcCChHHHHHHHHHchhCCCC-CC----HHHHHH
Q 005329          452 LINMYSKCGSIKEASQIFYETESD---DI------VSWTAMINGYAEHGYSQEAIHLFEKVPMVGLR-PD----SVTFMG  517 (702)
Q Consensus       452 li~~~~~~g~~~~A~~~~~~~~~~---~~------~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~----~~~~~~  517 (702)
                      .+..+...|++++|...+++..+.   +.      ..+..+...+...|++++|+..|++..+.... ++    ..+++.
T Consensus        81 ~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~  160 (293)
T 3u3w_A           81 QVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENA  160 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHH
Confidence            466788899999999999876531   11      13345666777788999999999998874322 22    236888


Q ss_pred             HHHHHhccCcHHHHHHHHHHhHHhhC----CCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC-------CC-CHHHHH
Q 005329          518 VLTACSHAGLVDLGFHYFNLMSDKYG----FVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH-------QK-DDVVWS  584 (702)
Q Consensus       518 ll~~~~~~g~~~~A~~~~~~~~~~~~----~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-------~p-~~~~~~  584 (702)
                      +...|...|++++|.++|+++.+...    ..+. ..++..++.+|.+.|++++|..++++...       .+ -..+|.
T Consensus       161 lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~  240 (293)
T 3u3w_A          161 IANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYY  240 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHH
Confidence            99999999999999999999875321    1122 45788899999999999999999988765       11 256889


Q ss_pred             HHHHHHHhcCC-HHHHHHHHHHHHHh
Q 005329          585 TLLRACMVQGD-VNCGRHTAEKILEL  609 (702)
Q Consensus       585 ~l~~~~~~~g~-~~~A~~~~~~~~~~  609 (702)
                      .++.++...|+ +++|.+.+++++++
T Consensus       241 ~lg~~~~~~g~~~~~A~~~~~~Al~i  266 (293)
T 3u3w_A          241 QRGECLRKLEYEEAEIEDAYKKASFF  266 (293)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHHH
Confidence            99999999995 69999999999875

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.60  E-value=1.8e-07  Score=79.73  Aligned_cols=120  Identities=10%  Similarity=-0.050  Sum_probs=94.2

Q ss_pred             HHHHchhCCCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCC-ChhhHHHHHHHHHhcCCHHHHHHHHHhCCC
Q 005329          499 LFEKVPMVGLRPDS-VTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVP-SKEHYGCMIDLLCRAGRLSDAENMIENMPH  576 (702)
Q Consensus       499 ~~~~m~~~g~~p~~-~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  576 (702)
                      .|+++..  +.|+. ..+..+...+...|++++|...|+.+...   .| +...|..+..+|.+.|++++|...|+++..
T Consensus         6 ~l~~al~--~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~   80 (142)
T 2xcb_A            6 TLAMLRG--LSEDTLEQLYALGFNQYQAGKWDDAQKIFQALCML---DHYDARYFLGLGACRQSLGLYEQALQSYSYGAL   80 (142)
T ss_dssp             ---CCTT--CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hHHHHHc--CCHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHh---CCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            4444443  34433 45666777888899999999999998754   55 477888899999999999999999998876


Q ss_pred             --CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHH
Q 005329          577 --QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANI  623 (702)
Q Consensus       577 --~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~  623 (702)
                        +.+...+..++.++...|++++|+..+++++++.|+++........+
T Consensus        81 ~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~  129 (142)
T 2xcb_A           81 MDINEPRFPFHAAECHLQLGDLDGAESGFYSARALAAAQPAHEALAARA  129 (142)
T ss_dssp             HCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCGGGHHHHHHH
T ss_pred             cCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCcchHHHHHHH
Confidence              44667888999999999999999999999999999888776554433

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.59  E-value=3.3e-07  Score=78.55  Aligned_cols=104  Identities=6%  Similarity=-0.058  Sum_probs=85.8

Q ss_pred             CCCCH-HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHH
Q 005329          508 LRPDS-VTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVW  583 (702)
Q Consensus       508 ~~p~~-~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~  583 (702)
                      +.|+. ..+..+...+...|++++|...|+.+...   .|+ ...|..+..+|...|++++|+..|+++..  +.++..|
T Consensus        31 l~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~---~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~~~~~~  107 (151)
T 3gyz_A           31 IPDDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCIY---DFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKNDYTPV  107 (151)
T ss_dssp             SCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSSCCHHH
T ss_pred             CCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCCCcHHH
Confidence            34543 46777778888889999999999988754   565 77888889999999999999999988877  4457788


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHhCCCCc
Q 005329          584 STLLRACMVQGDVNCGRHTAEKILELHPSCA  614 (702)
Q Consensus       584 ~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~  614 (702)
                      ..++.++...|++++|+..|++++++.|+++
T Consensus       108 ~~lg~~~~~lg~~~eA~~~~~~al~l~~~~~  138 (151)
T 3gyz_A          108 FHTGQCQLRLKAPLKAKECFELVIQHSNDEK  138 (151)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCCCHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCCCHH
Confidence            8999999999999999999999999998653

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.58  E-value=6.3e-07  Score=76.79  Aligned_cols=95  Identities=14%  Similarity=0.023  Sum_probs=58.9

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHH
Q 005329          548 KEHYGCMIDLLCRAGRLSDAENMIENMPH-QKD----DVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLAN  622 (702)
Q Consensus       548 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~  622 (702)
                      ...+..+...+...|++++|...|++... .|+    ...|..+...+...|++++|+..++++++.+|+++..+..++.
T Consensus        28 ~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~  107 (148)
T 2dba_A           28 VEQLRKEGNELFKCGDYGGALAAYTQALGLDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALYRRSQ  107 (148)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHHHHHH
Confidence            44455555555566666666666655544 343    4555666666666666666666666666666666666666666


Q ss_pred             HHHhcCChHHHHHHHHHHHh
Q 005329          623 IYAAKGRWREAAEVRKMMRS  642 (702)
Q Consensus       623 ~~~~~g~~~~A~~~~~~~~~  642 (702)
                      +|...|++++|...+++..+
T Consensus       108 ~~~~~~~~~~A~~~~~~al~  127 (148)
T 2dba_A          108 ALEKLGRLDQAVLDLQRCVS  127 (148)
T ss_dssp             HHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHH
Confidence            66666666666666666654

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.57  E-value=1e-06  Score=80.19  Aligned_cols=153  Identities=14%  Similarity=-0.013  Sum_probs=90.5

Q ss_pred             HcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhh---CCCCC-hhhHHHHHHHHHhcCCH
Q 005329          489 EHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKY---GFVPS-KEHYGCMIDLLCRAGRL  564 (702)
Q Consensus       489 ~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~---~~~p~-~~~~~~l~~~~~~~g~~  564 (702)
                      ..|++++|.+.++.+... .......+..+...+...|++++|...+++..+..   +..|. ...+..+...+...|++
T Consensus         4 ~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~   82 (203)
T 3gw4_A            4 EAHDYALAERQAQALLAH-PATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNW   82 (203)
T ss_dssp             ---CHHHHHHHHHHHHTS-TTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             ccccHHHHHHHHHHhcCC-hHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCH
Confidence            345566666633333211 11223455556666666666666666666554421   11221 44566666677777777


Q ss_pred             HHHHHHHHhCCC----CC-C----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCC--CC----chhHHHHHHHHHhcCC
Q 005329          565 SDAENMIENMPH----QK-D----DVVWSTLLRACMVQGDVNCGRHTAEKILELHP--SC----AGTHITLANIYAAKGR  629 (702)
Q Consensus       565 ~~A~~~~~~~~~----~p-~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p--~~----~~~~~~l~~~~~~~g~  629 (702)
                      ++|...+++...    .+ +    ...+..++..+...|++++|...++++++..+  .+    ...+..++.++...|+
T Consensus        83 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~  162 (203)
T 3gw4_A           83 DAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKN  162 (203)
T ss_dssp             HHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcC
Confidence            777776666543    12 2    23566777777788888888888888876532  12    2235778888888888


Q ss_pred             hHHHHHHHHHHHh
Q 005329          630 WREAAEVRKMMRS  642 (702)
Q Consensus       630 ~~~A~~~~~~~~~  642 (702)
                      +++|...+++..+
T Consensus       163 ~~~A~~~~~~al~  175 (203)
T 3gw4_A          163 LLEAQQHWLRARD  175 (203)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            8888888877765

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.57  E-value=2.8e-05  Score=81.15  Aligned_cols=348  Identities=8%  Similarity=-0.030  Sum_probs=193.2

Q ss_pred             hhhHHHHHHccCChHHHHHHhhcCCC--CCcchHHHHHHHHHcCCC-hhHHHHHHHHhhhCCCC-CCCHHHHHHHHHHhh
Q 005329           44 VNSQLKHLVKSGYLHDARKMFDTMTQ--RDEISWTTLISGYVKAMD-SIEALALFSRVWVEPQM-NMDPFILSLALKACA  119 (702)
Q Consensus        44 ~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~ll~~~~~~~~-~~~a~~~~~~~~~~~~~-~~~~~~~~~ll~~~~  119 (702)
                      |..-+..+-. |+.+.+..+|++...  |++..|..-+.-..+.++ .+....+|+.....-|. +++...|...+..+.
T Consensus        18 yer~l~~~P~-~~~e~~~~iferal~~~ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~al~~vg~d~~s~~iW~~Yi~f~~   96 (493)
T 2uy1_A           18 MEHARRLYMS-KDYRSLESLFGRCLKKSYNLDLWMLYIEYVRKVSQKKFKLYEVYEFTLGQFENYWDSYGLYKEYIEEEG   96 (493)
T ss_dssp             HHHHHHHHHT-TCHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHC----CTHHHHHHHHHHSTTCTTCHHHHHHHHHHTS
T ss_pred             HHHHHHHCCC-CCHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHcCCCcccHHHHHHHHHHHH
Confidence            3333433332 789999999998765  677788887776666553 45566778877654343 346677888777654


Q ss_pred             c----cCCchhhhHHHHHHHHhcCCCchhHHHHHHHhhhc-------------CCChhHHHHHhccCC----CCCcchHH
Q 005329          120 L----NVNVNYGESLHGYTVKTGFVNSVFVGSALLDMYTK-------------LGKIELGCRVFDEMP----LRNVVSWT  178 (702)
Q Consensus       120 ~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~-------------~g~~~~A~~~~~~~~----~~~~~~~~  178 (702)
                      .    .++++.+..+|+.++......-...|......-..             .+.+..|..+++.+.    ..+...|.
T Consensus        97 ~~~~~~~~~~~vR~iy~rAL~~P~~~~~~lw~~Y~~fE~~~~~~~~~~~~~~~~~~y~~ar~~y~~~~~~~~~~s~~~W~  176 (493)
T 2uy1_A           97 KIEDEQTRIEKIRNGYMRALQTPMGSLSELWKDFENFELELNKITGKKIVGDTLPIFQSSFQRYQQIQPLIRGWSVKNAA  176 (493)
T ss_dssp             SCSSHHHHHHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCSHHHHH
T ss_pred             hchhhhHHHHHHHHHHHHHHhChhhhHHHHHHHHHHHHHHhccccHHHHHHHHhHHHHHHHHHHHHHHHHHhhccHHHHH
Confidence            2    45677888899988874221111222222111000             011222232222221    11333555


Q ss_pred             HHHHHHHhCCC-------hHHHHHHHHHHHHCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHH
Q 005329          179 AIITGLVRAGH-------NKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSGALNFGREIHTIMLKRGFDVVSFVANSLA  251 (702)
Q Consensus       179 ~li~~~~~~~~-------~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li  251 (702)
                      ..+.--..++.       .+++..+|+++... .+.+...|...+..+...|+.+.|..+++.....  +.+...+..  
T Consensus       177 ~y~~~E~~~~~~~~~~~~~~Rv~~~ye~al~~-~p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l~~~--  251 (493)
T 2uy1_A          177 RLIDLEMENGMKLGGRPHESRMHFIHNYILDS-FYYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFLSLY--  251 (493)
T ss_dssp             HHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHH-TTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHHH--
T ss_pred             HHHHHHhcCCccCcchhhHHHHHHHHHHHHHc-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHHHHH--
Confidence            54444322211       34567788888765 3455667777777778888999999999999888  444333332  


Q ss_pred             HHhhhCCChHHH-HHHHhccC--C-------C---CcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHH
Q 005329          252 TMYSKCGKLDYS-LRLFERMS--T-------R---DVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIIS  318 (702)
Q Consensus       252 ~~~~~~g~~~~A-~~~~~~~~--~-------~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~  318 (702)
                        |....+.++. ..+.+...  +       +   ....|-..+....+.++.+.|..+|++. ... ..+...|.....
T Consensus       252 --y~~~~e~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~~-~~~~~v~i~~A~  327 (493)
T 2uy1_A          252 --YGLVMDEEAVYGDLKRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GNE-GVGPHVFIYCAF  327 (493)
T ss_dssp             --HHHHTTCTHHHHHHHHHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TTS-CCCHHHHHHHHH
T ss_pred             --HHhhcchhHHHHHHHHHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hCC-CCChHHHHHHHH
Confidence              2221111111 11111110  0       0   1234555666666677788888888877 211 122223322111


Q ss_pred             HHH-ccCchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhhHHHHHHHHHcCCChHHHHH
Q 005329          319 ASA-NLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIRRDIISWSTIIGGYSQGGYEEEAFE  397 (702)
Q Consensus       319 ~~~-~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  397 (702)
                      .-. ..++.+.|..+|+...+.- +.+...+...++...+.|+.+.|..+|+.+.. ....|...+..-...|+.+.+.+
T Consensus       328 lE~~~~~d~~~ar~ife~al~~~-~~~~~~~~~yid~e~~~~~~~~aR~l~er~~k-~~~lw~~~~~fE~~~G~~~~~r~  405 (493)
T 2uy1_A          328 IEYYATGSRATPYNIFSSGLLKH-PDSTLLKEEFFLFLLRIGDEENARALFKRLEK-TSRMWDSMIEYEFMVGSMELFRE  405 (493)
T ss_dssp             HHHHHHCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHSCC-BHHHHHHHHHHHHHHSCHHHHHH
T ss_pred             HHHHHCCChHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH-HHHHHHHHHHHHHHCCCHHHHHH
Confidence            111 2236888888888877753 33344555667777777888888888887743 45556666655555677776666


Q ss_pred             HHHHHH
Q 005329          398 YLALMR  403 (702)
Q Consensus       398 ~~~~m~  403 (702)
                      +++++.
T Consensus       406 v~~~~~  411 (493)
T 2uy1_A          406 LVDQKM  411 (493)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            666654

>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=98.55  E-value=5.6e-07  Score=74.76  Aligned_cols=110  Identities=7%  Similarity=-0.087  Sum_probs=89.4

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHH
Q 005329          513 VTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRA  589 (702)
Q Consensus       513 ~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~  589 (702)
                      ..+..+...+...|++++|++.|++..+.   .|+ ...|..+..+|.+.|++++|+..++++..  +.+...|..++.+
T Consensus         5 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~---~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~   81 (126)
T 3upv_A            5 EEARLEGKEYFTKSDWPNAVKAYTEMIKR---APEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATA   81 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHh---CCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHH
Confidence            45666777778888888888888888754   454 77888888888899999999988888776  3457788899999


Q ss_pred             HHhcCCHHHHHHHHHHHHHhC------CCCchhHHHHHHHHH
Q 005329          590 CMVQGDVNCGRHTAEKILELH------PSCAGTHITLANIYA  625 (702)
Q Consensus       590 ~~~~g~~~~A~~~~~~~~~~~------p~~~~~~~~l~~~~~  625 (702)
                      +...|++++|+..++++++++      |.+...+..+..+..
T Consensus        82 ~~~~~~~~~A~~~~~~al~~~p~~~~~p~~~~~~~~l~~~~~  123 (126)
T 3upv_A           82 QIAVKEYASALETLDAARTKDAEVNNGSSAREIDQLYYKASQ  123 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHHHTTTTHHHHHHHHHHHHH
T ss_pred             HHHHhCHHHHHHHHHHHHHhCcccCCchhHHHHHHHHHHHHH
Confidence            999999999999999999999      888877777766554

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.54  E-value=4.1e-06  Score=78.73  Aligned_cols=138  Identities=12%  Similarity=-0.009  Sum_probs=107.0

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC--hhhHHHHHH
Q 005329          479 SWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS--KEHYGCMID  556 (702)
Q Consensus       479 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~--~~~~~~l~~  556 (702)
                      .+-.+...+...|++++|.++|+.+...  .|+......+...+.+.+++++|+..|+..... . .|.  ...+..+..
T Consensus       104 l~LayA~~L~~~g~y~eA~~~l~~~~~~--~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~-~-d~~~~~~a~~~LG~  179 (282)
T 4f3v_A          104 ITMGFAACEAAQGNYADAMEALEAAPVA--GSEHLVAWMKAVVYGAAERWTDVIDQVKSAGKW-P-DKFLAGAAGVAHGV  179 (282)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHTSSCCT--TCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGC-S-CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHcCCHHHHHHHHHHhhcc-C-CcccHHHHHHHHHH
Confidence            4455677888899999999999888864  465545555666788999999999999866422 1 121  346778899


Q ss_pred             HHHhcCCHHHHHHHHHhCCCC---C--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHH
Q 005329          557 LLCRAGRLSDAENMIENMPHQ---K--DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLA  621 (702)
Q Consensus       557 ~~~~~g~~~~A~~~~~~~~~~---p--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~  621 (702)
                      ++.+.|++++|+..|++....   |  ....+.....++.+.|+.++|...|++++..+|+ +..+..|.
T Consensus       180 al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~P~-~~~~~aL~  248 (282)
T 4f3v_A          180 AAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTHPE-PKVAAALK  248 (282)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSCC-HHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc-HHHHHHHh
Confidence            999999999999999988653   4  3347788888999999999999999999999997 66555553

>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=98.53  E-value=4.7e-07  Score=80.59  Aligned_cols=127  Identities=9%  Similarity=0.067  Sum_probs=102.0

Q ss_pred             HHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCC-ChhhHHHHHHH-HHhcCCH-
Q 005329          488 AEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVP-SKEHYGCMIDL-LCRAGRL-  564 (702)
Q Consensus       488 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p-~~~~~~~l~~~-~~~~g~~-  564 (702)
                      ...|++++|+..+++..+.. +.+...+..+...+...|++++|...|+++.+.   .| +...+..++.+ +...|++ 
T Consensus        21 ~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~---~p~~~~~~~~la~~l~~~~~~~~   96 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQL---RGENAELYAALATVLYYQASQHM   96 (177)
T ss_dssp             C-----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---HCSCHHHHHHHHHHHHHHTTTCC
T ss_pred             hhccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc---CCCCHHHHHHHHHHHHHhcCCcc
Confidence            45678888988888887653 446678888899999999999999999998765   44 46778888888 7789998 


Q ss_pred             -HHHHHHHHhCCC-CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHH
Q 005329          565 -SDAENMIENMPH-QK-DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHI  618 (702)
Q Consensus       565 -~~A~~~~~~~~~-~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~  618 (702)
                       ++|...++++.. .| +...+..++..+...|++++|...++++++.+|++.....
T Consensus        97 ~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~  153 (177)
T 2e2e_A           97 TAQTRAMIDKALALDSNEITALMLLASDAFMQANYAQAIELWQKVMDLNSPRINRTQ  153 (177)
T ss_dssp             CHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTSCHHH
T ss_pred             hHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhCCCCccHHH
Confidence             999999998876 34 5778889999999999999999999999999998866543

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.53  E-value=1.2e-06  Score=74.98  Aligned_cols=114  Identities=11%  Similarity=-0.021  Sum_probs=91.5

Q ss_pred             CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC----hhhHHHHHHHHHhcCCHHHHHHHHHhCCC-C-CCHHHHH
Q 005329          511 DSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS----KEHYGCMIDLLCRAGRLSDAENMIENMPH-Q-KDDVVWS  584 (702)
Q Consensus       511 ~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~-p~~~~~~  584 (702)
                      +...+..+...+...|++++|.+.|++..   ...|+    ...+..+..+|...|++++|...+++... . .+...+.
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~---~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~  103 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQAL---GLDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALY  103 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHH---TSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHH---HHcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHH
Confidence            44566777777788888888888888776   34565    56777788888888999999888888766 3 4577888


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhc
Q 005329          585 TLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAK  627 (702)
Q Consensus       585 ~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~  627 (702)
                      .++.++...|++++|...++++++.+|++...+..+..+..+.
T Consensus       104 ~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~  146 (148)
T 2dba_A          104 RRSQALEKLGRLDQAVLDLQRCVSLEPKNKVFQEALRNISGPS  146 (148)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHCSC
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHhhc
Confidence            8999999999999999999999999999988888877765443

>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=98.53  E-value=3.8e-07  Score=77.15  Aligned_cols=63  Identities=19%  Similarity=0.066  Sum_probs=59.1

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHh-------CCCCchhH----HHHHHHHHhcCChHHHHHHHHHHHhC
Q 005329          581 VVWSTLLRACMVQGDVNCGRHTAEKILEL-------HPSCAGTH----ITLANIYAAKGRWREAAEVRKMMRSK  643 (702)
Q Consensus       581 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-------~p~~~~~~----~~l~~~~~~~g~~~~A~~~~~~~~~~  643 (702)
                      ..|..+..++...|++++|+..+++++++       +|++...|    +..+.++...|++++|+..|++..+.
T Consensus        58 ~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel  131 (159)
T 2hr2_A           58 FCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEM  131 (159)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            48999999999999999999999999999       99999999    99999999999999999999999874

>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=98.53  E-value=1e-07  Score=86.70  Aligned_cols=116  Identities=13%  Similarity=-0.010  Sum_probs=91.0

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHhCCC-CC-C----------------HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC
Q 005329          549 EHYGCMIDLLCRAGRLSDAENMIENMPH-QK-D----------------DVVWSTLLRACMVQGDVNCGRHTAEKILELH  610 (702)
Q Consensus       549 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p-~----------------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  610 (702)
                      ..+..+...+.+.|++++|...|+++.. .| +                ...|..++.++...|++++|+..++++++.+
T Consensus        39 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~  118 (198)
T 2fbn_A           39 FDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID  118 (198)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC
Confidence            3444555566666666666666665543 11 1                2688889999999999999999999999999


Q ss_pred             CCCchhHHHHHHHHHhcCChHHHHHHHHHHHhCCCccCCeeeEEEECCEEEEEEcCCCCCCChhHHHHHHHHHHHHhcCC
Q 005329          611 PSCAGTHITLANIYAAKGRWREAAEVRKMMRSKGVIKEPGWSRIKVKDQVSAFVSSDRRHSQGEDIYRMLDLLASRESDI  690 (702)
Q Consensus       611 p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~l~~l~~~~~~~  690 (702)
                      |+++..+..++.+|...|++++|+..++++.+.                          +|....++..+..+....++.
T Consensus       119 p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--------------------------~p~~~~~~~~l~~~~~~~~~~  172 (198)
T 2fbn_A          119 KNNVKALYKLGVANMYFGFLEEAKENLYKAASL--------------------------NPNNLDIRNSYELCVNKLKEA  172 (198)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--------------------------STTCHHHHHHHHHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHH--------------------------CCCcHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999999999998763                          366677777777777666554

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.53  E-value=7.2e-07  Score=78.16  Aligned_cols=98  Identities=11%  Similarity=0.017  Sum_probs=80.2

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHH
Q 005329          548 KEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYA  625 (702)
Q Consensus       548 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  625 (702)
                      ...+..+...+.+.|++++|+..|++...  +.+...|..+..++...|++++|+..++++++++|+++..|..++.+|.
T Consensus        11 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~   90 (164)
T 3sz7_A           11 SDKLKSEGNAAMARKEYSKAIDLYTQALSIAPANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPKYSKAWSRLGLARF   90 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            56677778888888888888888888766  3467788888888888888888888888888888888888888888888


Q ss_pred             hcCChHHHHHHHHHHHhCCC
Q 005329          626 AKGRWREAAEVRKMMRSKGV  645 (702)
Q Consensus       626 ~~g~~~~A~~~~~~~~~~~~  645 (702)
                      ..|++++|+..++++.+..+
T Consensus        91 ~~g~~~~A~~~~~~al~~~p  110 (164)
T 3sz7_A           91 DMADYKGAKEAYEKGIEAEG  110 (164)
T ss_dssp             HTTCHHHHHHHHHHHHHHHS
T ss_pred             HccCHHHHHHHHHHHHHhCC
Confidence            88888888888888776443

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.52  E-value=1e-06  Score=73.49  Aligned_cols=92  Identities=12%  Similarity=0.100  Sum_probs=67.3

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhCCC-CCCH----HHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCC---chhHHHHHHH
Q 005329          552 GCMIDLLCRAGRLSDAENMIENMPH-QKDD----VVWSTLLRACMVQGDVNCGRHTAEKILELHPSC---AGTHITLANI  623 (702)
Q Consensus       552 ~~l~~~~~~~g~~~~A~~~~~~~~~-~p~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~---~~~~~~l~~~  623 (702)
                      ..++..+...|++++|...|+++.. .|+.    ..+..++.++...|++++|+..++++++.+|++   +..+..++.+
T Consensus         6 ~~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~~   85 (129)
T 2xev_A            6 YNVAFDALKNGKYDDASQLFLSFLELYPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGLS   85 (129)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHHH
Confidence            3455666677777777777776655 3332    366677777778888888888888888888877   6667888888


Q ss_pred             HHhcCChHHHHHHHHHHHhC
Q 005329          624 YAAKGRWREAAEVRKMMRSK  643 (702)
Q Consensus       624 ~~~~g~~~~A~~~~~~~~~~  643 (702)
                      |...|++++|...++++.+.
T Consensus        86 ~~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           86 QYGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHH
Confidence            88888888888888877663

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.52  E-value=4.5e-06  Score=81.16  Aligned_cols=161  Identities=8%  Similarity=-0.073  Sum_probs=120.8

Q ss_pred             HHHHHHHHhcCCHHHHHHHHhhCCC---CCH------HHHHHHHHHHHHcCChHHHHHHHHHchhCCC---CCC--HHHH
Q 005329          450 SALINMYSKCGSIKEASQIFYETES---DDI------VSWTAMINGYAEHGYSQEAIHLFEKVPMVGL---RPD--SVTF  515 (702)
Q Consensus       450 ~~li~~~~~~g~~~~A~~~~~~~~~---~~~------~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~---~p~--~~~~  515 (702)
                      ...+..+...|++++|.+.+.+..+   ...      ..+..+...+...|++++|+..+++..+...   .+.  ..++
T Consensus        79 ~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~  158 (293)
T 2qfc_A           79 KDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIE  158 (293)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHHHH
Confidence            3456677888999999888875431   111      2344566667788999999999988775321   222  3478


Q ss_pred             HHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-----hhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CC-------CHHH
Q 005329          516 MGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-----KEHYGCMIDLLCRAGRLSDAENMIENMPH-QK-------DDVV  582 (702)
Q Consensus       516 ~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p-------~~~~  582 (702)
                      +.+...|...|++++|..+|+++.+.....|+     ..++..++.+|.+.|++++|..++++... .+       ...+
T Consensus       159 ~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~~~  238 (293)
T 2qfc_A          159 NAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQL  238 (293)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHHHH
Confidence            88999999999999999999998733222233     25788999999999999999999988765 11       1568


Q ss_pred             HHHHHHHHHhcCCHHHH-HHHHHHHHHhC
Q 005329          583 WSTLLRACMVQGDVNCG-RHTAEKILELH  610 (702)
Q Consensus       583 ~~~l~~~~~~~g~~~~A-~~~~~~~~~~~  610 (702)
                      +..++..+...|++++| ...+++++++.
T Consensus       239 ~~~lg~~y~~~g~~~~Ai~~~~~~Al~~~  267 (293)
T 2qfc_A          239 YYQRGECLRKLEYEEAEIEDAYKKASFFF  267 (293)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCcHHHHHHHHHHHHHHH
Confidence            88999999999999999 88899988753

>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=98.51  E-value=1.4e-06  Score=70.93  Aligned_cols=109  Identities=12%  Similarity=0.001  Sum_probs=86.5

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCC-ChhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHH
Q 005329          513 VTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVP-SKEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRA  589 (702)
Q Consensus       513 ~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~  589 (702)
                      ..+..+...+...|++++|...|+.....   .| +...+..++.++...|++++|...+++...  +.+...+..++..
T Consensus         5 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~   81 (118)
T 1elw_A            5 NELKEKGNKALSVGNIDDALQCYSEAIKL---DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAA   81 (118)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHH---CCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcccHHHHHHHHHH
Confidence            45566667777788888888888877654   34 466777788888888888888888887765  3457788888999


Q ss_pred             HHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHH
Q 005329          590 CMVQGDVNCGRHTAEKILELHPSCAGTHITLANIY  624 (702)
Q Consensus       590 ~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~  624 (702)
                      +...|++++|...++++++.+|+++..+..++.+.
T Consensus        82 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~  116 (118)
T 1elw_A           82 LEFLNRFEEAKRTYEEGLKHEANNPQLKEGLQNME  116 (118)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHhh
Confidence            99999999999999999999999988888877654

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.48  E-value=8.5e-07  Score=77.52  Aligned_cols=85  Identities=15%  Similarity=0.223  Sum_probs=70.5

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhCCCccCCeeeEEEECCE
Q 005329          580 DVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKGVIKEPGWSRIKVKDQ  659 (702)
Q Consensus       580 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~  659 (702)
                      ...|..++.++...|++++|+..++++++++|.++..|..++.+|...|++++|...++++.+.                
T Consensus        63 ~~~~~nla~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l----------------  126 (162)
T 3rkv_A           63 IPLYANMSQCYLNIGDLHEAEETSSEVLKREETNEKALFRRAKARIAAWKLDEAEEDLKLLLRN----------------  126 (162)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH----------------
T ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc----------------
Confidence            4578888888999999999999999999999999999999999999999999999999988763                


Q ss_pred             EEEEEcCCCCCCChh-HHHHHHHHHHHHhcCC
Q 005329          660 VSAFVSSDRRHSQGE-DIYRMLDLLASRESDI  690 (702)
Q Consensus       660 ~~~~~~~~~~~p~~~-~~~~~l~~l~~~~~~~  690 (702)
                                +|.+. .+...+..+.......
T Consensus       127 ----------~p~~~~~~~~~l~~~~~~~~~~  148 (162)
T 3rkv_A          127 ----------HPAAASVVAREMKIVTERRAEK  148 (162)
T ss_dssp             ----------CGGGHHHHHHHHHHHHHHHHHH
T ss_pred             ----------CCCCHHHHHHHHHHHHHHHHHH
Confidence                      35665 6677777776655543

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.47  E-value=1.2e-06  Score=79.80  Aligned_cols=153  Identities=12%  Similarity=0.028  Sum_probs=107.4

Q ss_pred             hcCCHHHHHH---HHhhCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHchh----CCCCC-CHHHHHHHHHHHhccCcHH
Q 005329          458 KCGSIKEASQ---IFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPM----VGLRP-DSVTFMGVLTACSHAGLVD  529 (702)
Q Consensus       458 ~~g~~~~A~~---~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~----~g~~p-~~~~~~~ll~~~~~~g~~~  529 (702)
                      ..|++++|.+   .+..-+.....++..+...+...|++++|...+++..+    .+..| ....+..+...+...|+++
T Consensus         4 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~   83 (203)
T 3gw4_A            4 EAHDYALAERQAQALLAHPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNWD   83 (203)
T ss_dssp             ---CHHHHHHHHHHHHTSTTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             ccccHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCHH
Confidence            4567777777   55443333456777778888888888888888877664    22222 2346777788888899999


Q ss_pred             HHHHHHHHhHHhhCCCC-C----hhhHHHHHHHHHhcCCHHHHHHHHHhCCC----CCC----HHHHHHHHHHHHhcCCH
Q 005329          530 LGFHYFNLMSDKYGFVP-S----KEHYGCMIDLLCRAGRLSDAENMIENMPH----QKD----DVVWSTLLRACMVQGDV  596 (702)
Q Consensus       530 ~A~~~~~~~~~~~~~~p-~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~p~----~~~~~~l~~~~~~~g~~  596 (702)
                      +|.+.+++..+...-.+ +    ...+..+...+...|++++|...+++...    .++    ..++..+...+...|++
T Consensus        84 ~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~  163 (203)
T 3gw4_A           84 AARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKNL  163 (203)
T ss_dssp             HHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcCH
Confidence            99998888765422122 1    34577788889999999999998887654    122    23457788889999999


Q ss_pred             HHHHHHHHHHHHhC
Q 005329          597 NCGRHTAEKILELH  610 (702)
Q Consensus       597 ~~A~~~~~~~~~~~  610 (702)
                      ++|.+.+++++++.
T Consensus       164 ~~A~~~~~~al~~~  177 (203)
T 3gw4_A          164 LEAQQHWLRARDIF  177 (203)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999999998864

>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=98.45  E-value=1.1e-06  Score=87.26  Aligned_cols=116  Identities=9%  Similarity=-0.037  Sum_probs=99.1

Q ss_pred             cCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CCC----------------HHHHHHH
Q 005329          525 AGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH-QKD----------------DVVWSTL  586 (702)
Q Consensus       525 ~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~----------------~~~~~~l  586 (702)
                      .+++++|.+.|+...+.   .|+ ...+..+...|.+.|++++|...|+++.. .|+                ..+|..+
T Consensus       126 L~~~~~A~~~~~~a~~~---~p~~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nl  202 (336)
T 1p5q_A          126 LKSFEKAKESWEMNSEE---KLEQSTIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNL  202 (336)
T ss_dssp             EEEEECCCCGGGCCHHH---HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHH
T ss_pred             EeecccccchhcCCHHH---HHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHH
Confidence            34555566655554432   343 67788899999999999999999999877 444                4799999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 005329          587 LRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSK  643 (702)
Q Consensus       587 ~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  643 (702)
                      +.++...|++++|+..++++++++|+++..+..++.+|...|++++|+..++++.+.
T Consensus       203 a~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l  259 (336)
T 1p5q_A          203 AMCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQL  259 (336)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999874

>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=98.43  E-value=1.4e-06  Score=73.44  Aligned_cols=113  Identities=6%  Similarity=-0.115  Sum_probs=89.4

Q ss_pred             CCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHH
Q 005329          510 PDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTL  586 (702)
Q Consensus       510 p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l  586 (702)
                      .+...+..+...+...|++++|...|+.....   .|+ ...+..++.++...|++++|...++++..  +.+...|..+
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~---~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l   83 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITR---NPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFL   83 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhh---CcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHHHHHHH
Confidence            35567777888888888888888888888754   444 77788888888889999999988888766  4457788899


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHhCCC-----CchhHHHHHHHHH
Q 005329          587 LRACMVQGDVNCGRHTAEKILELHPS-----CAGTHITLANIYA  625 (702)
Q Consensus       587 ~~~~~~~g~~~~A~~~~~~~~~~~p~-----~~~~~~~l~~~~~  625 (702)
                      +..+...|++++|+..+++++++.|+     +......+..+..
T Consensus        84 ~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~l~~~~~  127 (137)
T 3q49_B           84 GQCQLEMESYDEAIANLQRAYSLAKEQRLNFGDDIPSALRIAKK  127 (137)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCCCTTHHHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHHChhHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999999999887     5555555554443

>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=98.39  E-value=1.8e-06  Score=71.64  Aligned_cols=102  Identities=11%  Similarity=0.015  Sum_probs=63.6

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CC----C----HHHH
Q 005329          514 TFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH-QK----D----DVVW  583 (702)
Q Consensus       514 ~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p----~----~~~~  583 (702)
                      .+..+...+.+.|++++|++.|+++.+.   .|+ ...|..+..+|.+.|++++|+..+++... .|    .    ..+|
T Consensus        10 a~~~lG~~~~~~~~~~~A~~~y~~Al~~---~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~   86 (127)
T 4gcn_A           10 AEKDLGNAAYKQKDFEKAHVHYDKAIEL---DPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAM   86 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHH
Confidence            3444555555666666666666655532   343 55555666666666666666666655543 11    1    2356


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHH
Q 005329          584 STLLRACMVQGDVNCGRHTAEKILELHPSCAGTHIT  619 (702)
Q Consensus       584 ~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~  619 (702)
                      ..++.++...|++++|++.|+++++..| ++.....
T Consensus        87 ~~lg~~~~~~~~~~~A~~~~~kal~~~~-~~~~~~~  121 (127)
T 4gcn_A           87 SRAGNAFQKQNDLSLAVQWFHRSLSEFR-DPELVKK  121 (127)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHSC-CHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhhCc-CHHHHHH
Confidence            6778888888999999999999988887 4544433

>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=98.38  E-value=5.1e-06  Score=72.61  Aligned_cols=128  Identities=9%  Similarity=-0.016  Sum_probs=98.0

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCC-ChhhHHHHHH
Q 005329          478 VSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVP-SKEHYGCMID  556 (702)
Q Consensus       478 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p-~~~~~~~l~~  556 (702)
                      ..+..+...+...|++++|...|++..+.. +.+...+..+...+...|++++|.+.+++..+.   .| +...+..++.
T Consensus        14 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~---~~~~~~~~~~~a~   89 (166)
T 1a17_A           14 EELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIEL---DKKYIKGYYRRAA   89 (166)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CcccHHHHHHHHH
Confidence            456677788888889999999888887642 345677888888888899999999999988754   34 4777888888


Q ss_pred             HHHhcCCHHHHHHHHHhCCC-CC-CHHHHHH--HHHHHHhcCCHHHHHHHHHHHHHh
Q 005329          557 LLCRAGRLSDAENMIENMPH-QK-DDVVWST--LLRACMVQGDVNCGRHTAEKILEL  609 (702)
Q Consensus       557 ~~~~~g~~~~A~~~~~~~~~-~p-~~~~~~~--l~~~~~~~g~~~~A~~~~~~~~~~  609 (702)
                      ++...|++++|...++++.. .| +...+..  ++..+...|++++|...+++..+.
T Consensus        90 ~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~  146 (166)
T 1a17_A           90 SNMALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHKRSV  146 (166)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHcccchHHH
Confidence            99999999999999988766 33 4445533  333477888999999888877654

>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=98.36  E-value=1.3e-06  Score=72.87  Aligned_cols=96  Identities=13%  Similarity=0.104  Sum_probs=82.0

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCC-------chhHH
Q 005329          548 KEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSC-------AGTHI  618 (702)
Q Consensus       548 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~-------~~~~~  618 (702)
                      ...+..++..+...|++++|...++++..  +.+...+..++..+...|++++|...++++++..|.+       +..+.
T Consensus         4 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (131)
T 1elr_A            4 ALKEKELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYA   83 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHH
Confidence            34566777888888888888888887765  3467788888999999999999999999999998776       78899


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhC
Q 005329          619 TLANIYAAKGRWREAAEVRKMMRSK  643 (702)
Q Consensus       619 ~l~~~~~~~g~~~~A~~~~~~~~~~  643 (702)
                      .++.+|...|++++|...++++.+.
T Consensus        84 ~la~~~~~~~~~~~A~~~~~~~~~~  108 (131)
T 1elr_A           84 RIGNSYFKEEKYKDAIHFYNKSLAE  108 (131)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHh
Confidence            9999999999999999999998774

>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=98.36  E-value=2.7e-06  Score=88.40  Aligned_cols=95  Identities=9%  Similarity=0.078  Sum_probs=79.5

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHH
Q 005329          548 KEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYA  625 (702)
Q Consensus       548 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  625 (702)
                      ...|..+..+|.+.|++++|+..++++..  +.+...|..++.+|...|++++|+..|+++++++|++...+..++.++.
T Consensus       317 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~  396 (457)
T 1kt0_A          317 LAAFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQISMCQK  396 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC----CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            46788889999999999999999998877  4567899999999999999999999999999999999999999999999


Q ss_pred             hcCChHHHHH-HHHHHHh
Q 005329          626 AKGRWREAAE-VRKMMRS  642 (702)
Q Consensus       626 ~~g~~~~A~~-~~~~~~~  642 (702)
                      +.|++++|.. .+++|..
T Consensus       397 ~~~~~~~a~~~~~~~~f~  414 (457)
T 1kt0_A          397 KAKEHNERDRRIYANMFK  414 (457)
T ss_dssp             HHHHHHHHHHHHHHHC--
T ss_pred             HHHHHHHHHHHHHHHHHh
Confidence            9999998864 4666654

>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=98.35  E-value=8.1e-07  Score=92.71  Aligned_cols=117  Identities=11%  Similarity=0.059  Sum_probs=98.5

Q ss_pred             HHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCC
Q 005329          519 LTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGD  595 (702)
Q Consensus       519 l~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~  595 (702)
                      ...+...|++++|.+.|+++.+.   .|+ ...|..+..+|.+.|++++|+..++++..  +.+..+|..++.++...|+
T Consensus        13 g~~~~~~g~~~~A~~~~~~Al~~---~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~~g~   89 (477)
T 1wao_1           13 ANDYFKAKDYENAIKFYSQAIEL---NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGK   89 (477)
T ss_dssp             SSSTTTTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHh---CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCC
Confidence            34566788999999999988765   555 78888999999999999999999988876  4467789999999999999


Q ss_pred             HHHHHHHHHHHHHhCCCCchhHHHHHHH--HHhcCChHHHHHHHH
Q 005329          596 VNCGRHTAEKILELHPSCAGTHITLANI--YAAKGRWREAAEVRK  638 (702)
Q Consensus       596 ~~~A~~~~~~~~~~~p~~~~~~~~l~~~--~~~~g~~~~A~~~~~  638 (702)
                      +++|++.++++++++|++...+..++.+  +.+.|++++|++.++
T Consensus        90 ~~eA~~~~~~al~~~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           90 FRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHHHHSTTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            9999999999999999999999999988  889999999999988

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.33  E-value=6e-07  Score=73.44  Aligned_cols=83  Identities=13%  Similarity=0.099  Sum_probs=61.4

Q ss_pred             cCCHHHHHHHHHhCCCC----C-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHH
Q 005329          561 AGRLSDAENMIENMPHQ----K-DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAE  635 (702)
Q Consensus       561 ~g~~~~A~~~~~~~~~~----p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~  635 (702)
                      .|++++|+..|+++...    | +...+..++..+...|++++|+..++++++.+|+++..+..++.+|...|++++|+.
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~   82 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQALRVFYAMVLYNLGRYEQGVE   82 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCCHHHHHH
Confidence            46667777777766552    3 245677778888888888888888888888888888888888888888888888888


Q ss_pred             HHHHHHhC
Q 005329          636 VRKMMRSK  643 (702)
Q Consensus       636 ~~~~~~~~  643 (702)
                      .+++..+.
T Consensus        83 ~~~~al~~   90 (117)
T 3k9i_A           83 LLLKIIAE   90 (117)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            88877653

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.32  E-value=4.1e-06  Score=72.76  Aligned_cols=129  Identities=12%  Similarity=0.002  Sum_probs=83.2

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC----hhhHHHHHHHHHhcCCHHHHHHHHHhCCC----CC----CHH
Q 005329          514 TFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS----KEHYGCMIDLLCRAGRLSDAENMIENMPH----QK----DDV  581 (702)
Q Consensus       514 ~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~p----~~~  581 (702)
                      ++..+...+...|++++|...+++..+...-.++    ...+..+...+...|++++|...+++...    .+    ...
T Consensus        11 ~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~   90 (164)
T 3ro3_A           11 AFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQ   90 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHH
Confidence            3444444555555555555555554432110111    13555666666677777777766666543    11    134


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHhCC------CCchhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 005329          582 VWSTLLRACMVQGDVNCGRHTAEKILELHP------SCAGTHITLANIYAAKGRWREAAEVRKMMRS  642 (702)
Q Consensus       582 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p------~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  642 (702)
                      .+..++..+...|++++|.+.++++++..+      .....+..++.+|...|++++|.+.+++..+
T Consensus        91 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           91 SCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            667778888888899999888888887632      1245788899999999999999999988765

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.31  E-value=9.4e-06  Score=67.43  Aligned_cols=106  Identities=10%  Similarity=0.047  Sum_probs=81.5

Q ss_pred             HHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-h---hhHHHHHHHHHhcCCHHHHHHHHHhCCC-CCC----HHHHHHHH
Q 005329          517 GVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-K---EHYGCMIDLLCRAGRLSDAENMIENMPH-QKD----DVVWSTLL  587 (702)
Q Consensus       517 ~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~----~~~~~~l~  587 (702)
                      .+...+...|++++|...|+.+.+.   .|+ .   ..+..++.++.+.|++++|...|+++.. .|+    ...+..++
T Consensus         7 ~~a~~~~~~~~~~~A~~~~~~~~~~---~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la   83 (129)
T 2xev_A            7 NVAFDALKNGKYDDASQLFLSFLEL---YPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLG   83 (129)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH---CSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHH---CCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHH
Confidence            4455667788888888888888754   344 2   4677788888888899888888888766 343    56788888


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHH
Q 005329          588 RACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYA  625 (702)
Q Consensus       588 ~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  625 (702)
                      .++...|++++|...++++++..|+++........+-.
T Consensus        84 ~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~l~~  121 (129)
T 2xev_A           84 LSQYGEGKNTEAQQTLQQVATQYPGSDAARVAQERLQS  121 (129)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHH
Confidence            99999999999999999999999988776655544433

>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=98.30  E-value=3.6e-06  Score=84.50  Aligned_cols=137  Identities=9%  Similarity=-0.044  Sum_probs=102.1

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHH
Q 005329          478 VSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMID  556 (702)
Q Consensus       478 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~  556 (702)
                      ..+..+...+.+.|++++|+..|++..+.  .++..          ....       .+...   ...|. ...|..+..
T Consensus       224 ~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~--~~~~~----------~~~~-------~~~~~---~~~~~~~~~~~nla~  281 (370)
T 1ihg_A          224 EDLKNIGNTFFKSQNWEMAIKKYTKVLRY--VEGSR----------AAAE-------DADGA---KLQPVALSCVLNIGA  281 (370)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HHHHH----------HHSC-------HHHHG---GGHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHH--hhcCc----------cccC-------hHHHH---HHHHHHHHHHHHHHH
Confidence            44666666677777777777777665531  01000          0000       11111   12333 677888999


Q ss_pred             HHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHH
Q 005329          557 LLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAA  634 (702)
Q Consensus       557 ~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~  634 (702)
                      +|.+.|++++|+..++++..  +.+...|..++.++...|++++|+..++++++++|++...+..++.++...++.+++.
T Consensus       282 ~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P~~~~~~~~l~~~~~~~~~~~~a~  361 (370)
T 1ihg_A          282 CKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVKQKIKAQKDKE  361 (370)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhccCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999999877  3467899999999999999999999999999999999999999999999999888876


Q ss_pred             HH
Q 005329          635 EV  636 (702)
Q Consensus       635 ~~  636 (702)
                      +.
T Consensus       362 k~  363 (370)
T 1ihg_A          362 KA  363 (370)
T ss_dssp             HC
T ss_pred             HH
Confidence            53

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.29  E-value=2.6e-06  Score=69.98  Aligned_cols=98  Identities=12%  Similarity=0.017  Sum_probs=77.2

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CC-CHHHHHHHHHHH
Q 005329          514 TFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH-QK-DDVVWSTLLRAC  590 (702)
Q Consensus       514 ~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p-~~~~~~~l~~~~  590 (702)
                      .+..+...+.+.|++++|+..|+++.+.   .|+ ...|..+..++...|++++|+..|+++.. .| +...+..++.++
T Consensus        19 ~~~~~g~~~~~~g~~~~A~~~~~~al~~---~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~   95 (121)
T 1hxi_A           19 NPMEEGLSMLKLANLAEAALAFEAVCQK---EPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSH   95 (121)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHH---STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHH---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            3455666778889999999999988854   564 77888889999999999999999988877 44 577888899999


Q ss_pred             HhcCCHHHHHHHHHHHHHhCCCCc
Q 005329          591 MVQGDVNCGRHTAEKILELHPSCA  614 (702)
Q Consensus       591 ~~~g~~~~A~~~~~~~~~~~p~~~  614 (702)
                      ...|++++|+..++++++.+|++.
T Consensus        96 ~~~g~~~~A~~~~~~al~~~P~~~  119 (121)
T 1hxi_A           96 TNEHNANAALASLRAWLLSQPQYE  119 (121)
T ss_dssp             HHHHHHHHHHHHHHHHHC------
T ss_pred             HHcCCHHHHHHHHHHHHHhCcCCC
Confidence            999999999999999999988654

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.28  E-value=1.7e-06  Score=75.51  Aligned_cols=79  Identities=14%  Similarity=0.152  Sum_probs=67.1

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCc-hhHHHHHHHH
Q 005329          548 KEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCA-GTHITLANIY  624 (702)
Q Consensus       548 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~-~~~~~l~~~~  624 (702)
                      ...|..+..+|.+.|++++|+..++++..  +.+...|..++.++...|++++|...++++++++|+++ .....+..+.
T Consensus        63 ~~~~~nla~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~l~~~~  142 (162)
T 3rkv_A           63 IPLYANMSQCYLNIGDLHEAEETSSEVLKREETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNHPAAASVVAREMKIVT  142 (162)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcCCCCHHHHHHHHHHHH
Confidence            56788889999999999999999998877  44678999999999999999999999999999999988 5565665554


Q ss_pred             Hh
Q 005329          625 AA  626 (702)
Q Consensus       625 ~~  626 (702)
                      ..
T Consensus       143 ~~  144 (162)
T 3rkv_A          143 ER  144 (162)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.28  E-value=1.1e-06  Score=87.30  Aligned_cols=148  Identities=13%  Similarity=0.014  Sum_probs=76.3

Q ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHH
Q 005329          477 IVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMID  556 (702)
Q Consensus       477 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~  556 (702)
                      ...+..+...+.+.|++++|+..|++....  .|+...       +...++.+++...+.           ...|..+..
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~-------~~~~~~~~~~~~~l~-----------~~~~~nla~  238 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFM-------FQLYGKYQDMALAVK-----------NPCHLNIAA  238 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHH-------HTCCHHHHHHHHHHH-----------THHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchh-------hhhcccHHHHHHHHH-----------HHHHHHHHH
Confidence            345666666777777777777777776653  344331       223333443332221           136777888


Q ss_pred             HHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHH-HhcCChHHH
Q 005329          557 LLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIY-AAKGRWREA  633 (702)
Q Consensus       557 ~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~-~~~g~~~~A  633 (702)
                      +|.+.|++++|+..++++..  +.+...|..++.+|...|++++|+..|+++++++|+++..+..|..+. ...+..+++
T Consensus       239 ~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~~~a~~~L~~l~~~~~~~~~~a  318 (338)
T 2if4_A          239 CLIKLKRYDEAIGHCNIVLTEEEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDDKAIRRELRALAEQEKALYQKQ  318 (338)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC--------------------------
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            88888888888888888766  345678888888888888888888888888888888888888888774 445667777


Q ss_pred             HHHHHHHHhCC
Q 005329          634 AEVRKMMRSKG  644 (702)
Q Consensus       634 ~~~~~~~~~~~  644 (702)
                      ...+++|....
T Consensus       319 ~~~~~~~l~~~  329 (338)
T 2if4_A          319 KEMYKGIFKGK  329 (338)
T ss_dssp             -----------
T ss_pred             HHHHHHhhCCC
Confidence            77887776543

>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=98.28  E-value=3.2e-06  Score=81.45  Aligned_cols=112  Identities=4%  Similarity=-0.178  Sum_probs=92.8

Q ss_pred             CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCC-ChhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHH
Q 005329          511 DSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVP-SKEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLL  587 (702)
Q Consensus       511 ~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~  587 (702)
                      +...+..+...+...|++++|+..|+.+.+.   .| +...|..+..+|.+.|++++|...++++..  +.+...+..++
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg   79 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITR---NPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLG   79 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHH
Confidence            4567778888899999999999999998865   56 478888899999999999999999999877  34677888999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHH
Q 005329          588 RACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYA  625 (702)
Q Consensus       588 ~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  625 (702)
                      .++...|++++|+..++++++++|+++..+...++...
T Consensus        80 ~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~  117 (281)
T 2c2l_A           80 QCQLEMESYDEAIANLQRAYSLAKEQRLNFGDDIPSAL  117 (281)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCCCCSHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCccchhhHHHHHHHHH
Confidence            99999999999999999999999877655554444444

>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=98.27  E-value=5.4e-06  Score=68.93  Aligned_cols=111  Identities=6%  Similarity=-0.014  Sum_probs=75.3

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CC-C-------HHHHH
Q 005329          514 TFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPH-QK-D-------DVVWS  584 (702)
Q Consensus       514 ~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p-~-------~~~~~  584 (702)
                      .+..+...+...|++++|...|+.+...  .+.+...+..++.++...|++++|...++++.. .| +       ..++.
T Consensus         6 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (131)
T 1elr_A            6 KEKELGNDAYKKKDFDTALKHYDKAKEL--DPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYA   83 (131)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHH
Confidence            4455555566666666666666666543  122355566666666677777777776666554 11 1       56778


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhc
Q 005329          585 TLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAK  627 (702)
Q Consensus       585 ~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~  627 (702)
                      .++..+...|++++|...++++++..| ++.....+..+....
T Consensus        84 ~la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~  125 (131)
T 1elr_A           84 RIGNSYFKEEKYKDAIHFYNKSLAEHR-TPDVLKKCQQAEKIL  125 (131)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHhCC-CHHHHHHHHHHHHHH
Confidence            888889999999999999999999988 677777776665443

>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=98.25  E-value=0.00053  Score=66.71  Aligned_cols=231  Identities=11%  Similarity=0.071  Sum_probs=126.4

Q ss_pred             HHHHcCCChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHcccC-cHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhc-C
Q 005329          384 GGYSQGGYEEEAFEYLALMRREGPRPNEF-AFASVLSVCGNMA-ILEQGKQIHAHVMSIGLERTAMIKSALINMYSKC-G  460 (702)
Q Consensus       384 ~~~~~~g~~~~a~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~-g  460 (702)
                      ....+.+..++|+++++++...  .|+.. .++.--..+...| .++++..+++.+..... .+..+++.-...+.+. +
T Consensus        62 ~~~~~~e~se~AL~lt~~~L~~--nP~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nP-Kny~aW~hR~wlL~~l~~  138 (349)
T 3q7a_A           62 AIAAKEEKSERALELTEIIVRM--NPAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNL-KSYQVWHHRLLLLDRISP  138 (349)
T ss_dssp             HHHHTTCCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTC-CCHHHHHHHHHHHHHHCC
T ss_pred             HHHHhCCCCHHHHHHHHHHHHh--CchhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHhcC
Confidence            3344455666788888877763  44433 3343333444445 46777777766665443 2444444444444444 4


Q ss_pred             -CHHHHHHHHhhCCC---CCHHHHHHHHHHHHHcCChH--------HHHHHHHHchhCCCCCCHHHHHHHHHHHhccCc-
Q 005329          461 -SIKEASQIFYETES---DDIVSWTAMINGYAEHGYSQ--------EAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGL-  527 (702)
Q Consensus       461 -~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~--------~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~-  527 (702)
                       ++++++++++++.+   .|..+|+--.-++.+.|.++        ++++.++++++.. +-|...|+.....+.+.+. 
T Consensus       139 ~~~~~EL~~~~k~L~~dpkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d-p~N~SAW~~R~~lL~~l~~~  217 (349)
T 3q7a_A          139 QDPVSEIEYIHGSLLPDPKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD-GRNNSAWGWRWYLRVSRPGA  217 (349)
T ss_dssp             SCCHHHHHHHHHHTSSCTTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHTTSTTC
T ss_pred             CChHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcccc
Confidence             66777777777664   34556655555555555555        7777777777643 3355566666555555554 


Q ss_pred             ------HHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCH--------------------HHHHHHHHhCCC-C--
Q 005329          528 ------VDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRL--------------------SDAENMIENMPH-Q--  577 (702)
Q Consensus       528 ------~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~--------------------~~A~~~~~~~~~-~--  577 (702)
                            ++++++.++++...   .|+ ...|+.+-..+.+.|+.                    .+..++..++.. .  
T Consensus       218 ~~~~~~~~eELe~~~~aI~~---~P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  294 (349)
T 3q7a_A          218 ETSSRSLQDELIYILKSIHL---IPHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLP  294 (349)
T ss_dssp             CCCHHHHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCC
T ss_pred             ccchHHHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcccc
Confidence                  56777777766643   454 55565555555555543                    333344444433 1  


Q ss_pred             -----CCHHHHHHHHHHHHhcCCHHHHHHHHHHHH-HhCCCCchhHHHHH
Q 005329          578 -----KDDVVWSTLLRACMVQGDVNCGRHTAEKIL-ELHPSCAGTHITLA  621 (702)
Q Consensus       578 -----p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~p~~~~~~~~l~  621 (702)
                           ++...+..|+..|...|+.++|.++++.+. +.+|-....|...+
T Consensus       295 ~~~~~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~~~dpir~~yw~~~~  344 (349)
T 3q7a_A          295 EDTPLPVPLALEYLADSFIEQNRVDDAAKVFEKLSSEYDQMRAGYWEFRR  344 (349)
T ss_dssp             SSCCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCGGGHHHHHHHH
T ss_pred             cccCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhhChHHHHHHHHHH
Confidence                 345556666666666666666666666665 34555444444433

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.23  E-value=9.8e-06  Score=83.83  Aligned_cols=164  Identities=8%  Similarity=-0.112  Sum_probs=120.4

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHchhCC-CCCCH----HHHHHHHHHHhccCcHHHHHHHHHHhHHhh---CCCCC-hh
Q 005329          479 SWTAMINGYAEHGYSQEAIHLFEKVPMVG-LRPDS----VTFMGVLTACSHAGLVDLGFHYFNLMSDKY---GFVPS-KE  549 (702)
Q Consensus       479 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~----~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~---~~~p~-~~  549 (702)
                      ++..++..|...|++++|.+.+.++...- -.++.    .+.+.+...+...|+++.|.++++......   +..+. ..
T Consensus        57 al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  136 (434)
T 4b4t_Q           57 SILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHS  136 (434)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHH
Confidence            46678888999999999999888876421 11222    123334444566789999999988775431   22233 56


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHhCCC-------CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC---CCC----c
Q 005329          550 HYGCMIDLLCRAGRLSDAENMIENMPH-------QK-DDVVWSTLLRACMVQGDVNCGRHTAEKILELH---PSC----A  614 (702)
Q Consensus       550 ~~~~l~~~~~~~g~~~~A~~~~~~~~~-------~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---p~~----~  614 (702)
                      ++..++..|...|++++|..+++++..       ++ ...++..++..|...|++++|...+++++...   +..    .
T Consensus       137 ~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~  216 (434)
T 4b4t_Q          137 LSIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVA  216 (434)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHH
T ss_pred             HHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHH
Confidence            778899999999999999999887643       12 24578888999999999999999999998764   222    3


Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 005329          615 GTHITLANIYAAKGRWREAAEVRKMMRS  642 (702)
Q Consensus       615 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~  642 (702)
                      ..+..++..+...|++++|...+.+..+
T Consensus       217 ~~~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          217 ELDLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             HHHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            4667788888999999999998877754

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.22  E-value=5.6e-06  Score=66.60  Aligned_cols=100  Identities=12%  Similarity=0.035  Sum_probs=79.2

Q ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCC-ChhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CC--CHHHHHHH
Q 005329          512 SVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVP-SKEHYGCMIDLLCRAGRLSDAENMIENMPH--QK--DDVVWSTL  586 (702)
Q Consensus       512 ~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p--~~~~~~~l  586 (702)
                      ...+..+...+...|++++|...|+++.+.   .| +...+..+..++...|++++|...++++..  +.  +...+..+
T Consensus         6 ~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~---~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l   82 (112)
T 2kck_A            6 PEEYYLEGVLQYDAGNYTESIDLFEKAIQL---DPEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAK   82 (112)
T ss_dssp             TTGGGGHHHHHHSSCCHHHHHHHHHHHHHH---CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHh---CcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHH
Confidence            345666777778888888888888887754   34 466777888888888888888888888765  33  57788888


Q ss_pred             HHHHHhc-CCHHHHHHHHHHHHHhCCCCc
Q 005329          587 LRACMVQ-GDVNCGRHTAEKILELHPSCA  614 (702)
Q Consensus       587 ~~~~~~~-g~~~~A~~~~~~~~~~~p~~~  614 (702)
                      +..+... |++++|.+.++++++..|.++
T Consensus        83 ~~~~~~~~~~~~~A~~~~~~~~~~~p~~~  111 (112)
T 2kck_A           83 ADALRYIEGKEVEAEIAEARAKLEHHHHH  111 (112)
T ss_dssp             HHHHTTCSSCSHHHHHHHHHHGGGCCCCC
T ss_pred             HHHHHHHhCCHHHHHHHHHHHhhcccCCC
Confidence            8889999 999999999999999888654

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.22  E-value=1.3e-06  Score=71.49  Aligned_cols=93  Identities=15%  Similarity=0.115  Sum_probs=70.1

Q ss_pred             cCcHHHHHHHHHHhHHhhCC-CCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHH
Q 005329          525 AGLVDLGFHYFNLMSDKYGF-VPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGR  600 (702)
Q Consensus       525 ~g~~~~A~~~~~~~~~~~~~-~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~  600 (702)
                      .|++++|+..|++..+. +. .|+ ...+..+..+|...|++++|...|+++..  +.+...+..++.++...|++++|+
T Consensus         3 ~g~~~~A~~~~~~al~~-~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~   81 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIAS-GLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQALRVFYAMVLYNLGRYEQGV   81 (117)
T ss_dssp             ----CCCHHHHHHHHSS-CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CCcHHHHHHHHHHHHHc-CCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCCHHHHH
Confidence            56777788888877632 10 243 66777888888888899999888888776  345778888899999999999999


Q ss_pred             HHHHHHHHhCCCCchhHH
Q 005329          601 HTAEKILELHPSCAGTHI  618 (702)
Q Consensus       601 ~~~~~~~~~~p~~~~~~~  618 (702)
                      ..++++++..|+++....
T Consensus        82 ~~~~~al~~~p~~~~~~~   99 (117)
T 3k9i_A           82 ELLLKIIAETSDDETIQS   99 (117)
T ss_dssp             HHHHHHHHHHCCCHHHHH
T ss_pred             HHHHHHHHhCCCcHHHHH
Confidence            999999999998876544

>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=98.22  E-value=7e-06  Score=85.21  Aligned_cols=65  Identities=8%  Similarity=-0.026  Sum_probs=61.5

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 005329          580 DVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKG  644 (702)
Q Consensus       580 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  644 (702)
                      ...|..+..++.+.|++++|+..++++++++|+++..|..++.+|...|++++|+..|+++.+..
T Consensus       317 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~  381 (457)
T 1kt0_A          317 LAAFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN  381 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            46888999999999999999999999999999999999999999999999999999999998753

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.21  E-value=2e-05  Score=63.27  Aligned_cols=99  Identities=11%  Similarity=-0.019  Sum_probs=68.8

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhCCCccCCeeeEEEECC
Q 005329          579 DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKGVIKEPGWSRIKVKD  658 (702)
Q Consensus       579 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~  658 (702)
                      +...|..++..+...|++++|++.++++++.+|+++..+..++.+|...|++++|+..++++.+..+....         
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~---------   73 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTSTAEH---------   73 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSSTTS---------
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCccH---------
Confidence            45567777888888888888888888888888888888888888888888888888888887764321000         


Q ss_pred             EEEEEEcCCCCCCChhHHHHHHHHHHHHhcCCCCCCccc
Q 005329          659 QVSAFVSSDRRHSQGEDIYRMLDLLASRESDIDDLDSLV  697 (702)
Q Consensus       659 ~~~~~~~~~~~~p~~~~~~~~l~~l~~~~~~~~~~~~~~  697 (702)
                                 .......+..++.+....+....+...+
T Consensus        74 -----------~~~~~~~~~~~~~~~~~~~~~~~a~~~~  101 (111)
T 2l6j_A           74 -----------VAIRSKLQYRLELAQGAVGSVQIPVVEV  101 (111)
T ss_dssp             -----------HHHHHHHHHHHHHHHHHHHCCCCCSSSS
T ss_pred             -----------HHHHHHHHHHHHHHHHHHHhHhhhHhHH
Confidence                       0001556666777777777665444433

>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=98.20  E-value=0.00013  Score=70.95  Aligned_cols=211  Identities=12%  Similarity=0.043  Sum_probs=151.8

Q ss_pred             HHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcC-CHHHHHHHHhhCC---CCCHHHHHHHHHHHHHc-C-ChHHHHHHH
Q 005329          427 LEQGKQIHAHVMSIGLERTAMIKSALINMYSKCG-SIKEASQIFYETE---SDDIVSWTAMINGYAEH-G-YSQEAIHLF  500 (702)
Q Consensus       427 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~-g-~~~~A~~~~  500 (702)
                      .++|.++.+.++..+.. +..+++.--..+...| .+++++..++.+.   ..+..+|+.-..++... + +++++++++
T Consensus        70 se~AL~lt~~~L~~nP~-~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPKny~aW~hR~wlL~~l~~~~~~~EL~~~  148 (349)
T 3q7a_A           70 SERALELTEIIVRMNPA-HYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLKSYQVWHHRLLLLDRISPQDPVSEIEYI  148 (349)
T ss_dssp             SHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHCCSCCHHHHHHH
T ss_pred             CHHHHHHHHHHHHhCch-hHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhcCCChHHHHHHH
Confidence            35677777777776533 4455666666677777 5999999999876   34677888877777776 7 899999999


Q ss_pred             HHchhCCCCCCHHHHHHHHHHHhccCcHH--------HHHHHHHHhHHhhCCCC-ChhhHHHHHHHHHhcCC-------H
Q 005329          501 EKVPMVGLRPDSVTFMGVLTACSHAGLVD--------LGFHYFNLMSDKYGFVP-SKEHYGCMIDLLCRAGR-------L  564 (702)
Q Consensus       501 ~~m~~~g~~p~~~~~~~ll~~~~~~g~~~--------~A~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~-------~  564 (702)
                      +++.+.. +-|...|+.-...+.+.|.++        ++++.++++.+.   .| |...|+....++.+.++       +
T Consensus       149 ~k~L~~d-pkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~---dp~N~SAW~~R~~lL~~l~~~~~~~~~~  224 (349)
T 3q7a_A          149 HGSLLPD-PKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRV---DGRNNSAWGWRWYLRVSRPGAETSSRSL  224 (349)
T ss_dssp             HHHTSSC-TTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHTTSTTCCCCHHHH
T ss_pred             HHHHHhC-CCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHhccccccchHHH
Confidence            9999753 446667766555555555555        899999999865   44 57778888888877776       6


Q ss_pred             HHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCH--------------------HHHHHHHHHHHHhC------CCCchh
Q 005329          565 SDAENMIENMPH--QKDDVVWSTLLRACMVQGDV--------------------NCGRHTAEKILELH------PSCAGT  616 (702)
Q Consensus       565 ~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~--------------------~~A~~~~~~~~~~~------p~~~~~  616 (702)
                      ++++++++++..  +.+...|+-+...+.+.|+.                    ....+....++...      +.++..
T Consensus       225 ~eELe~~~~aI~~~P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~a  304 (349)
T 3q7a_A          225 QDELIYILKSIHLIPHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTPLPVPLA  304 (349)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCSSCCSCCHHH
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcccccccCCCcHHH
Confidence            889999988776  44677888877777766653                    23333333333322      456778


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHh
Q 005329          617 HITLANIYAAKGRWREAAEVRKMMRS  642 (702)
Q Consensus       617 ~~~l~~~~~~~g~~~~A~~~~~~~~~  642 (702)
                      +..|+.+|...|+.++|.++++.+.+
T Consensus       305 l~~l~d~~~~~~~~~~a~~~~~~l~~  330 (349)
T 3q7a_A          305 LEYLADSFIEQNRVDDAAKVFEKLSS  330 (349)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHh
Confidence            88999999999999999999999864

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.17  E-value=5.3e-07  Score=72.83  Aligned_cols=93  Identities=13%  Similarity=0.059  Sum_probs=79.3

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCC------chhHH
Q 005329          547 SKEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSC------AGTHI  618 (702)
Q Consensus       547 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~------~~~~~  618 (702)
                      +...+..+...+.+.|++++|...|++...  +.+...|..++.++...|++++|+..++++++++|++      ...+.
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~   82 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTSTAEHVAIRSKLQY   82 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSSTTSHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCccHHHHHHHHHH
Confidence            355677788888999999999999988876  4467889999999999999999999999999999998      78888


Q ss_pred             HHHHHHHhcCChHHHHHHHHH
Q 005329          619 TLANIYAAKGRWREAAEVRKM  639 (702)
Q Consensus       619 ~l~~~~~~~g~~~~A~~~~~~  639 (702)
                      .++.++...|++++|...+++
T Consensus        83 ~~~~~~~~~~~~~~a~~~~~~  103 (111)
T 2l6j_A           83 RLELAQGAVGSVQIPVVEVDE  103 (111)
T ss_dssp             HHHHHHHHHHCCCCCSSSSSS
T ss_pred             HHHHHHHHHHhHhhhHhHHHH
Confidence            899999988888877665544

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=98.16  E-value=1e-05  Score=63.69  Aligned_cols=66  Identities=17%  Similarity=0.199  Sum_probs=61.4

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 005329          578 KDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSK  643 (702)
Q Consensus       578 p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  643 (702)
                      .+...|..++..+...|++++|+..++++++.+|+++..|..++.+|...|++++|+..+++..+.
T Consensus         5 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l   70 (100)
T 3ma5_A            5 EDPFTRYALAQEHLKHDNASRALALFEELVETDPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIEV   70 (100)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            467788999999999999999999999999999999999999999999999999999999998764

>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=98.15  E-value=2.5e-06  Score=72.00  Aligned_cols=83  Identities=11%  Similarity=0.030  Sum_probs=60.2

Q ss_pred             CCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCC----------HHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcC-
Q 005329          562 GRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGD----------VNCGRHTAEKILELHPSCAGTHITLANIYAAKG-  628 (702)
Q Consensus       562 g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~----------~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g-  628 (702)
                      +.+++|.+.++....  +.+...|..++.++...++          +++|+..|+++++++|++..+|..++.+|...| 
T Consensus        16 ~~feeA~~~~~~Ai~l~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~~~~A~~~LG~ay~~lg~   95 (158)
T 1zu2_A           16 LLFEQIRQDAENTYKSNPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYTSFAF   95 (158)
T ss_dssp             HHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhcc
Confidence            334444444444433  2234444444444444433          679999999999999999999999999999875 


Q ss_pred             ----------ChHHHHHHHHHHHhCC
Q 005329          629 ----------RWREAAEVRKMMRSKG  644 (702)
Q Consensus       629 ----------~~~~A~~~~~~~~~~~  644 (702)
                                ++++|++.|+++.+..
T Consensus        96 l~P~~~~a~g~~~eA~~~~~kAl~l~  121 (158)
T 1zu2_A           96 LTPDETEAKHNFDLATQFFQQAVDEQ  121 (158)
T ss_dssp             HCCCHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             cCcchhhhhccHHHHHHHHHHHHHhC
Confidence                      8999999999998754

>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=98.14  E-value=9.7e-06  Score=81.32  Aligned_cols=86  Identities=12%  Similarity=0.009  Sum_probs=74.3

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhCCCccCCeeeEEEECC
Q 005329          579 DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKGVIKEPGWSRIKVKD  658 (702)
Q Consensus       579 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~  658 (702)
                      +...|..+..++.+.|++++|+..++++++++|+++..+..++.+|...|++++|+..++++.+.               
T Consensus       272 ~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l---------------  336 (370)
T 1ihg_A          272 ALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEI---------------  336 (370)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---------------
T ss_pred             HHHHHHHHHHHHHhccCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHh---------------
Confidence            45688899999999999999999999999999999999999999999999999999999998864               


Q ss_pred             EEEEEEcCCCCCCChhHHHHHHHHHHHHhcCC
Q 005329          659 QVSAFVSSDRRHSQGEDIYRMLDLLASRESDI  690 (702)
Q Consensus       659 ~~~~~~~~~~~~p~~~~~~~~l~~l~~~~~~~  690 (702)
                                 .|....+...+..+....++.
T Consensus       337 -----------~P~~~~~~~~l~~~~~~~~~~  357 (370)
T 1ihg_A          337 -----------APEDKAIQAELLKVKQKIKAQ  357 (370)
T ss_dssp             -----------CTTCHHHHHHHHHHHHHHHHH
T ss_pred             -----------CCCCHHHHHHHHHHHHHHHHH
Confidence                       356667777777766655543

>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=98.13  E-value=8.4e-05  Score=78.87  Aligned_cols=168  Identities=5%  Similarity=-0.084  Sum_probs=135.9

Q ss_pred             CHHHHHHHHhhCC---CCCHHHHHHHHHHHHHcCC----------hHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccC-
Q 005329          461 SIKEASQIFYETE---SDDIVSWTAMINGYAEHGY----------SQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAG-  526 (702)
Q Consensus       461 ~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~----------~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g-  526 (702)
                      .-++|++.++++.   ..+..+|+.-..++...|+          ++++++.++++.+.. +-+..+|..-...+.+.+ 
T Consensus        44 ~~eeal~~~~~~l~~nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~-pK~y~aW~hR~w~l~~l~~  122 (567)
T 1dce_A           44 LDESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPE  122 (567)
T ss_dssp             CSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSS
T ss_pred             CCHHHHHHHHHHHHHCchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHccc
Confidence            3456677777665   3355677777777777776          899999999998753 446678887777788888 


Q ss_pred             -cHHHHHHHHHHhHHhhCCCC-ChhhHHHHHHHHHhcC-CHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhc--------
Q 005329          527 -LVDLGFHYFNLMSDKYGFVP-SKEHYGCMIDLLCRAG-RLSDAENMIENMPH--QKDDVVWSTLLRACMVQ--------  593 (702)
Q Consensus       527 -~~~~A~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~--------  593 (702)
                       +++++++.++++.+.   .| +...|+.-..++.+.| .+++++++++++..  ..+..+|+.....+...        
T Consensus       123 ~~~~~el~~~~k~l~~---d~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~saW~~r~~ll~~l~~~~~~~~  199 (567)
T 1dce_A          123 PNWARELELCARFLEA---DERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGP  199 (567)
T ss_dssp             CCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSS
T ss_pred             ccHHHHHHHHHHHHhh---ccccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCccHHHHHHHHHHhhcccccccc
Confidence             779999999999865   45 4777887788888888 89999999999988  34678888888877653        


Q ss_pred             ------CCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHH
Q 005329          594 ------GDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWRE  632 (702)
Q Consensus       594 ------g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  632 (702)
                            +.++++.+.++++++.+|++..+|..+.+++.+.|+.++
T Consensus       200 ~~~~~~~~~~eel~~~~~ai~~~P~~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          200 QGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             CCSSCHHHHHHHHHHHHHHHHHCSSCSHHHHHHHHHHSCCCCCSC
T ss_pred             cccccHHHHHHHHHHHHHHHhhCCCCccHHHHHHHHHhcCCCccc
Confidence                  567999999999999999999999999999999998665

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.13  E-value=3.9e-06  Score=83.31  Aligned_cols=116  Identities=5%  Similarity=-0.054  Sum_probs=88.5

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 005329          513 VTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPHQKDDVVWSTLLRACMV  592 (702)
Q Consensus       513 ~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~  592 (702)
                      ..+..+...+...|++++|...|+++...   .|+...       +...|+.+++...+.       ...|..+..++.+
T Consensus       180 ~~~~~~g~~~~~~g~~~~A~~~y~~Al~~---~p~~~~-------~~~~~~~~~~~~~l~-------~~~~~nla~~~~~  242 (338)
T 2if4_A          180 DRRKMDGNSLFKEEKLEEAMQQYEMAIAY---MGDDFM-------FQLYGKYQDMALAVK-------NPCHLNIAACLIK  242 (338)
T ss_dssp             HHHHHHHHHTCSSSCCHHHHHHHHHHHHH---SCHHHH-------HTCCHHHHHHHHHHH-------THHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHH---hccchh-------hhhcccHHHHHHHHH-------HHHHHHHHHHHHH
Confidence            45666677777888888888888877643   343221       223344444443332       2378889999999


Q ss_pred             cCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 005329          593 QGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKGV  645 (702)
Q Consensus       593 ~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  645 (702)
                      .|++++|+..++++++++|++...|..++.+|...|++++|+..++++.+..+
T Consensus       243 ~g~~~~A~~~~~~al~~~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p  295 (338)
T 2if4_A          243 LKRYDEAIGHCNIVLTEEEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAP  295 (338)
T ss_dssp             TTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC---
T ss_pred             cCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCC
Confidence            99999999999999999999999999999999999999999999999876543

>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=98.13  E-value=0.00044  Score=66.96  Aligned_cols=177  Identities=8%  Similarity=0.009  Sum_probs=102.9

Q ss_pred             HHHHHHHhhCC---CCCHHHHHHHHHHHHHcCC--hHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCc-HHHHHHHHH
Q 005329          463 KEASQIFYETE---SDDIVSWTAMINGYAEHGY--SQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGL-VDLGFHYFN  536 (702)
Q Consensus       463 ~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~--~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~-~~~A~~~~~  536 (702)
                      ++++.+++.+.   +.+..+|+--..++...++  +++++.+++++.+.. +-|...|+.-...+...|. ++++++.++
T Consensus        91 ~~EL~~~~~~L~~~PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~d-prNy~AW~~R~~vl~~l~~~~~eel~~~~  169 (331)
T 3dss_A           91 KAELGFLESCLRVNPKSYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTD  169 (331)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCcCHHHHHHHHH
Confidence            34444444433   2355555555555555553  566777776666542 3344555554444555555 466677776


Q ss_pred             HhHHhhCCCC-ChhhHHHHHHHHHhc--------------CCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhc------
Q 005329          537 LMSDKYGFVP-SKEHYGCMIDLLCRA--------------GRLSDAENMIENMPH--QKDDVVWSTLLRACMVQ------  593 (702)
Q Consensus       537 ~~~~~~~~~p-~~~~~~~l~~~~~~~--------------g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~------  593 (702)
                      .+.+.   .| |...|+....++.+.              +.+++++++++.+..  +.+..+|+-+-..+...      
T Consensus       170 ~~I~~---~p~N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~P~d~SaW~Y~r~ll~~~~~~~~~  246 (331)
T 3dss_A          170 SLITR---NFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGAGSGRCEL  246 (331)
T ss_dssp             HHHHH---CSCCHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHSSSCGGGC
T ss_pred             HHHHH---CCCCHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhccCcccc
Confidence            66654   33 355555444444433              346667777766655  33555665554444433      


Q ss_pred             -----CCHHHHHHHHHHHHHhCCCCchhHHHHHHHHH---hcCChHHHHHHHHHHHhC
Q 005329          594 -----GDVNCGRHTAEKILELHPSCAGTHITLANIYA---AKGRWREAAEVRKMMRSK  643 (702)
Q Consensus       594 -----g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~---~~g~~~~A~~~~~~~~~~  643 (702)
                           +.++++++.+++++++.|++..++..++....   ..|..++....+.++.+.
T Consensus       247 ~~~~~~~l~~el~~~~elle~~pd~~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~  304 (331)
T 3dss_A          247 SVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAV  304 (331)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHHHHhhCcccchHHHHHHHHHHhhcccccHHHHHHHHHHHHHh
Confidence                 45788888888888888888665555544322   357777888888887763

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.12  E-value=6.5e-06  Score=66.88  Aligned_cols=78  Identities=12%  Similarity=0.096  Sum_probs=65.3

Q ss_pred             HHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 005329          566 DAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSK  643 (702)
Q Consensus       566 ~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  643 (702)
                      +|+..|+++..  +.+...+..++..+...|++++|+..++++++.+|+++..+..++.+|...|++++|...++++.+.
T Consensus         3 ~a~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~   82 (115)
T 2kat_A            3 AITERLEAMLAQGTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESGLAA   82 (115)
T ss_dssp             CHHHHHHHHHTTTCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            35556666544  3457788888889999999999999999999999999999999999999999999999999988764

>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=98.11  E-value=5.3e-06  Score=70.16  Aligned_cols=72  Identities=13%  Similarity=0.105  Sum_probs=55.4

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHhCCC--------CC-CHHHH----HHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchh
Q 005329          550 HYGCMIDLLCRAGRLSDAENMIENMPH--------QK-DDVVW----STLLRACMVQGDVNCGRHTAEKILELHPSCAGT  616 (702)
Q Consensus       550 ~~~~l~~~~~~~g~~~~A~~~~~~~~~--------~p-~~~~~----~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~  616 (702)
                      .|..+..++.+.|++++|+..+++...        .| +...|    ...+.++...|++++|+..|++++++.|++...
T Consensus        59 a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~p~d~~~  138 (159)
T 2hr2_A           59 CHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGE  138 (159)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCCSC
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHH
Confidence            566666677777777776666655432        44 45688    899999999999999999999999999998876


Q ss_pred             HHHHH
Q 005329          617 HITLA  621 (702)
Q Consensus       617 ~~~l~  621 (702)
                      +.-+.
T Consensus       139 ~~~~~  143 (159)
T 2hr2_A          139 TPGKE  143 (159)
T ss_dssp             CTTHH
T ss_pred             HHHHH
Confidence            65443

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.09  E-value=1.5e-05  Score=61.22  Aligned_cols=81  Identities=22%  Similarity=0.282  Sum_probs=65.6

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHH
Q 005329          548 KEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYA  625 (702)
Q Consensus       548 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  625 (702)
                      ...+..+...+...|++++|...+++...  +.+...+..++..+...|++++|...++++++.+|.++..+..++.++.
T Consensus         9 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~   88 (91)
T 1na3_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAKQNLGNAKQ   88 (91)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHH
Confidence            45666777778888888888888877765  3456778888888889999999999999999999988888888888887


Q ss_pred             hcC
Q 005329          626 AKG  628 (702)
Q Consensus       626 ~~g  628 (702)
                      +.|
T Consensus        89 ~~g   91 (91)
T 1na3_A           89 KQG   91 (91)
T ss_dssp             HHC
T ss_pred             hcC
Confidence            654

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.06  E-value=7e-06  Score=84.90  Aligned_cols=128  Identities=13%  Similarity=0.088  Sum_probs=93.1

Q ss_pred             HhccCcHHHHHHHHHHhHHhhC--CCCC----hhhHHHHHHHHHhcCCHHHHHHHHHhCCC---------CCC-HHHHHH
Q 005329          522 CSHAGLVDLGFHYFNLMSDKYG--FVPS----KEHYGCMIDLLCRAGRLSDAENMIENMPH---------QKD-DVVWST  585 (702)
Q Consensus       522 ~~~~g~~~~A~~~~~~~~~~~~--~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---------~p~-~~~~~~  585 (702)
                      +...|++++|..++++..+...  +.|+    ..+++.|+.+|...|++++|..++++...         .|+ ..+++.
T Consensus       319 ~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~n  398 (490)
T 3n71_A          319 ARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMR  398 (490)
T ss_dssp             HHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHH
T ss_pred             HHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            4456777777777666554321  2222    45677788888888888888887777654         233 457888


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHh-----CCCCch---hHHHHHHHHHhcCChHHHHHHHHHHHhCCCccCC
Q 005329          586 LLRACMVQGDVNCGRHTAEKILEL-----HPSCAG---THITLANIYAAKGRWREAAEVRKMMRSKGVIKEP  649 (702)
Q Consensus       586 l~~~~~~~g~~~~A~~~~~~~~~~-----~p~~~~---~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~  649 (702)
                      |+..|...|++++|+.++++++++     +|+++.   ....|..++.++|++++|..++.+++++..+..+
T Consensus       399 La~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~~~~~~~  470 (490)
T 3n71_A          399 AGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREAALNNQP  470 (490)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTC--
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence            999999999999999999999874     677765   4567888899999999999999999875543333

>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=98.06  E-value=1.1e-05  Score=84.06  Aligned_cols=92  Identities=12%  Similarity=0.055  Sum_probs=83.7

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhCCC-C-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCC
Q 005329          552 GCMIDLLCRAGRLSDAENMIENMPH-Q-KDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGR  629 (702)
Q Consensus       552 ~~l~~~~~~~g~~~~A~~~~~~~~~-~-p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  629 (702)
                      ..+...+.+.|++++|.+.++++.. . .+..+|..++.++...|++++|++.++++++++|+++..+..++.+|...|+
T Consensus        10 ~~lg~~~~~~g~~~~A~~~~~~Al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~~g~   89 (477)
T 1wao_1           10 KTQANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGK   89 (477)
T ss_dssp             SSSSSSTTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCC
Confidence            3445567789999999999999877 4 4588999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHHHhC
Q 005329          630 WREAAEVRKMMRSK  643 (702)
Q Consensus       630 ~~~A~~~~~~~~~~  643 (702)
                      +++|++.++++.+.
T Consensus        90 ~~eA~~~~~~al~~  103 (477)
T 1wao_1           90 FRAALRDYETVVKV  103 (477)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh
Confidence            99999999999874

>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=98.05  E-value=0.0015  Score=63.23  Aligned_cols=193  Identities=7%  Similarity=-0.035  Sum_probs=129.7

Q ss_pred             HHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcC--CHHHHHHHHhhCC---CCCHHHHHHHHHHHHHcCC-hHHHHHHH
Q 005329          427 LEQGKQIHAHVMSIGLERTAMIKSALINMYSKCG--SIKEASQIFYETE---SDDIVSWTAMINGYAEHGY-SQEAIHLF  500 (702)
Q Consensus       427 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g--~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~-~~~A~~~~  500 (702)
                      ++.+..+++.+....+ .+..+++.-...+.+.+  .+++++.+++.+.   ..|..+|+--.-++...|. ++++++.+
T Consensus        90 l~~EL~~~~~~L~~~P-Kny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~dprNy~AW~~R~~vl~~l~~~~~eel~~~  168 (331)
T 3dss_A           90 VKAELGFLESCLRVNP-KSYGTWHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFT  168 (331)
T ss_dssp             HHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCC-CCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCcCHHHHHHHH
Confidence            4556666666665442 34555555555555555  4778888887766   3566777777777777787 58899999


Q ss_pred             HHchhCCCCCCHHHHHHHHHHHhcc--------------CcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhc----
Q 005329          501 EKVPMVGLRPDSVTFMGVLTACSHA--------------GLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRA----  561 (702)
Q Consensus       501 ~~m~~~g~~p~~~~~~~ll~~~~~~--------------g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~----  561 (702)
                      +++++.. +-|...|+.....+...              +.++++++.+..+...   .|+ ...|+-+-..+.+.    
T Consensus       169 ~~~I~~~-p~N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~---~P~d~SaW~Y~r~ll~~~~~~~  244 (331)
T 3dss_A          169 DSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFT---DPNDQSAWFYHRWLLGAGSGRC  244 (331)
T ss_dssp             HHHHHHC-SCCHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHH---STTCHHHHHHHHHHHHSSSCGG
T ss_pred             HHHHHHC-CCCHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHhccCcc
Confidence            8888753 34556666554444333              5678899999888754   565 66666555555444    


Q ss_pred             -------CCHHHHHHHHHhCCC-CCCHHHHHHHHHHH-----HhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHH
Q 005329          562 -------GRLSDAENMIENMPH-QKDDVVWSTLLRAC-----MVQGDVNCGRHTAEKILELHPSCAGTHITLANIYA  625 (702)
Q Consensus       562 -------g~~~~A~~~~~~~~~-~p~~~~~~~l~~~~-----~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  625 (702)
                             +.++++++.++++.+ .|+. .|..+..+.     ...|..++....+.++.+++|...+-|..+...+.
T Consensus       245 ~~~~~~~~~l~~el~~~~elle~~pd~-~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~Dp~r~~~y~d~~~~~~  320 (331)
T 3dss_A          245 ELSVEKSTVLQSELESCKELQELEPEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDDLRSKFL  320 (331)
T ss_dssp             GCCHHHHHHHHHHHHHHHHHHHHCTTC-HHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHHCGGGHHHHHHHHHHHH
T ss_pred             ccchHHHHHHHHHHHHHHHHHhhCccc-chHHHHHHHHHHhhcccccHHHHHHHHHHHHHhCcchhhHHHHHHHHHH
Confidence                   457888888888877 5654 444332222     24678889999999999999988888887765543

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.05  E-value=1.5e-05  Score=69.09  Aligned_cols=133  Identities=14%  Similarity=0.065  Sum_probs=89.7

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHchhCCC-CCCH----HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC----hh
Q 005329          479 SWTAMINGYAEHGYSQEAIHLFEKVPMVGL-RPDS----VTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS----KE  549 (702)
Q Consensus       479 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~----~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~----~~  549 (702)
                      ++..+...+...|++++|+..+++..+..- .++.    .++..+...+...|++++|.+.+++..+...-.++    ..
T Consensus        11 ~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~   90 (164)
T 3ro3_A           11 AFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQ   90 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHH
Confidence            455566666677777777777766553210 0111    35666777777888888888888776543211111    44


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHhCCC----CC----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCC
Q 005329          550 HYGCMIDLLCRAGRLSDAENMIENMPH----QK----DDVVWSTLLRACMVQGDVNCGRHTAEKILELHP  611 (702)
Q Consensus       550 ~~~~l~~~~~~~g~~~~A~~~~~~~~~----~p----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p  611 (702)
                      .+..+...+...|++++|...+++...    .+    ....+..+...+...|++++|.+.+++++++..
T Consensus        91 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~  160 (164)
T 3ro3_A           91 SCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISR  160 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHH
Confidence            567778888888888888888877654    11    234677788888999999999999999887653

>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=98.02  E-value=5.5e-05  Score=63.59  Aligned_cols=112  Identities=8%  Similarity=-0.097  Sum_probs=83.3

Q ss_pred             CcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHH
Q 005329          526 GLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPHQKDDVVWSTLLRACMV----QGDVNCGRH  601 (702)
Q Consensus       526 g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~  601 (702)
                      +++++|.++|++..+. + .|+  ..  |...|...+..++|.++|++.....+...+..|...|..    .+++++|.+
T Consensus         9 ~d~~~A~~~~~~aa~~-g-~~~--a~--lg~~y~~g~~~~~A~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~   82 (138)
T 1klx_A            9 KDLKKAIQYYVKACEL-N-EMF--GC--LSLVSNSQINKQKLFQYLSKACELNSGNGCRFLGDFYENGKYVKKDLRKAAQ   82 (138)
T ss_dssp             HHHHHHHHHHHHHHHT-T-CTT--HH--HHHHTCTTSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHH
T ss_pred             cCHHHHHHHHHHHHcC-C-CHh--hh--HHHHHHcCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHcCCCCCccHHHHHH
Confidence            4567777777777654 3 222  22  666777777777777777777666677777778777776    778888888


Q ss_pred             HHHHHHHhCCCCchhHHHHHHHHHh----cCChHHHHHHHHHHHhCCC
Q 005329          602 TAEKILELHPSCAGTHITLANIYAA----KGRWREAAEVRKMMRSKGV  645 (702)
Q Consensus       602 ~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~  645 (702)
                      .++++.+.  .++..+..|+.+|..    .+++++|.+++++..+.|.
T Consensus        83 ~~~~Aa~~--g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A           83 YYSKACGL--NDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             HHHHHHHT--TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHcC--CCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCC
Confidence            88888776  467788888888888    7888888888888877664

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.01  E-value=5.4e-05  Score=78.18  Aligned_cols=158  Identities=9%  Similarity=0.000  Sum_probs=119.0

Q ss_pred             HHHHHcCChHHHHHHHHHchhCCCCCC----------------HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCCh
Q 005329          485 NGYAEHGYSQEAIHLFEKVPMVGLRPD----------------SVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSK  548 (702)
Q Consensus       485 ~~~~~~g~~~~A~~~~~~m~~~g~~p~----------------~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~  548 (702)
                      ..+.+.|++++|++.|.++.+..-...                ...+..+...|...|++++|.+++..+.+..+..++.
T Consensus        12 ~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~   91 (434)
T 4b4t_Q           12 RRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKS   91 (434)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccch
Confidence            456677888888888888776421111                1236778899999999999999999887653333332


Q ss_pred             ----hhHHHHHHHHHhcCCHHHHHHHHHhCCC-------CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC------
Q 005329          549 ----EHYGCMIDLLCRAGRLSDAENMIENMPH-------QK-DDVVWSTLLRACMVQGDVNCGRHTAEKILELH------  610 (702)
Q Consensus       549 ----~~~~~l~~~~~~~g~~~~A~~~~~~~~~-------~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~------  610 (702)
                          .+.+.+...+...|++++|..+++....       .+ ...++..++..+...|++++|...++++....      
T Consensus        92 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~  171 (434)
T 4b4t_Q           92 KTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDDK  171 (434)
T ss_dssp             HHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCS
T ss_pred             HHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccc
Confidence                2344455566678999999998877643       22 24577889999999999999999999998752      


Q ss_pred             CCCchhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 005329          611 PSCAGTHITLANIYAAKGRWREAAEVRKMMRS  642 (702)
Q Consensus       611 p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  642 (702)
                      |.....+..++.+|...|++++|..++++...
T Consensus       172 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~  203 (434)
T 4b4t_Q          172 PSLVDVHLLESKVYHKLRNLAKSKASLTAART  203 (434)
T ss_dssp             THHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHH
Confidence            33356889999999999999999999998765

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.01  E-value=5.3e-05  Score=58.09  Aligned_cols=65  Identities=29%  Similarity=0.345  Sum_probs=60.6

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 005329          579 DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSK  643 (702)
Q Consensus       579 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  643 (702)
                      +...+..+...+...|++++|+..++++++.+|+++..+..++.++...|++++|...++++.+.
T Consensus         8 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~   72 (91)
T 1na3_A            8 SAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALEL   72 (91)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            35678889999999999999999999999999999999999999999999999999999998764

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.92  E-value=6.9e-05  Score=57.52  Aligned_cols=69  Identities=13%  Similarity=0.029  Sum_probs=61.1

Q ss_pred             CCCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 005329          577 QKDDVVWSTLLRACMVQGD---VNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKGV  645 (702)
Q Consensus       577 ~p~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  645 (702)
                      ++++..+..+..++...++   .++|...++++++.+|+++.....++..+.+.|++++|+.+|+++.+..+
T Consensus         3 p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p   74 (93)
T 3bee_A            3 AVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSND   74 (93)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCC
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            4567788888888765554   79999999999999999999999999999999999999999999998654

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=97.92  E-value=1.4e-05  Score=78.55  Aligned_cols=238  Identities=11%  Similarity=0.071  Sum_probs=174.0

Q ss_pred             CchhhhhHHHHHHccCChHHHHHHhhcCCCCCcchHHHHHHHHHcCCChhHHHHHHHHhhhCCCCCCCHHHHHHHHHHhh
Q 005329           40 STPEVNSQLKHLVKSGYLHDARKMFDTMTQRDEISWTTLISGYVKAMDSIEALALFSRVWVEPQMNMDPFILSLALKACA  119 (702)
Q Consensus        40 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~  119 (702)
                      ...+|+.|.++..+.|++.+|+..|  ++..|+..|..++.+..+.|.+++-+.+++-.++.   .-++..=+.|+-+|+
T Consensus        53 ~p~VWs~LgkAqL~~~~v~eAIdsy--IkA~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~---~ke~~IDteLi~ayA  127 (624)
T 3lvg_A           53 EPAVWSQLAKAQLQKGMVKEAIDSY--IKADDPSSYMEVVQAANTSGNWEELVKYLQMARKK---ARESYVETELIFALA  127 (624)
T ss_dssp             CCCCSSSHHHHTTTSSSCTTTTTSS--CCCSCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTT---CCSTTTTHHHHHHHH
T ss_pred             CccHHHHHHHHHHccCchHHHHHHH--HhCCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHH---hcccccHHHHHHHHH
Confidence            3567999999999999999999887  44557788999999999999999999999877644   445556678888999


Q ss_pred             ccCCchhhhHHHHHHHHhcCCCchhHHHHHHHhhhcCCChhHHHHHhccCC------------------------CCCcc
Q 005329          120 LNVNVNYGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKIELGCRVFDEMP------------------------LRNVV  175 (702)
Q Consensus       120 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~------------------------~~~~~  175 (702)
                      +.+++.+.+.++.       .|+..-...+.+-|...|.++.|.-+|..++                        ..++.
T Consensus       128 k~~rL~elEefl~-------~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~k  200 (624)
T 3lvg_A          128 KTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTR  200 (624)
T ss_dssp             TSCSSSTTTSTTS-------CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSC
T ss_pred             hhCcHHHHHHHHc-------CCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChh
Confidence            9998877655433       3555455555666666677777777766653                        24788


Q ss_pred             hHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhh
Q 005329          176 SWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSGALNFGREIHTIMLKRGFDVVSFVANSLATMYS  255 (702)
Q Consensus       176 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~  255 (702)
                      +|-.+-.+|...+.+.-|.-.--.++-   .|  .....++..|-..|.+++...+++...... .....+|+-|.-.|+
T Consensus       201 tWKeV~~ACvd~~EfrLAqicGLniIv---ha--deL~elv~~YE~~G~f~ELIsLlEaglglE-rAHmGmFTELaILYs  274 (624)
T 3lvg_A          201 TWKEVCFACVDGKEFRLAQMCGLHIVV---HA--DELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYS  274 (624)
T ss_dssp             SHHHHTHHHHHSCTTTTTTHHHHHHHC---CS--SCCSGGGSSSSTTCCCTTSTTTHHHHTTST-TCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCchHHHHHHHhcchhcc---cH--HHHHHHHHHHHhCCCHHHHHHHHHHHhCCC-chhHHHHHHHHHHHH
Confidence            999999999999999888765444432   22  234456777888999999988888776322 456778888888888


Q ss_pred             hCCChHHHHHHHhccCC----C-------CcchHHHHHHHHHhcCChhHHHH
Q 005329          256 KCGKLDYSLRLFERMST----R-------DVISWTTIITSYVQMGEEENAFD  296 (702)
Q Consensus       256 ~~g~~~~A~~~~~~~~~----~-------~~~~~~~li~~~~~~g~~~~a~~  296 (702)
                      +- +.++..+-++..-.    |       ....|.-++-.|++-.++|.|..
T Consensus       275 KY-~PeKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~l  325 (624)
T 3lvg_A          275 KF-KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAII  325 (624)
T ss_dssp             SS-CTTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHHH
T ss_pred             hc-CHHHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHHH
Confidence            76 45555554443321    2       45678888888888888887653

>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=97.83  E-value=2.8e-05  Score=65.60  Aligned_cols=91  Identities=9%  Similarity=-0.026  Sum_probs=60.8

Q ss_pred             ccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCH----------HHHHHHHHhCCC-CC-CHHHHHHHHHHH
Q 005329          524 HAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRL----------SDAENMIENMPH-QK-DDVVWSTLLRAC  590 (702)
Q Consensus       524 ~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~----------~~A~~~~~~~~~-~p-~~~~~~~l~~~~  590 (702)
                      +.+.+++|++.++...+.   .|+ ...|..+..++...|++          ++|+..|+++.. .| ...+|..++.+|
T Consensus        14 r~~~feeA~~~~~~Ai~l---~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~~~~A~~~LG~ay   90 (158)
T 1zu2_A           14 RILLFEQIRQDAENTYKS---NPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAY   90 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHHH---CCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcCcHHHHHHHHHHH
Confidence            344556666666666543   443 55666666666655543          477777777666 33 456777777777


Q ss_pred             Hhc-----------CCHHHHHHHHHHHHHhCCCCchhH
Q 005329          591 MVQ-----------GDVNCGRHTAEKILELHPSCAGTH  617 (702)
Q Consensus       591 ~~~-----------g~~~~A~~~~~~~~~~~p~~~~~~  617 (702)
                      ...           |++++|++.|+++++++|++....
T Consensus        91 ~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l~P~~~~y~  128 (158)
T 1zu2_A           91 TSFAFLTPDETEAKHNFDLATQFFQQAVDEQPDNTHYL  128 (158)
T ss_dssp             HHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             HHhcccCcchhhhhccHHHHHHHHHHHHHhCCCCHHHH
Confidence            665           589999999999999999875443

>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=97.83  E-value=0.00017  Score=76.62  Aligned_cols=157  Identities=8%  Similarity=0.030  Sum_probs=127.1

Q ss_pred             cCChHHHHHHHHHchhCCCCCCH-HHHHHHHHHHhccCc----------HHHHHHHHHHhHHhhCCCCC-hhhHHHHHHH
Q 005329          490 HGYSQEAIHLFEKVPMVGLRPDS-VTFMGVLTACSHAGL----------VDLGFHYFNLMSDKYGFVPS-KEHYGCMIDL  557 (702)
Q Consensus       490 ~g~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~g~----------~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~  557 (702)
                      ....++|++.++++...  .|+. ..|+.--.++...|+          ++++++.++.+.+.   .|. ..+|..-..+
T Consensus        42 ~~~~eeal~~~~~~l~~--nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~---~pK~y~aW~hR~w~  116 (567)
T 1dce_A           42 GELDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRV---NPKSYGTWHHRCWL  116 (567)
T ss_dssp             TCCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHH---CTTCHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHH--CchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHh---CCCCHHHHHHHHHH
Confidence            34456889999999974  5654 556655555555666          89999999999865   554 7778877888


Q ss_pred             HHhcC--CHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhc-----
Q 005329          558 LCRAG--RLSDAENMIENMPH--QKDDVVWSTLLRACMVQG-DVNCGRHTAEKILELHPSCAGTHITLANIYAAK-----  627 (702)
Q Consensus       558 ~~~~g--~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~-----  627 (702)
                      +.+.|  ++++++++++++.+  +.+..+|+.-..++...| .++++.+.++++++.+|.|..+|...+.++.+.     
T Consensus       117 l~~l~~~~~~~el~~~~k~l~~d~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~saW~~r~~ll~~l~~~~~  196 (567)
T 1dce_A          117 LSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPD  196 (567)
T ss_dssp             HHTCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCC
T ss_pred             HHHcccccHHHHHHHHHHHHhhccccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCccHHHHHHHHHHhhccccc
Confidence            88889  77999999999988  457889999999999999 899999999999999999999999999998874     


Q ss_pred             ---------CChHHHHHHHHHHHhCCCccCCee
Q 005329          628 ---------GRWREAAEVRKMMRSKGVIKEPGW  651 (702)
Q Consensus       628 ---------g~~~~A~~~~~~~~~~~~~~~~~~  651 (702)
                               +++++|+++++++....+....+|
T Consensus       197 ~~~~~~~~~~~~~eel~~~~~ai~~~P~~~saW  229 (567)
T 1dce_A          197 SGPQGRLPENVLLKELELVQNAFFTDPNDQSAW  229 (567)
T ss_dssp             SSSCCSSCHHHHHHHHHHHHHHHHHCSSCSHHH
T ss_pred             ccccccccHHHHHHHHHHHHHHHhhCCCCccHH
Confidence                     567999999998887554444433

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.78  E-value=1.5e-05  Score=82.42  Aligned_cols=117  Identities=9%  Similarity=-0.075  Sum_probs=91.1

Q ss_pred             HHHhcCCHHHHHHHHHhCCC---------CCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHh-----CCCCc---hhHH
Q 005329          557 LLCRAGRLSDAENMIENMPH---------QKD-DVVWSTLLRACMVQGDVNCGRHTAEKILEL-----HPSCA---GTHI  618 (702)
Q Consensus       557 ~~~~~g~~~~A~~~~~~~~~---------~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~p~~~---~~~~  618 (702)
                      .+...|++++|+.++++...         .|+ ..+++.|+.+|...|++++|+.+++++++.     +|+++   ..+.
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            45678999999998877644         232 458899999999999999999999999874     45554   5788


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhCCCccCCeeeEEEECCEEEEEEcCCCCCCChhHHHHHHHHHHHHhcCCC
Q 005329          619 TLANIYAAKGRWREAAEVRKMMRSKGVIKEPGWSRIKVKDQVSAFVSSDRRHSQGEDIYRMLDLLASRESDID  691 (702)
Q Consensus       619 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~l~~l~~~~~~~~  691 (702)
                      .|+.+|..+|++++|+.+++++.+..- ...                | ..||...++...+.+...+.+...
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al~i~~-~~l----------------G-~~Hp~~~~~~~~l~~~~~e~~~~~  452 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAYAILL-VTH----------------G-PSHPITKDLEAMRMQTEMELRMFR  452 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHH-HHT----------------C-TTSHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHH-HHh----------------C-CCChHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999999999876211 000                1 368999999888888876665543

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.69  E-value=0.00013  Score=58.89  Aligned_cols=80  Identities=15%  Similarity=-0.002  Sum_probs=60.6

Q ss_pred             HHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 005329          530 LGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKI  606 (702)
Q Consensus       530 ~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~  606 (702)
                      .|++.|+++.+   ..|+ ...+..++.+|...|++++|...|++...  +.+...|..++.++...|++++|...++++
T Consensus         3 ~a~~~~~~al~---~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~a   79 (115)
T 2kat_A            3 AITERLEAMLA---QGTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESG   79 (115)
T ss_dssp             CHHHHHHHHHT---TTCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHH---hCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            35566666653   3454 66777788888888888888888887766  345678888888888889999999999998


Q ss_pred             HHhCCC
Q 005329          607 LELHPS  612 (702)
Q Consensus       607 ~~~~p~  612 (702)
                      +++.|.
T Consensus        80 l~~~~~   85 (115)
T 2kat_A           80 LAAAQS   85 (115)
T ss_dssp             HHHHHH
T ss_pred             HHhccc
Confidence            888764

>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=97.59  E-value=0.00072  Score=56.62  Aligned_cols=112  Identities=13%  Similarity=-0.009  Sum_probs=95.9

Q ss_pred             CChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHh----cCCHHH
Q 005329          491 GYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCR----AGRLSD  566 (702)
Q Consensus       491 g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~  566 (702)
                      +++++|++.|++..+.| .|+..    +...|...+.+++|.++|++..+.    -+...+..|...|..    .+++++
T Consensus         9 ~d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~----g~~~a~~~Lg~~y~~G~g~~~d~~~   79 (138)
T 1klx_A            9 KDLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACEL----NSGNGCRFLGDFYENGKYVKKDLRK   79 (138)
T ss_dssp             HHHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHCSSSCCCHHH
T ss_pred             cCHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcC----CCHHHHHHHHHHHHcCCCCCccHHH
Confidence            46889999999999887 44444    667777888899999999998765    367788889999988    899999


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHhCC
Q 005329          567 AENMIENMPHQKDDVVWSTLLRACMV----QGDVNCGRHTAEKILELHP  611 (702)
Q Consensus       567 A~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~p  611 (702)
                      |..+|++..+..++..+..|...|..    .++.++|...++++.+.+.
T Consensus        80 A~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A           80 AAQYYSKACGLNDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCC
Confidence            99999999887888999999999998    8999999999999999864

>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=97.59  E-value=0.00013  Score=74.21  Aligned_cols=115  Identities=14%  Similarity=0.105  Sum_probs=83.6

Q ss_pred             HHHHhcCCHHHHHHHHHhCCC------CC----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh-----CCCCc---hhH
Q 005329          556 DLLCRAGRLSDAENMIENMPH------QK----DDVVWSTLLRACMVQGDVNCGRHTAEKILEL-----HPSCA---GTH  617 (702)
Q Consensus       556 ~~~~~~g~~~~A~~~~~~~~~------~p----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~p~~~---~~~  617 (702)
                      ..+.+.|++++|+.++++...      .|    -..+++.|+.+|...|++++|+.+++++++.     +|+++   ..+
T Consensus       295 e~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l  374 (429)
T 3qwp_A          295 EELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQV  374 (429)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHH
T ss_pred             HHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHH
Confidence            345566777888777766543      12    1347788888899999999999999988874     45554   578


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhCCCccCCeeeEEEECCEEEEEEcCCCCCCChhHHHHHHHHHHHHhc
Q 005329          618 ITLANIYAAKGRWREAAEVRKMMRSKGVIKEPGWSRIKVKDQVSAFVSSDRRHSQGEDIYRMLDLLASRES  688 (702)
Q Consensus       618 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~l~~l~~~~~  688 (702)
                      ..|+.+|..+|++++|+.+++++.+.-- ...                | ..||...+++..+.....++.
T Consensus       375 ~nLa~~~~~~g~~~eA~~~~~~Al~i~~-~~l----------------G-~~Hp~~~~~~~~l~~~~~e~~  427 (429)
T 3qwp_A          375 MKVGKLQLHQGMFPQAMKNLRLAFDIMR-VTH----------------G-REHSLIEDLILLLEECDANIR  427 (429)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHH-HHT----------------C-TTSHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHHHH-Hhc----------------C-CCChHHHHHHHHHHHHHHHHh
Confidence            8899999999999999999998876211 111                1 268888888888888766543

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.55  E-value=0.00057  Score=53.22  Aligned_cols=63  Identities=17%  Similarity=0.239  Sum_probs=30.9

Q ss_pred             HHHHHhcCCHHHHHHHHHhCCC-CC-CHH-HHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhH
Q 005329          555 IDLLCRAGRLSDAENMIENMPH-QK-DDV-VWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTH  617 (702)
Q Consensus       555 ~~~~~~~g~~~~A~~~~~~~~~-~p-~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~  617 (702)
                      +..+.+.|++++|...++++.. .| +.. .|..++.++...|++++|+..++++++++|+++..+
T Consensus         7 a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~   72 (99)
T 2kc7_A            7 IKELINQGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNPDSPALQ   72 (99)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHH
Confidence            3344455555555555554443 22 333 444555555555555555555555555555544443

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.55  E-value=0.00011  Score=57.36  Aligned_cols=58  Identities=19%  Similarity=0.338  Sum_probs=36.0

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHhCCCCch-hHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 005329          587 LRACMVQGDVNCGRHTAEKILELHPSCAG-THITLANIYAAKGRWREAAEVRKMMRSKG  644 (702)
Q Consensus       587 ~~~~~~~g~~~~A~~~~~~~~~~~p~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  644 (702)
                      +..+...|++++|+..++++++.+|+++. .+..++.+|...|++++|+..++++.+..
T Consensus         7 a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~   65 (99)
T 2kc7_A            7 IKELINQGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELN   65 (99)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            44455666666666666666666666666 66666666666666666666666665543

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.39  E-value=0.00035  Score=54.69  Aligned_cols=64  Identities=9%  Similarity=-0.060  Sum_probs=50.3

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCC
Q 005329          548 KEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHP  611 (702)
Q Consensus       548 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p  611 (702)
                      ...+..+..+|...|++++|+..|+++..  +.+...|..++.+|...|++++|++.+++++++.|
T Consensus         7 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~~   72 (100)
T 3ma5_A            7 PFTRYALAQEHLKHDNASRALALFEELVETDPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIEVAR   72 (100)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhhh
Confidence            66677778888888888888888887766  33566788888888888888888888888888765

>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=97.39  E-value=0.00017  Score=73.33  Aligned_cols=82  Identities=12%  Similarity=0.060  Sum_probs=63.3

Q ss_pred             cCCHHHHHHHHHhCCC---------CCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHh-----CCCC---chhHHHHHH
Q 005329          561 AGRLSDAENMIENMPH---------QKD-DVVWSTLLRACMVQGDVNCGRHTAEKILEL-----HPSC---AGTHITLAN  622 (702)
Q Consensus       561 ~g~~~~A~~~~~~~~~---------~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~p~~---~~~~~~l~~  622 (702)
                      .|++++|+.++++...         .|+ ..+++.|+.+|...|++++|+.+++++++.     +|++   ...+..|+.
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            4566777766665433         122 357788888999999999999999998874     4555   457889999


Q ss_pred             HHHhcCChHHHHHHHHHHHh
Q 005329          623 IYAAKGRWREAAEVRKMMRS  642 (702)
Q Consensus       623 ~~~~~g~~~~A~~~~~~~~~  642 (702)
                      +|..+|++++|+.+++++.+
T Consensus       391 ~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          391 LYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhccCHHHHHHHHHHHHH
Confidence            99999999999999998876

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=97.36  E-value=0.015  Score=46.20  Aligned_cols=142  Identities=13%  Similarity=0.111  Sum_probs=104.4

Q ss_pred             HHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHH
Q 005329          487 YAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSD  566 (702)
Q Consensus       487 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~  566 (702)
                      +.-.|..++..++..+...   +.+..-||.++--....-+.+-..++++.+-+-+.+.+              .|+...
T Consensus        17 ~ildG~v~qGveii~k~~~---ssni~E~NW~ICNiiD~a~C~y~v~vLd~IGkiFDis~--------------C~NlKr   79 (172)
T 1wy6_A           17 FLLDGYIDEGVKIVLEITK---SSTKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLDK--------------CQNLKS   79 (172)
T ss_dssp             HHHTTCHHHHHHHHHHHHH---HSCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGGG--------------CSCTHH
T ss_pred             HHHhhhHHHHHHHHHHHcC---CCCccccceeeeecchhhchhHHHHHHHHHhhhcCcHh--------------hhcHHH
Confidence            4456888889999888875   33555677777666677778888888888754433322              333444


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhCCCc
Q 005329          567 AENMIENMPHQKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKGVI  646 (702)
Q Consensus       567 A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  646 (702)
                      ....+-.+.  .+....+..+.....+|+.++-..++..++...|.+++....++.+|.+.|+..+|.+++.++.+.|++
T Consensus        80 Vi~C~~~~n--~~se~vd~ALd~lv~~~KkDqLdki~~~~l~n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~k  157 (172)
T 1wy6_A           80 VVECGVINN--TLNEHVNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  157 (172)
T ss_dssp             HHHHHHHTT--CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHhc--chHHHHHHHHHHHHHhccHhHHHHHHHHHhccCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhhH
Confidence            444433332  244556667788889999999999999987777779999999999999999999999999999999975


Q ss_pred             c
Q 005329          647 K  647 (702)
Q Consensus       647 ~  647 (702)
                      .
T Consensus       158 E  158 (172)
T 1wy6_A          158 E  158 (172)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=97.36  E-value=0.003  Score=61.38  Aligned_cols=68  Identities=16%  Similarity=0.186  Sum_probs=54.0

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 005329          577 QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKGV  645 (702)
Q Consensus       577 ~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  645 (702)
                      +.++.++..+...+...|++++|...++++++++| +...|..+++++.-.|++++|.+.++++....+
T Consensus       274 ~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln~-s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~P  341 (372)
T 3ly7_A          274 NNLSIIYQIKAVSALVKGKTDESYQAINTGIDLEM-SWLNYVLLGKVYEMKGMNREAADAYLTAFNLRP  341 (372)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSC
T ss_pred             CcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC
Confidence            45667777777777777888888888888888886 566777888888888888888888888776543

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=97.27  E-value=9.3e-05  Score=72.95  Aligned_cols=237  Identities=13%  Similarity=0.103  Sum_probs=165.2

Q ss_pred             chhHHHHHHHhhhcCCChhHHHHHhccCCCCCcchHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhc
Q 005329          142 SVFVGSALLDMYTKLGKIELGCRVFDEMPLRNVVSWTAIITGLVRAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASAD  221 (702)
Q Consensus       142 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~  221 (702)
                      .+.+|+.|..+..+.+.+.+|++.|-+.  .|+..|..+|.+..+.|.+++-+..+...++.  .-++..=+.|+-+|++
T Consensus        53 ~p~VWs~LgkAqL~~~~v~eAIdsyIkA--~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~--~ke~~IDteLi~ayAk  128 (624)
T 3lvg_A           53 EPAVWSQLAKAQLQKGMVKEAIDSYIKA--DDPSSYMEVVQAANTSGNWEELVKYLQMARKK--ARESYVETELIFALAK  128 (624)
T ss_dssp             CCCCSSSHHHHTTTSSSCTTTTTSSCCC--SCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTT--CCSTTTTHHHHHHHHT
T ss_pred             CccHHHHHHHHHHccCchHHHHHHHHhC--CChHHHHHHHHHHHhCCCHHHHHHHHHHHHHH--hcccccHHHHHHHHHh
Confidence            4567778888888888888887766543  46667888888888888888888877665543  3344455678888888


Q ss_pred             cCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhhhCCChHHHHHHHhccCC------------------------CCcch
Q 005329          222 SGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMST------------------------RDVIS  277 (702)
Q Consensus       222 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~------------------------~~~~~  277 (702)
                      .+++.+-++++.       .|+..-...+.+-|...|.++.|.-+|..+..                        .++.+
T Consensus       129 ~~rL~elEefl~-------~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~kt  201 (624)
T 3lvg_A          129 TNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRT  201 (624)
T ss_dssp             SCSSSTTTSTTS-------CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCS
T ss_pred             hCcHHHHHHHHc-------CCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhH
Confidence            887766554442       46665566677777777777777777766541                        47889


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCchHHHHHHHHHHHHhCC-CCchHHHHHHHHHHH
Q 005329          278 WTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGL-VDSLSVANSIMAMYS  356 (702)
Q Consensus       278 ~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~  356 (702)
                      |-.+-.+|...+++..|.-.--.+.-   .||  ....++..|-..|.+++-..+++...  |+ .....+|+.|.-.|+
T Consensus       202 WKeV~~ACvd~~EfrLAqicGLniIv---had--eL~elv~~YE~~G~f~ELIsLlEagl--glErAHmGmFTELaILYs  274 (624)
T 3lvg_A          202 WKEVCFACVDGKEFRLAQMCGLHIVV---HAD--ELEELINYYQDRGYFEELITMLEAAL--GLERAHMGMFTELAILYS  274 (624)
T ss_dssp             HHHHTHHHHHSCTTTTTTHHHHHHHC---CSS--CCSGGGSSSSTTCCCTTSTTTHHHHT--TSTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCchHHHHHHHhcchhcc---cHH--HHHHHHHHHHhCCCHHHHHHHHHHHh--CCCchhHHHHHHHHHHHH
Confidence            99999999999999877655444432   222  23345666788888888888877665  33 356778888888887


Q ss_pred             hcCCHHHHHHHHhcCCC----C-------ChhhHHHHHHHHHcCCChHHHHH
Q 005329          357 KCGQLTSTSIVFHGMIR----R-------DIISWSTIIGGYSQGGYEEEAFE  397 (702)
Q Consensus       357 ~~g~~~~a~~~~~~~~~----~-------~~~~~~~li~~~~~~g~~~~a~~  397 (702)
                      +- ++++..+.++..-.    |       ....|.-++-.|.+-.+++.|..
T Consensus       275 KY-~PeKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~l  325 (624)
T 3lvg_A          275 KF-KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAII  325 (624)
T ss_dssp             SS-CTTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHHH
T ss_pred             hc-CHHHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHHH
Confidence            75 55666665554422    1       45578888888888888887654

>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=97.15  E-value=0.015  Score=56.48  Aligned_cols=141  Identities=10%  Similarity=-0.031  Sum_probs=92.3

Q ss_pred             CCHHHHHHHHHHHH--HcC---ChHHHHHHHHHchhCCCCCCH-HHHHHHHHHHhc---cC-----cHHHHHHHHHHhHH
Q 005329          475 DDIVSWTAMINGYA--EHG---YSQEAIHLFEKVPMVGLRPDS-VTFMGVLTACSH---AG-----LVDLGFHYFNLMSD  540 (702)
Q Consensus       475 ~~~~~~~~li~~~~--~~g---~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~---~g-----~~~~A~~~~~~~~~  540 (702)
                      .+...|...+.+..  ..+   ...+|+.+|++.++.  .|+. ..+..+..++..   .+     ......+.+.....
T Consensus       192 ~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~l--DP~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~~a  269 (372)
T 3ly7_A          192 HRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQS--SPEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNIVT  269 (372)
T ss_dssp             SSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHHHh
Confidence            35555665555432  222   346788888888874  5653 344443333321   01     11111112222111


Q ss_pred             hhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHH
Q 005329          541 KYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPH-QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHI  618 (702)
Q Consensus       541 ~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~  618 (702)
                      ....+.+..+|..+...+...|++++|...++++.. .|+...|..++..+.-.|+.++|.+.+++++.++|..+ +|.
T Consensus       270 ~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~P~~~-t~~  347 (372)
T 3ly7_A          270 LPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLEMSWLNYVLLGKVYEMKGMNREAADAYLTAFNLRPGAN-TLY  347 (372)
T ss_dssp             CGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCSHH-HHH
T ss_pred             cccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcC-hHH
Confidence            101234588888888888888999999999999888 78888888889999999999999999999999999554 443

>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=97.12  E-value=0.0017  Score=65.88  Aligned_cols=94  Identities=12%  Similarity=0.024  Sum_probs=63.6

Q ss_pred             cCcHHHHHHHHHHhHHhh--CCCCC----hhhHHHHHHHHHhcCCHHHHHHHHHhCCC---------CCC-HHHHHHHHH
Q 005329          525 AGLVDLGFHYFNLMSDKY--GFVPS----KEHYGCMIDLLCRAGRLSDAENMIENMPH---------QKD-DVVWSTLLR  588 (702)
Q Consensus       525 ~g~~~~A~~~~~~~~~~~--~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---------~p~-~~~~~~l~~  588 (702)
                      .|++++|..++++..+..  -+.|+    ..+++.|+.+|...|++++|+.+++++..         .|+ ..+++.|+.
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            355666666666554321  12222    45667777777777777777777776544         233 347888899


Q ss_pred             HHHhcCCHHHHHHHHHHHHHh-----CCCCchhHH
Q 005329          589 ACMVQGDVNCGRHTAEKILEL-----HPSCAGTHI  618 (702)
Q Consensus       589 ~~~~~g~~~~A~~~~~~~~~~-----~p~~~~~~~  618 (702)
                      .|..+|++++|+.++++++++     +|+++.+-.
T Consensus       391 ~~~~qg~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~  425 (433)
T 3qww_A          391 LYMGLENKAAGEKALKKAIAIMEVAHGKDHPYISE  425 (433)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHH
T ss_pred             HHHhccCHHHHHHHHHHHHHHHHHHcCCCChHHHH
Confidence            999999999999999999874     687776554

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=97.10  E-value=0.0019  Score=53.81  Aligned_cols=86  Identities=13%  Similarity=-0.033  Sum_probs=42.4

Q ss_pred             HHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcC---CHHHHHHHHHhCCC-C-C--CHHHHHHHHHHHHhcCCHHHHH
Q 005329          528 VDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAG---RLSDAENMIENMPH-Q-K--DDVVWSTLLRACMVQGDVNCGR  600 (702)
Q Consensus       528 ~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~-~-p--~~~~~~~l~~~~~~~g~~~~A~  600 (702)
                      ...+.+-|.+..+. + .++..+...+..++++.+   +.++++.+|++... . |  ....+-.|.-+|.+.|++++|.
T Consensus        14 l~~~~~~y~~e~~~-~-~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl~~Y~~A~   91 (152)
T 1pc2_A           14 LLKFEKKFQSEKAA-G-SVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKAL   91 (152)
T ss_dssp             HHHHHHHHHHHHHT-T-CCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHHHH
T ss_pred             HHHHHHHHHHHHcc-C-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHHHH
Confidence            44444445444332 2 244555555555555555   34455555555444 2 3  2334444555555555555555


Q ss_pred             HHHHHHHHhCCCCch
Q 005329          601 HTAEKILELHPSCAG  615 (702)
Q Consensus       601 ~~~~~~~~~~p~~~~  615 (702)
                      +.++.+++.+|+|..
T Consensus        92 ~y~~~lL~ieP~n~Q  106 (152)
T 1pc2_A           92 KYVRGLLQTEPQNNQ  106 (152)
T ss_dssp             HHHHHHHHHCTTCHH
T ss_pred             HHHHHHHhcCCCCHH
Confidence            555555555554443

>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=97.03  E-value=0.0023  Score=59.39  Aligned_cols=87  Identities=16%  Similarity=0.161  Sum_probs=68.3

Q ss_pred             HHHHHHHHHhCCC-CCC---HHHHHHHHHHHHh-----cCCHHHHHHHHHHHHHhCCCC-chhHHHHHHHHHhc-CChHH
Q 005329          564 LSDAENMIENMPH-QKD---DVVWSTLLRACMV-----QGDVNCGRHTAEKILELHPSC-AGTHITLANIYAAK-GRWRE  632 (702)
Q Consensus       564 ~~~A~~~~~~~~~-~p~---~~~~~~l~~~~~~-----~g~~~~A~~~~~~~~~~~p~~-~~~~~~l~~~~~~~-g~~~~  632 (702)
                      ..+|...++++.+ .|+   ...|..++..|..     -|+.++|++.|+++++++|+. ..++..+++.++.. |+.++
T Consensus       179 l~~A~a~lerAleLDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~~  258 (301)
T 3u64_A          179 VHAAVMMLERACDLWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRAG  258 (301)
T ss_dssp             HHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHHH
T ss_pred             HHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHHH
Confidence            3456666666655 555   4577777777777     489999999999999999975 99999999999885 99999


Q ss_pred             HHHHHHHHHhCCCccCCe
Q 005329          633 AAEVRKMMRSKGVIKEPG  650 (702)
Q Consensus       633 A~~~~~~~~~~~~~~~~~  650 (702)
                      |.+++++.....+...|+
T Consensus       259 a~~~L~kAL~a~p~~~P~  276 (301)
T 3u64_A          259 FDEALDRALAIDPESVPH  276 (301)
T ss_dssp             HHHHHHHHHHCCGGGCSS
T ss_pred             HHHHHHHHHcCCCCCCCC
Confidence            999999998876654343

>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=97.01  E-value=0.0035  Score=63.69  Aligned_cols=99  Identities=8%  Similarity=-0.060  Sum_probs=68.3

Q ss_pred             HHhccCcHHHHHHHHHHhHHhh--CCCCC----hhhHHHHHHHHHhcCCHHHHHHHHHhCCC---------CCC-HHHHH
Q 005329          521 ACSHAGLVDLGFHYFNLMSDKY--GFVPS----KEHYGCMIDLLCRAGRLSDAENMIENMPH---------QKD-DVVWS  584 (702)
Q Consensus       521 ~~~~~g~~~~A~~~~~~~~~~~--~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---------~p~-~~~~~  584 (702)
                      .+...|++++|.+++++..+..  -+.|+    ..+++.|+.+|...|++++|+.+++++..         .|+ ..+++
T Consensus       296 ~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l~  375 (429)
T 3qwp_A          296 ELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQVM  375 (429)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHH
T ss_pred             HHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHHH
Confidence            3445667777777776665431  12222    45667777778888888888877776644         233 34778


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHh-----CCCCchhHHH
Q 005329          585 TLLRACMVQGDVNCGRHTAEKILEL-----HPSCAGTHIT  619 (702)
Q Consensus       585 ~l~~~~~~~g~~~~A~~~~~~~~~~-----~p~~~~~~~~  619 (702)
                      .|+..|...|++++|+.++++++++     +|+++.+-..
T Consensus       376 nLa~~~~~~g~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~  415 (429)
T 3qwp_A          376 KVGKLQLHQGMFPQAMKNLRLAFDIMRVTHGREHSLIEDL  415 (429)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHH
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHHHHHhcCCCChHHHHH
Confidence            8899999999999999999999874     6887765544

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.97  E-value=0.0031  Score=49.55  Aligned_cols=75  Identities=20%  Similarity=0.147  Sum_probs=57.9

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHhCCC---------CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhH
Q 005329          547 SKEHYGCMIDLLCRAGRLSDAENMIENMPH---------QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTH  617 (702)
Q Consensus       547 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---------~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~  617 (702)
                      +...+..|+..+.+.|+++.|...|+.+..         .+....+..|+.++.+.|+++.|...+++++++.|++..+.
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~P~~~~~~   83 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRAN   83 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHH
Confidence            344455667777777777777777766544         13466888999999999999999999999999999998876


Q ss_pred             HHHH
Q 005329          618 ITLA  621 (702)
Q Consensus       618 ~~l~  621 (702)
                      ..+.
T Consensus        84 ~n~~   87 (104)
T 2v5f_A           84 GNLK   87 (104)
T ss_dssp             HHHH
T ss_pred             hhHH
Confidence            6664

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.75  E-value=0.0071  Score=50.31  Aligned_cols=65  Identities=11%  Similarity=-0.050  Sum_probs=38.1

Q ss_pred             CCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHHhC-C-CCchhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 005329          578 KDDVVWSTLLRACMVQG---DVNCGRHTAEKILELH-P-SCAGTHITLANIYAAKGRWREAAEVRKMMRS  642 (702)
Q Consensus       578 p~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~-p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  642 (702)
                      ++..+...+..++.+++   +.++++.+++.+++.+ | ++...++.|+-.|.+.|++++|.++++.+.+
T Consensus        30 ~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl~~Y~~A~~y~~~lL~   99 (152)
T 1pc2_A           30 VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQ   99 (152)
T ss_dssp             CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHHHHHHHHHHHh
Confidence            45555555556665555   4446666666666655 4 3455666666666666666666666665554

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=96.62  E-value=0.01  Score=45.28  Aligned_cols=67  Identities=7%  Similarity=0.048  Sum_probs=53.7

Q ss_pred             CChhhHHHHHHHHHhcCC---HHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCC
Q 005329          546 PSKEHYGCMIDLLCRAGR---LSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPS  612 (702)
Q Consensus       546 p~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~  612 (702)
                      .++..+..+..++...++   .++|..++++...  +.+...+..++..+...|++++|+..|+++++.+|.
T Consensus         4 ~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p~   75 (93)
T 3bee_A            4 VTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSNDP   75 (93)
T ss_dssp             CCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCCT
T ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            456777777777765554   6888888888877  445678888888899999999999999999999987

>1qsa_A Protein (soluble lytic transglycosylase SLT70); alpha-superhelix, transferase; HET: GOL; 1.65A {Escherichia coli} SCOP: a.118.5.1 d.2.1.6 PDB: 1qte_A* 1sly_A*

Probab=96.58  E-value=0.45  Score=50.33  Aligned_cols=115  Identities=9%  Similarity=0.025  Sum_probs=62.7

Q ss_pred             CChHHHHHHHHHchhCC-CCCCHH--HHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHH
Q 005329          491 GYSQEAIHLFEKVPMVG-LRPDSV--TFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDA  567 (702)
Q Consensus       491 g~~~~A~~~~~~m~~~g-~~p~~~--~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A  567 (702)
                      .+.+.|...+....... +.+...  ....+.......+...++...+......   .++.......+....+.|+++.|
T Consensus       228 ~d~~~A~~~~~~~~~~~~~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~e~~~r~Alr~~d~~~a  304 (618)
T 1qsa_A          228 QDAENARLMIPSLAQAQQLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMR---SQSTSLIERRVRMALGTGDRRGL  304 (618)
T ss_dssp             HCHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHT---CCCHHHHHHHHHHHHHHTCHHHH
T ss_pred             cCHHHHHHHHHhhhhccCCCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhcccc---CCChHHHHHHHHHHHHCCCHHHH
Confidence            36777877777765432 222221  2222333334444344555555554322   23333344444445567888888


Q ss_pred             HHHHHhCCCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 005329          568 ENMIENMPHQK--DDVVWSTLLRACMVQGDVNCGRHTAEKILE  608 (702)
Q Consensus       568 ~~~~~~~~~~p--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  608 (702)
                      ...|+.|...+  .....-=+..+....|+.++|..+|+++.+
T Consensus       305 ~~~~~~l~~~~~~~~r~~YW~~ra~~~~g~~~~a~~~~~~~a~  347 (618)
T 1qsa_A          305 NTWLARLPMEAKEKDEWRYWQADLLLERGREAEAKEILHQLMQ  347 (618)
T ss_dssp             HHHHHHSCTTGGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHccccccccHhHHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            88888877632  222223345566677888888888887764

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.34  E-value=0.036  Score=43.28  Aligned_cols=65  Identities=12%  Similarity=-0.043  Sum_probs=56.0

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-------CCCchhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 005329          579 DDVVWSTLLRACMVQGDVNCGRHTAEKILELH-------PSCAGTHITLANIYAAKGRWREAAEVRKMMRSK  643 (702)
Q Consensus       579 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-------p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  643 (702)
                      +..-...++..+...|++..|..-++++++..       +..+.++..|+.+|.+.|++++|..+++++.+.
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l   75 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            34456678999999999999999999999863       345678999999999999999999999999863

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.04  E-value=0.46  Score=53.06  Aligned_cols=166  Identities=15%  Similarity=0.112  Sum_probs=95.9

Q ss_pred             HHHhcCChhHHHH-HHHHHHHCCCCCChhhHHHHHHHHHccCchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHH
Q 005329          284 SYVQMGEEENAFD-AFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLT  362 (702)
Q Consensus       284 ~~~~~g~~~~a~~-~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  362 (702)
                      .....+++++|.+ ++..+      |+...+..++..+.+.|..+.|.++.+.-            ..-.......|+++
T Consensus       608 ~~~~~~~~~~a~~~~l~~i------~~~~~~~~~~~~l~~~~~~~~a~~~~~~~------------~~~f~~~l~~~~~~  669 (814)
T 3mkq_A          608 TLTLRGEIEEAIENVLPNV------EGKDSLTKIARFLEGQEYYEEALNISPDQ------------DQKFELALKVGQLT  669 (814)
T ss_dssp             HHHHTTCHHHHHHHTGGGC------CCHHHHHHHHHHHHHTTCHHHHHHHCCCH------------HHHHHHHHHHTCHH
T ss_pred             HHHHhCCHHHHHHHHHhcC------CchHHHHHHHHHHHhCCChHHheecCCCc------------chheehhhhcCCHH
Confidence            3345677777665 43111      11122255566666677777766554211            11133456788899


Q ss_pred             HHHHHHhcCCCCChhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCC
Q 005329          363 STSIVFHGMIRRDIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGL  442 (702)
Q Consensus       363 ~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  442 (702)
                      .|.++.+.+.  +...|..+...+.+.|+++.|.+.|..+..         |..+...+...|+.+...++-+.....|-
T Consensus       670 ~A~~~~~~~~--~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a~~~~~  738 (814)
T 3mkq_A          670 LARDLLTDES--AEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDAETTGK  738 (814)
T ss_dssp             HHHHHHTTCC--CHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHhhC--cHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHHHHcCc
Confidence            8888887763  457888899999999999999999887743         23333344445666655554444443331


Q ss_pred             CCChhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCHHHHHHHHHHHHHcCChHHHHHHHHH
Q 005329          443 ERTAMIKSALINMYSKCGSIKEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEK  502 (702)
Q Consensus       443 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  502 (702)
                            ++.-..+|.+.|++++|.++                  |.+.+++++|..+-+.
T Consensus       739 ------~~~A~~~~~~~g~~~~a~~~------------------~~~~~~~~~A~~lA~~  774 (814)
T 3mkq_A          739 ------FNLAFNAYWIAGDIQGAKDL------------------LIKSQRFSEAAFLGST  774 (814)
T ss_dssp             ------HHHHHHHHHHHTCHHHHHHH------------------HHHTTCHHHHHHHHHH
T ss_pred             ------hHHHHHHHHHcCCHHHHHHH------------------HHHcCChHHHHHHHHH
Confidence                  22233445556666666554                  3445566666665554

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=96.00  E-value=0.1  Score=41.58  Aligned_cols=92  Identities=13%  Similarity=-0.060  Sum_probs=68.1

Q ss_pred             CcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHH---HHHHHHhCCCC--C--CHHHHHHHHHHHHhcCCHHH
Q 005329          526 GLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSD---AENMIENMPHQ--K--DDVVWSTLLRACMVQGDVNC  598 (702)
Q Consensus       526 g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~---A~~~~~~~~~~--p--~~~~~~~l~~~~~~~g~~~~  598 (702)
                      .....+.+-|...... | .|+..+-..+..++.+..+..+   ++.++++....  |  .....-.|.-++.+.|+++.
T Consensus        15 ~~l~~~~~~y~~e~~~-~-~~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~   92 (126)
T 1nzn_A           15 EDLLKFEKKFQSEKAA-G-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEK   92 (126)
T ss_dssp             HHHHHHHHHHHHHHHH-S-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHhcc-C-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHH
Confidence            3444555556655443 3 3677777778888888887666   88888887763  3  34466678888999999999


Q ss_pred             HHHHHHHHHHhCCCCchhHHH
Q 005329          599 GRHTAEKILELHPSCAGTHIT  619 (702)
Q Consensus       599 A~~~~~~~~~~~p~~~~~~~~  619 (702)
                      |.+.++.+++.+|+|..+...
T Consensus        93 A~~~~~~lL~~eP~n~QA~~L  113 (126)
T 1nzn_A           93 ALKYVRGLLQTEPQNNQAKEL  113 (126)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHH
T ss_pred             HHHHHHHHHHhCCCCHHHHHH
Confidence            999999999999988765544

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=95.91  E-value=0.067  Score=59.94  Aligned_cols=27  Identities=11%  Similarity=0.034  Sum_probs=13.0

Q ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHh
Q 005329          512 SVTFMGVLTACSHAGLVDLGFHYFNLM  538 (702)
Q Consensus       512 ~~~~~~ll~~~~~~g~~~~A~~~~~~~  538 (702)
                      ...|..+...+.+.++++.|.+.|..+
T Consensus       681 ~~~W~~la~~al~~~~~~~A~~~y~~~  707 (814)
T 3mkq_A          681 EMKWRALGDASLQRFNFKLAIEAFTNA  707 (814)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HhHHHHHHHHHHHcCCHHHHHHHHHHc
Confidence            344444444455555555554444443

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=95.77  E-value=0.044  Score=43.75  Aligned_cols=80  Identities=10%  Similarity=-0.072  Sum_probs=63.7

Q ss_pred             HHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHH---HHHHHHHHHHhC-C-CCchhHHHHHHHHHhcCChHHHHHH
Q 005329          564 LSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNC---GRHTAEKILELH-P-SCAGTHITLANIYAAKGRWREAAEV  636 (702)
Q Consensus       564 ~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~---A~~~~~~~~~~~-p-~~~~~~~~l~~~~~~~g~~~~A~~~  636 (702)
                      ...+.+-|.+...  .++..+--.+.+++.++++...   ++.+++.++..+ | ......+.|+-.+.+.|+|++|.++
T Consensus        17 l~~~~~~y~~e~~~~~~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A~~~   96 (126)
T 1nzn_A           17 LLKFEKKFQSEKAAGSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKY   96 (126)
T ss_dssp             HHHHHHHHHHHHHHSCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHhccCCCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHHHHH
Confidence            3444444444322  5788888889999998886655   999999999887 5 5678999999999999999999999


Q ss_pred             HHHHHhC
Q 005329          637 RKMMRSK  643 (702)
Q Consensus       637 ~~~~~~~  643 (702)
                      ++.+.+.
T Consensus        97 ~~~lL~~  103 (126)
T 1nzn_A           97 VRGLLQT  103 (126)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHh
Confidence            9999873

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=95.66  E-value=0.088  Score=56.73  Aligned_cols=124  Identities=16%  Similarity=0.151  Sum_probs=84.2

Q ss_pred             HHHHHHHHhccCc-HHHHHHHHHHhHHhhCCCCChhhHH--HHHHHHHhcCC-HHHHHHHHHhCCC---------CC-C-
Q 005329          515 FMGVLTACSHAGL-VDLGFHYFNLMSDKYGFVPSKEHYG--CMIDLLCRAGR-LSDAENMIENMPH---------QK-D-  579 (702)
Q Consensus       515 ~~~ll~~~~~~g~-~~~A~~~~~~~~~~~~~~p~~~~~~--~l~~~~~~~g~-~~~A~~~~~~~~~---------~p-~-  579 (702)
                      ...++..+...++ ++.|..+|+++..+   .|....+.  .++..+...++ --+|.+++.+..+         ++ + 
T Consensus       251 ~~~Ll~~~~~t~~~~~~a~~~le~L~~~---~p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~  327 (754)
T 4gns_B          251 MYSLKSFIAITPSLVDFTIDYLKGLTKK---DPIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDA  327 (754)
T ss_dssp             HHHHHHHHHTCGGGHHHHHHHHHHHHHH---CGGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCH
T ss_pred             HHHHHHHHcccccHHHHHHHHHHHHHhh---CCchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhccccc
Confidence            3455555655655 68899999988765   55433332  23333333332 2245544443321         11 1 


Q ss_pred             ---------HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHH
Q 005329          580 ---------DVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMR  641 (702)
Q Consensus       580 ---------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  641 (702)
                               ......-...|...|+++.|+++.++++..-|.+..+|..|+.+|...|+|+.|+-.+..+.
T Consensus       328 ~~~~~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~aPseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          328 DSARLMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTELALDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             ccccccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhcCchhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence                     11233334557789999999999999999999999999999999999999999999998874

>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=95.61  E-value=0.034  Score=45.42  Aligned_cols=52  Identities=13%  Similarity=0.148  Sum_probs=28.3

Q ss_pred             CCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 005329          594 GDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKGV  645 (702)
Q Consensus       594 g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  645 (702)
                      +|.++|.++|+.++.++..-+..|...+.--.++|+...|.+++.+....++
T Consensus        74 ~D~d~aR~vy~~a~~~hKkFAKiwi~~AqFEiRqgnl~kARkILg~AiG~~~  125 (161)
T 4h7y_A           74 QEPDDARDYFQMARANCKKFAFVHISFAQFELSQGNVKKSKQLLQKAVERGA  125 (161)
T ss_dssp             HCGGGCHHHHHHHHHHCTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             cCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCC
Confidence            4555555555555555444445555555555555555555555555555443

>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=95.52  E-value=0.016  Score=53.79  Aligned_cols=105  Identities=13%  Similarity=0.148  Sum_probs=74.7

Q ss_pred             HHHHHHHHHHhHHhhCCCCC---hhhHHHHHHHHHhc-----CCHHHHHHHHHhCCC-CC--CHHHHHHHHHHHHh-cCC
Q 005329          528 VDLGFHYFNLMSDKYGFVPS---KEHYGCMIDLLCRA-----GRLSDAENMIENMPH-QK--DDVVWSTLLRACMV-QGD  595 (702)
Q Consensus       528 ~~~A~~~~~~~~~~~~~~p~---~~~~~~l~~~~~~~-----g~~~~A~~~~~~~~~-~p--~~~~~~~l~~~~~~-~g~  595 (702)
                      ...|...+++..   .+.|+   ...|..|+..|.+.     |+.++|.+.|++... .|  +..++......++. .|+
T Consensus       179 l~~A~a~lerAl---eLDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd  255 (301)
T 3u64_A          179 VHAAVMMLERAC---DLWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNN  255 (301)
T ss_dssp             HHHHHHHHHHHH---HHCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTC
T ss_pred             HHHHHHHHHHHH---HhCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCC
Confidence            456666666665   44776   55788888888884     899999999999887 56  36777778887777 489


Q ss_pred             HHHHHHHHHHHHHhCCCC-chhHHHHHHHHHhcCChHHHHHHHHHHH
Q 005329          596 VNCGRHTAEKILELHPSC-AGTHITLANIYAAKGRWREAAEVRKMMR  641 (702)
Q Consensus       596 ~~~A~~~~~~~~~~~p~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~  641 (702)
                      .+++.+.+++++...|.. +.      +.+...++-++|..+++++.
T Consensus       256 ~~~a~~~L~kAL~a~p~~~P~------~~lan~~~q~eA~~LL~~~~  296 (301)
T 3u64_A          256 RAGFDEALDRALAIDPESVPH------NKLLVILSQKRARWLKAHVQ  296 (301)
T ss_dssp             HHHHHHHHHHHHHCCGGGCSS------CHHHHHHHHHHHHHHHHTHH
T ss_pred             HHHHHHHHHHHHcCCCCCCCC------hhHHHHHHHHHHHHHHHHhH
Confidence            999999999999988753 33      12233344566766666543

>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=95.02  E-value=0.17  Score=41.38  Aligned_cols=61  Identities=15%  Similarity=0.068  Sum_probs=44.1

Q ss_pred             cCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHH
Q 005329          561 AGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLA  621 (702)
Q Consensus       561 ~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~  621 (702)
                      .++.++|.++|+.+..  +.-...|.....--.++|+...|..++.+++.+.|.....+...+
T Consensus        73 i~D~d~aR~vy~~a~~~hKkFAKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~~~~le~a~  135 (161)
T 4h7y_A           73 IQEPDDARDYFQMARANCKKFAFVHISFAQFELSQGNVKKSKQLLQKAVERGAVPLEMLEIAL  135 (161)
T ss_dssp             HHCGGGCHHHHHHHHHHCTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBCHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCcHHHHHHHH
Confidence            3566666666666643  334667777777778999999999999999999986655544433

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=94.84  E-value=0.68  Score=37.58  Aligned_cols=65  Identities=11%  Similarity=-0.071  Sum_probs=29.1

Q ss_pred             CCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHHhCCC-CchhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 005329          578 KDDVVWSTLLRACMVQGD---VNCGRHTAEKILELHPS-CAGTHITLANIYAAKGRWREAAEVRKMMRS  642 (702)
Q Consensus       578 p~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  642 (702)
                      |+..+--.+.+++.++.+   ..+++.+++.++..+|. .....+.|+-.+.+.|++++|.++.+.+.+
T Consensus        37 vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~  105 (144)
T 1y8m_A           37 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  105 (144)
T ss_dssp             SCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            334444444444443332   23444444444444442 334444445555555555555555554444

>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=94.75  E-value=0.2  Score=40.10  Aligned_cols=66  Identities=11%  Similarity=-0.070  Sum_probs=39.1

Q ss_pred             CCCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHHhCCC-CchhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 005329          577 QKDDVVWSTLLRACMVQGD---VNCGRHTAEKILELHPS-CAGTHITLANIYAAKGRWREAAEVRKMMRS  642 (702)
Q Consensus       577 ~p~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  642 (702)
                      .|+..+--.+.+++.++.+   ..+++.+++.++..+|. ....++.|+-.+.+.|++++|.++.+.+.+
T Consensus        37 ~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~  106 (134)
T 3o48_A           37 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  106 (134)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHT
T ss_pred             CCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            3455555555555554443   34566666666666653 355666666666666666666666666654

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=94.63  E-value=1.2  Score=37.98  Aligned_cols=103  Identities=14%  Similarity=0.108  Sum_probs=57.4

Q ss_pred             HhhhCCChHHHHHHHhccCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCchHHHHHH
Q 005329          253 MYSKCGKLDYSLRLFERMSTRDVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQL  332 (702)
Q Consensus       253 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~  332 (702)
                      .....|+++.|.++.+.+  .+...|..|.......|+++-|.+.|.+...         |..+.-.|...|+.+...++
T Consensus        14 LAL~lg~l~~A~e~a~~l--~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~L~kl   82 (177)
T 3mkq_B           14 LALEYGNLDAALDEAKKL--NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNKLSKM   82 (177)
T ss_dssp             HHHHTTCHHHHHHHHHHH--CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHhcCCHHHHHHHHHHh--CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHHHHHH
Confidence            344566666666666555  3455677777777777777777777666542         23333344445555555544


Q ss_pred             HHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHhcCC
Q 005329          333 HAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMI  372 (702)
Q Consensus       333 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  372 (702)
                      -+.....|-      ++.....+.-.|+++++.++|.+..
T Consensus        83 a~iA~~~g~------~n~af~~~l~lGdv~~~i~lL~~~~  116 (177)
T 3mkq_B           83 QNIAQTRED------FGSMLLNTFYNNSTKERSSIFAEGG  116 (177)
T ss_dssp             HHHHHHTTC------HHHHHHHHHHHTCHHHHHHHHHHTT
T ss_pred             HHHHHHCcc------HHHHHHHHHHcCCHHHHHHHHHHCC
Confidence            444433331      2333444555677777666665543

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=94.52  E-value=7.1  Score=43.08  Aligned_cols=264  Identities=13%  Similarity=0.024  Sum_probs=114.9

Q ss_pred             HHccCchHHHHHHHHHHHHhCCCCc--hHHHHHHHHHHHhcCCHHHHHHHHhcCCC-CC----------hhhHHHHHHHH
Q 005329          320 SANLARIQWGEQLHAHVLRLGLVDS--LSVANSIMAMYSKCGQLTSTSIVFHGMIR-RD----------IISWSTIIGGY  386 (702)
Q Consensus       320 ~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~~----------~~~~~~li~~~  386 (702)
                      ....|+.+++..++......+-..+  ...-..+.-+....|.-+++...+..... .+          +..-.++.-++
T Consensus       384 lIh~g~~~~gl~~L~~yL~~~~s~~~~ik~GAllaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaLGLGl  463 (963)
T 4ady_A          384 VIHKGNLLEGKKVMAPYLPGSRASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLGIGL  463 (963)
T ss_dssp             HHTSSCTTTHHHHHTTTSTTSCCSCHHHHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHHHHH
T ss_pred             hhccCchHHHHHHHHHhccccCCCcHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHHHHHH
Confidence            4456666666665554433110111  22223334444455554555555544321 11          11122333333


Q ss_pred             HcCCC-hHHHHHHHHHHHHCCCCCCHHHHH--HHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHH--HhcCC
Q 005329          387 SQGGY-EEEAFEYLALMRREGPRPNEFAFA--SVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMY--SKCGS  461 (702)
Q Consensus       387 ~~~g~-~~~a~~~~~~m~~~g~~p~~~~~~--~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~--~~~g~  461 (702)
                      +-.|. -+++.+.+..+....- +......  .+...+...|+.+....++..+.+..   +..+...+..++  .-.|+
T Consensus       464 a~~GS~~eev~e~L~~~L~dd~-~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~---~e~vrR~aalgLGll~~g~  539 (963)
T 4ady_A          464 AAMGSANIEVYEALKEVLYNDS-ATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQ---HGNITRGLAVGLALINYGR  539 (963)
T ss_dssp             HSTTCCCHHHHHHHHHHHHTCC-HHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCS---CHHHHHHHHHHHHHHTTTC
T ss_pred             HhcCCCCHHHHHHHHHHHhcCC-HHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccC---cHHHHHHHHHHHHhhhCCC
Confidence            33332 2345555555544221 1111111  22233445566666666666655421   222333333333  34556


Q ss_pred             HHHHHHHHhhCC-CCCHHH-HH---HHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHH
Q 005329          462 IKEASQIFYETE-SDDIVS-WT---AMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFN  536 (702)
Q Consensus       462 ~~~A~~~~~~~~-~~~~~~-~~---~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~  536 (702)
                      .+.+..+.+.+. ..++.. |.   ++..+|+..|+.....+++..+.+.. ..+......+.-++...|+.+.+.++++
T Consensus       540 ~e~~~~li~~L~~~~dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d~-~d~VRraAViaLGlI~~g~~e~v~rlv~  618 (963)
T 4ady_A          540 QELADDLITKMLASDESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSDS-NDDVRRAAVIALGFVLLRDYTTVPRIVQ  618 (963)
T ss_dssp             GGGGHHHHHHHHHCSCHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTSSSCSSHHHHTT
T ss_pred             hHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccCC-cHHHHHHHHHHHHhhccCCHHHHHHHHH
Confidence            555555555443 123222 22   23445666677666555776666431 1122222222223333455445555555


Q ss_pred             HhHHhhCCCCChhhHHHHHHHHHhcCCH-HHHHHHHHhCCCCCCHHHHHHHHHHH
Q 005329          537 LMSDKYGFVPSKEHYGCMIDLLCRAGRL-SDAENMIENMPHQKDDVVWSTLLRAC  590 (702)
Q Consensus       537 ~~~~~~~~~p~~~~~~~l~~~~~~~g~~-~~A~~~~~~~~~~p~~~~~~~l~~~~  590 (702)
                      .+.+.  ..|.+..-..+.-+....|.. .+|.+.+..+...++..+-...+.++
T Consensus       619 ~L~~~--~d~~VR~gAalALGli~aGn~~~~aid~L~~L~~D~d~~Vrq~Ai~AL  671 (963)
T 4ady_A          619 LLSKS--HNAHVRCGTAFALGIACAGKGLQSAIDVLDPLTKDPVDFVRQAAMIAL  671 (963)
T ss_dssp             TGGGC--SCHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHTCSSHHHHHHHHHHH
T ss_pred             HHHhc--CCHHHHHHHHHHHHHhccCCCcHHHHHHHHHHccCCCHHHHHHHHHHH
Confidence            44332  234333333333333334433 56677777776666655554444443

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=93.52  E-value=3.2  Score=35.41  Aligned_cols=102  Identities=13%  Similarity=0.153  Sum_probs=49.8

Q ss_pred             HHhcCCHHHHHHHHhhCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHH
Q 005329          456 YSKCGSIKEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYF  535 (702)
Q Consensus       456 ~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~  535 (702)
                      ....|+++.|.++.+.+  .+...|..|.......|+++-|.+.|.+...         +..+.--|...|+.+.-..+-
T Consensus        15 AL~lg~l~~A~e~a~~l--~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~L~kla   83 (177)
T 3mkq_B           15 ALEYGNLDAALDEAKKL--NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNKLSKMQ   83 (177)
T ss_dssp             HHHTTCHHHHHHHHHHH--CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHhcCCHHHHHHHHHHh--CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHHHHHHH
Confidence            34556666666655544  3455666666666666666666666655442         122333334445554444333


Q ss_pred             HHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCC
Q 005329          536 NLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMP  575 (702)
Q Consensus       536 ~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  575 (702)
                      +....+ |      -++.-...+.-.|+++++.++|.+..
T Consensus        84 ~iA~~~-g------~~n~af~~~l~lGdv~~~i~lL~~~~  116 (177)
T 3mkq_B           84 NIAQTR-E------DFGSMLLNTFYNNSTKERSSIFAEGG  116 (177)
T ss_dssp             HHHHHT-T------CHHHHHHHHHHHTCHHHHHHHHHHTT
T ss_pred             HHHHHC-c------cHHHHHHHHHHcCCHHHHHHHHHHCC
Confidence            333221 1      12333334444556666555555543

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=93.34  E-value=0.26  Score=41.27  Aligned_cols=121  Identities=14%  Similarity=0.056  Sum_probs=60.4

Q ss_pred             CCCCCCHH--HHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCCh-------hhHHHHHHHHHhcCCHHHHHHHHHhCCC
Q 005329          506 VGLRPDSV--TFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSK-------EHYGCMIDLLCRAGRLSDAENMIENMPH  576 (702)
Q Consensus       506 ~g~~p~~~--~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~-------~~~~~l~~~~~~~g~~~~A~~~~~~~~~  576 (702)
                      .|+.|...  ++..-+..+...|.++.|+-+.+.+....+.+|+.       .++..+++++...|++..|...|+++..
T Consensus        12 ~~~~~~~~~~~l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq   91 (167)
T 3ffl_A           12 SGLVPRGSHMNVIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQ   91 (167)
T ss_dssp             ---------CCHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cCCCCCccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHH
Confidence            35555432  34444556666777777776666654432223331       2444556666677777776666665422


Q ss_pred             -------CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHH
Q 005329          577 -------QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMM  640 (702)
Q Consensus       577 -------~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  640 (702)
                             .++.  ...+..    ....       ..-.. .+.+.+.-+.++.+|.+.|++++|+.+++.+
T Consensus        92 ~~k~l~k~~s~--~~~~~~----~ss~-------p~s~~-~~~e~Elkykia~C~~~l~~~~~Ai~~Le~I  148 (167)
T 3ffl_A           92 QKKALSKTSKV--RPSTGN----SAST-------PQSQC-LPSEIEVKYKLAECYTVLKQDKDAIAILDGI  148 (167)
T ss_dssp             HHHCC---------------------------------C-CCCHHHHHHHHHHHHHHTTCHHHHHHHHHTS
T ss_pred             HHHHHhcCCCc--cccccc----cCCC-------ccccc-ccchHHHHHHHHHHHHHHCCHHHHHHHHhcC
Confidence                   1111  000000    0000       00000 1223467788999999999999999999865

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=92.89  E-value=6.7  Score=37.40  Aligned_cols=171  Identities=11%  Similarity=0.020  Sum_probs=99.0

Q ss_pred             CchhhhhHHHHHHccCChHHHHHHhhcCCCCCcchHHHHHHHHHcCCChhHHHHHH----HHhhhCCCCCCCHHHHHHHH
Q 005329           40 STPEVNSQLKHLVKSGYLHDARKMFDTMTQRDEISWTTLISGYVKAMDSIEALALF----SRVWVEPQMNMDPFILSLAL  115 (702)
Q Consensus        40 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~----~~~~~~~~~~~~~~~~~~ll  115 (702)
                      ....|..+...|.+++++++|++++          |. -...+.+.|....|-++-    +...+. ++++|......++
T Consensus        34 AHQ~~RTi~~Ry~~~k~y~eAidLL----------~~-GA~~ll~~~Q~~sg~DL~~llvevy~~~-~~~~~~~~~~rL~  101 (336)
T 3lpz_A           34 AAQETRLVAARYSKQGNWAAAVDIL----------AS-VSQTLLRSGQGGSGGDLAVLLVDTFRQA-GQRVDGASRGKLL  101 (336)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHH----------HH-HHHHHHHTTCHHHHHHHHHHHHHHHHHH-TCCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhcCHHHHHHHH----------HH-HHHHHHHCCCcchHHHHHHHHHHHHHHc-CCCCCHHHHHHHH
Confidence            3456788888888888888888886          22 233456667776655433    333333 7788888877777


Q ss_pred             HHhhccCCch-h----hhHHHHHHHHhc--CCCchhHHHHHHHhhhcCCChhHHHHHhccCCCCCcchHHHHHHHHHhCC
Q 005329          116 KACALNVNVN-Y----GESLHGYTVKTG--FVNSVFVGSALLDMYTKLGKIELGCRVFDEMPLRNVVSWTAIITGLVRAG  188 (702)
Q Consensus       116 ~~~~~~~~~~-~----a~~~~~~~~~~~--~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~  188 (702)
                      ..+.....-+ .    ..+...+-.+.|  ..-|+.....+...|.+.+++.+|+.-|=.-..++...+..++--+...+
T Consensus       102 ~L~~~~~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~Ae~H~ilg~~~s~~~~a~mL~ew~~~~  181 (336)
T 3lpz_A          102 GCLRLFQPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEAAEKHLVLGTKESPEVLARMEYEWYKQD  181 (336)
T ss_dssp             HHHTTSCTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHTTSCTTHHHHHHHHHHHHHHTS
T ss_pred             HHHHhCCCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHhcCCchHHHHHHHHHHHHHhc
Confidence            7776554311 1    222333333444  34467777888888888899999988874322223355544444443333


Q ss_pred             ChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHH
Q 005329          189 HNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSGALNFGREIHTIMLK  237 (702)
Q Consensus       189 ~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  237 (702)
                      ...++--++.+              .++ .|.-.+++..|..+++...+
T Consensus       182 ~~~e~dlfiaR--------------aVL-~yL~l~n~~~A~~~~~~f~~  215 (336)
T 3lpz_A          182 ESHTAPLYCAR--------------AVL-PYLLVANVRAANTAYRIFTS  215 (336)
T ss_dssp             CGGGHHHHHHH--------------HHH-HHHHTTCHHHHHHHHHHHHH
T ss_pred             CCccHHHHHHH--------------HHH-HHHHhCCHHHHHHHHHHHHH
Confidence            32222211111              222 23445778888877766654

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=90.51  E-value=12  Score=35.43  Aligned_cols=166  Identities=7%  Similarity=0.064  Sum_probs=95.9

Q ss_pred             HHHHHHHhcCCHHHHHHHHhcCCCCChhhHHHHHHHHHcCCChHHHHHH----HHHHHHCCCCCCHHHHHHHHHHHcccC
Q 005329          350 SIMAMYSKCGQLTSTSIVFHGMIRRDIISWSTIIGGYSQGGYEEEAFEY----LALMRREGPRPNEFAFASVLSVCGNMA  425 (702)
Q Consensus       350 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~----~~~m~~~g~~p~~~~~~~ll~~~~~~~  425 (702)
                      ++..-|.+.+++++|++++..           -...+.+.|+...|-++    ++-..+.+.+++......++..+....
T Consensus        38 tl~~Ry~~~~~~~eAidlL~~-----------ga~~ll~~~Q~~sa~DLa~llvev~~~~~~~~~~~~~~rl~~l~~~~p  106 (312)
T 2wpv_A           38 TIANRYVRSKSYEHAIELISQ-----------GALSFLKAKQGGSGTDLIFYLLEVYDLAEVKVDDISVARLVRLIAELD  106 (312)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHH-----------HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCCSHHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHhcCHHHHHHHHHH-----------HHHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCC
Confidence            344457777888888777533           33445566776666554    444455678888888888887765533


Q ss_pred             cHH-HHHHHHHHHH----HhCC--CCChhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCHHHHHHHHHHHHHc---CChHH
Q 005329          426 ILE-QGKQIHAHVM----SIGL--ERTAMIKSALINMYSKCGSIKEASQIFYETESDDIVSWTAMINGYAEH---GYSQE  495 (702)
Q Consensus       426 ~~~-~a~~~~~~~~----~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~---g~~~~  495 (702)
                      ..+ .-.++...++    +.|.  .-++.....+...|.+.|++.+|+..|-.-...+...+..++.-+...   |...+
T Consensus       107 ~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~H~i~~~~~s~~~~a~~l~~w~~~~~~~~~~e  186 (312)
T 2wpv_A          107 PSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERYFMLGTHDSMIKYVDLLWDWLCQVDDIEDST  186 (312)
T ss_dssp             TTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHHTSCHHHHHHHHHHHHHHHHHTTCCCHHH
T ss_pred             CCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHhCCCccHHHHHHHHHHHHHhcCCCCcch
Confidence            211 1122333333    3332  236777888888999999999998887633322455554444433333   32222


Q ss_pred             HHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHh
Q 005329          496 AIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDK  541 (702)
Q Consensus       496 A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~  541 (702)
                      +--              ..-..++ .|.-.|+...|..+|+...++
T Consensus       187 ~dl--------------f~~RaVL-~yL~l~n~~~A~~~~~~f~~~  217 (312)
T 2wpv_A          187 VAE--------------FFSRLVF-NYLFISNISFAHESKDIFLER  217 (312)
T ss_dssp             HHH--------------HHHHHHH-HHHHTTBHHHHHHHHHHHHHH
T ss_pred             HHH--------------HHHHHHH-HHHHhcCHHHHHHHHHHHHHH
Confidence            211              1111222 244567888888888877654

>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=90.32  E-value=0.83  Score=45.48  Aligned_cols=69  Identities=16%  Similarity=0.136  Sum_probs=58.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHh-----CCCccCCe
Q 005329          582 VWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRS-----KGVIKEPG  650 (702)
Q Consensus       582 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~~  650 (702)
                      +...++..+...|++++++..++.++..+|-+-..|..|+.+|.+.|+..+|++.|+.+.+     .|+.|.+.
T Consensus       173 a~~~~~~~~l~~g~~~~a~~~l~~~~~~~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~  246 (388)
T 2ff4_A          173 AHTAKAEAEIACGRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPT  246 (388)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHH
Confidence            4455677788999999999999999999999999999999999999999999999988755     47777654

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=90.29  E-value=6.1  Score=31.71  Aligned_cols=141  Identities=9%  Similarity=0.014  Sum_probs=86.6

Q ss_pred             HHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHH
Q 005329          285 YVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTST  364 (702)
Q Consensus       285 ~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  364 (702)
                      +.-.|..++..++..+....   .+..-|+.++.-....-+-+-..+++   .+.|-..|.          ..+|++...
T Consensus        17 ~ildG~v~qGveii~k~~~s---sni~E~NW~ICNiiD~a~C~y~v~vL---d~IGkiFDi----------s~C~NlKrV   80 (172)
T 1wy6_A           17 FLLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVL---DKIGSYFDL----------DKCQNLKSV   80 (172)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHH---HHHGGGSCG----------GGCSCTHHH
T ss_pred             HHHhhhHHHHHHHHHHHcCC---CCccccceeeeecchhhchhHHHHHH---HHHhhhcCc----------HhhhcHHHH
Confidence            34457777777777776653   24445555555444433333333333   333322221          234455555


Q ss_pred             HHHHhcCCCCChhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCC
Q 005329          365 SIVFHGMIRRDIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLE  443 (702)
Q Consensus       365 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~  443 (702)
                      ...+-.+.. +....+.-+..+..+|+-++-.+++..+.. +.+|++.....+..+|.+.|+..++.+++.++.+.|++
T Consensus        81 i~C~~~~n~-~se~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~k  157 (172)
T 1wy6_A           81 VECGVINNT-LNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  157 (172)
T ss_dssp             HHHHHHTTC-CCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHhcc-hHHHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhhH
Confidence            554444322 233455667778888999998888888644 35777888888889999999999999888888877753

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=90.27  E-value=12  Score=35.29  Aligned_cols=166  Identities=10%  Similarity=0.086  Sum_probs=95.1

Q ss_pred             HHHHHHHhhhCCChHHHHHHHhccCCCCcchHHHHHHHHHhcCChhHHHHH----HHHHHHCCCCCChhhHHHHHHHHHc
Q 005329          247 ANSLATMYSKCGKLDYSLRLFERMSTRDVISWTTIITSYVQMGEEENAFDA----FVRMQESDVKPNEYTFAAIISASAN  322 (702)
Q Consensus       247 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~----~~~m~~~g~~p~~~t~~~ll~~~~~  322 (702)
                      |.++..=|.+.+++++|.+++..           -...+.+.|+...|-++    ++...+.+++++......++..+..
T Consensus        36 ~Rtl~~Ry~~~~~~~eAidlL~~-----------ga~~ll~~~Q~~sa~DLa~llvev~~~~~~~~~~~~~~rl~~l~~~  104 (312)
T 2wpv_A           36 LRTIANRYVRSKSYEHAIELISQ-----------GALSFLKAKQGGSGTDLIFYLLEVYDLAEVKVDDISVARLVRLIAE  104 (312)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHH-----------HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCCSHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHH-----------HHHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Confidence            44555567778888888877533           23445566776655553    4555566788888777777776655


Q ss_pred             cCchH-HHHHHHHHHHH----hCC--CCchHHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhhHHHHHHHHHcC---CCh
Q 005329          323 LARIQ-WGEQLHAHVLR----LGL--VDSLSVANSIMAMYSKCGQLTSTSIVFHGMIRRDIISWSTIIGGYSQG---GYE  392 (702)
Q Consensus       323 ~~~~~-~a~~~~~~~~~----~~~--~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~---g~~  392 (702)
                      ...-+ .-.++.+.+.+    .|-  .-++.....+...|.+.|++.+|+..|-.-...+...+..++.-+...   |..
T Consensus       105 ~p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~H~i~~~~~s~~~~a~~l~~w~~~~~~~~~  184 (312)
T 2wpv_A          105 LDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERYFMLGTHDSMIKYVDLLWDWLCQVDDIED  184 (312)
T ss_dssp             CCTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHHTSCHHHHHHHHHHHHHHHHHTTCCCH
T ss_pred             CCCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHhCCCccHHHHHHHHHHHHHhcCCCCc
Confidence            33211 22344444443    222  236778888899999999999988877533222444554444433333   333


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHH
Q 005329          393 EEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVM  438 (702)
Q Consensus       393 ~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  438 (702)
                      .++              +...-..++ .+...++...|..+++...
T Consensus       185 ~e~--------------dlf~~RaVL-~yL~l~n~~~A~~~~~~f~  215 (312)
T 2wpv_A          185 STV--------------AEFFSRLVF-NYLFISNISFAHESKDIFL  215 (312)
T ss_dssp             HHH--------------HHHHHHHHH-HHHHTTBHHHHHHHHHHHH
T ss_pred             chH--------------HHHHHHHHH-HHHHhcCHHHHHHHHHHHH
Confidence            322              111122222 3445677777777766554

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=89.94  E-value=2.5  Score=34.33  Aligned_cols=74  Identities=7%  Similarity=0.047  Sum_probs=54.5

Q ss_pred             CCChhhHHHHHHHHHhcCCHH---HHHHHHHhCCC-CC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHH
Q 005329          545 VPSKEHYGCMIDLLCRAGRLS---DAENMIENMPH-QK--DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHI  618 (702)
Q Consensus       545 ~p~~~~~~~l~~~~~~~g~~~---~A~~~~~~~~~-~p--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~  618 (702)
                      .|+..+--.+..++.+..+.+   +++.++++... .|  .....--|.-++.+.|++++|.+..+.+++.+|+|..+..
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~eP~n~QA~~  115 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQVGA  115 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTCCCCHHHHH
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcHHHHH
Confidence            466666666777777776544   46666666554 34  3456667788899999999999999999999998765443

>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=89.76  E-value=1  Score=35.99  Aligned_cols=74  Identities=7%  Similarity=0.047  Sum_probs=49.0

Q ss_pred             CCChhhHHHHHHHHHhcCCHH---HHHHHHHhCCC-CC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHH
Q 005329          545 VPSKEHYGCMIDLLCRAGRLS---DAENMIENMPH-QK--DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHI  618 (702)
Q Consensus       545 ~p~~~~~~~l~~~~~~~g~~~---~A~~~~~~~~~-~p--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~  618 (702)
                      .|+..+--.+..++.+..+.+   +++.++++... .|  ....+--|.-++.+.|+++.|.+..+.+++..|+|..+..
T Consensus        37 ~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~eP~N~QA~~  116 (134)
T 3o48_A           37 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQVGA  116 (134)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTCTTCHHHHH
T ss_pred             CCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhCCCCHHHHH
Confidence            345555555666666665443   45556655544 33  3456666777888888888888888888888887765443

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=89.66  E-value=1.7  Score=36.38  Aligned_cols=27  Identities=11%  Similarity=0.095  Sum_probs=16.9

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHhCCC
Q 005329          550 HYGCMIDLLCRAGRLSDAENMIENMPH  576 (702)
Q Consensus       550 ~~~~l~~~~~~~g~~~~A~~~~~~~~~  576 (702)
                      .--.+..+|.+.|++++|+.+++.+..
T Consensus       124 lkykia~C~~~l~~~~~Ai~~Le~Ip~  150 (167)
T 3ffl_A          124 VKYKLAECYTVLKQDKDAIAILDGIPS  150 (167)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHTSCG
T ss_pred             HHHHHHHHHHHHCCHHHHHHHHhcCCc
Confidence            333456666666777777776666655

>1qsa_A Protein (soluble lytic transglycosylase SLT70); alpha-superhelix, transferase; HET: GOL; 1.65A {Escherichia coli} SCOP: a.118.5.1 d.2.1.6 PDB: 1qte_A* 1sly_A*

Probab=89.51  E-value=23  Score=37.34  Aligned_cols=227  Identities=10%  Similarity=-0.046  Sum_probs=120.8

Q ss_pred             CChHHHHHHHHHHHHCCCCCCHHH----HHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHH
Q 005329          390 GYEEEAFEYLALMRREGPRPNEFA----FASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEA  465 (702)
Q Consensus       390 g~~~~a~~~~~~m~~~g~~p~~~~----~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  465 (702)
                      .+.+.|...+....... ..+...    ...+.......+....+...+.......  .+.......+....+.|+++.|
T Consensus       228 ~d~~~A~~~~~~~~~~~-~~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~e~~~r~Alr~~d~~~a  304 (618)
T 1qsa_A          228 QDAENARLMIPSLAQAQ-QLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRS--QSTSLIERRVRMALGTGDRRGL  304 (618)
T ss_dssp             HCHHHHHHHHHHHHHHT-TCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTC--CCHHHHHHHHHHHHHHTCHHHH
T ss_pred             cCHHHHHHHHHhhhhcc-CCCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhccccC--CChHHHHHHHHHHHHCCCHHHH
Confidence            37788988888876543 223222    2223333444452444444544443322  3333344455556677999999


Q ss_pred             HHHHhhCCCCC---HHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhh
Q 005329          466 SQIFYETESDD---IVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKY  542 (702)
Q Consensus       466 ~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~  542 (702)
                      ...|+.|....   ....-=+..++...|+.++|..+|+++..    +.  +|..++.+ .+.|..-.       . ...
T Consensus       305 ~~~~~~l~~~~~~~~r~~YW~~ra~~~~g~~~~a~~~~~~~a~----~~--~fYg~lAa-~~Lg~~~~-------~-~~~  369 (618)
T 1qsa_A          305 NTWLARLPMEAKEKDEWRYWQADLLLERGREAEAKEILHQLMQ----QR--GFYPMVAA-QRIGEEYE-------L-KID  369 (618)
T ss_dssp             HHHHHHSCTTGGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT----SC--SHHHHHHH-HHTTCCCC-------C-CCC
T ss_pred             HHHHHHccccccccHhHHHHHHHHHHHcCCHHHHHHHHHHHhc----CC--ChHHHHHH-HHcCCCCC-------C-CCC
Confidence            99999887532   22222345567788999999999988874    21  33333321 12221000       0 000


Q ss_pred             CCCCC-hh-----hHHHHHHHHHhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCC---CC
Q 005329          543 GFVPS-KE-----HYGCMIDLLCRAGRLSDAENMIENMPHQKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHP---SC  613 (702)
Q Consensus       543 ~~~p~-~~-----~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p---~~  613 (702)
                      ...+. ..     .-..-+..+...|....|...+.......+......+.......|..+.++....+....+.   ..
T Consensus       370 ~~~~~~~~~~~~~~~~~r~~~L~~~g~~~~a~~ew~~~~~~~~~~~~~~la~~a~~~~~~~~~v~~~~~~~~~~~~~~~~  449 (618)
T 1qsa_A          370 KAPQNVDSALTQGPEMARVRELMYWNLDNTARSEWANLVKSKSKTEQAQLARYAFNNQWWDLSVQATIAGKLWDHLEERF  449 (618)
T ss_dssp             CCCSCCCCHHHHSHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHTTCTTCHHHHS
T ss_pred             CCChhHHhhhccChHHHHHHHHHHCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhcchhhhC
Confidence            01110 00     11123456778899999988887776544545455565666678888887766654322210   11


Q ss_pred             chhHHHHHHHHHhcCChHHHH
Q 005329          614 AGTHITLANIYAAKGRWREAA  634 (702)
Q Consensus       614 ~~~~~~l~~~~~~~g~~~~A~  634 (702)
                      +..|..++.-+.+.-..+.++
T Consensus       450 P~~y~~~i~~~a~~~gv~~~l  470 (618)
T 1qsa_A          450 PLAYNDLFKRYTSGKEIPQSY  470 (618)
T ss_dssp             CCTTHHHHHHHHTTSSSCHHH
T ss_pred             CcchHHHHHHHHHHcCCCHHH
Confidence            234555555555554444443

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=88.81  E-value=17  Score=34.71  Aligned_cols=165  Identities=13%  Similarity=0.125  Sum_probs=95.2

Q ss_pred             HHHHHHHhcCCHHHHHHHHhcCCCCChhhHHHHHHHHHcCCChHHHHHHH----HHHHHCCCCCCHHHHHHHHHHHcccC
Q 005329          350 SIMAMYSKCGQLTSTSIVFHGMIRRDIISWSTIIGGYSQGGYEEEAFEYL----ALMRREGPRPNEFAFASVLSVCGNMA  425 (702)
Q Consensus       350 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~----~~m~~~g~~p~~~~~~~ll~~~~~~~  425 (702)
                      ++..-|.+.+++++|++++..           -...+.+.|+...+-++.    +-..+.++++|..+...++..+....
T Consensus        40 Ti~~Ry~~~k~y~eAidLL~~-----------GA~~ll~~~Q~~sg~DL~~llvevy~~~~~~~~~~~~~rL~~L~~~~~  108 (336)
T 3lpz_A           40 LVAARYSKQGNWAAAVDILAS-----------VSQTLLRSGQGGSGGDLAVLLVDTFRQAGQRVDGASRGKLLGCLRLFQ  108 (336)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHH-----------HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTSC
T ss_pred             HHHHHHHhhcCHHHHHHHHHH-----------HHHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCC
Confidence            344457777888888777533           234455666666555544    44455778888888888877776654


Q ss_pred             cHHH-HHHHHHHHH----HhC--CCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCHHHHHHHHHHHHHcCChHHHHH
Q 005329          426 ILEQ-GKQIHAHVM----SIG--LERTAMIKSALINMYSKCGSIKEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIH  498 (702)
Q Consensus       426 ~~~~-a~~~~~~~~----~~~--~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  498 (702)
                      ..+. =..+.+.++    +.|  ..-++..-..+...|.+.+++.+|+..|---..+.+..+..++.-+...+...+   
T Consensus       109 ~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~Ae~H~ilg~~~s~~~~a~mL~ew~~~~~~~e---  185 (336)
T 3lpz_A          109 PGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEAAEKHLVLGTKESPEVLARMEYEWYKQDESHT---  185 (336)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHTTSCTTHHHHHHHHHHHHHHTSCGGG---
T ss_pred             CCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHhcCCchHHHHHHHHHHHHHhcCCcc---
Confidence            3211 122333332    334  233677778888999999999999988853223333555555444433332111   


Q ss_pred             HHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHH
Q 005329          499 LFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSD  540 (702)
Q Consensus       499 ~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~  540 (702)
                                 ++...-..++ -|...++...|..+++...+
T Consensus       186 -----------~dlfiaRaVL-~yL~l~n~~~A~~~~~~f~~  215 (336)
T 3lpz_A          186 -----------APLYCARAVL-PYLLVANVRAANTAYRIFTS  215 (336)
T ss_dssp             -----------HHHHHHHHHH-HHHHTTCHHHHHHHHHHHHH
T ss_pred             -----------HHHHHHHHHH-HHHHhCCHHHHHHHHHHHHH
Confidence                       1222222222 34556788888887776654

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=87.40  E-value=26  Score=35.32  Aligned_cols=186  Identities=7%  Similarity=0.030  Sum_probs=115.9

Q ss_pred             CCChHHHHHHHHHHHHC-----CCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHH----HHHhc
Q 005329          389 GGYEEEAFEYLALMRRE-----GPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALIN----MYSKC  459 (702)
Q Consensus       389 ~g~~~~a~~~~~~m~~~-----g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~----~~~~~  459 (702)
                      .|++++|++.+..+.+.     +..........++..|...++++...+.+..+.+..... ......+++    .....
T Consensus        29 ~~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~ql-k~ai~~~V~~~~~~l~~~  107 (445)
T 4b4t_P           29 QNDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQL-KLSIQYMIQKVMEYLKSS  107 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTS-HHHHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhh-HHHHHHHHHHHHHHHhcC
Confidence            37788898887766542     244456678888999999999998888776655432221 222233333    22223


Q ss_pred             CC--HHHHHHHHhhCCC---C-------CHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCH-----HHHHHHHHHH
Q 005329          460 GS--IKEASQIFYETES---D-------DIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDS-----VTFMGVLTAC  522 (702)
Q Consensus       460 g~--~~~A~~~~~~~~~---~-------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-----~~~~~ll~~~  522 (702)
                      ..  .+.-..+.+....   .       .......|...+...|++.+|.+++..+...-...+.     ..+...++.|
T Consensus       108 ~~~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~  187 (445)
T 4b4t_P          108 KSLDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELS  187 (445)
T ss_dssp             CTTHHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHH
T ss_pred             CchhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHH
Confidence            32  2223333333331   1       1123456778888899999999999887632112221     2456677788


Q ss_pred             hccCcHHHHHHHHHHhHHhh-CCCCC----hhhHHHHHHHHHhcCCHHHHHHHHHhCC
Q 005329          523 SHAGLVDLGFHYFNLMSDKY-GFVPS----KEHYGCMIDLLCRAGRLSDAENMIENMP  575 (702)
Q Consensus       523 ~~~g~~~~A~~~~~~~~~~~-~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~  575 (702)
                      ...+++.+|..+++++..+. ...++    ...+..++..+...+++.+|...|.++.
T Consensus       188 l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~  245 (445)
T 4b4t_P          188 ILKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIY  245 (445)
T ss_dssp             HHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            88999999999988874321 12222    3456677888888899988888776643

>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=86.73  E-value=5  Score=30.15  Aligned_cols=63  Identities=21%  Similarity=0.231  Sum_probs=47.7

Q ss_pred             ChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHH
Q 005329          492 YSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMID  556 (702)
Q Consensus       492 ~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~  556 (702)
                      +.-+..+-++.+....+-|++....+.+++|.+.+++..|.++|+.+..+.  .+...+|..+++
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~--~~~~~iY~~~lq   87 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA--GPHKEIYPYVIQ   87 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT--TTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh--cCchhhHHHHHH
Confidence            344555666666667788999999999999999999999999999887663  344556776664

>2p58_C Putative type III secretion protein YSCG; type III secretion system, structure, needle protein, YSCE, YSCF, transport protein/chaperone complex; 1.80A {Yersinia pestis}

Probab=86.63  E-value=6  Score=29.56  Aligned_cols=86  Identities=15%  Similarity=0.142  Sum_probs=62.3

Q ss_pred             CChHHHHHHHHHHHHhCCCCchhHHHHHHHHhhhCCChHHHHHHHhccCCCCcchHHHHHHHHHhcCChhHHHHHHHHHH
Q 005329          223 GALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMSTRDVISWTTIITSYVQMGEEENAFDAFVRMQ  302 (702)
Q Consensus       223 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  302 (702)
                      ...++|..+-+.+...+.  ...+--.-+..+.+.|++++|..+.+.+..||...|-+|-..  +.|-.+++...+.++.
T Consensus        21 H~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce~--rlGl~s~le~rL~~la   96 (116)
T 2p58_C           21 HYHEEANCIAEWLHLKGE--EEAVQLIRLSSLMNRGDYASALQQGNKLAYPDLEPWLALCEY--RLGLGSALESRLNRLA   96 (116)
T ss_dssp             TCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHHHHTTSCCGGGHHHHHHHHH--HHTCHHHHHHHHHHHT
T ss_pred             hHHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHHH--hcccHHHHHHHHHHHH
Confidence            355777777777766653  333333445667889999999999999999999999887654  6788888888887887


Q ss_pred             HCCCCCChhhH
Q 005329          303 ESDVKPNEYTF  313 (702)
Q Consensus       303 ~~g~~p~~~t~  313 (702)
                      .+| .|....|
T Consensus        97 ~sg-~p~~q~F  106 (116)
T 2p58_C           97 RSQ-DPRIQTF  106 (116)
T ss_dssp             TCC-CHHHHHH
T ss_pred             hCC-CHHHHHH
Confidence            766 4444444

>3txn_A 26S proteasome regulatory complex subunit P42B; PCI domain, alpha solenoid, regulatory PART LID, hydrolase, protein binding; 2.50A {Drosophila melanogaster} PDB: 3txm_A

Probab=86.38  E-value=18  Score=35.58  Aligned_cols=57  Identities=7%  Similarity=-0.052  Sum_probs=25.9

Q ss_pred             HHHHHhccCcHHHHHHHHHHhHHhhCCCCC----hhhHHHHHHHHHhcCCHHHHHHHHHhC
Q 005329          518 VLTACSHAGLVDLGFHYFNLMSDKYGFVPS----KEHYGCMIDLLCRAGRLSDAENMIENM  574 (702)
Q Consensus       518 ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~  574 (702)
                      ++..|...|++.+|.+++..+.+...-..+    .++|..-+..|...|++.++...+...
T Consensus       105 L~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a  165 (394)
T 3txn_A          105 LIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSA  165 (394)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHH
Confidence            444455555555555555555443211111    223333444455555555555554443

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=86.06  E-value=5.6  Score=29.66  Aligned_cols=87  Identities=11%  Similarity=0.055  Sum_probs=63.5

Q ss_pred             CChHHHHHHHHHHHHhCCCCchhHHHHHHHHhhhCCChHHHHHHHhccCCCCcchHHHHHHHHHhcCChhHHHHHHHHHH
Q 005329          223 GALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMSTRDVISWTTIITSYVQMGEEENAFDAFVRMQ  302 (702)
Q Consensus       223 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  302 (702)
                      ...++|..+-+.+...+.  ...+--.-+..+.+.|++++|..+.+.+..||...|-+|-..  +.|-.+++...+.++.
T Consensus        20 H~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce~--rlGl~s~le~rL~~la   95 (115)
T 2uwj_G           20 HCHEEALCIAEWLERLGQ--DEAARLIRISSLANQGRYQEALAFAHGNPWPALEPWFALCEW--HLGLGAALDRRLAGLG   95 (115)
T ss_dssp             TCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHGGGTTCCCGGGHHHHHHHHH--HTTCHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHHH--hcccHHHHHHHHHHHH
Confidence            355777777777766653  333333445667889999999999999999999999887654  7788888888888887


Q ss_pred             HCCCCCChhhHH
Q 005329          303 ESDVKPNEYTFA  314 (702)
Q Consensus       303 ~~g~~p~~~t~~  314 (702)
                      .+| .|....|.
T Consensus        96 ~sg-~p~~q~Fa  106 (115)
T 2uwj_G           96 GSS-DPALADFA  106 (115)
T ss_dssp             TCS-SHHHHHHH
T ss_pred             hCC-CHHHHHHH
Confidence            776 44444443

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=85.56  E-value=49  Score=36.67  Aligned_cols=251  Identities=10%  Similarity=-0.008  Sum_probs=135.7

Q ss_pred             HHHHHHhcCCHHHHHHHHhcCCC----CCh--hhHHHHHHHHHcCCChHHHHHHHHHHHHCCC-------CCCHHHHHHH
Q 005329          351 IMAMYSKCGQLTSTSIVFHGMIR----RDI--ISWSTIIGGYSQGGYEEEAFEYLALMRREGP-------RPNEFAFASV  417 (702)
Q Consensus       351 l~~~~~~~g~~~~a~~~~~~~~~----~~~--~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~-------~p~~~~~~~l  417 (702)
                      ..-+....|+.++++..++....    .+.  ..-..+.-+....|..+++..++.......-       .+....-..+
T Consensus       380 aSLGlIh~g~~~~gl~~L~~yL~~~~s~~~~ik~GAllaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaL  459 (963)
T 4ady_A          380 ASLGVIHKGNLLEGKKVMAPYLPGSRASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASL  459 (963)
T ss_dssp             HHHHHHTSSCTTTHHHHHTTTSTTSCCSCHHHHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHH
T ss_pred             HHhhhhccCchHHHHHHHHHhccccCCCcHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHH
Confidence            34456678899999999988754    222  2333444556667766778887777655321       0111111222


Q ss_pred             --HHHHcccCcHHHHHHHHHHHHHhCCC-CChhHHHHHHHHHHhcCCHHHHHHHHhhCCC-CCHHHH--HHHHHHHHHcC
Q 005329          418 --LSVCGNMAILEQGKQIHAHVMSIGLE-RTAMIKSALINMYSKCGSIKEASQIFYETES-DDIVSW--TAMINGYAEHG  491 (702)
Q Consensus       418 --l~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-~~~~~~--~~li~~~~~~g  491 (702)
                        --++...++. .+.+.+..+....-. .....--++...+.-.|+.+....++..+.+ .+....  -++.-++...|
T Consensus       460 GLGla~~GS~~e-ev~e~L~~~L~dd~~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~~e~vrR~aalgLGll~~g  538 (963)
T 4ady_A          460 GIGLAAMGSANI-EVYEALKEVLYNDSATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQHGNITRGLAVGLALINYG  538 (963)
T ss_dssp             HHHHHSTTCCCH-HHHHHHHHHHHTCCHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHhcCCCCH-HHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhhhCC
Confidence              2223333443 334444443332111 0011112344445567887777777665432 222333  33334455778


Q ss_pred             ChHHHHHHHHHchhCCCCCCHH-HHH---HHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHH
Q 005329          492 YSQEAIHLFEKVPMVGLRPDSV-TFM---GVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDA  567 (702)
Q Consensus       492 ~~~~A~~~~~~m~~~g~~p~~~-~~~---~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A  567 (702)
                      +.+.+..+.+.+...   .++. -|.   .+.-+|+..|+.....+++..+.+.  ...++.-...+.-++...|+.+.+
T Consensus       539 ~~e~~~~li~~L~~~---~dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d--~~d~VRraAViaLGlI~~g~~e~v  613 (963)
T 4ady_A          539 RQELADDLITKMLAS---DESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSD--SNDDVRRAAVIALGFVLLRDYTTV  613 (963)
T ss_dssp             CGGGGHHHHHHHHHC---SCHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHC--SCHHHHHHHHHHHHHHTSSSCSSH
T ss_pred             ChHHHHHHHHHHHhC---CCHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccC--CcHHHHHHHHHHHHhhccCCHHHH
Confidence            988888888887753   3332 232   3445678889988777799888653  222333333444445556776667


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHH--HhcCC-HHHHHHHHHHHH
Q 005329          568 ENMIENMPHQKDDVVWSTLLRAC--MVQGD-VNCGRHTAEKIL  607 (702)
Q Consensus       568 ~~~~~~~~~~p~~~~~~~l~~~~--~~~g~-~~~A~~~~~~~~  607 (702)
                      .++++.+....++.+......++  ...|+ ...+...+..+.
T Consensus       614 ~rlv~~L~~~~d~~VR~gAalALGli~aGn~~~~aid~L~~L~  656 (963)
T 4ady_A          614 PRIVQLLSKSHNAHVRCGTAFALGIACAGKGLQSAIDVLDPLT  656 (963)
T ss_dssp             HHHTTTGGGCSCHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHhccCCCcHHHHHHHHHHc
Confidence            77776665544444444333333  23333 256777777775

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=85.54  E-value=8.9  Score=44.35  Aligned_cols=59  Identities=8%  Similarity=0.004  Sum_probs=25.6

Q ss_pred             HHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC---hhhHHHHHHHHHhcCCHHHHHHHHHhC
Q 005329          516 MGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS---KEHYGCMIDLLCRAGRLSDAENMIENM  574 (702)
Q Consensus       516 ~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~---~~~~~~l~~~~~~~g~~~~A~~~~~~~  574 (702)
                      .-++..+.+.+.++.+.++-..+.+..+-.++   ...|..+.+.+...|++++|...+-.+
T Consensus       903 ~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~  964 (1139)
T 4fhn_B          903 LHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVL  964 (1139)
T ss_dssp             HHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhC
Confidence            33444444445555555444444332110100   113444555555555555555555443

>3txn_A 26S proteasome regulatory complex subunit P42B; PCI domain, alpha solenoid, regulatory PART LID, hydrolase, protein binding; 2.50A {Drosophila melanogaster} PDB: 3txm_A

Probab=85.09  E-value=28  Score=34.23  Aligned_cols=89  Identities=9%  Similarity=-0.042  Sum_probs=65.1

Q ss_pred             HHHHHHHhcCCHHHHHHHHHhCCC---CCC-----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC---CCCch----hH
Q 005329          553 CMIDLLCRAGRLSDAENMIENMPH---QKD-----DVVWSTLLRACMVQGDVNCGRHTAEKILELH---PSCAG----TH  617 (702)
Q Consensus       553 ~l~~~~~~~g~~~~A~~~~~~~~~---~p~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---p~~~~----~~  617 (702)
                      .++..|...|++.+|.+++.++..   +.|     ...+-.-+..|...+++..+...+.++....   +.+|.    ..
T Consensus       104 kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai~~~p~i~a~i~  183 (394)
T 3txn_A          104 RLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPKVQGALD  183 (394)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccCCCCHHHHHHHH
Confidence            688999999999999988887755   211     2344555667889999999999999987643   22332    33


Q ss_pred             HHHHHHHH-hcCChHHHHHHHHHHH
Q 005329          618 ITLANIYA-AKGRWREAAEVRKMMR  641 (702)
Q Consensus       618 ~~l~~~~~-~~g~~~~A~~~~~~~~  641 (702)
                      ..-|..+. ..++|.+|...|-+..
T Consensus       184 ~~~Gi~~l~~~rdyk~A~~~F~eaf  208 (394)
T 3txn_A          184 LQSGILHAADERDFKTAFSYFYEAF  208 (394)
T ss_dssp             HHHHHHHHHTTSCHHHHHHHHHHHH
T ss_pred             HHhhHHHHHhccCHHHHHHHHHHHH
Confidence            44566677 8999999988876653

>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=83.46  E-value=6.2  Score=39.13  Aligned_cols=72  Identities=13%  Similarity=0.084  Sum_probs=56.1

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHH----hhCCCCChhhHH
Q 005329          480 WTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSD----KYGFVPSKEHYG  552 (702)
Q Consensus       480 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~----~~~~~p~~~~~~  552 (702)
                      ...++..+...|++++|+..++.+.... +-+...+..+|.++.+.|+..+|.+.|+.+.+    ..|+.|+..+-.
T Consensus       174 ~~~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~  249 (388)
T 2ff4_A          174 HTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRA  249 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            3446677788899999998888887642 55778899999999999999999998887644    358888866543

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=83.22  E-value=13  Score=34.09  Aligned_cols=121  Identities=13%  Similarity=0.082  Sum_probs=72.1

Q ss_pred             HHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChh----hHHHHHHHHHhc
Q 005329          486 GYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKE----HYGCMIDLLCRA  561 (702)
Q Consensus       486 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~----~~~~l~~~~~~~  561 (702)
                      .+.+.|+.++|++....-++.. +-|...-..++.-+|-.|++++|.+-++.+.+   +.|+..    .|..+|.+    
T Consensus         6 ~ll~~g~L~~al~~~~~~VR~~-P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~---l~p~~~~~a~~yr~lI~a----   77 (273)
T 1zbp_A            6 NALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIK---LFPEYLPGASQLRHLVKA----   77 (273)
T ss_dssp             HHTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH---HCGGGHHHHHHHHHHHHH----
T ss_pred             HHHhCCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH---hCchhhHHHHHHHHHHHH----
Confidence            4456778888888777766653 44666667778888888888888887777763   356532    33333332    


Q ss_pred             CCHHHHH-HHHHhCCC----CCCHHHHHHHHHHH--HhcCCHHHHHHHHHHHHHhCCCCchhH
Q 005329          562 GRLSDAE-NMIENMPH----QKDDVVWSTLLRAC--MVQGDVNCGRHTAEKILELHPSCAGTH  617 (702)
Q Consensus       562 g~~~~A~-~~~~~~~~----~p~~~~~~~l~~~~--~~~g~~~~A~~~~~~~~~~~p~~~~~~  617 (702)
                         +... ++|.--..    .....-...++.+.  ...|+.+.|.++-.++++.-|..+...
T Consensus        78 ---E~~R~~vfaG~~~P~~~g~~~~w~~~ll~Al~~~~~G~~~~A~~lr~~A~e~ap~~~G~~  137 (273)
T 1zbp_A           78 ---AQARKDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQEKGFLA  137 (273)
T ss_dssp             ---HHHHHHHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCCCEEE
T ss_pred             ---HHHHHHHHcCCCCCCCCCCCHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCcccCCCc
Confidence               1111 12222111    11122223444443  366888888888888888877665533

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=83.20  E-value=5.4  Score=43.10  Aligned_cols=52  Identities=15%  Similarity=0.114  Sum_probs=38.1

Q ss_pred             HHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCC
Q 005329          521 ACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMP  575 (702)
Q Consensus       521 ~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~  575 (702)
                      -|...|+++.|+++-++.+.   ..|+ -.+|..|+.+|...|+++.|+-.++.++
T Consensus       346 FLl~K~~~elAL~~Ak~AV~---~aPseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          346 FLLNRGDYELALGVSNTSTE---LALDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH---HCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             HHhccCcHHHHHHHHHHHHh---cCchhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence            34566778888887777763   3565 6778888888888888888887777764

>3esl_A Checkpoint serine/threonine-protein kinase BUB1; mitotic spindle checkpoint, TPR motif, all-alpha domain, MAD3-like domain; HET: NHE; 1.74A {Saccharomyces cerevisiae}

Probab=82.63  E-value=13  Score=32.21  Aligned_cols=55  Identities=5%  Similarity=-0.014  Sum_probs=35.5

Q ss_pred             cCCHHHHHHHHHHHHHhC--CCCchhHHHHHHHHHhcCChHHHHHHHHHHHhCCCcc
Q 005329          593 QGDVNCGRHTAEKILELH--PSCAGTHITLANIYAAKGRWREAAEVRKMMRSKGVIK  647 (702)
Q Consensus       593 ~g~~~~A~~~~~~~~~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  647 (702)
                      .+....+..+|+.+...+  -..+..|...+..+...|++.+|.++++.-.+.+..|
T Consensus        92 ~~~~~~p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~GI~~~A~P  148 (202)
T 3esl_A           92 SNNFHESENTFKYMFNKGIGTKLSLFYEEFSKLLENAQFFLEAKVLLELGAENNCRP  148 (202)
T ss_dssp             TTCHHHHHHHHHHHHHHTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBS
T ss_pred             ccccCCHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcc
Confidence            344556667777666543  4456666677777777777777777777766655443

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=81.50  E-value=14  Score=27.60  Aligned_cols=86  Identities=10%  Similarity=0.030  Sum_probs=61.0

Q ss_pred             CCchhhhHHHHHHHHhcCCCchhHHHHHHHhhhcCCChhHHHHHhccCCCCCcchHHHHHHHHHhCCChHHHHHHHHHHH
Q 005329          122 VNVNYGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKIELGCRVFDEMPLRNVVSWTAIITGLVRAGHNKEGLIYFAEMW  201 (702)
Q Consensus       122 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  201 (702)
                      ...++|.-+-+.+...+.  ...+--..++.+...|++++|..+.+...-||...|-+|-.  .+.|-.+.+..-+.++.
T Consensus        20 H~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s~le~rL~~la   95 (115)
T 2uwj_G           20 HCHEEALCIAEWLERLGQ--DEAARLIRISSLANQGRYQEALAFAHGNPWPALEPWFALCE--WHLGLGAALDRRLAGLG   95 (115)
T ss_dssp             TCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHGGGTTCCCGGGHHHHHHHH--HHTTCHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHHHHHHHHHHHH
Confidence            356777777777766653  33333344456778899999999999999999999987755  36788888877777776


Q ss_pred             HCCCCCChhhH
Q 005329          202 RSKEQGDSYTF  212 (702)
Q Consensus       202 ~~~~~p~~~~~  212 (702)
                      .+| .|....|
T Consensus        96 ~sg-~p~~q~F  105 (115)
T 2uwj_G           96 GSS-DPALADF  105 (115)
T ss_dssp             TCS-SHHHHHH
T ss_pred             hCC-CHHHHHH
Confidence            665 3343344

>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=80.77  E-value=10  Score=30.22  Aligned_cols=63  Identities=21%  Similarity=0.231  Sum_probs=47.8

Q ss_pred             hHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHH
Q 005329          493 SQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDL  557 (702)
Q Consensus       493 ~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~  557 (702)
                      .-+..+-++.+....+-|++......+++|.+.+++..|..+|+.+..+  ..+...+|..+++-
T Consensus        69 ~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K--~~~~~~iY~y~lqE  131 (152)
T 2y69_E           69 AWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK--AGPHKEIYPYVIQE  131 (152)
T ss_dssp             HHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--TTTCTTHHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHh--cCCchhhHHHHHHH
Confidence            3345555666666778899999999999999999999999999988766  34456667766643

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=80.06  E-value=4.5  Score=37.00  Aligned_cols=58  Identities=16%  Similarity=0.256  Sum_probs=40.8

Q ss_pred             HHHHhcCCHHHHHHHHHhCCC-CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCC
Q 005329          556 DLLCRAGRLSDAENMIENMPH-QK-DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSC  613 (702)
Q Consensus       556 ~~~~~~g~~~~A~~~~~~~~~-~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~  613 (702)
                      ..+.+.|++++|+..+..-++ +| |......|...++-.|++++|..-++.+.+++|..
T Consensus         5 ~~ll~~g~L~~al~~~~~~VR~~P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l~p~~   64 (273)
T 1zbp_A            5 KNALSEGQLQQALELLIEAIKASPKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEY   64 (273)
T ss_dssp             HHHTTTTCHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGG
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCchh
Confidence            345677788887777665544 44 55566667777778888888888888888888744

>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=80.02  E-value=11  Score=28.41  Aligned_cols=62  Identities=6%  Similarity=-0.080  Sum_probs=40.0

Q ss_pred             hHHHHHHHHHHHHCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHH
Q 005329          190 NKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSGALNFGREIHTIMLKRGFDVVSFVANSLAT  252 (702)
Q Consensus       190 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  252 (702)
                      .-+..+-+..+....+.|++......+++|.+.+++..|.++++.++..- .+...+|..++.
T Consensus        26 ~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~-~~~~~iY~~~lq   87 (109)
T 1v54_E           26 AWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVIQ   87 (109)
T ss_dssp             HHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh-cCchhhHHHHHH
Confidence            33455556666666677777777777777777777777777777776553 223444555543

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	702
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	9e-09
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	3e-04
d1zbpa1	264	e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {V	0.001
d1zbpa1	264	e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {V	0.004

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]} Length = 388

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]

 Score = 55.8 bits (133), Expect = 9e-09
 Identities = 47/389 (12%), Positives = 101/389 (25%), Gaps = 16/389 (4%)

Query: 250 LATMYSKCGKLDYSLRLFERMSTRD---VISWTTIITSYVQMGEEENAFDAFVRMQESDV 306
           LA    + G  + + R   ++  ++         + + + Q    + +        + + 
Sbjct: 5   LAHREYQAGDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN- 63

Query: 307 KPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSI 366
            P      + +               H         D +    ++ A     G +     
Sbjct: 64  -PLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQ 122

Query: 367 VFHGMIRRDIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAI 426
            +   ++ +   +       +         E  A   +       FA A     C   A 
Sbjct: 123 AYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPNFAVAWSNLGCVFNAQ 182

Query: 427 LEQGKQIHAHVMSIGLE-RTAMIKSALINMYSKCGSIKEASQIFYETESDDIVSWTAMIN 485
            E    IH    ++ L+         L N+  +      A   +    S          N
Sbjct: 183 GEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGN 242

Query: 486 ---GYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVL-TACSHAGLVDLGFHYFNLMSDK 541
               Y E G    AI  + +   + L+P        L  A    G V      +N     
Sbjct: 243 LACVYYEQGLIDLAIDTYRRA--IELQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRL 300

Query: 542 YGFVPSKEHYGCMIDLLCRAGRLSDAENMIENM--PHQKDDVVWSTLLRACMVQGDVNCG 599
                  +    + ++    G + +A  +         +     S L      QG +   
Sbjct: 301 CPTHA--DSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEA 358

Query: 600 RHTAEKILELHPSCAGTHITLANIYAAKG 628
               ++ + + P+ A  +  + N      
Sbjct: 359 LMHYKEAIRISPTFADAYSNMGNTLKEMQ 387

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]} Length = 388

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]

 Score = 41.2 bits (95), Expect = 3e-04
 Identities = 20/94 (21%), Positives = 30/94 (31%), Gaps = 2/94 (2%)

Query: 549 EHYGCMIDLLCRAGRLSDAENMIENMP--HQKDDVVWSTLLRACMVQGDVNCGRHTAEKI 606
           + Y  + ++L  A     A               VV   L      QG ++    T  + 
Sbjct: 204 DAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRA 263

Query: 607 LELHPSCAGTHITLANIYAAKGRWREAAEVRKMM 640
           +EL P     +  LAN    KG   EA +     
Sbjct: 264 IELQPHFPDAYCNLANALKEKGSVAEAEDCYNTA 297

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]} Length = 264

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]

 Score = 39.3 bits (91), Expect = 0.001
 Identities = 7/51 (13%), Positives = 17/51 (33%)

Query: 585 TLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAE 635
           T  +  + +G +        + ++  P  A    +   +    G +  A E
Sbjct: 1   TQWKNALSEGQLQQALELLIEAIKASPKDASLRSSFIELLCIDGDFERADE 51

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]} Length = 264

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]

 Score = 37.3 bits (86), Expect = 0.004
 Identities = 15/85 (17%), Positives = 29/85 (34%), Gaps = 6/85 (7%)

Query: 560 RAGRLSDA----ENMIENMPHQKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAG 615
             G+L  A       I+  P  KD  + S+ +    + GD         + ++L P    
Sbjct: 8   SEGQLQQALELLIEAIKASP--KDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLP 65

Query: 616 THITLANIYAAKGRWREAAEVRKMM 640
               L ++  A    ++ A+     
Sbjct: 66  GASQLRHLVKAAQARKDFAQGAATA 90

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	702
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.91
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.91
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.59
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.53
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.21
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.11
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.07
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.03
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.02
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.01
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.98
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.93
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.91
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.9
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.85
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.77
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.76
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.75
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.74
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.74
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.68
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.63
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.57
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.56
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.54
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.53
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.51
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.49
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.46
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.41
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.37
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.36
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.35
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.34
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.31
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.3
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.3
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.27
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.07
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.05
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.03
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.02
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.01
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.0
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.97
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.96
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.92
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.91
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.81
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.75
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.57
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.46
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.24
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	97.08
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.08
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	96.96
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	96.45
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	96.37
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	96.1
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	95.55
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	94.86
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	89.16
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	86.04

>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=99.91  E-value=3.6e-21  Score=195.44  Aligned_cols=369  Identities=16%  Similarity=0.151  Sum_probs=192.3

Q ss_pred             HhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHH
Q 005329          286 VQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTS  365 (702)
Q Consensus       286 ~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  365 (702)
                      .+.|++++|.+.|+++.+.. +-+...+..+...+...|++++|...++.+.+.. +.+..++..+...|.+.|++++|+
T Consensus        10 ~~~G~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~~~~~~g~~~~A~   87 (388)
T d1w3ba_          10 YQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQLQEAI   87 (388)
T ss_dssp             HHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHhhhhccccccc
Confidence            34444444444444444331 1123333334444444444444444444444432 223334444444444455555554


Q ss_pred             HHHhcCCC---CChhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCC
Q 005329          366 IVFHGMIR---RDIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGL  442 (702)
Q Consensus       366 ~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  442 (702)
                      ..+.....   .+...+..........+....+............. ...............+....+...+....... 
T Consensus        88 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-  165 (388)
T d1w3ba_          88 EHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPD-LYCVRSDLGNLLKALGRLEEAKACYLKAIETQ-  165 (388)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTT-CTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHC-
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccc-cccccccccccccccchhhhhHHHHHHhhccC-
Confidence            44444321   12222222222223333333333333333222222 12222222333334444444444444444332 


Q ss_pred             CCChhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHH
Q 005329          443 ERTAMIKSALINMYSKCGSIKEASQIFYETE---SDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVL  519 (702)
Q Consensus       443 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll  519 (702)
                      +.....+..+...+...|++++|...+++..   +.+...|..+...+...|++++|+..+++....+ +.+...+..+.
T Consensus       166 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~  244 (388)
T d1w3ba_         166 PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHGNLA  244 (388)
T ss_dssp             TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             cchhHHHHhhcccccccCcHHHHHHHHHHHHHhCcccHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-hhHHHHHHHHH
Confidence            2233444455556666666666666665433   2345566666666666667777766666665542 33445555566


Q ss_pred             HHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCH
Q 005329          520 TACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDV  596 (702)
Q Consensus       520 ~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~  596 (702)
                      ..+...|++++|.+.|+++.+.   .|+ ...+..++.++...|++++|.+.++....  +.+...+..++..+...|++
T Consensus       245 ~~~~~~~~~~~A~~~~~~al~~---~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  321 (388)
T d1w3ba_         245 CVYYEQGLIDLAIDTYRRAIEL---QPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKREQGNI  321 (388)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHT---CSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccCCccchhhhHHHHHHHHCCCH
Confidence            6666667777777776666532   444 55666666666777777777766666544  34555666666666677777


Q ss_pred             HHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhCCCccCCeeeEEEECCEEEEEEcCCCCCCChhHH
Q 005329          597 NCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKGVIKEPGWSRIKVKDQVSAFVSSDRRHSQGEDI  676 (702)
Q Consensus       597 ~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~  676 (702)
                      ++|+..++++++.+|+++.++..++.+|.+.|++++|+..++++.+                          .+|...+.
T Consensus       322 ~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~--------------------------l~P~~~~a  375 (388)
T d1w3ba_         322 EEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIR--------------------------ISPTFADA  375 (388)
T ss_dssp             HHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT--------------------------TCTTCHHH
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--------------------------hCCCCHHH
Confidence            7777777777777776666777777777777777777777766654                          23555666


Q ss_pred             HHHHHHHHHHhc
Q 005329          677 YRMLDLLASRES  688 (702)
Q Consensus       677 ~~~l~~l~~~~~  688 (702)
                      +..++.+..+++
T Consensus       376 ~~~lg~~~~~~~  387 (388)
T d1w3ba_         376 YSNMGNTLKEMQ  387 (388)
T ss_dssp             HHHHHHHHHHTC
T ss_pred             HHHHHHHHHHcC
Confidence            666666666554

>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=99.91  E-value=1.5e-20  Score=190.75  Aligned_cols=375  Identities=11%  Similarity=0.062  Sum_probs=261.2

Q ss_pred             HHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhhhCCChHHHHHHHhccCC--C-CcchHHHHHHHHHhcCChh
Q 005329          216 LKASADSGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMST--R-DVISWTTIITSYVQMGEEE  292 (702)
Q Consensus       216 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~  292 (702)
                      ...+.+.|++++|.+.++++.+.. +.+...+..+...|.+.|++++|...|++..+  | +..+|..+...|...|+++
T Consensus         6 a~~~~~~G~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~l~~~~~~~g~~~   84 (388)
T d1w3ba_           6 AHREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQLQ   84 (388)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHhhhhcccc
Confidence            344556778888888888777764 34456666677777777777777777776542  2 4456666777777777777


Q ss_pred             HHHHHHHHHHHCCCCCChhhHHHHHHHHHccCchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHhcCC
Q 005329          293 NAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMI  372 (702)
Q Consensus       293 ~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  372 (702)
                      +|+..+....... +.+..............+................                                
T Consensus        85 ~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------------------------------  131 (388)
T d1w3ba_          85 EAIEHYRHALRLK-PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYN--------------------------------  131 (388)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC--------------------------------
T ss_pred             ccccccccccccc-cccccccccccccccccccccccccccccccccc--------------------------------
Confidence            7777777766543 2222222223333333333333333333322222                                


Q ss_pred             CCChhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHH
Q 005329          373 RRDIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSAL  452 (702)
Q Consensus       373 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  452 (702)
                      .................+....+...+....... +-+...+..+...+...|+.+.|...+....+... .+...+..+
T Consensus       132 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l  209 (388)
T d1w3ba_         132 PDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDP-NFLDAYINL  209 (388)
T ss_dssp             TTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCT-TCHHHHHHH
T ss_pred             cccccccccccccccccchhhhhHHHHHHhhccC-cchhHHHHhhcccccccCcHHHHHHHHHHHHHhCc-ccHHHHHHH
Confidence            1122233333444445555555555555554432 22334455555666666666777666666665432 245566667


Q ss_pred             HHHHHhcCCHHHHHHHHhhCC---CCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHH
Q 005329          453 INMYSKCGSIKEASQIFYETE---SDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVD  529 (702)
Q Consensus       453 i~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~  529 (702)
                      ...+...|++++|...|++..   ..+...+..+..++.+.|++++|+..|++..+.. +-+..++..+...+...|+++
T Consensus       210 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~  288 (388)
T d1w3ba_         210 GNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVA  288 (388)
T ss_dssp             HHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHH
T ss_pred             hhhhhccccHHHHHHHHHHhHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHH
Confidence            778888888888888887654   3566778888999999999999999999988742 335578888999999999999


Q ss_pred             HHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 005329          530 LGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPH-QK-DDVVWSTLLRACMVQGDVNCGRHTAEKIL  607 (702)
Q Consensus       530 ~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  607 (702)
                      +|.+.++.....  .+.+...+..+..++.+.|++++|+..|+++.+ .| +..++..++..+...|++++|+..|++++
T Consensus       289 ~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al  366 (388)
T d1w3ba_         289 EAEDCYNTALRL--CPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAI  366 (388)
T ss_dssp             HHHHHHHHHHHH--CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHhhhcc--CCccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            999999998764  344578888999999999999999999999877 44 57789999999999999999999999999


Q ss_pred             HhCCCCchhHHHHHHHHHhcCC
Q 005329          608 ELHPSCAGTHITLANIYAAKGR  629 (702)
Q Consensus       608 ~~~p~~~~~~~~l~~~~~~~g~  629 (702)
                      +++|+++.+|..|+.+|.+.|+
T Consensus       367 ~l~P~~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         367 RISPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             TTCTTCHHHHHHHHHHHHHTCC
T ss_pred             HhCCCCHHHHHHHHHHHHHcCC
Confidence            9999999999999999999886

>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=99.59  E-value=4.9e-14  Score=138.22  Aligned_cols=228  Identities=12%  Similarity=-0.010  Sum_probs=162.9

Q ss_pred             HHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcC
Q 005329          381 TIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCG  460 (702)
Q Consensus       381 ~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  460 (702)
                      .....+.+.|++++|+..|+++.+.. +-+..++..+..++...|+++.|...+..+.+... .+...+..+...|...|
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~~  101 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELKP-DNQTALMALAVSFTNES  101 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhcccc-ccccccccccccccccc
Confidence            45667788888888888888887753 12345666666666666777777666666665432 23344444555555555


Q ss_pred             CHHHHHHHHhhCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCH----------------HHHHHHHHHHhc
Q 005329          461 SIKEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDS----------------VTFMGVLTACSH  524 (702)
Q Consensus       461 ~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~----------------~~~~~ll~~~~~  524 (702)
                      ++++|.+.++                               +....  .|+.                ......+..+..
T Consensus       102 ~~~~A~~~~~-------------------------------~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  148 (323)
T d1fcha_         102 LQRQACEILR-------------------------------DWLRY--TPAYAHLVTPAEEGAGGAGLGPSKRILGSLLS  148 (323)
T ss_dssp             CHHHHHHHHH-------------------------------HHHHT--STTTGGGCC---------------CTTHHHHH
T ss_pred             cccccccchh-------------------------------hHHHh--ccchHHHHHhhhhhhhhcccccchhhHHHHHH
Confidence            5555555444                               43321  1110                011112223344


Q ss_pred             cCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCC-C-CCHHHHHHHHHHHHhcCCHHHHHHH
Q 005329          525 AGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPH-Q-KDDVVWSTLLRACMVQGDVNCGRHT  602 (702)
Q Consensus       525 ~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~-p~~~~~~~l~~~~~~~g~~~~A~~~  602 (702)
                      .+.+.+|.+.|..+.+...-.++...+..+...+...|++++|...+++... . .+..+|..++..+...|++++|++.
T Consensus       149 ~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~  228 (323)
T d1fcha_         149 DSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQSEEAVAA  228 (323)
T ss_dssp             HHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHhhhhcccccccccccccccchhhhhhcccccccchhHHHH
Confidence            5677888888888775522333467788899999999999999999999866 3 4577899999999999999999999


Q ss_pred             HHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 005329          603 AEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSK  643 (702)
Q Consensus       603 ~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  643 (702)
                      ++++++++|+++.++..++.+|.+.|++++|+..|+++.+.
T Consensus       229 ~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l  269 (323)
T d1fcha_         229 YRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNM  269 (323)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999998874

>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=99.53  E-value=7.1e-13  Score=129.73  Aligned_cols=264  Identities=12%  Similarity=0.049  Sum_probs=195.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHhcCCC--C-ChhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCc
Q 005329          350 SIMAMYSKCGQLTSTSIVFHGMIR--R-DIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAI  426 (702)
Q Consensus       350 ~l~~~~~~~g~~~~a~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~  426 (702)
                      .....+.+.|++++|+..|+++.+  | +..+|..+..++...|++++|...|.+..+.. +-+...+..+...+...|+
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~  102 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESL  102 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-ccccccccccccccccccc
Confidence            356678899999999999999843  3 56789999999999999999999999998753 2245677788889999999


Q ss_pred             HHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHchhC
Q 005329          427 LEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMV  506 (702)
Q Consensus       427 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  506 (702)
                      ++.|.+.+..+.......... ........ .               ..+.......+..+...+.+.+|.+.|.+..+.
T Consensus       103 ~~~A~~~~~~~~~~~~~~~~~-~~~~~~~~-~---------------~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~  165 (323)
T d1fcha_         103 QRQACEILRDWLRYTPAYAHL-VTPAEEGA-G---------------GAGLGPSKRILGSLLSDSLFLEVKELFLAAVRL  165 (323)
T ss_dssp             HHHHHHHHHHHHHTSTTTGGG-CC-------------------------------CTTHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccccccchhhHHHhccchHHH-HHhhhhhh-h---------------hcccccchhhHHHHHHhhHHHHHHHHHHHHHHH
Confidence            999999999887754321110 00000000 0               001111111223344556678888888887753


Q ss_pred             C-CCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CC-CHHH
Q 005329          507 G-LRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH-QK-DDVV  582 (702)
Q Consensus       507 g-~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p-~~~~  582 (702)
                      . -.++...+..+...+...|++++|+..|+.....   .|+ ...|..++.+|.+.|++++|.+.|+++.. .| +..+
T Consensus       166 ~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~---~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a  242 (323)
T d1fcha_         166 DPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV---RPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRS  242 (323)
T ss_dssp             STTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHH
T ss_pred             hhcccccccchhhHHHHHHHHHHhhhhccccccccc---ccccccchhhhhhcccccccchhHHHHHHHHHHHhhccHHH
Confidence            2 1234567788888899999999999999998754   555 78889999999999999999999999876 44 5778


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchh-----------HHHHHHHHHhcCChHHHH
Q 005329          583 WSTLLRACMVQGDVNCGRHTAEKILELHPSCAGT-----------HITLANIYAAKGRWREAA  634 (702)
Q Consensus       583 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~-----------~~~l~~~~~~~g~~~~A~  634 (702)
                      |..++.+|...|++++|+..|+++++++|++...           |..+..++...|+.+.+.
T Consensus       243 ~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~l~~al~~~~~~d~~~  305 (323)
T d1fcha_         243 RYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYG  305 (323)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCCcChhhhhhhHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            9999999999999999999999999998887653           455677777777776543

>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=99.21  E-value=2.1e-09  Score=105.90  Aligned_cols=193  Identities=12%  Similarity=0.015  Sum_probs=135.9

Q ss_pred             HHHHHHHHhcCCHHHHHHHHhhCC-------CC----CHHHHHHHHHHHHHcCChHHHHHHHHHchhCC----CCCCHHH
Q 005329          450 SALINMYSKCGSIKEASQIFYETE-------SD----DIVSWTAMINGYAEHGYSQEAIHLFEKVPMVG----LRPDSVT  514 (702)
Q Consensus       450 ~~li~~~~~~g~~~~A~~~~~~~~-------~~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g----~~p~~~~  514 (702)
                      ..+...+...|++..+...+....       .+    ....+..+...+...|+++.+...+.+.....    .......
T Consensus        95 ~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  174 (366)
T d1hz4a_          95 IQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQC  174 (366)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHH
Confidence            345555666677666666655432       11    12345566777888899999988887776432    1122345


Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-----hhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CC-----CHHHH
Q 005329          515 FMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-----KEHYGCMIDLLCRAGRLSDAENMIENMPH-QK-----DDVVW  583 (702)
Q Consensus       515 ~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p-----~~~~~  583 (702)
                      +......+...++...+...+...........+     ...+..+...+...|++++|...++.... .|     ....+
T Consensus       175 ~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  254 (366)
T d1hz4a_         175 LAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQW  254 (366)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHH
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHH
Confidence            555666677888888888888776544222222     23455667778899999999999998876 11     23456


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHh------CCCCchhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 005329          584 STLLRACMVQGDVNCGRHTAEKILEL------HPSCAGTHITLANIYAAKGRWREAAEVRKMMRS  642 (702)
Q Consensus       584 ~~l~~~~~~~g~~~~A~~~~~~~~~~------~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  642 (702)
                      ..+..++...|++++|...+++++..      .|.....+..++.+|.+.|++++|.+.+++..+
T Consensus       255 ~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         255 RNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  319 (366)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            67888899999999999999998854      255567889999999999999999999998765

>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=99.11  E-value=6.1e-10  Score=107.27  Aligned_cols=181  Identities=6%  Similarity=0.026  Sum_probs=78.1

Q ss_pred             HHhcCCHHHHHHHHhhCC---CCCHHHHHHHHHHHHHcC-ChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHH
Q 005329          456 YSKCGSIKEASQIFYETE---SDDIVSWTAMINGYAEHG-YSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLG  531 (702)
Q Consensus       456 ~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g-~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A  531 (702)
                      +.+.+..++|+.+++++.   +.+...|+....++...| ++++|+..+++..+.. +-+..+|..+...+...|++++|
T Consensus        53 ~~~~e~~~~Al~~~~~ai~lnP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~~~~~~l~~~~eA  131 (315)
T d2h6fa1          53 LQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVLVEWLRDPSQE  131 (315)
T ss_dssp             HHHTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTH
T ss_pred             HHhCCchHHHHHHHHHHHHHCCCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHhHHHHhhccHHHH
Confidence            333444444444444333   123334444444444433 2444444444444321 11233444444444444444455


Q ss_pred             HHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CC-CHHHHHHHHHHHHhcCC------HHHHHHH
Q 005329          532 FHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH-QK-DDVVWSTLLRACMVQGD------VNCGRHT  602 (702)
Q Consensus       532 ~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p-~~~~~~~l~~~~~~~g~------~~~A~~~  602 (702)
                      ++.++.+.+.   .|+ ...|..++.++.+.|++++|+..++++.. .| +...|+.+...+...+.      +++|++.
T Consensus       132 l~~~~kal~~---dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~n~~a~~~r~~~l~~~~~~~~~~~~~~ai~~  208 (315)
T d2h6fa1         132 LEFIADILNQ---DAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVRNNSVWNQRYFVISNTTGYNDRAVLEREVQY  208 (315)
T ss_dssp             HHHHHHHHHH---CTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCSCSHHHHHHHHHH
T ss_pred             HHHHhhhhhh---hhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCccHHHHHHHHHHHHHccccchhhhhHHhHHH
Confidence            5544444422   332 44444444444444555555544444444 22 33344444443333322      3445555


Q ss_pred             HHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHH
Q 005329          603 AEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMR  641 (702)
Q Consensus       603 ~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  641 (702)
                      +.++++++|++...|..++.++...| .+++.+.++...
T Consensus       209 ~~~al~~~P~~~~~~~~l~~ll~~~~-~~~~~~~~~~~~  246 (315)
T d2h6fa1         209 TLEMIKLVPHNESAWNYLKGILQDRG-LSKYPNLLNQLL  246 (315)
T ss_dssp             HHHHHHHSTTCHHHHHHHHHHHTTTC-GGGCHHHHHHHH
T ss_pred             HHHHHHhCCCchHHHHHHHHHHHhcC-hHHHHHHHHHHH
Confidence            55555555555555555544433322 344444444443

>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=99.07  E-value=1.8e-09  Score=103.82  Aligned_cols=164  Identities=7%  Similarity=-0.035  Sum_probs=142.7

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCH-HHHHHHHHHHhccC-cHHHHHHHHHHhHHhhCCCCC-hhhHHHH
Q 005329          478 VSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDS-VTFMGVLTACSHAG-LVDLGFHYFNLMSDKYGFVPS-KEHYGCM  554 (702)
Q Consensus       478 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~g-~~~~A~~~~~~~~~~~~~~p~-~~~~~~l  554 (702)
                      ..++.+...+.+.+++++|+++++++++.  .|+. ..|+....++...| ++++|++.++.+.+.   .|+ ..+|..+
T Consensus        44 ~a~~~~~~~~~~~e~~~~Al~~~~~ai~l--nP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~---~p~~~~a~~~~  118 (315)
T d2h6fa1          44 DVYDYFRAVLQRDERSERAFKLTRDAIEL--NAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEE---QPKNYQVWHHR  118 (315)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH---CTTCHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHHH--CCCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHH---HHhhhhHHHHH
Confidence            46677778888999999999999999984  5654 57777777777766 599999999999855   666 8899999


Q ss_pred             HHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCC---
Q 005329          555 IDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGR---  629 (702)
Q Consensus       555 ~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~---  629 (702)
                      ..++.+.|++++|+..++++..  +.+...|..++..+...|++++|+..++++++++|.+...|..++.++.+.|+   
T Consensus       119 ~~~~~~l~~~~eAl~~~~kal~~dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~n~~a~~~r~~~l~~~~~~~~  198 (315)
T d2h6fa1         119 RVLVEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVRNNSVWNQRYFVISNTTGYND  198 (315)
T ss_dssp             HHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCSCS
T ss_pred             hHHHHhhccHHHHHHHHhhhhhhhhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCccHHHHHHHHHHHHHccccch
Confidence            9999999999999999999988  45688999999999999999999999999999999999999999999988776   


Q ss_pred             ---hHHHHHHHHHHHhCCCc
Q 005329          630 ---WREAAEVRKMMRSKGVI  646 (702)
Q Consensus       630 ---~~~A~~~~~~~~~~~~~  646 (702)
                         +++|++.++++.+..+.
T Consensus       199 ~~~~~~ai~~~~~al~~~P~  218 (315)
T d2h6fa1         199 RAVLEREVQYTLEMIKLVPH  218 (315)
T ss_dssp             HHHHHHHHHHHHHHHHHSTT
T ss_pred             hhhhHHhHHHHHHHHHhCCC
Confidence               57888888888775543

>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=99.03  E-value=1.8e-08  Score=98.95  Aligned_cols=187  Identities=9%  Similarity=-0.010  Sum_probs=119.0

Q ss_pred             HHHHHHHHhcCCHHHHHHHHhhCCC--------CCHHHHHHHHHHHHHcCChHHHHHHHHHchh----CCCCCC--HHHH
Q 005329          450 SALINMYSKCGSIKEASQIFYETES--------DDIVSWTAMINGYAEHGYSQEAIHLFEKVPM----VGLRPD--SVTF  515 (702)
Q Consensus       450 ~~li~~~~~~g~~~~A~~~~~~~~~--------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~----~g~~p~--~~~~  515 (702)
                      ..+...+...|+++.+...+.....        .....+..+...+...+++..+...+.+...    .+..+.  ...+
T Consensus       137 ~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~  216 (366)
T d1hz4a_         137 RIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNAN  216 (366)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHH
T ss_pred             HHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHH
Confidence            3445556666666666666654331        1233455556666777777777777665442    111111  1234


Q ss_pred             HHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC--hhhHHHHHHHHHhcCCHHHHHHHHHhCCC-------CC-CHHHHHH
Q 005329          516 MGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS--KEHYGCMIDLLCRAGRLSDAENMIENMPH-------QK-DDVVWST  585 (702)
Q Consensus       516 ~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-------~p-~~~~~~~  585 (702)
                      ..+...+...|+++.|...+........-.+.  ...+..+..++...|++++|...++++..       .| ...++..
T Consensus       217 ~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  296 (366)
T d1hz4a_         217 KVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLL  296 (366)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHH
Confidence            55566677888899998888877543111111  33455678888899999999988887643       22 2457778


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHhCCCC---------chhHHHHHHHHHhcCChHHHHHH
Q 005329          586 LLRACMVQGDVNCGRHTAEKILELHPSC---------AGTHITLANIYAAKGRWREAAEV  636 (702)
Q Consensus       586 l~~~~~~~g~~~~A~~~~~~~~~~~p~~---------~~~~~~l~~~~~~~g~~~~A~~~  636 (702)
                      +...+...|++++|.+.+++++++.+..         ...+..+...+...++.+++...
T Consensus       297 la~~~~~~g~~~~A~~~l~~Al~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~l~e~e~~  356 (366)
T d1hz4a_         297 LNQLYWQAGRKSDAQRVLLDALKLANRTGFISHFVIEGEAMAQQLRQLIQLNTLPELEQH  356 (366)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHHHHCCCHHHHTTHHHHHHHHHHHHHTTCSCHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHhhhcCcHHHHHHHHHHHHHHHHHHHhcCCChHHHHH
Confidence            8888999999999999999998875321         22344555666777887777553

>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=99.02  E-value=1.2e-09  Score=102.37  Aligned_cols=188  Identities=14%  Similarity=0.073  Sum_probs=93.1

Q ss_pred             HHHHHHHHhcCCHHHHHHHHhhCC---CCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCC-CHHHHHHHHHHHhcc
Q 005329          450 SALINMYSKCGSIKEASQIFYETE---SDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRP-DSVTFMGVLTACSHA  525 (702)
Q Consensus       450 ~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~  525 (702)
                      ..+..+|.+.|++++|...|++..   +.++.+|+.+..++...|++++|++.|+++.+.  .| +..++..+..++...
T Consensus        41 ~~~G~~y~~~g~~~~A~~~~~~al~l~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~  118 (259)
T d1xnfa_          41 YERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLEL--DPTYNYAHLNRGIALYYG  118 (259)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCTHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHhhccCCCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHH--HhhhhhhHHHHHHHHHHH
Confidence            334555556666666666665543   235556666666666666666666666666653  23 234555566666666


Q ss_pred             CcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CCCHHHHHHHHHHHH----hcCCHHHH
Q 005329          526 GLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH-QKDDVVWSTLLRACM----VQGDVNCG  599 (702)
Q Consensus       526 g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~~~~~~~l~~~~~----~~g~~~~A  599 (702)
                      |++++|.+.|+...+.   .|+ ......+...+.+.+..+.+..+...... .+....+. ++..+.    ..+..+.+
T Consensus       119 g~~~~A~~~~~~al~~---~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~  194 (259)
T d1xnfa_         119 GRDKLAQDDLLAFYQD---DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDKEQWGWN-IVEFYLGNISEQTLMERL  194 (259)
T ss_dssp             TCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSCCCSTHHH-HHHHHTTSSCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhh---ccccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccchhhhhhh-HHHHHHHHHHHHHHHHHH
Confidence            6666666666666543   332 22222333333344433333332222211 11111111 111111    12223334


Q ss_pred             HHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 005329          600 RHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSK  643 (702)
Q Consensus       600 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  643 (702)
                      ...+.......|.....|..++.+|...|++++|...++++.+.
T Consensus       195 ~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  238 (259)
T d1xnfa_         195 KADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN  238 (259)
T ss_dssp             HHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc
Confidence            44444444444555556666666666666666666666666553

>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=99.01  E-value=1.6e-09  Score=105.68  Aligned_cols=232  Identities=6%  Similarity=-0.084  Sum_probs=168.5

Q ss_pred             cCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHccc--CcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHH
Q 005329          388 QGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNM--AILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEA  465 (702)
Q Consensus       388 ~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~--~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A  465 (702)
                      ..|++++|+..++...+.. +-+...+.....++...  ++.+.+...+..+.+.........+......+...+..++|
T Consensus        85 ~~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A  163 (334)
T d1dcea1          85 SAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEE  163 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhC-CCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhCchhhhhhhhHHHHHHHhccccHHH
Confidence            3445677888888877643 22334444444444444  45788888888888765443333344555777888999999


Q ss_pred             HHHHhhCCC---CCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhh
Q 005329          466 SQIFYETES---DDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKY  542 (702)
Q Consensus       466 ~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~  542 (702)
                      +..++.+..   .+...|+.+..++...|++++|...+++....  .|+..   .+...+...+..+.+...+...... 
T Consensus       164 l~~~~~~i~~~p~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~---~~~~~~~~l~~~~~a~~~~~~~l~~-  237 (334)
T d1dcea1         164 LAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENV--LLKEL---ELVQNAFFTDPNDQSAWFYHRWLLG-  237 (334)
T ss_dssp             HHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHH--HHHHH---HHHHHHHHHCSSCSHHHHHHHHHHS-
T ss_pred             HHHHHHHHHcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHhHHh--HHHHH---HHHHHHHHhcchhHHHHHHHHHHHh-
Confidence            999998774   46788999999999999999887766655542  23221   2233344556666777777776643 


Q ss_pred             CCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHH
Q 005329          543 GFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPH-QK-DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITL  620 (702)
Q Consensus       543 ~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l  620 (702)
                       -.++...+..++..+...|++++|...+.+... .| +..+|..++..+...|++++|+..++++++++|.+...|..|
T Consensus       238 -~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ldP~~~~y~~~L  316 (334)
T d1dcea1         238 -RAEPLFRCELSVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDDL  316 (334)
T ss_dssp             -CCCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGGGHHHHHHH
T ss_pred             -CcchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCcccHHHHHHH
Confidence             233466677778888899999999999998876 44 466888899999999999999999999999999999999999


Q ss_pred             HHHHHhc
Q 005329          621 ANIYAAK  627 (702)
Q Consensus       621 ~~~~~~~  627 (702)
                      ...+.-.
T Consensus       317 ~~~~~~e  323 (334)
T d1dcea1         317 RSKFLLE  323 (334)
T ss_dssp             HHHHHHH
T ss_pred             HHHHhHh
Confidence            8887753

>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=98.98  E-value=4.1e-08  Score=91.54  Aligned_cols=200  Identities=7%  Similarity=-0.085  Sum_probs=125.8

Q ss_pred             HHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCHHHHHHHHHHHHH
Q 005329          413 AFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETE---SDDIVSWTAMINGYAE  489 (702)
Q Consensus       413 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~  489 (702)
                      ++..+...+.+.|+++.|...|+..++... .++.++..+..+|.+.|++++|+..|+++.   +.+..++..+..++..
T Consensus        39 ~~~~~G~~y~~~g~~~~A~~~~~~al~l~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~  117 (259)
T d1xnfa_          39 LLYERGVLYDSLGLRALARNDFSQALAIRP-DMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALYY  117 (259)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHhhccCC-CCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHHhhhhhhHHHHHHHHHH
Confidence            344444556666666666666666665542 245666777888888888888888887765   2356688888889999


Q ss_pred             cCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHH
Q 005329          490 HGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAEN  569 (702)
Q Consensus       490 ~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~  569 (702)
                      .|++++|.+.|++..+.. +.+......+..++...+..+.+..+......   ..++...+. ++..+...........
T Consensus       118 ~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~-~~~~~~~~~~~~~~~~  192 (259)
T d1xnfa_         118 GGRDKLAQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEK---SDKEQWGWN-IVEFYLGNISEQTLME  192 (259)
T ss_dssp             TTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHH---SCCCSTHHH-HHHHHTTSSCHHHHHH
T ss_pred             HhhHHHHHHHHHHHHhhc-cccHHHHHHHHHHHHHhhhHHHHHHHHHHhhc---cchhhhhhh-HHHHHHHHHHHHHHHH
Confidence            999999999999888753 33444444444445555655555555554432   233332232 2333322222222222


Q ss_pred             H-HHhCCC----CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHH
Q 005329          570 M-IENMPH----QK-DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHI  618 (702)
Q Consensus       570 ~-~~~~~~----~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~  618 (702)
                      . ......    .| ...+|..++..+...|++++|...|+++++.+|++...|.
T Consensus       193 ~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~  247 (259)
T d1xnfa_         193 RLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNFVEHR  247 (259)
T ss_dssp             HHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTCHHHH
T ss_pred             HHHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHH
Confidence            2 222222    12 3457778899999999999999999999999998765543

>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=98.93  E-value=6.2e-09  Score=83.20  Aligned_cols=90  Identities=17%  Similarity=0.129  Sum_probs=78.3

Q ss_pred             HHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChH
Q 005329          554 MIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWR  631 (702)
Q Consensus       554 l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~  631 (702)
                      -+..+.+.|++++|+..|+++..  +.+...|..++.++...|++++|+..++++++++|+++..|..++.++...|+++
T Consensus         9 ~g~~~~~~g~~~eAi~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~~~   88 (117)
T d1elwa_           9 KGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRFE   88 (117)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccCHH
Confidence            46677888999999999888866  4467788889999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhC
Q 005329          632 EAAEVRKMMRSK  643 (702)
Q Consensus       632 ~A~~~~~~~~~~  643 (702)
                      +|+..+++..+.
T Consensus        89 ~A~~~~~~a~~~  100 (117)
T d1elwa_          89 EAKRTYEEGLKH  100 (117)
T ss_dssp             HHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHh
Confidence            999999988764

>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=98.91  E-value=8e-08  Score=92.01  Aligned_cols=184  Identities=13%  Similarity=0.130  Sum_probs=100.7

Q ss_pred             HHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCC--C-C-HHHHHHHHHHHHHcCChHHHHHHHHH
Q 005329          427 LEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETES--D-D-IVSWTAMINGYAEHGYSQEAIHLFEK  502 (702)
Q Consensus       427 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~-~-~~~~~~li~~~~~~g~~~~A~~~~~~  502 (702)
                      .+.+..+++...+...+.+...+...+..+.+.|+++.|..+|+++..  | + ...|...+..+.+.|+.+.|.++|++
T Consensus        80 ~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~  159 (308)
T d2onda1          80 SDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKK  159 (308)
T ss_dssp             HHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHH
Confidence            455666666666544444555556666666666666666666665432  1 2 23566666666666666666666666


Q ss_pred             chhCCCCCCHHHHHHHHHH-HhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCC----C
Q 005329          503 VPMVGLRPDSVTFMGVLTA-CSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPH----Q  577 (702)
Q Consensus       503 m~~~g~~p~~~~~~~ll~~-~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~  577 (702)
                      +.+.+ +.+...|...... +...|+.+.|..+|+.+...+  +.+...|..+++.+.+.|+++.|..+|++...    +
T Consensus       160 al~~~-~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~--p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~  236 (308)
T d2onda1         160 AREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLP  236 (308)
T ss_dssp             HHTST-TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH--TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSC
T ss_pred             HHHhC-CCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhh--hhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCC
Confidence            65542 2222233222221 223456666666666665441  22355566666666666666666666666433    1


Q ss_pred             C--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCC
Q 005329          578 K--DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSC  613 (702)
Q Consensus       578 p--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~  613 (702)
                      |  ....|...+..-...|+.+.+..+++++.+..|..
T Consensus       237 ~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~~~~~  274 (308)
T d2onda1         237 PEKSGEIWARFLAFESNIGDLASILKVEKRRFTAFREE  274 (308)
T ss_dssp             GGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHTTTT
T ss_pred             hHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCccc
Confidence            1  12355555555556666666666666666666544

>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=98.90  E-value=1.8e-07  Score=89.54  Aligned_cols=181  Identities=10%  Similarity=0.013  Sum_probs=145.3

Q ss_pred             CCHHHHHHHHhhCC----CCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHH
Q 005329          460 GSIKEASQIFYETE----SDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYF  535 (702)
Q Consensus       460 g~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~  535 (702)
                      +..++|..+|++..    ..+...|...+..+...|+++.|..+|+++.+.........|..++..+.+.|+.+.|+++|
T Consensus        78 ~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~  157 (308)
T d2onda1          78 LFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIF  157 (308)
T ss_dssp             HHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHH
Confidence            45677888888753    34667888889999999999999999999987532222457888999999999999999999


Q ss_pred             HHhHHhhCCCCC-hhhHHHHHHH-HHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCC
Q 005329          536 NLMSDKYGFVPS-KEHYGCMIDL-LCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHP  611 (702)
Q Consensus       536 ~~~~~~~~~~p~-~~~~~~l~~~-~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p  611 (702)
                      +.+.+.   .|+ ...|...+.. +...|+.+.|..+|+.+..  +.+...|...+..+...|+++.|..+|++++...|
T Consensus       158 ~~al~~---~~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~  234 (308)
T d2onda1         158 KKARED---ARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGS  234 (308)
T ss_dssp             HHHHTS---TTCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSS
T ss_pred             HHHHHh---CCCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCC
Confidence            998743   443 5555554443 3346899999999999887  45678999999999999999999999999999887


Q ss_pred             CCch----hHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 005329          612 SCAG----THITLANIYAAKGRWREAAEVRKMMRSK  643 (702)
Q Consensus       612 ~~~~----~~~~l~~~~~~~g~~~~A~~~~~~~~~~  643 (702)
                      .++.    .|...+..-...|+.+.+..+.+++.+.
T Consensus       235 ~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~  270 (308)
T d2onda1         235 LPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             SCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            6543    6777777777889999999999988764

>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=98.85  E-value=3e-09  Score=103.81  Aligned_cols=252  Identities=7%  Similarity=-0.045  Sum_probs=177.5

Q ss_pred             HHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHH-H---HHHHHHc-------ccCcHHHHHHHHHHHHHhCCCCChhHHH
Q 005329          382 IIGGYSQGGYEEEAFEYLALMRREGPRPNEFAF-A---SVLSVCG-------NMAILEQGKQIHAHVMSIGLERTAMIKS  450 (702)
Q Consensus       382 li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~-~---~ll~~~~-------~~~~~~~a~~~~~~~~~~~~~~~~~~~~  450 (702)
                      ++......+..++|+++++...+  ..|+..+. +   .++....       ..|.++.+..+++.+.+.. +.+...+.
T Consensus        35 ~~~~~~~~~~~~~al~~~~~~l~--~~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~-pk~~~~~~  111 (334)
T d1dcea1          35 VFQKRQAGELDESVLELTSQILG--ANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWH  111 (334)
T ss_dssp             HHHHHHTTCCSHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             HHHHHhcccccHHHHHHHHHHHH--HCCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhC-CCcHHHHH
Confidence            33333344455788888888876  35655432 1   2222222       3345778888888888765 33455555


Q ss_pred             HHHHHHHhc--CCHHHHHHHHhhCC---CCCHHHHH-HHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhc
Q 005329          451 ALINMYSKC--GSIKEASQIFYETE---SDDIVSWT-AMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSH  524 (702)
Q Consensus       451 ~li~~~~~~--g~~~~A~~~~~~~~---~~~~~~~~-~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~  524 (702)
                      .+..++...  +++++|...+.++.   .++...+. .....+...+.+++|+..++++++.. +-+...|..+...+..
T Consensus       112 ~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~-p~~~~a~~~l~~~~~~  190 (334)
T d1dcea1         112 HRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQ  190 (334)
T ss_dssp             HHHHHHHTCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHHH
T ss_pred             HhhHHHHHhccccHHHHHHHHHHHHhhCchhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHH
Confidence            565555554  45889999988865   34566654 44567777899999999999998753 3456788888888888


Q ss_pred             cCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHH
Q 005329          525 AGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHT  602 (702)
Q Consensus       525 ~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~  602 (702)
                      .|++++|...+......   .|+   ...+...+...+..+++...+.....  ++....+..++..+...|+.++|...
T Consensus       191 ~~~~~~A~~~~~~~~~~---~~~---~~~~~~~~~~l~~~~~a~~~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  264 (334)
T d1dcea1         191 LHPQPDSGPQGRLPENV---LLK---ELELVQNAFFTDPNDQSAWFYHRWLLGRAEPLFRCELSVEKSTVLQSELESCKE  264 (334)
T ss_dssp             HSCCCCSSSCCSSCHHH---HHH---HHHHHHHHHHHCSSCSHHHHHHHHHHSCCCCSSSCCCCHHHHHHHHHHHHHHHH
T ss_pred             hcCHHHHHHHHHHhHHh---HHH---HHHHHHHHHHhcchhHHHHHHHHHHHhCcchhhHHHHHHHHHHHHhhHHHHHHH
Confidence            99888776666554432   222   11233345556777777777766543  44555667778888889999999999


Q ss_pred             HHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 005329          603 AEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSK  643 (702)
Q Consensus       603 ~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  643 (702)
                      +.++.+.+|.+..++..++.+|.+.|++++|.++++++.+.
T Consensus       265 ~~~~~~~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~l  305 (334)
T d1dcea1         265 LQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAV  305 (334)
T ss_dssp             HHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHH
T ss_pred             HHHHHhhCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999874

>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=98.77  E-value=1.3e-08  Score=90.78  Aligned_cols=117  Identities=5%  Similarity=-0.153  Sum_probs=78.6

Q ss_pred             CCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CC-CHHHHHHH
Q 005329          510 PDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH-QK-DDVVWSTL  586 (702)
Q Consensus       510 p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p-~~~~~~~l  586 (702)
                      |+...+......+...|++++|+..|+++++.   .|+ ...|..++.+|.+.|++++|+..|+++.. .| +..+|..+
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~---~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~~~a~~~l   78 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITR---NPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFL   78 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCCcHHHHHHH
Confidence            55566666677777777777777777776644   444 66677777777777777777777777766 34 45677777


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCC
Q 005329          587 LRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGR  629 (702)
Q Consensus       587 ~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  629 (702)
                      +.+|...|++++|+..|+++++++|++...+...++.+...++
T Consensus        79 g~~~~~l~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~l~~~~  121 (201)
T d2c2la1          79 GQCQLEMESYDEAIANLQRAYSLAKEQRLNFGDDIPSALRIAK  121 (201)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCCCCSHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHH
Confidence            7777777777777777777777776655555555554444433

>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=98.76  E-value=4.7e-08  Score=77.90  Aligned_cols=105  Identities=13%  Similarity=0.013  Sum_probs=92.2

Q ss_pred             HHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcC
Q 005329          518 VLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQG  594 (702)
Q Consensus       518 ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g  594 (702)
                      -...+...|++++|+..|+.+++.   .|+ ...|..+..+|.+.|++++|+..++++..  +.+...|..++.++...|
T Consensus         9 ~g~~~~~~g~~~eAi~~~~~al~~---~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~   85 (117)
T d1elwa_           9 KGNKALSVGNIDDALQCYSEAIKL---DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLN   85 (117)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhc---CCcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHcc
Confidence            456678889999999999999865   565 78899999999999999999999999877  557889999999999999


Q ss_pred             CHHHHHHHHHHHHHhCCCCchhHHHHHHHHH
Q 005329          595 DVNCGRHTAEKILELHPSCAGTHITLANIYA  625 (702)
Q Consensus       595 ~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  625 (702)
                      ++++|+..++++++.+|+++..+..+..+-.
T Consensus        86 ~~~~A~~~~~~a~~~~p~~~~~~~~l~~l~~  116 (117)
T d1elwa_          86 RFEEAKRTYEEGLKHEANNPQLKEGLQNMEA  116 (117)
T ss_dssp             CHHHHHHHHHHHHTTCTTCHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCCCHHHHHHHHHHhC
Confidence            9999999999999999999999888877643

>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=98.75  E-value=5.2e-08  Score=82.83  Aligned_cols=104  Identities=12%  Similarity=0.048  Sum_probs=58.3

Q ss_pred             HHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC-C-CCHHHHHHHHHHHHhc
Q 005329          517 GVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH-Q-KDDVVWSTLLRACMVQ  593 (702)
Q Consensus       517 ~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~-p~~~~~~~l~~~~~~~  593 (702)
                      .....|.+.|++++|+..|+++.+.   .|+ ...|..++.+|...|++++|...|+++.+ . .+..+|..++.++...
T Consensus        15 ~~gn~~~~~~~y~~A~~~~~~al~~---~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~   91 (159)
T d1a17a_          15 TQANDYFKAKDYENAIKFYSQAIEL---NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMAL   91 (159)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH---STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHcCCHHHHHHHhhhcccc---chhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHHHc
Confidence            3344455566666666666655533   343 55555555566666666666666655544 2 2344555556666666


Q ss_pred             CCHHHHHHHHHHHHHhCCCCchhHHHHHHH
Q 005329          594 GDVNCGRHTAEKILELHPSCAGTHITLANI  623 (702)
Q Consensus       594 g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~  623 (702)
                      |++++|...++++++++|+++..+..+..+
T Consensus        92 g~~~eA~~~~~~a~~~~p~~~~~~~~l~~~  121 (159)
T d1a17a_          92 GKFRAALRDYETVVKVKPHDKDAKMKYQEC  121 (159)
T ss_dssp             TCHHHHHHHHHHHHHHSTTCHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHcCCCCHHHHHHHHHH
Confidence            666666666666666666555555555444

>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=98.74  E-value=7.2e-08  Score=84.62  Aligned_cols=84  Identities=12%  Similarity=-0.035  Sum_probs=43.9

Q ss_pred             HHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcC
Q 005329          484 INGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAG  562 (702)
Q Consensus       484 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g  562 (702)
                      ...+...|+++.|++.|+++.    +|+..++..+..++...|++++|++.|++.++.   .|+ ...|..+..++.+.|
T Consensus        12 g~~~~~~~d~~~Al~~~~~i~----~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~l---dp~~~~a~~~~g~~~~~~g   84 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINR---DKHLAVAYFQRGMLYYQTE   84 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHCCCHHHHHHHHHhcC----CCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHH---hhhhhhhHHHHHHHHHhhc
Confidence            334445555555555555432    344445555555555555555555555555532   343 445555555555555


Q ss_pred             CHHHHHHHHHhC
Q 005329          563 RLSDAENMIENM  574 (702)
Q Consensus       563 ~~~~A~~~~~~~  574 (702)
                      ++++|...|++.
T Consensus        85 ~~~~A~~~~~kA   96 (192)
T d1hh8a_          85 KYDLAIKDLKEA   96 (192)
T ss_dssp             CHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHH
Confidence            555555555443

>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=98.74  E-value=1.5e-08  Score=80.05  Aligned_cols=91  Identities=12%  Similarity=-0.002  Sum_probs=83.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhCCC-CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcC
Q 005329          551 YGCMIDLLCRAGRLSDAENMIENMPH-QK-DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKG  628 (702)
Q Consensus       551 ~~~l~~~~~~~g~~~~A~~~~~~~~~-~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  628 (702)
                      .-.++..+.+.|++++|+..|+++.. .| +..+|..++.++.+.|++++|+..++++++++|+++..+..++.+|...|
T Consensus        19 ~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~la~~y~~~g   98 (112)
T d1hxia_          19 PMEEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEH   98 (112)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHhhhcccccccchhhhhhhhhhhhhhhHHHhhcccccccccccccccchHHHHHHHHHCC
Confidence            34567788999999999999999877 44 68899999999999999999999999999999999999999999999999


Q ss_pred             ChHHHHHHHHHHH
Q 005329          629 RWREAAEVRKMMR  641 (702)
Q Consensus       629 ~~~~A~~~~~~~~  641 (702)
                      ++++|.+.+++..
T Consensus        99 ~~~~A~~~l~~~l  111 (112)
T d1hxia_          99 NANAALASLRAWL  111 (112)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHh
Confidence            9999999998753

>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=98.68  E-value=1.4e-07  Score=80.11  Aligned_cols=90  Identities=10%  Similarity=0.024  Sum_probs=44.6

Q ss_pred             HHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhc
Q 005329          483 MINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRA  561 (702)
Q Consensus       483 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~  561 (702)
                      ....|.+.|++++|+..|++..+.. +-+...|..+..+|...|++++|++.|+++.+.   .|+ ...|..++.++...
T Consensus        16 ~gn~~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~---~p~~~~a~~~~g~~~~~~   91 (159)
T d1a17a_          16 QANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIEL---DKKYIKGYYRRAASNMAL   91 (159)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHH---cccchHHHHHHHHHHHHc
Confidence            3444555555555555555555432 223344445555555555555555555555432   333 34555555555555


Q ss_pred             CCHHHHHHHHHhCCC
Q 005329          562 GRLSDAENMIENMPH  576 (702)
Q Consensus       562 g~~~~A~~~~~~~~~  576 (702)
                      |++++|...+++...
T Consensus        92 g~~~eA~~~~~~a~~  106 (159)
T d1a17a_          92 GKFRAALRDYETVVK  106 (159)
T ss_dssp             TCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHH
Confidence            555555555555444

>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=98.63  E-value=7.2e-08  Score=85.80  Aligned_cols=98  Identities=5%  Similarity=-0.148  Sum_probs=66.2

Q ss_pred             CCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHH
Q 005329          475 DDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGC  553 (702)
Q Consensus       475 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~  553 (702)
                      |+...+......|.+.|++++|+..|++.++.. +.+...|..+..+|...|++++|+..|+.+.   .+.|+ ...|..
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al---~l~p~~~~a~~~   77 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRAL---ELDGQSVKAHFF   77 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHT---TSCTTCHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHH---HhCCCcHHHHHH
Confidence            445555566677777777777777777766542 3345567777777777777777777777765   45665 666777


Q ss_pred             HHHHHHhcCCHHHHHHHHHhCCC
Q 005329          554 MIDLLCRAGRLSDAENMIENMPH  576 (702)
Q Consensus       554 l~~~~~~~g~~~~A~~~~~~~~~  576 (702)
                      ++.+|.+.|++++|+..|+++..
T Consensus        78 lg~~~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          78 LGQCQLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHH
Confidence            77777777777777777776554

>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=98.57  E-value=1.5e-06  Score=75.92  Aligned_cols=144  Identities=9%  Similarity=-0.047  Sum_probs=108.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhhCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCc
Q 005329          448 IKSALINMYSKCGSIKEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGL  527 (702)
Q Consensus       448 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~  527 (702)
                      .|+. ...+...|+++.|++.|.++.+++..+|..+..+|...|++++|++.|++.++.. +-+...|..+..++.+.|+
T Consensus         8 l~~~-g~~~~~~~d~~~Al~~~~~i~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~~~~g~   85 (192)
T d1hh8a_           8 LWNE-GVLAADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEK   85 (192)
T ss_dssp             HHHH-HHHHHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHH-HHHHHHCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHHHhhcc
Confidence            4443 5567788999999999999998999999999999999999999999999998753 3355788889999999999


Q ss_pred             HHHHHHHHHHhHHhhCCCCChh-hHHHHHHHHHhcCCHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 005329          528 VDLGFHYFNLMSDKYGFVPSKE-HYGCMIDLLCRAGRLSDAENMIENMPHQK-DDVVWSTLLRACMVQGDVNCGRHTAEK  605 (702)
Q Consensus       528 ~~~A~~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~  605 (702)
                      +++|.+.|++....  .+++.. .|.       ..|.           ..+. ...++..++.++...|++++|.+.+++
T Consensus        86 ~~~A~~~~~kAl~~--~~~n~~~~~~-------~~~~-----------~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~  145 (192)
T d1hh8a_          86 YDLAIKDLKEALIQ--LRGNQLIDYK-------ILGL-----------QFKLFACEVLYNIAFMYAKKEEWKKAEEQLAL  145 (192)
T ss_dssp             HHHHHHHHHHHHHT--TTTCSEEECG-------GGTB-----------CCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh--CccCchHHHH-------Hhhh-----------hcccchHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            99999999988653  122211 010       0000           0011 124556777888899999999999999


Q ss_pred             HHHhCCCC
Q 005329          606 ILELHPSC  613 (702)
Q Consensus       606 ~~~~~p~~  613 (702)
                      ++++.|+.
T Consensus       146 A~~~~~~~  153 (192)
T d1hh8a_         146 ATSMKSEP  153 (192)
T ss_dssp             HHTTCCSG
T ss_pred             HHhcCCCc
Confidence            99988853

>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=98.56  E-value=2.4e-07  Score=73.77  Aligned_cols=107  Identities=10%  Similarity=-0.094  Sum_probs=87.3

Q ss_pred             HHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCC---HHHHHHHHHhCCC-CCCH---HHHHHHH
Q 005329          516 MGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGR---LSDAENMIENMPH-QKDD---VVWSTLL  587 (702)
Q Consensus       516 ~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~-~p~~---~~~~~l~  587 (702)
                      ..++..+...+++++|.+.|+.....   .|+ ..++..++.++.+.++   +++|+.+++++.. .|++   .+|..++
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~---~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg   79 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAA---GSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLA   79 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH---SCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhh---CCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHH
Confidence            35677788889999999999998854   554 7888889999987654   4569999999876 3433   3788899


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHH
Q 005329          588 RACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYA  625 (702)
Q Consensus       588 ~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  625 (702)
                      .+|...|++++|++.|+++++++|++..+...+..+..
T Consensus        80 ~~y~~~g~~~~A~~~~~~aL~~~P~~~~A~~l~~~I~~  117 (122)
T d1nzna_          80 VGNYRLKEYEKALKYVRGLLQTEPQNNQAKELERLIDK  117 (122)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHhhhHHHHHHHHHHHHhCcCCHHHHHHHHHHHH
Confidence            99999999999999999999999999888777665543

>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=98.54  E-value=4.6e-07  Score=77.54  Aligned_cols=110  Identities=10%  Similarity=-0.016  Sum_probs=58.7

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 005329          514 TFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSDAENMIENMPHQKDDVVWSTLLRACMVQ  593 (702)
Q Consensus       514 ~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~  593 (702)
                      .+......+.+.|++++|+..|.+........+....-.           ......+        ...+|+.+..+|.+.
T Consensus        15 ~l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~~-----------~~~~~~~--------~~~~~~nla~~y~k~   75 (170)
T d1p5qa1          15 IVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEE-----------AQKAQAL--------RLASHLNLAMCHLKL   75 (170)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHH-----------HHHHHHH--------HHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccccchHH-----------Hhhhchh--------HHHHHHHHHHHHHhh
Confidence            344455667778888888888887765432222100000           0000000        012344455555566


Q ss_pred             CCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 005329          594 GDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRS  642 (702)
Q Consensus       594 g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  642 (702)
                      |++++|+..++++++++|+++.++..++.+|...|++++|+..|+++.+
T Consensus        76 ~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~  124 (170)
T d1p5qa1          76 QAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQ  124 (170)
T ss_dssp             TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hhcccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            6666666666666666666666666666666666666666666665554

>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=98.53  E-value=7.7e-07  Score=76.11  Aligned_cols=134  Identities=13%  Similarity=0.024  Sum_probs=101.7

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHH
Q 005329          478 VSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDL  557 (702)
Q Consensus       478 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~  557 (702)
                      ..+......+.+.|++++|+..|++.+..  -|....            ..+.-......+        ...+|+.+..+
T Consensus        14 ~~l~~~G~~~~~~~~~~~Ai~~y~~al~~--~~~~~~------------~~~~~~~~~~~~--------~~~~~~nla~~   71 (170)
T d1p5qa1          14 TIVKERGTVYFKEGKYKQALLQYKKIVSW--LEYESS------------FSNEEAQKAQAL--------RLASHLNLAMC   71 (170)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHH--TTTCCC------------CCSHHHHHHHHH--------HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHH--hhhccc------------cchHHHhhhchh--------HHHHHHHHHHH
Confidence            45566777899999999999999988753  111000            000001111111        12357778899


Q ss_pred             HHhcCCHHHHHHHHHhCCC-CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHH
Q 005329          558 LCRAGRLSDAENMIENMPH-QK-DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREA  633 (702)
Q Consensus       558 ~~~~g~~~~A~~~~~~~~~-~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A  633 (702)
                      |.+.|++++|+..++.... .| +..+|..++.++...|++++|+..|+++++++|+++.+...+..+..+.+...+.
T Consensus        72 y~k~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~~~~~~~~  149 (170)
T d1p5qa1          72 HLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRIRRQLAR  149 (170)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhhhhcccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999887 44 7889999999999999999999999999999999999999999988777665544

>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=98.51  E-value=1.3e-07  Score=75.30  Aligned_cols=111  Identities=11%  Similarity=0.023  Sum_probs=91.7

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHHhCCCC--chhHHHHHHHH
Q 005329          552 GCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQG---DVNCGRHTAEKILELHPSC--AGTHITLANIY  624 (702)
Q Consensus       552 ~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~p~~--~~~~~~l~~~~  624 (702)
                      ..+++.+...+++++|.+.|++...  +.+..++..++.++.+.+   ++++|+.+++++++.+|.+  ..++..||.+|
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y   82 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAGSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGN   82 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHH
Confidence            4678888999999999999999887  567789999999998755   5567999999999988754  45899999999


Q ss_pred             HhcCChHHHHHHHHHHHhCCCccCCeeeEEEECCEEEEEEcCCCCCCChhHHHHHHHHHHHHhc
Q 005329          625 AAKGRWREAAEVRKMMRSKGVIKEPGWSRIKVKDQVSAFVSSDRRHSQGEDIYRMLDLLASRES  688 (702)
Q Consensus       625 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~l~~l~~~~~  688 (702)
                      .+.|++++|+++|+++.+.                          .|.+.+.......|..+++
T Consensus        83 ~~~g~~~~A~~~~~~aL~~--------------------------~P~~~~A~~l~~~I~~~~~  120 (122)
T d1nzna_          83 YRLKEYEKALKYVRGLLQT--------------------------EPQNNQAKELERLIDKAMK  120 (122)
T ss_dssp             HHTTCHHHHHHHHHHHHHH--------------------------CTTCHHHHHHHHHHHHHHH
T ss_pred             HHHhhhHHHHHHHHHHHHh--------------------------CcCCHHHHHHHHHHHHHHc
Confidence            9999999999999999873                          3666666666666665543

>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=98.49  E-value=3.6e-07  Score=86.43  Aligned_cols=189  Identities=11%  Similarity=0.064  Sum_probs=128.7

Q ss_pred             HHHHHHhcCCHHHHHHHHhhCCC-----CC----HHHHHHHHHHHHHcCChHHHHHHHHHchhCCC---CCC--HHHHHH
Q 005329          452 LINMYSKCGSIKEASQIFYETES-----DD----IVSWTAMINGYAEHGYSQEAIHLFEKVPMVGL---RPD--SVTFMG  517 (702)
Q Consensus       452 li~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~---~p~--~~~~~~  517 (702)
                      ..+.|...|++++|.+.|.+..+     .+    ..+|..+..+|.+.|++++|++.+++..+.-.   .+.  ..++..
T Consensus        43 aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~  122 (290)
T d1qqea_          43 AATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFE  122 (290)
T ss_dssp             HHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHH
Confidence            35567778888888888776542     12    35788888999999999999999887654210   111  235666


Q ss_pred             HHHHHh-ccCcHHHHHHHHHHhHHhh---CCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CCC--------HHHH
Q 005329          518 VLTACS-HAGLVDLGFHYFNLMSDKY---GFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH-QKD--------DVVW  583 (702)
Q Consensus       518 ll~~~~-~~g~~~~A~~~~~~~~~~~---~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~--------~~~~  583 (702)
                      +...|. ..|++++|++.|++..+..   +..+. ..++..++..+...|++++|...|+++.. .|.        ...+
T Consensus       123 l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~  202 (290)
T d1qqea_         123 LGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYF  202 (290)
T ss_dssp             HHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHH
T ss_pred             HHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHH
Confidence            666674 4699999999999876432   11121 45678889999999999999999988654 111        1234


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHhCCCCch-----hHHHHHHHHHh--cCChHHHHHHHHHH
Q 005329          584 STLLRACMVQGDVNCGRHTAEKILELHPSCAG-----THITLANIYAA--KGRWREAAEVRKMM  640 (702)
Q Consensus       584 ~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~-----~~~~l~~~~~~--~g~~~~A~~~~~~~  640 (702)
                      ...+..+...|+++.|...++++.+.+|....     ....++.++..  .+++++|+..|+++
T Consensus       203 ~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~  266 (290)
T d1qqea_         203 LKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNF  266 (290)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTS
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            45556677899999999999999999875443     34456666655  35688888888643

>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=98.46  E-value=9.8e-07  Score=73.90  Aligned_cols=82  Identities=17%  Similarity=0.052  Sum_probs=70.9

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhCCCccCCeeeEEEECCEE
Q 005329          581 VVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKGVIKEPGWSRIKVKDQV  660 (702)
Q Consensus       581 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~  660 (702)
                      .++..++.+|.+.|++++|++.++++++++|.+..+|..++.+|...|++++|+..|++..+.                 
T Consensus        68 ~~~~Nla~~~~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l-----------------  130 (153)
T d2fbna1          68 SCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASL-----------------  130 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH-----------------
T ss_pred             HHHhhHHHHHHHhcccchhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHh-----------------
Confidence            467778889999999999999999999999999999999999999999999999999998763                 


Q ss_pred             EEEEcCCCCCCChhHHHHHHHHHHHHhc
Q 005329          661 SAFVSSDRRHSQGEDIYRMLDLLASRES  688 (702)
Q Consensus       661 ~~~~~~~~~~p~~~~~~~~l~~l~~~~~  688 (702)
                               +|.+.++...+..+..++.
T Consensus       131 ---------~P~n~~~~~~l~~~~~kl~  149 (153)
T d2fbna1         131 ---------NPNNLDIRNSYELCVNKLK  149 (153)
T ss_dssp             ---------STTCHHHHHHHHHHHHHHH
T ss_pred             ---------CCCCHHHHHHHHHHHHHHH
Confidence                     4777777777777666543

>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=98.41  E-value=1.4e-06  Score=82.27  Aligned_cols=173  Identities=10%  Similarity=-0.017  Sum_probs=132.2

Q ss_pred             CHHHHHHHHhhCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHchhC----CCCCC-HHHHHHHHHHHhccCcHHHHHHHH
Q 005329          461 SIKEASQIFYETESDDIVSWTAMINGYAEHGYSQEAIHLFEKVPMV----GLRPD-SVTFMGVLTACSHAGLVDLGFHYF  535 (702)
Q Consensus       461 ~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p~-~~~~~~ll~~~~~~g~~~~A~~~~  535 (702)
                      ++++|.++|.           .....|...|++++|.+.|.++.+.    +-+++ ..+|..+..+|.+.|++++|.+.+
T Consensus        32 ~~~~Aa~~y~-----------~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~  100 (290)
T d1qqea_          32 KFEEAADLCV-----------QAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSL  100 (290)
T ss_dssp             HHHHHHHHHH-----------HHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cHHHHHHHHH-----------HHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHH
Confidence            4677766544           4577899999999999999987652    22222 247888999999999999999999


Q ss_pred             HHhHHhhCCCCC----hhhHHHHHHHHHh-cCCHHHHHHHHHhCCC----CC----CHHHHHHHHHHHHhcCCHHHHHHH
Q 005329          536 NLMSDKYGFVPS----KEHYGCMIDLLCR-AGRLSDAENMIENMPH----QK----DDVVWSTLLRACMVQGDVNCGRHT  602 (702)
Q Consensus       536 ~~~~~~~~~~p~----~~~~~~l~~~~~~-~g~~~~A~~~~~~~~~----~p----~~~~~~~l~~~~~~~g~~~~A~~~  602 (702)
                      +...+-+.-..+    ..++..++..|.. .|++++|...++++..    ..    ...++..++..+...|++++|...
T Consensus       101 ~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~  180 (290)
T d1qqea_         101 ENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDI  180 (290)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHhhHHhhhcccchhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHH
Confidence            987654221222    4556667777755 6999999999988754    11    134678889999999999999999


Q ss_pred             HHHHHHhCCCCch-------hHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 005329          603 AEKILELHPSCAG-------THITLANIYAAKGRWREAAEVRKMMRSKG  644 (702)
Q Consensus       603 ~~~~~~~~p~~~~-------~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  644 (702)
                      ++++....|.+..       .+...+.++...|+++.|...++++.+..
T Consensus       181 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~  229 (290)
T d1qqea_         181 YSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSED  229 (290)
T ss_dssp             HHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC-
T ss_pred             HHHHHHhCccchhhhhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC
Confidence            9999999877653       45677888889999999999999887654

>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=98.37  E-value=6.5e-07  Score=72.38  Aligned_cols=92  Identities=12%  Similarity=0.104  Sum_probs=78.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCch-------hHHHHH
Q 005329          551 YGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAG-------THITLA  621 (702)
Q Consensus       551 ~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~-------~~~~l~  621 (702)
                      +..++..+.+.|++++|+..|++...  +.+...+..++.+|...|++++|++.++++++++|+++.       +|..++
T Consensus         7 ~k~~G~~~~~~~~y~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg   86 (128)
T d1elra_           7 EKELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIG   86 (128)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHH
Confidence            44577888999999999999998877  456788999999999999999999999999999988765       455667


Q ss_pred             HHHHhcCChHHHHHHHHHHHh
Q 005329          622 NIYAAKGRWREAAEVRKMMRS  642 (702)
Q Consensus       622 ~~~~~~g~~~~A~~~~~~~~~  642 (702)
                      .++...+++++|++.+++...
T Consensus        87 ~~~~~~~~~~~A~~~~~kal~  107 (128)
T d1elra_          87 NSYFKEEKYKDAIHFYNKSLA  107 (128)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHh
Confidence            777888899999999988765

>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=98.36  E-value=1.1e-06  Score=75.27  Aligned_cols=84  Identities=12%  Similarity=0.018  Sum_probs=66.9

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhCCCccCCeeeEEEECC
Q 005329          579 DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKGVIKEPGWSRIKVKD  658 (702)
Q Consensus       579 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~  658 (702)
                      ....|..++.++.+.|++++|+..++++++++|+++.+|..+|.+|...|++++|+..++++.+.               
T Consensus        76 ~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l---------------  140 (169)
T d1ihga1          76 ALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEI---------------  140 (169)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---------------
T ss_pred             hHHHHHHHHHHHHhhcccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHh---------------
Confidence            34466777888888899999999999999989988889999999999999999998888888763               


Q ss_pred             EEEEEEcCCCCCCChhHHHHHHHHHHHHhc
Q 005329          659 QVSAFVSSDRRHSQGEDIYRMLDLLASRES  688 (702)
Q Consensus       659 ~~~~~~~~~~~~p~~~~~~~~l~~l~~~~~  688 (702)
                                 .|.+.++...+..+...+.
T Consensus       141 -----------~p~n~~~~~~l~~~~~~l~  159 (169)
T d1ihga1         141 -----------APEDKAIQAELLKVKQKIK  159 (169)
T ss_dssp             -----------CTTCHHHHHHHHHHHHHHH
T ss_pred             -----------CCCCHHHHHHHHHHHHHHH
Confidence                       3566677777777665543

>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=98.35  E-value=3.8e-06  Score=71.51  Aligned_cols=94  Identities=10%  Similarity=0.063  Sum_probs=79.0

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHh
Q 005329          549 EHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAA  626 (702)
Q Consensus       549 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~  626 (702)
                      .+|..+..+|.+.|++++|+..++.+..  +.+..+|..++.++...|++++|+..|+++++++|+++.+...+..+...
T Consensus        65 ~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~  144 (168)
T d1kt1a1          65 AAFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQIFMCQKK  144 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHH
T ss_pred             HHHHhHHHHHHHhhhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            3566788899999999999999999877  55788999999999999999999999999999999999999999988877


Q ss_pred             cCChHH-HHHHHHHHHh
Q 005329          627 KGRWRE-AAEVRKMMRS  642 (702)
Q Consensus       627 ~g~~~~-A~~~~~~~~~  642 (702)
                      .+...+ ..+.+.+|.+
T Consensus       145 ~~~~~e~~kk~~~~~f~  161 (168)
T d1kt1a1         145 AKEHNERDRRTYANMFK  161 (168)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHh
Confidence            765544 4555555543

>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=98.34  E-value=2.5e-07  Score=94.76  Aligned_cols=148  Identities=9%  Similarity=-0.056  Sum_probs=83.7

Q ss_pred             hHHHHHHHHHchhCCCCCCHHHHHHHHHHH--hccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHH
Q 005329          493 SQEAIHLFEKVPMVGLRPDSVTFMGVLTAC--SHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAEN  569 (702)
Q Consensus       493 ~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~--~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~  569 (702)
                      +..+++.++...+..-.++..-....+..+  ...+.++.+++.+....   ++.|+ ...+..+...+.+.|+.++|..
T Consensus        65 y~~~ie~~r~~~k~~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~---~l~~~~~~~~~~lg~~~~~~~~~~~A~~  141 (497)
T d1ya0a1          65 FKNQITTLQGQAKNRANPNRSEVQANLSLFLEAASGFYTQLLQELCTVF---NVDLPCRVKSSQLGIISNKQTHTSAIVK  141 (497)
T ss_dssp             THHHHHHHHHHHSCSSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC---------------------------------
T ss_pred             HHHHHHHHHHhcccccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---CCChhhHHHHHHhHHHHHhCCCHHHHHH
Confidence            455666776666544344433222222222  23455566655554332   55554 6677788888889999999887


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 005329          570 MIENMPHQKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSK  643 (702)
Q Consensus       570 ~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  643 (702)
                      .++.........++..++..+...|++++|+..|+++++++|+++..|+.||.++...|+..+|...|.+....
T Consensus       142 ~~~~al~~~~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~  215 (497)
T d1ya0a1         142 PQSSSCSYICQHCLVHLGDIARYRNQTSQAESYYRHAAQLVPSNGQPYNQLAILASSKGDHLTTIFYYCRSIAV  215 (497)
T ss_dssp             -CCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSS
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhC
Confidence            76655431123577788999999999999999999999999999999999999999999999999999988764

>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=98.31  E-value=6.8e-05  Score=69.15  Aligned_cols=231  Identities=12%  Similarity=0.008  Sum_probs=143.6

Q ss_pred             ChhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHH
Q 005329          375 DIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLERTAMIKSALIN  454 (702)
Q Consensus       375 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  454 (702)
                      |+..+..|...+.+.+++++|++.|++..+.|   +...+..+-..+...               .+             
T Consensus         1 ~p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G---------------~~-------------   49 (265)
T d1ouva_           1 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQG---------------QG-------------   49 (265)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHT---------------SS-------------
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcC---------------CC-------------
Confidence            34566677777778888888888888887765   223332232222210               00             


Q ss_pred             HHHhcCCHHHHHHHHhhCCC-CCHHHHHHHHHHHHH----cCChHHHHHHHHHchhCCCCCCHHHHHHHHHH--HhccCc
Q 005329          455 MYSKCGSIKEASQIFYETES-DDIVSWTAMINGYAE----HGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTA--CSHAGL  527 (702)
Q Consensus       455 ~~~~~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~--~~~~g~  527 (702)
                         ...+...|...+..... .+......+...+..    .++.+.|...++...+.|........ .....  ......
T Consensus        50 ---~~~d~~~a~~~~~~a~~~~~~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~a~~~g~~~a~~~l-~~~~~~~~~~~~~  125 (265)
T d1ouva_          50 ---VEKNLKKAASFYAKACDLNYSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLKYAEGCASL-GGIYHDGKVVTRD  125 (265)
T ss_dssp             ---SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHH-HHHHHHCSSSCCC
T ss_pred             ---cchhHHHHHHhhcccccccccchhhccccccccccccchhhHHHHHHHhhhhhhhhhhHHHhh-cccccCCCcccch
Confidence               12233444444433322 233333334333332    35667777777777765532221111 11111  123445


Q ss_pred             HHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHh----cCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHH
Q 005329          528 VDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCR----AGRLSDAENMIENMPHQKDDVVWSTLLRACMV----QGDVNCG  599 (702)
Q Consensus       528 ~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A  599 (702)
                      ...+...+.....    ..+...+..|...|..    ..+...+..+++......+..+...++..+..    ..+++.|
T Consensus       126 ~~~a~~~~~~~~~----~~~~~~~~~L~~~~~~~~~~~~~~~~~~~~~~~a~~~g~~~A~~~lg~~y~~g~~~~~d~~~A  201 (265)
T d1ouva_         126 FKKAVEYFTKACD----LNDGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLKDSPGCFNAGNMYHHGEGATKNFKEA  201 (265)
T ss_dssp             HHHHHHHHHHHHH----TTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCCCHHHH
T ss_pred             hHHHHHHhhhhhc----ccccchhhhhhhhhccCCCcccccccchhhhhccccccccccccchhhhcccCcccccchhhh
Confidence            6777777776543    2356667777777765    45677788888877766778888888877765    5689999


Q ss_pred             HHHHHHHHHhCCCCchhHHHHHHHHHh----cCChHHHHHHHHHHHhCCCc
Q 005329          600 RHTAEKILELHPSCAGTHITLANIYAA----KGRWREAAEVRKMMRSKGVI  646 (702)
Q Consensus       600 ~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~  646 (702)
                      +..|+++.+.+  ++..+..|+.+|.+    ..+.++|.++|++..+.|..
T Consensus       202 ~~~~~~aa~~g--~~~a~~~LG~~y~~G~g~~~n~~~A~~~~~kAa~~g~~  250 (265)
T d1ouva_         202 LARYSKACELE--NGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGAK  250 (265)
T ss_dssp             HHHHHHHHHTT--CHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTCH
T ss_pred             hhhHhhhhccc--CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHCcCH
Confidence            99999998875  57788999999986    34899999999999887753

>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=98.30  E-value=2.4e-06  Score=73.01  Aligned_cols=133  Identities=9%  Similarity=-0.024  Sum_probs=96.6

Q ss_pred             HHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCC-ChhhHHHHHHH
Q 005329          479 SWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVP-SKEHYGCMIDL  557 (702)
Q Consensus       479 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p-~~~~~~~l~~~  557 (702)
                      .+......+...|++++|+..|+++++.            ...........       ...   .+.| ....|..+..+
T Consensus        29 ~~~~~~~~~~~~~~y~~Ai~~y~~al~~------------~~~~~~~~~~~-------~~~---~~~~~~~~~~~nla~~   86 (169)
T d1ihga1          29 DLKNIGNTFFKSQNWEMAIKKYTKVLRY------------VEGSRAAAEDA-------DGA---KLQPVALSCVLNIGAC   86 (169)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH------------HHHHHHHSCHH-------HHG---GGHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHh------------hhhhhhhhhhH-------HHH---HhChhhHHHHHHHHHH
Confidence            3445566677778888888877776531            00000000000       000   1223 35677888999


Q ss_pred             HHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHH
Q 005329          558 LCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREA  633 (702)
Q Consensus       558 ~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A  633 (702)
                      +.+.|++++|+..++++..  +.+..+|..++.++...|++++|+..|+++++++|++..+...+..+..+.....++
T Consensus        87 ~~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p~n~~~~~~l~~~~~~l~~~~~~  164 (169)
T d1ihga1          87 KLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVKQKIKAQKDK  164 (169)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhhcccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999877  456789999999999999999999999999999999999999998887665554443

>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=98.30  E-value=4.3e-06  Score=71.16  Aligned_cols=81  Identities=7%  Similarity=0.003  Sum_probs=69.9

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhCCCccCCeeeEEEECCEE
Q 005329          581 VVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKGVIKEPGWSRIKVKDQV  660 (702)
Q Consensus       581 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~  660 (702)
                      .+|..+..+|...|++++|+..++++++++|.+..+|..++.+|...|++++|+..++++.+.                 
T Consensus        65 ~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l-----------------  127 (168)
T d1kt1a1          65 AAFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEV-----------------  127 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS-----------------
T ss_pred             HHHHhHHHHHHHhhhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-----------------
Confidence            456678888999999999999999999999999999999999999999999999999998874                 


Q ss_pred             EEEEcCCCCCCChhHHHHHHHHHHHHh
Q 005329          661 SAFVSSDRRHSQGEDIYRMLDLLASRE  687 (702)
Q Consensus       661 ~~~~~~~~~~p~~~~~~~~l~~l~~~~  687 (702)
                               +|.+..+...+..+...+
T Consensus       128 ---------~P~n~~~~~~l~~~~~~~  145 (168)
T d1kt1a1         128 ---------NPQNKAARLQIFMCQKKA  145 (168)
T ss_dssp             ---------CTTCHHHHHHHHHHHHHH
T ss_pred             ---------CCCCHHHHHHHHHHHHHH
Confidence                     366666777666665544

>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=98.27  E-value=3.4e-06  Score=70.47  Aligned_cols=128  Identities=9%  Similarity=-0.064  Sum_probs=91.6

Q ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHH
Q 005329          478 VSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDL  557 (702)
Q Consensus       478 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~  557 (702)
                      ..+..-...+.+.|++.+|+..|++....  -|...           ............        .....+|..++.+
T Consensus        18 ~~~~~~G~~~f~~~~y~~A~~~Y~~al~~--~~~~~-----------~~~~~~~~~~~~--------~~~~~~~~Nla~~   76 (153)
T d2fbna1          18 FDIKEEGNEFFKKNEINEAIVKYKEALDF--FIHTE-----------EWDDQILLDKKK--------NIEISCNLNLATC   76 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHT--TTTCT-----------TCCCHHHHHHHH--------HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhh--Ccchh-----------hhhhHHHHHhhh--------hHHHHHHhhHHHH
Confidence            34555666777788888888888776642  11100           000000000000        0123467788999


Q ss_pred             HHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHh
Q 005329          558 LCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAA  626 (702)
Q Consensus       558 ~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~  626 (702)
                      |.+.|++++|+..++.+..  +.+..+|..++.++...|++++|+..|+++++++|+++.+...+..+..+
T Consensus        77 ~~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~k  147 (153)
T d2fbna1          77 YNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSYELCVNK  147 (153)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHH
T ss_pred             HHHhcccchhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            9999999999999999877  44778999999999999999999999999999999999998888776543

>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=98.07  E-value=2.4e-06  Score=70.50  Aligned_cols=49  Identities=12%  Similarity=0.078  Sum_probs=43.0

Q ss_pred             CCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCC-----------hHHHHHHHHHHHh
Q 005329          594 GDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGR-----------WREAAEVRKMMRS  642 (702)
Q Consensus       594 g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~-----------~~~A~~~~~~~~~  642 (702)
                      +.+++|+..++++++++|+++.+|..+|.+|...|+           +++|.+.|+++.+
T Consensus        55 ~~~~~Ai~~~~kAl~l~P~~~~a~~~lG~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~  114 (145)
T d1zu2a1          55 QMIQEAITKFEEALLIDPKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVD  114 (145)
T ss_dssp             HHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhcchhhHHHhhHHHHHHHcccchhhHHHHHHhHHHhhhhhhcccc
Confidence            446889999999999999999999999999988764           6788888888876

>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=98.05  E-value=0.0015  Score=61.18  Aligned_cols=213  Identities=11%  Similarity=0.035  Sum_probs=116.2

Q ss_pred             hhhHHHHHHccCChHHHHHHhhcCCCCCcchHHHHHHHHHcCCChhHHHHHHHHhhhCCCCCCCHHHHHHHHHHhhccCC
Q 005329           44 VNSQLKHLVKSGYLHDARKMFDTMTQRDEISWTTLISGYVKAMDSIEALALFSRVWVEPQMNMDPFILSLALKACALNVN  123 (702)
Q Consensus        44 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~  123 (702)
                      -..+.+.|.+.|.++.|..+|..+..     |..++..+.+.++++.|.+++.+..       +..+|..+...|.....
T Consensus        17 ~~~i~~~c~~~~lye~A~~lY~~~~d-----~~rl~~~~v~l~~~~~avd~~~k~~-------~~~~~k~~~~~l~~~~e   84 (336)
T d1b89a_          17 IQQVGDRCYDEKMYDAAKLLYNNVSN-----FGRLASTLVHLGEYQAAVDGARKAN-------STRTWKEVCFACVDGKE   84 (336)
T ss_dssp             ------------CTTTHHHHHHHTTC-----HHHHHHHHHTTTCHHHHHHHHHHHT-------CHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHhCCC-----HHHHHHHHHhhccHHHHHHHHHHcC-------CHHHHHHHHHHHHhCcH
Confidence            35577788888999999999986655     7888888889999999888887662       45677777777766554


Q ss_pred             chhhhHHHHHHHHhcCCCchhHHHHHHHhhhcCCChhHHHHHhccCC---CCCcchHHHHHHHHHhCCChHHHHHHHHHH
Q 005329          124 VNYGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKIELGCRVFDEMP---LRNVVSWTAIITGLVRAGHNKEGLIYFAEM  200 (702)
Q Consensus       124 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m  200 (702)
                      ...+     .+...+...++.....++..|-..|.+++...+++...   ..+...++.++..|++.+ +++..+.+...
T Consensus        85 ~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~~~~~~~~~~L~~lyak~~-~~kl~e~l~~~  158 (336)
T d1b89a_          85 FRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFK-PQKMREHLELF  158 (336)
T ss_dssp             HHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSTTCCHHHHHHHHHHHHTTC-HHHHHHHHHHH
T ss_pred             HHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCCccchHHHHHHHHHHHHhC-hHHHHHHHHhc
Confidence            4332     22233334455555677778888888888888877532   445566777888777753 34433333332


Q ss_pred             HHCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhhhCCChHHHHHHHhccCCCCcchHHH
Q 005329          201 WRSKEQGDSYTFAIVLKASADSGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLRLFERMSTRDVISWTT  280 (702)
Q Consensus       201 ~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  280 (702)
                         +   +......+++.|-..+-++++                      +-.|.+.|+++.|..+.-.-+ ++......
T Consensus       159 ---s---~~y~~~k~~~~c~~~~l~~el----------------------v~Ly~~~~~~~~A~~~~i~~~-~~~~~~~~  209 (336)
T d1b89a_         159 ---W---SRVNIPKVLRAAEQAHLWAEL----------------------VFLYDKYEEYDNAIITMMNHP-TDAWKEGQ  209 (336)
T ss_dssp             ---S---TTSCHHHHHHHHHTTTCHHHH----------------------HHHHHHTTCHHHHHHHHHHST-TTTCCHHH
T ss_pred             ---c---ccCCHHHHHHHHHHcCChHHH----------------------HHHHHhcCCHHHHHHHHHHcc-hhhhhHHH
Confidence               1   122333444555544444433                      334444555554444332111 12233344


Q ss_pred             HHHHHHhcCChhHHHHHHHHHHH
Q 005329          281 IITSYVQMGEEENAFDAFVRMQE  303 (702)
Q Consensus       281 li~~~~~~g~~~~a~~~~~~m~~  303 (702)
                      .+..+.+.++++...++.....+
T Consensus       210 f~e~~~k~~N~e~~~~~i~~yL~  232 (336)
T d1b89a_         210 FKDIITKVANVELYYRAIQFYLE  232 (336)
T ss_dssp             HHHHHHHCSSTHHHHHHHHHHHH
T ss_pred             HHHHHHccCChHHHHHHHHHHHH
Confidence            44555555555555444444433

>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=98.03  E-value=0.0022  Score=58.46  Aligned_cols=228  Identities=9%  Similarity=-0.067  Sum_probs=135.2

Q ss_pred             chHHHHHHHHHHHhcCCHHHHHHHHhcCCC-CChhhHHHHHHHHHc----CCChHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 005329          344 SLSVANSIMAMYSKCGQLTSTSIVFHGMIR-RDIISWSTIIGGYSQ----GGYEEEAFEYLALMRREGPRPNEFAFASVL  418 (702)
Q Consensus       344 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll  418 (702)
                      |+..+..|...+.+.+++++|++.|++..+ .+..++..|...|..    ..+...|...+......+..   .....+.
T Consensus         1 ~p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~~~---~a~~~l~   77 (265)
T d1ouva_           1 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLNYS---NGCHLLG   77 (265)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCH---HHHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccccc---chhhccc
Confidence            345666778888899999999999998854 366677777777776    56888888888887776522   2222222


Q ss_pred             HH----HcccCcHHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCHHHHHHHHHHHHHcCChH
Q 005329          419 SV----CGNMAILEQGKQIHAHVMSIGLERTAMIKSALINMYSKCGSIKEASQIFYETESDDIVSWTAMINGYAEHGYSQ  494 (702)
Q Consensus       419 ~~----~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~  494 (702)
                      ..    .....+.+.+...++...+.|....   ...+...+...                           ........
T Consensus        78 ~~~~~~~~~~~~~~~a~~~~~~a~~~g~~~a---~~~l~~~~~~~---------------------------~~~~~~~~  127 (265)
T d1ouva_          78 NLYYSGQGVSQNTNKALQYYSKACDLKYAEG---CASLGGIYHDG---------------------------KVVTRDFK  127 (265)
T ss_dssp             HHHHHTSSSCCCHHHHHHHHHHHHHTTCHHH---HHHHHHHHHHC---------------------------SSSCCCHH
T ss_pred             cccccccccchhhHHHHHHHhhhhhhhhhhH---HHhhcccccCC---------------------------CcccchhH
Confidence            11    2234556666666666655543211   11111111110                           00122333


Q ss_pred             HHHHHHHHchhCCCCCCHHHHHHHHHHHhc----cCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHh----cCCHHH
Q 005329          495 EAIHLFEKVPMVGLRPDSVTFMGVLTACSH----AGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCR----AGRLSD  566 (702)
Q Consensus       495 ~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~----~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~  566 (702)
                      .+...+.+...   ..+...+..+...+..    ..+...+..+++...+.    .+......|...|..    ..++++
T Consensus       128 ~a~~~~~~~~~---~~~~~~~~~L~~~~~~~~~~~~~~~~~~~~~~~a~~~----g~~~A~~~lg~~y~~g~~~~~d~~~  200 (265)
T d1ouva_         128 KAVEYFTKACD---LNDGDGCTILGSLYDAGRGTPKDLKKALASYDKACDL----KDSPGCFNAGNMYHHGEGATKNFKE  200 (265)
T ss_dssp             HHHHHHHHHHH---TTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHTCSSCCCHHH
T ss_pred             HHHHHhhhhhc---ccccchhhhhhhhhccCCCcccccccchhhhhccccc----cccccccchhhhcccCcccccchhh
Confidence            44444444333   2233334444444432    34555666666655432    245555556555554    567888


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHhCC
Q 005329          567 AENMIENMPHQKDDVVWSTLLRACMV----QGDVNCGRHTAEKILELHP  611 (702)
Q Consensus       567 A~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~p  611 (702)
                      |..+|++.....++..+..|+..|..    ..+.++|.+.|+++.+.++
T Consensus       201 A~~~~~~aa~~g~~~a~~~LG~~y~~G~g~~~n~~~A~~~~~kAa~~g~  249 (265)
T d1ouva_         201 ALARYSKACELENGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGA  249 (265)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTC
T ss_pred             hhhhHhhhhcccCHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHCcC
Confidence            88888887766677777778887764    4478889999999988876

>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=98.02  E-value=1.1e-05  Score=62.97  Aligned_cols=85  Identities=12%  Similarity=0.007  Sum_probs=49.3

Q ss_pred             HHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCC
Q 005329          519 LTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACMVQGD  595 (702)
Q Consensus       519 l~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~  595 (702)
                      ...+.+.|++++|+..|+++++.   .|+ ...|..++.++.+.|++++|+..|+++..  +.+..+|..++..|...|+
T Consensus        23 g~~~~~~g~~~~A~~~~~~al~~---~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~la~~y~~~g~   99 (112)
T d1hxia_          23 GLSMLKLANLAEAALAFEAVCQK---EPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEHN   99 (112)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH---STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhHHHHHHHhhhccc---ccccchhhhhhhhhhhhhhhHHHhhcccccccccccccccchHHHHHHHHHCCC
Confidence            34455556666666666665543   343 55556666666666666666666665554  2345566666666666666


Q ss_pred             HHHHHHHHHHH
Q 005329          596 VNCGRHTAEKI  606 (702)
Q Consensus       596 ~~~A~~~~~~~  606 (702)
                      +++|.+.+++.
T Consensus       100 ~~~A~~~l~~~  110 (112)
T d1hxia_         100 ANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            66666666654

>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=98.01  E-value=4.4e-06  Score=68.90  Aligned_cols=74  Identities=12%  Similarity=0.082  Sum_probs=46.8

Q ss_pred             HHHHHHHHhCCC--CCCHHHHHHHHHHHHhcC-----------CHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChH
Q 005329          565 SDAENMIENMPH--QKDDVVWSTLLRACMVQG-----------DVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWR  631 (702)
Q Consensus       565 ~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g-----------~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~  631 (702)
                      ++|+..|+++.+  +.+..+|..++.+|...|           +++.|.+.|+++++++|++...+..|+...       
T Consensus        58 ~~Ai~~~~kAl~l~P~~~~a~~~lG~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~l~P~~~~~~~~L~~~~-------  130 (145)
T d1zu2a1          58 QEAITKFEEALLIDPKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVDEQPDNTHYLKSLEMTA-------  130 (145)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHH-------
T ss_pred             HHHHHHHHHHHHhcchhhHHHhhHHHHHHHcccchhhHHHHHHhHHHhhhhhhcccccCCCHHHHHHHHHHHH-------
Confidence            444444444443  223444444544444332           468999999999999999998888887764       


Q ss_pred             HHHHHHHHHHhCCC
Q 005329          632 EAAEVRKMMRSKGV  645 (702)
Q Consensus       632 ~A~~~~~~~~~~~~  645 (702)
                      +|.+++.+..+.|+
T Consensus       131 ka~~~~~e~~k~~~  144 (145)
T d1zu2a1         131 KAPQLHAEAYKQGL  144 (145)
T ss_dssp             THHHHHHHHHHSSS
T ss_pred             HHHHHHHHHHHHhc
Confidence            55566666555553

>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=98.00  E-value=1.9e-05  Score=67.38  Aligned_cols=118  Identities=13%  Similarity=0.049  Sum_probs=84.2

Q ss_pred             HHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCH--HHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 005329          517 GVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRL--SDAENMIENMPHQKDDVVWSTLLRACMVQG  594 (702)
Q Consensus       517 ~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~--~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g  594 (702)
                      .........|++++|.+.|.....-   .+....-.     + ..+.+  .++..+ +    +.....+..++..+...|
T Consensus        16 ~~g~~~~~~g~~e~A~~~~~~AL~l---~rG~~l~~-----~-~~~~w~~~~r~~l-~----~~~~~a~~~la~~~~~~g   81 (179)
T d2ff4a2          16 TAGVHAAAAGRFEQASRHLSAALRE---WRGPVLDD-----L-RDFQFVEPFATAL-V----EDKVLAHTAKAEAEIACG   81 (179)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTT---CCSSTTGG-----G-TTSTTHHHHHHHH-H----HHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhh---Cccccccc-----C-cchHHHHHHHHHH-H----HHHHHHHHHHHHHHHHCC
Confidence            3445667788999999988888743   22211000     0 00111  011111 1    113457788999999999


Q ss_pred             CHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHh-----CCCccC
Q 005329          595 DVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRS-----KGVIKE  648 (702)
Q Consensus       595 ~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~~~~  648 (702)
                      ++++|+..++++++.+|.+...|..++.+|.+.|++++|++.|+++.+     .|+.|.
T Consensus        82 ~~~~Al~~~~~al~~~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~  140 (179)
T d2ff4a2          82 RASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPG  140 (179)
T ss_dssp             CHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCC
T ss_pred             CchHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcC
Confidence            999999999999999999999999999999999999999999999854     466543

>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=97.97  E-value=2.3e-05  Score=58.88  Aligned_cols=83  Identities=11%  Similarity=-0.039  Sum_probs=68.6

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCC-------chhHHHHHHHHHhcCChHHHHHHHHHHHhCCCccCCeee
Q 005329          580 DVVWSTLLRACMVQGDVNCGRHTAEKILELHPSC-------AGTHITLANIYAAKGRWREAAEVRKMMRSKGVIKEPGWS  652 (702)
Q Consensus       580 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~-------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~  652 (702)
                      ...+-.++..+.+.|+++.|+..+++++++.|.+       ..++..|+.+|.+.|++++|+..++++.+.         
T Consensus         5 addc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l---------   75 (95)
T d1tjca_           5 AEDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL---------   75 (95)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---------
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHh---------
Confidence            3445578889999999999999999999886543       457999999999999999999999999873         


Q ss_pred             EEEECCEEEEEEcCCCCCCChhHHHHHHHHHHHHhc
Q 005329          653 RIKVKDQVSAFVSSDRRHSQGEDIYRMLDLLASRES  688 (702)
Q Consensus       653 ~~~~~~~~~~~~~~~~~~p~~~~~~~~l~~l~~~~~  688 (702)
                                       +|...++...+..+.+.++
T Consensus        76 -----------------~P~~~~a~~Nl~~~~~~l~   94 (95)
T d1tjca_          76 -----------------DPEHQRANGNLKYFEYIMA   94 (95)
T ss_dssp             -----------------CTTCHHHHHHHHHHHHHHH
T ss_pred             -----------------CcCCHHHHHHHHHHHHHhC
Confidence                             4777788888877776554

>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=97.96  E-value=0.0038  Score=58.21  Aligned_cols=276  Identities=12%  Similarity=0.055  Sum_probs=136.5

Q ss_pred             CCHHHHHHHHHHhhccCCchhhhHHHHHHHHhcCCCchhHHHHHHHhhhcCCChhHHHHHhccCCCCCcchHHHHHHHHH
Q 005329          106 MDPFILSLALKACALNVNVNYGESLHGYTVKTGFVNSVFVGSALLDMYTKLGKIELGCRVFDEMPLRNVVSWTAIITGLV  185 (702)
Q Consensus       106 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~  185 (702)
                      ||..-...+...|.+.|.++.|..++..+         .-|..++..+.+.++++.|.+.+.+..  +..+|..+...+.
T Consensus        12 ~n~~d~~~i~~~c~~~~lye~A~~lY~~~---------~d~~rl~~~~v~l~~~~~avd~~~k~~--~~~~~k~~~~~l~   80 (336)
T d1b89a_          12 PNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKAN--STRTWKEVCFACV   80 (336)
T ss_dssp             C----------------CTTTHHHHHHHT---------TCHHHHHHHHHTTTCHHHHHHHHHHHT--CHHHHHHHHHHHH
T ss_pred             CCcCCHHHHHHHHHHCCCHHHHHHHHHhC---------CCHHHHHHHHHhhccHHHHHHHHHHcC--CHHHHHHHHHHHH
Confidence            44444555566666667777776666532         224456666666777777766665432  4556666666666


Q ss_pred             hCCChHHHHHHHHHHHHCCCCCChhhHHHHHHHHhccCChHHHHHHHHHHHHhCCCCchhHHHHHHHHhhhCCChHHHHH
Q 005329          186 RAGHNKEGLIYFAEMWRSKEQGDSYTFAIVLKASADSGALNFGREIHTIMLKRGFDVVSFVANSLATMYSKCGKLDYSLR  265 (702)
Q Consensus       186 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  265 (702)
                      +......+     .+.......++.....++..+-..|.++....+++..... -..+...++.++..|++.+. ++..+
T Consensus        81 ~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~-~~~~~~~~~~L~~lyak~~~-~kl~e  153 (336)
T d1b89a_          81 DGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKFKP-QKMRE  153 (336)
T ss_dssp             HTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS-TTCCHHHHHHHHHHHHTTCH-HHHHH
T ss_pred             hCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcC-CccchHHHHHHHHHHHHhCh-HHHHH
Confidence            65544332     2222223345555566666676777777777776665432 14455566667776766542 33333


Q ss_pred             HHhccCCC-----------CcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCchHHHHHHHH
Q 005329          266 LFERMSTR-----------DVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHA  334 (702)
Q Consensus       266 ~~~~~~~~-----------~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~  334 (702)
                      .+......           ....|..++-.|.+.|+++.|..+.-.   .  .++.......+..+.+..+.+...++..
T Consensus       154 ~l~~~s~~y~~~k~~~~c~~~~l~~elv~Ly~~~~~~~~A~~~~i~---~--~~~~~~~~~f~e~~~k~~N~e~~~~~i~  228 (336)
T d1b89a_         154 HLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMN---H--PTDAWKEGQFKDIITKVANVELYYRAIQ  228 (336)
T ss_dssp             HHHHHSTTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHHHHH---S--TTTTCCHHHHHHHHHHCSSTHHHHHHHH
T ss_pred             HHHhccccCCHHHHHHHHHHcCChHHHHHHHHhcCCHHHHHHHHHH---c--chhhhhHHHHHHHHHccCChHHHHHHHH
Confidence            33332110           122345555566666666666554322   2  3445455555666677777766666665


Q ss_pred             HHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHH
Q 005329          335 HVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIRRDIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAF  414 (702)
Q Consensus       335 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~  414 (702)
                      ...+.  .|  ...+.++......-+.....+.+                  -+.++.......++.....|   +....
T Consensus       229 ~yL~~--~p--~~i~~lL~~v~~~~d~~r~V~~~------------------~k~~~l~li~p~Le~v~~~n---~~~vn  283 (336)
T d1b89a_         229 FYLEF--KP--LLLNDLLMVLSPRLDHTRAVNYF------------------SKVKQLPLVKPYLRSVQNHN---NKSVN  283 (336)
T ss_dssp             HHHHH--CG--GGHHHHHHHHGGGCCHHHHHHHH------------------HHTTCTTTTHHHHHHHHTTC---CHHHH
T ss_pred             HHHHc--CH--HHHHHHHHHhccCCCHHHHHHHH------------------HhcCCcHHHHHHHHHHHHcC---hHHHH
Confidence            55543  22  22344444444444444444443                  33444444444444443333   22345


Q ss_pred             HHHHHHHcccCcHHH
Q 005329          415 ASVLSVCGNMAILEQ  429 (702)
Q Consensus       415 ~~ll~~~~~~~~~~~  429 (702)
                      +++...+...++.+.
T Consensus       284 ~al~~lyie~~d~~~  298 (336)
T d1b89a_         284 ESLNNLFITEEDYQA  298 (336)
T ss_dssp             HHHHHHHHHTTCHHH
T ss_pred             HHHHHHHhCcchhHH
Confidence            555555555555443

>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=97.92  E-value=6.7e-05  Score=60.02  Aligned_cols=99  Identities=8%  Similarity=0.068  Sum_probs=58.0

Q ss_pred             HHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC-C---CC-----HHHHHHH
Q 005329          517 GVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH-Q---KD-----DVVWSTL  586 (702)
Q Consensus       517 ~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~---p~-----~~~~~~l  586 (702)
                      .+...+...|++++|++.|.+.++.   .|+ ...+..+..+|.+.|++++|+..++++.. .   +.     ..+|..+
T Consensus         9 ~~G~~~~~~~~y~~Ai~~y~~al~~---~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~l   85 (128)
T d1elra_           9 ELGNDAYKKKDFDTALKHYDKAKEL---DPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARI   85 (128)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHh---CcccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHH
Confidence            3444555555555555555555533   333 45555555666666666666666555544 1   11     2355566


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHH
Q 005329          587 LRACMVQGDVNCGRHTAEKILELHPSCAGTHIT  619 (702)
Q Consensus       587 ~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~  619 (702)
                      +..+...+++++|++.+++.+..+| ++.....
T Consensus        86 g~~~~~~~~~~~A~~~~~kal~~~~-~~~~~~~  117 (128)
T d1elra_          86 GNSYFKEEKYKDAIHFYNKSLAEHR-TPDVLKK  117 (128)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCC-CHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHhcCC-CHHHHHH
Confidence            7777788888888888888888776 4444333

>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=97.91  E-value=1.6e-05  Score=59.74  Aligned_cols=76  Identities=20%  Similarity=0.127  Sum_probs=61.3

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHhCCC--------CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHH
Q 005329          548 KEHYGCMIDLLCRAGRLSDAENMIENMPH--------QK-DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHI  618 (702)
Q Consensus       548 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--------~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~  618 (702)
                      ...+-.++..+.+.|++++|...|+++..        .+ ...++..++.++.+.|++++|+..++++++++|+++.++.
T Consensus         5 addc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P~~~~a~~   84 (95)
T d1tjca_           5 AEDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRANG   84 (95)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCcCCHHHHH
Confidence            34445677778888888888888777644        12 2568889999999999999999999999999999999998


Q ss_pred             HHHHH
Q 005329          619 TLANI  623 (702)
Q Consensus       619 ~l~~~  623 (702)
                      ++...
T Consensus        85 Nl~~~   89 (95)
T d1tjca_          85 NLKYF   89 (95)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            88654

>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=97.81  E-value=2.7e-05  Score=65.04  Aligned_cols=64  Identities=19%  Similarity=0.058  Sum_probs=52.7

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCC-----------chhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 005329          580 DVVWSTLLRACMVQGDVNCGRHTAEKILELHPSC-----------AGTHITLANIYAAKGRWREAAEVRKMMRSK  643 (702)
Q Consensus       580 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~-----------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  643 (702)
                      ...|+.++.+|...|++++|...+++++++.|..           ...+..++.+|...|++++|+..|+++.+.
T Consensus        55 a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l  129 (156)
T d2hr2a1          55 AFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEM  129 (156)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHh
Confidence            3567788888999999999999999988764321           236788999999999999999999998763

>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=97.75  E-value=5.6e-06  Score=84.44  Aligned_cols=126  Identities=10%  Similarity=-0.071  Sum_probs=50.8

Q ss_pred             cCCHHHHHHHHhhCCC---CCHHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCC-HHHHHHHHHHHhccCcHHHHHHH
Q 005329          459 CGSIKEASQIFYETES---DDIVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPD-SVTFMGVLTACSHAGLVDLGFHY  534 (702)
Q Consensus       459 ~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~g~~~~A~~~  534 (702)
                      .+.++.|+..+.....   ++...+..+...+.+.|+.++|...+++...    ++ ..++..+...+...|++++|...
T Consensus        99 ~~~Y~~ai~~l~~~~~l~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~----~~~~~~~~~LG~l~~~~~~~~~A~~~  174 (497)
T d1ya0a1          99 SGFYTQLLQELCTVFNVDLPCRVKSSQLGIISNKQTHTSAIVKPQSSSCS----YICQHCLVHLGDIARYRNQTSQAESY  174 (497)
T ss_dssp             HHHHHHHHHHHTC-------------------------------CCHHHH----HHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHCCChhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhC----CCHHHHHHHHHHHHHHcccHHHHHHH
Confidence            3444555544443322   2334455555555555555555555544332    11 13444555555555666666666


Q ss_pred             HHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC--CCCHHHHHHHHHHHH
Q 005329          535 FNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH--QKDDVVWSTLLRACM  591 (702)
Q Consensus       535 ~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~  591 (702)
                      |+++.+.   .|+ ...|+.|+..+...|+..+|+..|.+...  +|...++..|...+.
T Consensus       175 y~~A~~l---~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~~~~~~a~~nL~~~~~  231 (497)
T d1ya0a1         175 YRHAAQL---VPSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVKFPFPAASTNLQKALS  231 (497)
T ss_dssp             HHHHHHH---CTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSSBCCHHHHHHHHHHHH
T ss_pred             HHHHHHH---CCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHHH
Confidence            6655532   444 45556666666666666666665555444  455555555555443

>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=97.57  E-value=0.0001  Score=67.08  Aligned_cols=127  Identities=13%  Similarity=-0.014  Sum_probs=90.6

Q ss_pred             HHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHH
Q 005329          488 AEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSD  566 (702)
Q Consensus       488 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~  566 (702)
                      .+.|++++|+..+++.++.. +-|...+..+...++..|++++|.+.++...+.   .|+ ...+..+..++...+..++
T Consensus         7 L~~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l---~P~~~~~~~~l~~ll~a~~~~~~   82 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKL---FPEYLPGASQLRHLVKAAQARKD   82 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CGGGHHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCcHHHHHHHHHHHHhccccHH
Confidence            45789999999999988753 446678888999999999999999999988754   676 5555556666655555555


Q ss_pred             HHHHHHhCCC--CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHH
Q 005329          567 AENMIENMPH--QK-DDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHI  618 (702)
Q Consensus       567 A~~~~~~~~~--~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~  618 (702)
                      +..-......  +| ....+...+..+...|+.++|.+.++++.+..|..+..+.
T Consensus        83 a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~p~~~~~~~  137 (264)
T d1zbpa1          83 FAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQEKGFLAN  137 (264)
T ss_dssp             HTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCCCEEET
T ss_pred             HHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCCCcccc
Confidence            4333222111  23 2334444566678899999999999999999998776654

>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=97.46  E-value=0.00032  Score=58.21  Aligned_cols=92  Identities=13%  Similarity=-0.017  Sum_probs=61.7

Q ss_pred             HhccCcHHHHHHHHHHhHHhhCCCCC----------hhhHHHHHHHHHhcCCHHHHHHHHHhCCC--------CCC----
Q 005329          522 CSHAGLVDLGFHYFNLMSDKYGFVPS----------KEHYGCMIDLLCRAGRLSDAENMIENMPH--------QKD----  579 (702)
Q Consensus       522 ~~~~g~~~~A~~~~~~~~~~~~~~p~----------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--------~p~----  579 (702)
                      ....|++++|++.|++..+...-.|+          ...|+.+..+|...|++++|...+++...        .++    
T Consensus        19 ~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~   98 (156)
T d2hr2a1          19 QLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKL   98 (156)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccch
Confidence            34556666666666665543222222          24566777777788888777777666543        111    


Q ss_pred             -HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCC
Q 005329          580 -DVVWSTLLRACMVQGDVNCGRHTAEKILELHPSC  613 (702)
Q Consensus       580 -~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~  613 (702)
                       ...+..++.+|...|++++|++.|++++++.|..
T Consensus        99 ~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l~~~~  133 (156)
T d2hr2a1          99 WISAVYSRALALDGLGRGAEAMPEFKKVVEMIEER  133 (156)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHC
T ss_pred             hHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhhHHh
Confidence             2356778999999999999999999999986544

>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=97.24  E-value=8.9e-05  Score=67.51  Aligned_cols=121  Identities=12%  Similarity=0.066  Sum_probs=89.5

Q ss_pred             HhccCcHHHHHHHHHHhHHhhCCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHhCCC-CCC-HHHHHHHHHHHHhcCCHHH
Q 005329          522 CSHAGLVDLGFHYFNLMSDKYGFVPS-KEHYGCMIDLLCRAGRLSDAENMIENMPH-QKD-DVVWSTLLRACMVQGDVNC  598 (702)
Q Consensus       522 ~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p~-~~~~~~l~~~~~~~g~~~~  598 (702)
                      ..+.|++++|++.+++.++.   .|+ ...+..++..|+..|++++|...++.... .|+ ...+..+...+...+..++
T Consensus         6 aL~~G~l~eAl~~l~~al~~---~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~P~~~~~~~~l~~ll~a~~~~~~   82 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIKA---SPKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKAAQARKD   82 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHHT---CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHH---CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhccccHH
Confidence            45679999999999999864   665 88999999999999999999999999877 564 4555556666555544444


Q ss_pred             HHHHHHHHHHh-CCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 005329          599 GRHTAEKILEL-HPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKGV  645 (702)
Q Consensus       599 A~~~~~~~~~~-~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  645 (702)
                      +.......... .|+....+...+..+...|+.++|.+.++++.+..+
T Consensus        83 a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~p  130 (264)
T d1zbpa1          83 FAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQ  130 (264)
T ss_dssp             HTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCC
T ss_pred             HHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCC
Confidence            33322221112 344455666778889999999999999999887543

>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=97.08  E-value=0.023  Score=42.52  Aligned_cols=141  Identities=12%  Similarity=0.134  Sum_probs=105.4

Q ss_pred             HHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcCCHHH
Q 005329          487 YAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAGRLSD  566 (702)
Q Consensus       487 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~  566 (702)
                      +.-.|..++..+++.+...   +.+..-||.++--....-+.+-..++++.+-+-+.+.|- .....++.++...+.   
T Consensus        12 ~ildG~ve~Gveii~k~~~---ss~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~FDls~C-~Nlk~vv~C~~~~n~---   84 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITK---SSTKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLDKC-QNLKSVVECGVINNT---   84 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHH---HSCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGGGC-SCTHHHHHHHHHTTC---
T ss_pred             HHHhhhHHhHHHHHHHHcc---cCCccccceeeeecccccchHHHHHHHHHHhhhcCchhh-hcHHHHHHHHHHhcc---
Confidence            4567888999999988875   345566777777677777888888888888655444332 122334455554443   


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHHHHHhCCCc
Q 005329          567 AENMIENMPHQKDDVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRKMMRSKGVI  646 (702)
Q Consensus       567 A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  646 (702)
                                  +....+..+.....+|+-+.-..+++.+++.+..+|+....++.+|.+-|...++-+++.++.+.|.+
T Consensus        85 ------------~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~~i~~~~llkia~A~kkig~~re~nell~~ACe~G~K  152 (161)
T d1wy6a1          85 ------------LNEHVNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  152 (161)
T ss_dssp             ------------CCHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             ------------hHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhHH
Confidence                        34455666778889999999999999988888779999999999999999999999999999999875

>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=97.08  E-value=0.0038  Score=52.60  Aligned_cols=74  Identities=12%  Similarity=0.106  Sum_probs=61.2

Q ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHH----hhCCCCChhhH
Q 005329          477 IVSWTAMINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSD----KYGFVPSKEHY  551 (702)
Q Consensus       477 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~----~~~~~p~~~~~  551 (702)
                      ...+..++..+...|++++|+..++++.+.. +-+...|..++.++...|+..+|++.|+++..    ..|+.|+..+-
T Consensus        67 ~~a~~~la~~~~~~g~~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l~  144 (179)
T d2ff4a2          67 VLAHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLR  144 (179)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHH
T ss_pred             HHHHHHHHHHHHHCCCchHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHHH
Confidence            4567788899999999999999999998753 44778899999999999999999999998743    35899986653

>d1qsaa1 a.118.5.1 (A:1-450) 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Bacterial muramidases
family: Bacterial muramidases
domain: 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain
species: Escherichia coli [TaxId: 562]

Probab=96.96  E-value=0.18  Score=49.20  Aligned_cols=54  Identities=9%  Similarity=-0.066  Sum_probs=27.8

Q ss_pred             HHHHHhcCCHHHHHHHHhcCCCCChhhHHHHHHHHHcCCChHHHHHHHHHHHHCC
Q 005329          352 MAMYSKCGQLTSTSIVFHGMIRRDIISWSTIIGGYSQGGYEEEAFEYLALMRREG  406 (702)
Q Consensus       352 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g  406 (702)
                      +..+.+.++++..+..+..-+ .+...-.....+....|+.++|...+..+-..|
T Consensus        79 l~~L~~~~~w~~~~~~~~~~p-~~~~~~c~~~~A~~~~g~~~~a~~~~~~lW~~~  132 (450)
T d1qsaa1          79 VNELARREDWRGLLAFSPEKP-GTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTG  132 (450)
T ss_dssp             HHHHHHTTCHHHHHHHCCSCC-SSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCS
T ss_pred             HHHHHhccCHHHHHHhccCCC-CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcC
Confidence            344455566655555443322 133333445556666666666666665554443

>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=96.45  E-value=0.021  Score=45.12  Aligned_cols=82  Identities=10%  Similarity=-0.100  Sum_probs=54.8

Q ss_pred             CCHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHh----cCChHHH
Q 005329          562 GRLSDAENMIENMPHQKDDVVWSTLLRACMV----QGDVNCGRHTAEKILELHPSCAGTHITLANIYAA----KGRWREA  633 (702)
Q Consensus       562 g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~A  633 (702)
                      .+.++|..++++..+..++.....|...|..    ..+.++|.+.|+++.+.+  ++.....|+.+|..    ..+.++|
T Consensus        37 ~~~~~a~~~~~~aa~~g~~~a~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa~~g--~~~a~~~Lg~~y~~G~gv~~d~~~A  114 (133)
T d1klxa_          37 INKQKLFQYLSKACELNSGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGLN--DQDGCLILGYKQYAGKGVVKNEKQA  114 (133)
T ss_dssp             SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHTSSSCCCHHHH
T ss_pred             cCHHHHHHHHhhhhcccchhhhhhHHHhhhhccccchhhHHHHHHHhhhhccC--cchHHHHHHHHHHcCCccCCCHHHH
Confidence            4556666666665554555555555555543    346788888888877754  46667778887776    3578888


Q ss_pred             HHHHHHHHhCCC
Q 005329          634 AEVRKMMRSKGV  645 (702)
Q Consensus       634 ~~~~~~~~~~~~  645 (702)
                      .+++++..+.|.
T Consensus       115 ~~~~~~Aa~~G~  126 (133)
T d1klxa_         115 VKTFEKACRLGS  126 (133)
T ss_dssp             HHHHHHHHHTTC
T ss_pred             HHHHHHHHHCCC
Confidence            888888877664

>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=96.37  E-value=0.013  Score=44.65  Aligned_cols=46  Identities=13%  Similarity=-0.017  Sum_probs=21.7

Q ss_pred             HHHHHHHHHHHHhCCCCc-hhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 005329          597 NCGRHTAEKILELHPSCA-GTHITLANIYAAKGRWREAAEVRKMMRS  642 (702)
Q Consensus       597 ~~A~~~~~~~~~~~p~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~  642 (702)
                      ++|+.++++++..+|.+. ..++.|+.+|.+.|++++|.++++++.+
T Consensus        55 ~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~  101 (124)
T d2pqrb1          55 RLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  101 (124)
T ss_dssp             HHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHc
Confidence            344444444444444332 3444445555555555555555544443

>d1qsaa1 a.118.5.1 (A:1-450) 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Bacterial muramidases
family: Bacterial muramidases
domain: 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain
species: Escherichia coli [TaxId: 562]

Probab=96.10  E-value=0.7  Score=44.82  Aligned_cols=351  Identities=10%  Similarity=0.018  Sum_probs=183.5

Q ss_pred             HHHHhhhCCChHHHHHHHhccCCCCcchHHHHHHHHHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCchHHH
Q 005329          250 LATMYSKCGKLDYSLRLFERMSTRDVISWTTIITSYVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWG  329 (702)
Q Consensus       250 li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a  329 (702)
                      .+..+.+.++++.....+..-+ .+...-.....+....|+.+.|...+..+-..|. ..+...                
T Consensus        78 ~l~~L~~~~~w~~~~~~~~~~p-~~~~~~c~~~~A~~~~g~~~~a~~~~~~lW~~~~-~~p~~c----------------  139 (450)
T d1qsaa1          78 FVNELARREDWRGLLAFSPEKP-GTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGK-SQPNAC----------------  139 (450)
T ss_dssp             HHHHHHHTTCHHHHHHHCCSCC-SSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSS-CCCTHH----------------
T ss_pred             HHHHHHhccCHHHHHHhccCCC-CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCC-CCchHH----------------
Confidence            3455666777766665554321 2333334556677778888888877777655542 122222                


Q ss_pred             HHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCC
Q 005329          330 EQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTSTSIVFHGMIRRDIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRP  409 (702)
Q Consensus       330 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p  409 (702)
                      ..++..+.+.|. .+...+-.-+......|+...|..+...+..........++...........   ..   ..  ..+
T Consensus       140 ~~l~~~~~~~~~-lt~~~~~~R~~~~l~~~~~~~a~~l~~~l~~~~~~~~~a~~~l~~~p~~~~~---~~---~~--~~~  210 (450)
T d1qsaa1         140 DKLFSVWRASGK-QDPLAYLERIRLAMKAGNTGLVTVLAGQMPADYQTIASAIISLANNPNTVLT---FA---RT--TGA  210 (450)
T ss_dssp             HHHHHHHHHTTC-SCHHHHHHHHHHHHHTTCHHHHHHHHHTCCGGGHHHHHHHHHHHHCGGGHHH---HH---HH--SCC
T ss_pred             HHHHHHHHhcCC-CCHHHHHHHHHHHHHcCChhhHHHHHhhCChhHHHHHHHHHHHHhChHhHHH---HH---hc--CCC
Confidence            223333333332 2222233334445566777777777777665544444444444333222211   11   11  122


Q ss_pred             CHHHHHHHHHHHcc--cCcHHHHHHHHHHHHHhCCCCChhH---HHHHHHHHHhcCCHHHHHHHHhhCC--CCCHHHHHH
Q 005329          410 NEFAFASVLSVCGN--MAILEQGKQIHAHVMSIGLERTAMI---KSALINMYSKCGSIKEASQIFYETE--SDDIVSWTA  482 (702)
Q Consensus       410 ~~~~~~~ll~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~---~~~li~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~  482 (702)
                      +......+..+..+  ..+.+.+...+..............   ...+.......+..+.+...+....  ..+.....-
T Consensus       211 ~~~~~~~~~~~l~rla~~d~~~a~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~w  290 (450)
T d1qsaa1         211 TDFTRQMAAVAFASVARQDAENARLMIPSLAQAQQLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRSQSTSLIER  290 (450)
T ss_dssp             CHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTCCCHHHHHH
T ss_pred             ChhhhHHHHHHHHHHhccChhHHHHHHHhhhhcccccHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhcccccchHHHHH
Confidence            22222222223222  2455666666666554332221111   1112222233455566665554433  233333333


Q ss_pred             HHHHHHHcCChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHhcC
Q 005329          483 MINGYAEHGYSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCRAG  562 (702)
Q Consensus       483 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g  562 (702)
                      .+......+++..+...+..|.... .....-.--+..++...|+.+.|...|..+..    .++  -|..|...  +.|
T Consensus       291 ~~~~al~~~~~~~~~~~~~~l~~~~-~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a~----~~~--fYG~LAa~--~Lg  361 (450)
T d1qsaa1         291 RVRMALGTGDRRGLNTWLARLPMEA-KEKDEWRYWQADLLLERGREAEAKEILHQLMQ----QRG--FYPMVAAQ--RIG  361 (450)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHSCTTG-GGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT----SCS--HHHHHHHH--HTT
T ss_pred             HHHHHHHcCChHHHHHHHHhcCccc-ccHHHHHHHHHHHHHHcCChhhHHHHHHHHhc----CCC--hHHHHHHH--HcC
Confidence            4445566788888888888876421 12233344567888889999999999988752    232  44444322  122


Q ss_pred             CHHHHHHHHHhCCCCCCH-H---HHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHHHHHHHHhcCChHHHHHHHH
Q 005329          563 RLSDAENMIENMPHQKDD-V---VWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHITLANIYAAKGRWREAAEVRK  638 (702)
Q Consensus       563 ~~~~A~~~~~~~~~~p~~-~---~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~  638 (702)
                      ..-. .. .......+.. .   .-...+..+...|....|...+..+.+..  ++.....++....+.|.++.|+....
T Consensus       362 ~~~~-~~-~~~~~~~~~~~~~~~~~~~ra~~L~~~g~~~~A~~e~~~l~~~~--~~~~~~~la~lA~~~g~~~~aI~a~~  437 (450)
T d1qsaa1         362 EEYE-LK-IDKAPQNVDSALTQGPEMARVRELMYWNLDNTARSEWANLVKSK--SKTEQAQLARYAFNNQWWDLSVQATI  437 (450)
T ss_dssp             CCCC-CC-CCCCCSCCCCHHHHSHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--CHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             CCCC-CC-cCCCCccHHHhhhcChHHHHHHHHHHcCCchHHHHHHHHHHhCC--CHHHHHHHHHHHHHCCChhHHHHHHH
Confidence            1100 00 0000111111 0   11123455678899999999999887543  56677888999999999999998776


Q ss_pred             HH
Q 005329          639 MM  640 (702)
Q Consensus       639 ~~  640 (702)
                      +.
T Consensus       438 ~~  439 (450)
T d1qsaa1         438 AG  439 (450)
T ss_dssp             HT
T ss_pred             HH
Confidence            65

>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=95.55  E-value=0.079  Score=41.54  Aligned_cols=111  Identities=14%  Similarity=0.007  Sum_probs=81.1

Q ss_pred             ChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHHHHHh----cCCHHHH
Q 005329          492 YSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMIDLLCR----AGRLSDA  567 (702)
Q Consensus       492 ~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A  567 (702)
                      ++++|+++|++..+.|. |.  ....|.  .....+.++|.+++++..+. |   ++.....|...|..    ..+.++|
T Consensus         8 d~~~A~~~~~kaa~~g~-~~--a~~~l~--~~~~~~~~~a~~~~~~aa~~-g---~~~a~~~Lg~~y~~g~~~~~d~~~A   78 (133)
T d1klxa_           8 DLKKAIQYYVKACELNE-MF--GCLSLV--SNSQINKQKLFQYLSKACEL-N---SGNGCRFLGDFYENGKYVKKDLRKA   78 (133)
T ss_dssp             HHHHHHHHHHHHHHTTC-TT--HHHHHH--TCTTSCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             CHHHHHHHHHHHHHCCC-hh--hhhhhc--cccccCHHHHHHHHhhhhcc-c---chhhhhhHHHhhhhccccchhhHHH
Confidence            67788888888887762 22  222222  34456788999999988654 3   45566667777664    4578999


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHhCC
Q 005329          568 ENMIENMPHQKDDVVWSTLLRACMV----QGDVNCGRHTAEKILELHP  611 (702)
Q Consensus       568 ~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~p  611 (702)
                      .++|++.....++.....|...|..    ..+.++|.+.++++.+.+.
T Consensus        79 ~~~~~~aa~~g~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G~  126 (133)
T d1klxa_          79 AQYYSKACGLNDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  126 (133)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHhhhhccCcchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCCC
Confidence            9999998777777777788877765    4689999999999988774

>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=94.86  E-value=0.15  Score=38.56  Aligned_cols=74  Identities=7%  Similarity=0.016  Sum_probs=56.7

Q ss_pred             CChhhHHHHHHHHHhcC---CHHHHHHHHHhCCC-CC-C-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCchhHHH
Q 005329          546 PSKEHYGCMIDLLCRAG---RLSDAENMIENMPH-QK-D-DVVWSTLLRACMVQGDVNCGRHTAEKILELHPSCAGTHIT  619 (702)
Q Consensus       546 p~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~-~p-~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~  619 (702)
                      |+..+--.++.++.+..   +.++++.++++... .| + ...+-.|.-+|.+.|++++|.+.++++++.+|+|..+...
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ieP~n~qA~~L  112 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQVGAL  112 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccCCCcHHHHHH
Confidence            45556666777777665   44678888888765 44 3 3577888899999999999999999999999988766543

>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=89.16  E-value=3.3  Score=30.79  Aligned_cols=141  Identities=9%  Similarity=0.020  Sum_probs=85.0

Q ss_pred             HHhcCChhHHHHHHHHHHHCCCCCChhhHHHHHHHHHccCchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHH
Q 005329          285 YVQMGEEENAFDAFVRMQESDVKPNEYTFAAIISASANLARIQWGEQLHAHVLRLGLVDSLSVANSIMAMYSKCGQLTST  364 (702)
Q Consensus       285 ~~~~g~~~~a~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  364 (702)
                      +.-.|..++..+++.+....   .+..-|+.++.-....-+-+...++++.+   |-..|.          .+++++...
T Consensus        12 ~ildG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~I---G~~FDl----------s~C~Nlk~v   75 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKI---GSYFDL----------DKCQNLKSV   75 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHH---GGGSCG----------GGCSCTHHH
T ss_pred             HHHhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHH---hhhcCc----------hhhhcHHHH
Confidence            44567777777777776653   24445555555544444444333333332   211111          123444444


Q ss_pred             HHHHhcCCCCChhhHHHHHHHHHcCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHcccCcHHHHHHHHHHHHHhCCC
Q 005329          365 SIVFHGMIRRDIISWSTIIGGYSQGGYEEEAFEYLALMRREGPRPNEFAFASVLSVCGNMAILEQGKQIHAHVMSIGLE  443 (702)
Q Consensus       365 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~  443 (702)
                      ...+-.+.. +....+.-+..+.++|+-++-.++++.+.+. -+|++.....+..+|.+.|+..++.+++.++.+.|+.
T Consensus        76 v~C~~~~n~-~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn-~~i~~~~llkia~A~kkig~~re~nell~~ACe~G~K  152 (161)
T d1wy6a1          76 VECGVINNT-LNEHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  152 (161)
T ss_dssp             HHHHHHTTC-CCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHhcc-hHHHHHHHHHHHHHhccHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhHH
Confidence            444333322 2334455677788889989888888887764 4777777888888999999999988888888777753

>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=86.04  E-value=2.8  Score=29.49  Aligned_cols=63  Identities=21%  Similarity=0.231  Sum_probs=47.5

Q ss_pred             ChHHHHHHHHHchhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCCCChhhHHHHHH
Q 005329          492 YSQEAIHLFEKVPMVGLRPDSVTFMGVLTACSHAGLVDLGFHYFNLMSDKYGFVPSKEHYGCMID  556 (702)
Q Consensus       492 ~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~  556 (702)
                      +.-++.+-+..+....+.|++....+.+++|.+.+++..|.++|+....+  ..++...|..+++
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K--~~~~k~~y~yilq   83 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK--AGPHKEIYPYVIQ   83 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--TTTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH--hcCcHHHHHHHHH
Confidence            34455566666666778899999999999999999999999999988766  3345567766654