Citrus Sinensis ID: 005268

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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
MISVYVRCGRLSEAVDCFYQFTLTSGLRPDFYTFPPVLKACRNLVDGKKIHCSVLKLGFEWDVFVAASLLHMYCRFGLANVARKLFDDMPVRDSGSWNAMISGYCQSGNAVEALDILDEMRLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGMMRHALRVFDQMMERDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDRGLKKTPGWSSIEVNNKVDIFYTGNRTHPKYEKIYDELRNLTAKMKSLGYVPDKSFVLQDVEEDEKEHILTSHSERLAIAFGIISSPPKSPIQIFKNLRVCGDCHNWTKFISQITEREIIVRDSNRFHHFKDGICSCGDYW
Secondary Structure (PSIPRED)
cHHHHHHcccccHHHHHHHHcHHccccccccccHHHHHHHccccHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccHHHHHHHHccccccccccHHHHHHHHHcccccHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccHHHHHHHHccccccccccHHHHHHHHHccccccHHHHHHHHHHHccccccccHHHHHHHHHcccccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHccccccccccHHHHHHHHHccccccHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccEEEcHHHHHHHHccccHHHHHHHHccccccccccHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHcccHHHHHHHHHHHcHHccccccccccHHHHHHHHHccccHHHHHHHHHcccccccHHHHHHHHHHHHHHccHHHHHHHHHHHHcccccccccHHHHHHHHHHcccccHHHHHHHHHHHccccccccccEEEEccEEEEEEccccccccHHHHHHHHHHHHHHHHHcccccccccccccccHHHHHHHHccccHHHHHHHHHHcccccccEEEEccccccccHHHHHHHHHHHHccEEEEcccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccHHHHccccHHHHHHHHHHHHHHcccccccccHHHHHHHHHcHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccccHHHHHHHHHHccccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccHHHHHHHHHHcHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHccHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccEEEEEEccEEEEEEEcccccccHHHHHHHHHHHHHHHHHccccccccEEEEcccHHHHHHHHHHcHHHHHHHHHHHcccccccEEEEEccEEcccHHHHHHHHHHHcccEEEEEccccccccccccEcccccc
Coil and Loop (DISEMBL)
MISVYVRCGRLSEAVDCFYQftltsglrpdfytfppvLKACRNlvdgkkihcSVLKLGFEWDVFVAASLLHMYCRFGLANVARKlfddmpvrdsgswnAMISGYCQSGNAVEALDILDEMrlegvsmdpitvASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGMMRHALRVFDQMMERDVVSWNSIIAAYeqsndpitahgffttmqqagiqpdllTLVSLTSIVAQLNdcrnsrsvhGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSAcavfeglpvkdvisWNTLITGYAQNGLASEAIEVFQMMEECneinpnqgtyvsilpayshvgALRQGIKIHARVIKNCLCFDVFVATCLVDmygkcgriddAMSLFyqvprsssvpwnaiischgihgqgDKALNFFRQMldegvrpdhITFVSLLTACshsglvsegQRYFHMMQEefgikphlkhygCMVDlfgraghlgmAHNFiqnmpvrpdasIWGALLGACRIHgnmelgavasdrlfevdsenvGYYVLMSNIYANVGKWEGVDEVRSLArdrglkktpgwssievnnkvdifytgnrthpkyeKIYDELRNLTAKMKslgyvpdksfvlQDVEEDEKEHILTSHSERLAIAFgiissppkspiqifknlrvcgdchnwTKFISQITEReiivrdsnrfhhfkdgicscgdyw
Flexible Loop (DISEMBL)
MISVYVRCGRLSEAVDCFYQFTLTSGLRPDFYTFPPVLKACRNLVDGKKIHCSVLKLGFEWDVFVAASLLHMYCRFGLANVARKLFDDMPVRDSGSWNAMISGYCQSGNAVEALDILDEMRLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGMMRHALRVFDQMMERDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQlndcrnsrsVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLArdrglkktpgwssievnnkvdifytgnrthpkyEKIYDELRNLTAKMKSLGYVPDKSFVLQDVEEDEKEHILTSHSERLAIAFGIISSPPKSPIQIFKNLRVCGDCHNWTKFISQITEREIIVrdsnrfhhfkdgicscgdyw
Low Complexity Region (SEG)
MISVYVRCGRLSEAVDCFYQFTLTSGLRPDFYTFPPVLKACRNLVDGKKIHCSVLKLGFEWDVFVAASLLHMYCRFGLANVARKLFDDMPVRDSGSWNAMISGYCQSGNAVEALDILDEMRLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGMMRHALRVFDQMMERDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDRGLKKTPGWSSIEVNNKVDIFYTGNRTHPKYEKIYDELRNLTAKMKSLGYVPDKSFVLQDVEEDEKEHILTSHSERLAIAFGiissppkspiQIFKNLRVCGDCHNWTKFISQITEREIIVRDSNRFHHFKDGICSCGDYW
Disordered region (IsUnstruct)
**SVYVRCGRLSEAVDCFYQFTLTSGLRPDFYTFPPVLKACRNLVDGKKIHCSVLKLGFEWDVFVAASLLHMYCRFGLANVARKLFDDMPVRDSGSWNAMISGYCQSGNAVEALDILDEMRLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGMMRHALRVFDQMMERDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDRGLKKTPGWSSIEVNNKVDIFYTGNRTHPKYEKIYDELRNLTAKMKSLGYVPDKSFVLQDVE****EHILTSHSERLAIAFGIISSPPKSPIQIFKNLRVCGDCHNWTKFISQITEREIIVRDSNRFHHFKDGICSCGDY*
Disordered Region (DISOPRED)
MISVYV*CGRLSEAVDCFYQFTLTSGLRPDFYTFPPVLKACRNLVDGKKIHCSVLKLGFEWDVFVAASLLHMYCRFGLANVARKLFDDMPVRDSGSWNAMISGYCQSGNAVEALDILDEMRLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGMMRHALRVFDQMMERDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDRGLKKTPGWSSIEVNNKVDIFYTGNRTHPKYEKIYDELRNLTAKMKSLGYVPDKSFVLQDVEEDEKEHILTSHSERLAIAFGIISSPPKSPIQIFKNLRVCGDCHNWTKFISQITEREIIVRDSNRFHHFKDGICSCGDYW
Disordered Region (DISEMBL)
MISVYVRCGRLSEAVDCFYQFTLTSGLRPDFYTFPPVLKACRNLVDGKKIHCSVLKLGFEWDVFVAASLLHMYCRFGLANVARKLFDDMPVRDSGSWNAMISGYCQSGNAVEALDILDEMRLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGMMRHALRVFDQMMERDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDRGLKKTPGWSSIEVNNKVDIFYTGNRTHPKYEKIYDELRNLTAKMKSLGYVPDKSFVLQDVEEDEKEHILTSHSERLAIAFGIISSPPKSPIQIFKNLRVCGDCHNWTKFISQITEREIIVRDSNRFHHFKDGICSCGDYW
Disordered Region (DISPRO)
MISVYVRCGRLSEAVDCFYQFTLTSGLRPDFYTFPPVLKACRNLVDGKKIHCSVLKLGFEWDVFVAASLLHMYCRFGLANVARKLFDDMPVRDSGSWNAMISGYCQSGNAVEALDILDEMRLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGMMRHALRVFDQMMERDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDRGLKKTPGWSSIEVNNKVDIFYTGNRTHPKYEKIYDELRNLTAKMKSLGYVPDKSFVLQDVEEDEKEHILTSHSERLAIAFGIISSPPKSPIQIFKNLRVCGDCHNWTKFISQITEREIIVRDSNRFHHFKDGICSCGDYW
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
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TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MISVYVRCGRLSEAVDCFYQFTLTSGLRPDFYTFPPVLKACRNLVDGKKIHCSVLKLGFEWDVFVAASLLHMYCRFGLANVARKLFDDMPVRDSGSWNAMISGYCQSGNAVEALDILDEMRLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGMMRHALRVFDQMMERDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDRGLKKTPGWSSIEVNNKVDIFYTGNRTHPKYEKIYDELRNLTAKMKSLGYVPDKSFVLQDVEEDEKEHILTSHSERLAIAFGIISSPPKSPIQIFKNLRVCGDCHNWTKFISQITEREIIVRDSNRFHHFKDGICSCGDYW
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	705	2.2.26 [Sep-21-2011]
O81767	823	Pentatricopeptide repeat-	yes	no	0.994	0.851	0.648	0.0
Q3E6Q1	809	Pentatricopeptide repeat-	no	no	0.994	0.866	0.406	1e-159
Q9SN39	871	Pentatricopeptide repeat-	no	no	0.997	0.807	0.412	1e-157
Q7Y211	890	Pentatricopeptide repeat-	no	no	0.971	0.769	0.390	1e-153
Q9SUH6	792	Pentatricopeptide repeat-	no	no	0.974	0.867	0.389	1e-153
Q9SMZ2	990	Pentatricopeptide repeat-	no	no	0.992	0.707	0.385	1e-150
Q9LW32	659	Pentatricopeptide repeat-	no	no	0.868	0.928	0.434	1e-149
Q9LFL5	850	Pentatricopeptide repeat-	no	no	0.981	0.814	0.386	1e-149
Q9LTV8	694	Pentatricopeptide repeat-	no	no	0.958	0.974	0.383	1e-149
Q9M9E2	866	Pentatricopeptide repeat-	no	no	0.987	0.803	0.391	1e-148

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

 Score =  986 bits (2549), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 457/705 (64%), Positives = 566/705 (80%), Gaps = 4/705 (0%)

Query: 1   MISVYVRCGRLSEAVDCFYQFTLTSGLRPDFYTFPPVLKACRNLVDGKKIHCSVLKLGFE 60
           MIS Y R G  SE + CF  F L+SGL PD+ TFP VLKACR ++DG KIHC  LK GF 
Sbjct: 123 MISGYGRAGNSSEVIRCFSLFMLSSGLTPDYRTFPSVLKACRTVIDGNKIHCLALKFGFM 182

Query: 61  WDVFVAASLLHMYCRFGLANVARKLFDDMPVRDSGSWNAMISGYCQSGNAVEALDILDEM 120
           WDV+VAASL+H+Y R+     AR LFD+MPVRD GSWNAMISGYCQSGNA EAL + + +
Sbjct: 183 WDVYVAASLIHLYSRYKAVGNARILFDEMPVRDMGSWNAMISGYCQSGNAKEALTLSNGL 242

Query: 121 RLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGMM 180
           R    +MD +TV S+L  C  + +   G+ IH Y +KHGLE  LFVSN LI++YA+FG +
Sbjct: 243 R----AMDSVTVVSLLSACTEAGDFNRGVTIHSYSIKHGLESELFVSNKLIDLYAEFGRL 298

Query: 181 RHALRVFDQMMERDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIV 240
           R   +VFD+M  RD++SWNSII AYE +  P+ A   F  M+ + IQPD LTL+SL SI+
Sbjct: 299 RDCQKVFDRMYVRDLISWNSIIKAYELNEQPLRAISLFQEMRLSRIQPDCLTLISLASIL 358

Query: 241 AQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDVISW 300
           +QL D R  RSV GF +R+GWF+ED+ IGNAVV MYAKLG+++SA AVF  LP  DVISW
Sbjct: 359 SQLGDIRACRSVQGFTLRKGWFLEDITIGNAVVVMYAKLGLVDSARAVFNWLPNTDVISW 418

Query: 301 NTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVI 360
           NT+I+GYAQNG ASEAIE++ +MEE  EI  NQGT+VS+LPA S  GALRQG+K+H R++
Sbjct: 419 NTIISGYAQNGFASEAIEMYNIMEEEGEIAANQGTWVSVLPACSQAGALRQGMKLHGRLL 478

Query: 361 KNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALN 420
           KN L  DVFV T L DMYGKCGR++DA+SLFYQ+PR +SVPWN +I+CHG HG G+KA+ 
Sbjct: 479 KNGLYLDVFVVTSLADMYGKCGRLEDALSLFYQIPRVNSVPWNTLIACHGFHGHGEKAVM 538

Query: 421 FFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLF 480
            F++MLDEGV+PDHITFV+LL+ACSHSGLV EGQ  F MMQ ++GI P LKHYGCMVD++
Sbjct: 539 LFKEMLDEGVKPDHITFVTLLSACSHSGLVDEGQWCFEMMQTDYGITPSLKHYGCMVDMY 598

Query: 481 GRAGHLGMAHNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYV 540
           GRAG L  A  FI++M ++PDASIWGALL ACR+HGN++LG +AS+ LFEV+ E+VGY+V
Sbjct: 599 GRAGQLETALKFIKSMSLQPDASIWGALLSACRVHGNVDLGKIASEHLFEVEPEHVGYHV 658

Query: 541 LMSNIYANVGKWEGVDEVRSLARDRGLKKTPGWSSIEVNNKVDIFYTGNRTHPKYEKIYD 600
           L+SN+YA+ GKWEGVDE+RS+A  +GL+KTPGWSS+EV+NKV++FYTGN+THP YE++Y 
Sbjct: 659 LLSNMYASAGKWEGVDEIRSIAHGKGLRKTPGWSSMEVDNKVEVFYTGNQTHPMYEEMYR 718

Query: 601 ELRNLTAKMKSLGYVPDKSFVLQDVEEDEKEHILTSHSERLAIAFGIISSPPKSPIQIFK 660
           EL  L AK+K +GYVPD  FVLQDVE+DEKEHIL SHSERLAIAF +I++P K+ I+IFK
Sbjct: 719 ELTALQAKLKMIGYVPDHRFVLQDVEDDEKEHILMSHSERLAIAFALIATPAKTTIRIFK 778

Query: 661 NLRVCGDCHNWTKFISQITEREIIVRDSNRFHHFKDGICSCGDYW 705
           NLRVCGDCH+ TKFIS+ITEREIIVRDSNRFHHFK+G+CSCGDYW
Sbjct: 779 NLRVCGDCHSVTKFISKITEREIIVRDSNRFHHFKNGVCSCGDYW 823

Arabidopsis thaliana (taxid: 3702)

>sp|Q3E6Q1|PPR32_ARATH Pentatricopeptide repeat-containing protein At1g11290 OS=Arabidopsis thaliana GN=PCMP-H40 PE=2 SV=1

 Score =  561 bits (1446), Expect = e-159,   Method: Compositional matrix adjust.
 Identities = 288/708 (40%), Positives = 429/708 (60%), Gaps = 7/708 (0%)

Query: 1   MISVYVRCGRLSEAVDCFYQFTLTSGLRPDFYTFPPVLKACRNLVD---GKKIHCSVLKL 57
           M+  + +   L +A+  F +      + P  Y F  +LK C +  +   GK+IH  ++K 
Sbjct: 106 MLKGFAKVSDLDKALQFFVRMRYDD-VEPVVYNFTYLLKVCGDEAELRVGKEIHGLLVKS 164

Query: 58  GFEWDVFVAASLLHMYCRFGLANVARKLFDDMPVRDSGSWNAMISGYCQSGNAVEALDIL 117
           GF  D+F    L +MY +    N ARK+FD MP RD  SWN +++GY Q+G A  AL+++
Sbjct: 165 GFSLDLFAMTGLENMYAKCRQVNEARKVFDRMPERDLVSWNTIVAGYSQNGMARMALEMV 224

Query: 118 DEMRLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKF 177
             M  E +    IT+ S+LP  +    I  G  IH Y ++ G +  + +S  L++MYAK 
Sbjct: 225 KSMCEENLKPSFITIVSVLPAVSALRLISVGKEIHGYAMRSGFDSLVNISTALVDMYAKC 284

Query: 178 GMMRHALRVFDQMMERDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLT 237
           G +  A ++FD M+ER+VVSWNS+I AY Q+ +P  A   F  M   G++P  ++++   
Sbjct: 285 GSLETARQLFDGMLERNVVSWNSMIDAYVQNENPKEAMLIFQKMLDEGVKPTDVSVMGAL 344

Query: 238 SIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDV 297
              A L D    R +H   +  G    +V + N+++ MY K   +++A ++F  L  + +
Sbjct: 345 HACADLGDLERGRFIHKLSVELG-LDRNVSVVNSLISMYCKCKEVDTAASMFGKLQSRTL 403

Query: 298 ISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHA 357
           +SWN +I G+AQNG   +A+  F  M     + P+  TYVS++ A + +        IH 
Sbjct: 404 VSWNAMILGFAQNGRPIDALNYFSQMRS-RTVKPDTFTYVSVITAIAELSITHHAKWIHG 462

Query: 358 RVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDK 417
            V+++CL  +VFV T LVDMY KCG I  A  +F  +       WNA+I  +G HG G  
Sbjct: 463 VVMRSCLDKNVFVTTALVDMYAKCGAIMIARLIFDMMSERHVTTWNAMIDGYGTHGFGKA 522

Query: 418 ALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMV 477
           AL  F +M    ++P+ +TF+S+++ACSHSGLV  G + F+MM+E + I+  + HYG MV
Sbjct: 523 ALELFEEMQKGTIKPNGVTFLSVISACSHSGLVEAGLKCFYMMKENYSIELSMDHYGAMV 582

Query: 478 DLFGRAGHLGMAHNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVG 537
           DL GRAG L  A +FI  MPV+P  +++GA+LGAC+IH N+     A++RLFE++ ++ G
Sbjct: 583 DLLGRAGRLNEAWDFIMQMPVKPAVNVYGAMLGACQIHKNVNFAEKAAERLFELNPDDGG 642

Query: 538 YYVLMSNIYANVGKWEGVDEVRSLARDRGLKKTPGWSSIEVNNKVDIFYTGNRTHPKYEK 597
           Y+VL++NIY     WE V +VR     +GL+KTPG S +E+ N+V  F++G+  HP  +K
Sbjct: 643 YHVLLANIYRAASMWEKVGQVRVSMLRQGLRKTPGCSMVEIKNEVHSFFSGSTAHPDSKK 702

Query: 598 IYDELRNLTAKMKSLGYVPDKSFVLQDVEEDEKEHILTSHSERLAIAFGIISSPPKSPIQ 657
           IY  L  L   +K  GYVPD + VL  VE D KE +L++HSE+LAI+FG++++   + I 
Sbjct: 703 IYAFLEKLICHIKEAGYVPDTNLVL-GVENDVKEQLLSTHSEKLAISFGLLNTTAGTTIH 761

Query: 658 IFKNLRVCGDCHNWTKFISQITEREIIVRDSNRFHHFKDGICSCGDYW 705
           + KNLRVC DCHN TK+IS +T REI+VRD  RFHHFK+G CSCGDYW
Sbjct: 762 VRKNLRVCADCHNATKYISLVTGREIVVRDMQRFHHFKNGACSCGDYW 809

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 =  556 bits (1434), Expect = e-157,   Method: Compositional matrix adjust.
 Identities = 292/708 (41%), Positives = 427/708 (60%), Gaps = 5/708 (0%)

Query: 1   MISVYVRCGRLSEAVDCFYQFTLTSGLRPDFYTFPPVLKA---CRNLVDGKKIHCSVLKL 57
           +++   + G  S ++  F +  ++SG+  D YTF  V K+    R++  G+++H  +LK 
Sbjct: 166 LMNELAKSGDFSGSIGLFKKM-MSSGVEMDSYTFSCVSKSFSSLRSVHGGEQLHGFILKS 224

Query: 58  GFEWDVFVAASLLHMYCRFGLANVARKLFDDMPVRDSGSWNAMISGYCQSGNAVEALDIL 117
           GF     V  SL+  Y +    + ARK+FD+M  RD  SWN++I+GY  +G A + L + 
Sbjct: 225 GFGERNSVGNSLVAFYLKNQRVDSARKVFDEMTERDVISWNSIINGYVSNGLAEKGLSVF 284

Query: 118 DEMRLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKF 177
            +M + G+ +D  T+ S+   CA S  I  G  +H   VK          N L++MY+K 
Sbjct: 285 VQMLVSGIEIDLATIVSVFAGCADSRLISLGRAVHSIGVKACFSREDRFCNTLLDMYSKC 344

Query: 178 GMMRHALRVFDQMMERDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLT 237
           G +  A  VF +M +R VVS+ S+IA Y +      A   F  M++ GI PD+ T+ ++ 
Sbjct: 345 GDLDSAKAVFREMSDRSVVSYTSMIAGYAREGLAGEAVKLFEEMEEEGISPDVYTVTAVL 404

Query: 238 SIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDV 297
           +  A+       + VH +I        D+ + NA++DMYAK G +  A  VF  + VKD+
Sbjct: 405 NCCARYRLLDEGKRVHEWIKENDLGF-DIFVSNALMDMYAKCGSMQEAELVFSEMRVKDI 463

Query: 298 ISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHA 357
           ISWNT+I GY++N  A+EA+ +F ++ E    +P++ T   +LPA + + A  +G +IH 
Sbjct: 464 ISWNTIIGGYSKNCYANEALSLFNLLLEEKRFSPDERTVACVLPACASLSAFDKGREIHG 523

Query: 358 RVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDK 417
            +++N    D  VA  LVDMY KCG +  A  LF  +     V W  +I+ +G+HG G +
Sbjct: 524 YIMRNGYFSDRHVANSLVDMYAKCGALLLAHMLFDDIASKDLVSWTVMIAGYGMHGFGKE 583

Query: 418 ALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMV 477
           A+  F QM   G+  D I+FVSLL ACSHSGLV EG R+F++M+ E  I+P ++HY C+V
Sbjct: 584 AIALFNQMRQAGIEADEISFVSLLYACSHSGLVDEGWRFFNIMRHECKIEPTVEHYACIV 643

Query: 478 DLFGRAGHLGMAHNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVG 537
           D+  R G L  A+ FI+NMP+ PDA+IWGALL  CRIH +++L    ++++FE++ EN G
Sbjct: 644 DMLARTGDLIKAYRFIENMPIPPDATIWGALLCGCRIHHDVKLAEKVAEKVFELEPENTG 703

Query: 538 YYVLMSNIYANVGKWEGVDEVRSLARDRGLKKTPGWSSIEVNNKVDIFYTGNRTHPKYEK 597
           YYVLM+NIYA   KWE V  +R     RGL+K PG S IE+  +V+IF  G+ ++P+ E 
Sbjct: 704 YYVLMANIYAEAEKWEQVKRLRKRIGQRGLRKNPGCSWIEIKGRVNIFVAGDSSNPETEN 763

Query: 598 IYDELRNLTAKMKSLGYVPDKSFVLQDVEEDEKEHILTSHSERLAIAFGIISSPPKSPIQ 657
           I   LR + A+M   GY P   + L D EE EKE  L  HSE+LA+A GIISS     I+
Sbjct: 764 IEAFLRKVRARMIEEGYSPLTKYALIDAEEMEKEEALCGHSEKLAMALGIISSGHGKIIR 823

Query: 658 IFKNLRVCGDCHNWTKFISQITEREIIVRDSNRFHHFKDGICSCGDYW 705
           + KNLRVCGDCH   KF+S++T REI++RDSNRFH FKDG CSC  +W
Sbjct: 824 VTKNLRVCGDCHEMAKFMSKLTRREIVLRDSNRFHQFKDGHCSCRGFW 871

Arabidopsis thaliana (taxid: 3702)

>sp|Q7Y211|PP285_ARATH Pentatricopeptide repeat-containing protein At3g57430, chloroplastic OS=Arabidopsis thaliana GN=PCMP-H81 PE=2 SV=2

 Score =  543 bits (1400), Expect = e-153,   Method: Compositional matrix adjust.
 Identities = 276/706 (39%), Positives = 428/706 (60%), Gaps = 21/706 (2%)

Query: 19  YQFTLTSGLRPDFYTFPPVLKACRNL------VDGKKIHCSVLKLGFEWDVFVAASLLHM 72
           ++  L   + P  +T   V+ AC NL      + GK++H   L+ G E + F+  +L+ M
Sbjct: 187 FRCMLDENVEPSSFTLVSVVTACSNLPMPEGLMMGKQVHAYGLRKG-ELNSFIINTLVAM 245

Query: 73  YCRFGLANVARKLFDDMPVRDSGSWNAMISGYCQSGNAVEALDILDEMRLEGVSMDPITV 132
           Y + G    ++ L      RD  +WN ++S  CQ+   +EAL+ L EM LEGV  D  T+
Sbjct: 246 YGKLGKLASSKVLLGSFGGRDLVTWNTVLSSLCQNEQLLEALEYLREMVLEGVEPDEFTI 305

Query: 133 ASILPVCARSDNILSGLLIHLYIVKHG-LEFNLFVSNNLINMYAKFGMMRHALRVFDQMM 191
           +S+LP C+  + + +G  +H Y +K+G L+ N FV + L++MY     +    RVFD M 
Sbjct: 306 SSVLPACSHLEMLRTGKELHAYALKNGSLDENSFVGSALVDMYCNCKQVLSGRRVFDGMF 365

Query: 192 ERDVVSWNSIIAAYEQSNDPITAHGFFTTMQQ-AGIQPDLLTLVSLTSIVAQLNDCRNSR 250
           +R +  WN++IA Y Q+     A   F  M++ AG+  +  T+  +     +        
Sbjct: 366 DRKIGLWNAMIAGYSQNEHDKEALLLFIGMEESAGLLANSTTMAGVVPACVRSGAFSRKE 425

Query: 251 SVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDVISWNTLITGYAQN 310
           ++HGF+++RG    D  + N ++DMY++LG I+ A  +F  +  +D+++WNT+ITGY  +
Sbjct: 426 AIHGFVVKRG-LDRDRFVQNTLMDMYSRLGKIDIAMRIFGKMEDRDLVTWNTMITGYVFS 484

Query: 311 GLASEAIEVFQMMEECNE----------INPNQGTYVSILPAYSHVGALRQGIKIHARVI 360
               +A+ +   M+              + PN  T ++ILP+ + + AL +G +IHA  I
Sbjct: 485 EHHEDALLLLHKMQNLERKVSKGASRVSLKPNSITLMTILPSCAALSALAKGKEIHAYAI 544

Query: 361 KNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALN 420
           KN L  DV V + LVDMY KCG +  +  +F Q+P+ + + WN II  +G+HG G +A++
Sbjct: 545 KNNLATDVAVGSALVDMYAKCGCLQMSRKVFDQIPQKNVITWNVIIMAYGMHGNGQEAID 604

Query: 421 FFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLF 480
             R M+ +GV+P+ +TF+S+  ACSHSG+V EG R F++M+ ++G++P   HY C+VDL 
Sbjct: 605 LLRMMMVQGVKPNEVTFISVFAACSHSGMVDEGLRIFYVMKPDYGVEPSSDHYACVVDLL 664

Query: 481 GRAGHLGMAHNFIQNMPVR-PDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYY 539
           GRAG +  A+  +  MP     A  W +LLGA RIH N+E+G +A+  L +++     +Y
Sbjct: 665 GRAGRIKEAYQLMNMMPRDFNKAGAWSSLLGASRIHNNLEIGEIAAQNLIQLEPNVASHY 724

Query: 540 VLMSNIYANVGKWEGVDEVRSLARDRGLKKTPGWSSIEVNNKVDIFYTGNRTHPKYEKIY 599
           VL++NIY++ G W+   EVR   +++G++K PG S IE  ++V  F  G+ +HP+ EK+ 
Sbjct: 725 VLLANIYSSAGLWDKATEVRRNMKEQGVRKEPGCSWIEHGDEVHKFVAGDSSHPQSEKLS 784

Query: 600 DELRNLTAKMKSLGYVPDKSFVLQDVEEDEKEHILTSHSERLAIAFGIISSPPKSPIQIF 659
             L  L  +M+  GYVPD S VL +VEEDEKE +L  HSE+LAIAFGI+++ P + I++ 
Sbjct: 785 GYLETLWERMRKEGYVPDTSCVLHNVEEDEKEILLCGHSEKLAIAFGILNTSPGTIIRVA 844

Query: 660 KNLRVCGDCHNWTKFISQITEREIIVRDSNRFHHFKDGICSCGDYW 705
           KNLRVC DCH  TKFIS+I +REII+RD  RFH FK+G CSCGDYW
Sbjct: 845 KNLRVCNDCHLATKFISKIVDREIILRDVRRFHRFKNGTCSCGDYW 890

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SUH6|PP341_ARATH Pentatricopeptide repeat-containing protein At4g30700 OS=Arabidopsis thaliana GN=DYW9 PE=2 SV=1

 Score =  541 bits (1393), Expect = e-153,   Method: Compositional matrix adjust.
 Identities = 271/696 (38%), Positives = 419/696 (60%), Gaps = 9/696 (1%)

Query: 14  AVDCFYQFTLTSGLRPDFYTFPPVLKACRNLVD---GKKIHCSVLKLGFEWDVFVAASLL 70
           ++  F     ++ L+P+  T+   + A     D   G+ IH   +  G + ++ + ++++
Sbjct: 102 SLSVFAHLRKSTDLKPNSSTYAFAISAASGFRDDRAGRVIHGQAVVDGCDSELLLGSNIV 161

Query: 71  HMYCRFGLANVARKLFDDMPVRDSGSWNAMISGYCQSGNAVEALDILDEMRLEGVS-MDP 129
            MY +F     ARK+FD MP +D+  WN MISGY ++   VE++ +  ++  E  + +D 
Sbjct: 162 KMYFKFWRVEDARKVFDRMPEKDTILWNTMISGYRKNEMYVESIQVFRDLINESCTRLDT 221

Query: 130 ITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGMMRHALRVFDQ 189
            T+  ILP  A    +  G+ IH    K G   + +V    I++Y+K G ++    +F +
Sbjct: 222 TTLLDILPAVAELQELRLGMQIHSLATKTGCYSHDYVLTGFISLYSKCGKIKMGSALFRE 281

Query: 190 MMERDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQLNDCRNS 249
             + D+V++N++I  Y  + +   +   F  +  +G +    TLVSL  +   L      
Sbjct: 282 FRKPDIVAYNAMIHGYTSNGETELSLSLFKELMLSGARLRSSTLVSLVPVSGHLMLIY-- 339

Query: 250 RSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDVISWNTLITGYAQ 309
            ++HG+ ++   F+    +  A+  +Y+KL  I SA  +F+  P K + SWN +I+GY Q
Sbjct: 340 -AIHGYCLKSN-FLSHASVSTALTTVYSKLNEIESARKLFDESPEKSLPSWNAMISGYTQ 397

Query: 310 NGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVF 369
           NGL  +AI +F+ M++ +E +PN  T   IL A + +GAL  G  +H  V        ++
Sbjct: 398 NGLTEDAISLFREMQK-SEFSPNPVTITCILSACAQLGALSLGKWVHDLVRSTDFESSIY 456

Query: 370 VATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEG 429
           V+T L+ MY KCG I +A  LF  + + + V WN +IS +G+HGQG +ALN F +ML+ G
Sbjct: 457 VSTALIGMYAKCGSIAEARRLFDLMTKKNEVTWNTMISGYGLHGQGQEALNIFYEMLNSG 516

Query: 430 VRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMA 489
           + P  +TF+ +L ACSH+GLV EG   F+ M   +G +P +KHY CMVD+ GRAGHL  A
Sbjct: 517 ITPTPVTFLCVLYACSHAGLVKEGDEIFNSMIHRYGFEPSVKHYACMVDILGRAGHLQRA 576

Query: 490 HNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANV 549
             FI+ M + P +S+W  LLGACRIH +  L    S++LFE+D +NVGY+VL+SNI++  
Sbjct: 577 LQFIEAMSIEPGSSVWETLLGACRIHKDTNLARTVSEKLFELDPDNVGYHVLLSNIHSAD 636

Query: 550 GKWEGVDEVRSLARDRGLKKTPGWSSIEVNNKVDIFYTGNRTHPKYEKIYDELRNLTAKM 609
             +     VR  A+ R L K PG++ IE+     +F +G+++HP+ ++IY++L  L  KM
Sbjct: 637 RNYPQAATVRQTAKKRKLAKAPGYTLIEIGETPHVFTSGDQSHPQVKEIYEKLEKLEGKM 696

Query: 610 KSLGYVPDKSFVLQDVEEDEKEHILTSHSERLAIAFGIISSPPKSPIQIFKNLRVCGDCH 669
           +  GY P+    L DVEE+E+E ++  HSERLAIAFG+I++ P + I+I KNLRVC DCH
Sbjct: 697 REAGYQPETELALHDVEEEERELMVKVHSERLAIAFGLIATEPGTEIRIIKNLRVCLDCH 756

Query: 670 NWTKFISQITEREIIVRDSNRFHHFKDGICSCGDYW 705
             TK IS+ITER I+VRD+NRFHHFKDG+CSCGDYW
Sbjct: 757 TVTKLISKITERVIVVRDANRFHHFKDGVCSCGDYW 792

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SMZ2|PP347_ARATH Pentatricopeptide repeat-containing protein At4g33170 OS=Arabidopsis thaliana GN=PCMP-H53 PE=3 SV=1

 Score =  533 bits (1374), Expect = e-150,   Method: Compositional matrix adjust.
 Identities = 273/708 (38%), Positives = 426/708 (60%), Gaps = 8/708 (1%)

Query: 2   ISVYVRCGRLSEAVDCFYQFTLTSGLRPDFYTFPPVLKAC---RNLVDGKKIHCSVLKLG 58
           +S Y+  G+ S  + CF    + S +  D  TF  +L       +L  G+++HC  LKLG
Sbjct: 287 LSEYLHSGQYSALLKCFADM-VESDVECDQVTFILMLATAVKVDSLALGQQVHCMALKLG 345

Query: 59  FEWDVFVAASLLHMYCRFGLANVARKLFDDMPVRDSGSWNAMISGYCQSGNAVEALDILD 118
            +  + V+ SL++MYC+      AR +FD+M  RD  SWN++I+G  Q+G  VEA+ +  
Sbjct: 346 LDLMLTVSNSLINMYCKLRKFGFARTVFDNMSERDLISWNSVIAGIAQNGLEVEAVCLFM 405

Query: 119 EMRLEGVSMDPITVASILPVCARSDNILS-GLLIHLYIVKHGLEFNLFVSNNLINMYAKF 177
           ++   G+  D  T+ S+L   +     LS    +H++ +K     + FVS  LI+ Y++ 
Sbjct: 406 QLLRCGLKPDQYTMTSVLKAASSLPEGLSLSKQVHVHAIKINNVSDSFVSTALIDAYSRN 465

Query: 178 GMMRHALRVFDQMMERDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLT 237
             M+ A  +F++    D+V+WN+++A Y QS+D       F  M + G + D  TL ++ 
Sbjct: 466 RCMKEAEILFERH-NFDLVAWNAMMAGYTQSHDGHKTLKLFALMHKQGERSDDFTLATVF 524

Query: 238 SIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDV 297
                L      + VH + ++ G+ + D+ + + ++DMY K G +++A   F+ +PV D 
Sbjct: 525 KTCGFLFAINQGKQVHAYAIKSGYDL-DLWVSSGILDMYVKCGDMSAAQFAFDSIPVPDD 583

Query: 298 ISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHA 357
           ++W T+I+G  +NG    A  VF  M     + P++ T  ++  A S + AL QG +IHA
Sbjct: 584 VAWTTMISGCIENGEEERAFHVFSQMRLMG-VLPDEFTIATLAKASSCLTALEQGRQIHA 642

Query: 358 RVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDK 417
             +K     D FV T LVDMY KCG IDDA  LF ++   +   WNA++     HG+G +
Sbjct: 643 NALKLNCTNDPFVGTSLVDMYAKCGSIDDAYCLFKRIEMMNITAWNAMLVGLAQHGEGKE 702

Query: 418 ALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMV 477
            L  F+QM   G++PD +TF+ +L+ACSHSGLVSE  ++   M  ++GIKP ++HY C+ 
Sbjct: 703 TLQLFKQMKSLGIKPDKVTFIGVLSACSHSGLVSEAYKHMRSMHGDYGIKPEIEHYSCLA 762

Query: 478 DLFGRAGHLGMAHNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVG 537
           D  GRAG +  A N I++M +   AS++  LL ACR+ G+ E G   + +L E++  +  
Sbjct: 763 DALGRAGLVKQAENLIESMSMEASASMYRTLLAACRVQGDTETGKRVATKLLELEPLDSS 822

Query: 538 YYVLMSNIYANVGKWEGVDEVRSLARDRGLKKTPGWSSIEVNNKVDIFYTGNRTHPKYEK 597
            YVL+SN+YA   KW+ +   R++ +   +KK PG+S IEV NK+ IF   +R++ + E 
Sbjct: 823 AYVLLSNMYAAASKWDEMKLARTMMKGHKVKKDPGFSWIEVKNKIHIFVVDDRSNRQTEL 882

Query: 598 IYDELRNLTAKMKSLGYVPDKSFVLQDVEEDEKEHILTSHSERLAIAFGIISSPPKSPIQ 657
           IY +++++   +K  GYVP+  F L DVEE+EKE  L  HSE+LA+AFG++S+PP +PI+
Sbjct: 883 IYRKVKDMIRDIKQEGYVPETDFTLVDVEEEEKERALYYHSEKLAVAFGLLSTPPSTPIR 942

Query: 658 IFKNLRVCGDCHNWTKFISQITEREIIVRDSNRFHHFKDGICSCGDYW 705
           + KNLRVCGDCHN  K+I+++  REI++RD+NRFH FKDGICSCGDYW
Sbjct: 943 VIKNLRVCGDCHNAMKYIAKVYNREIVLRDANRFHRFKDGICSCGDYW 990

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LW32|PP258_ARATH Pentatricopeptide repeat-containing protein At3g26782, mitochondrial OS=Arabidopsis thaliana GN=PCMP-H34 PE=2 SV=1

 Score =  530 bits (1366), Expect = e-149,   Method: Compositional matrix adjust.
 Identities = 270/621 (43%), Positives = 398/621 (64%), Gaps = 9/621 (1%)

Query: 93  DSGSWNAMISGYCQSGNAVEALDILDEMRLEGVSMDPITVASILPVCARSDNILSGLLIH 152
           D  SWN++I+   +SG++ EAL     MR   +     +    +  C+   +I SG   H
Sbjct: 40  DVFSWNSVIADLARSGDSAEALLAFSSMRKLSLYPTRSSFPCAIKACSSLFDIFSGKQTH 99

Query: 153 LYIVKHGLEFNLFVSNNLINMYAKFGMMRHALRVFDQMMERDVVSWNSIIAAYEQSNDPI 212
                 G + ++FVS+ LI MY+  G +  A +VFD++ +R++VSW S+I  Y+ + + +
Sbjct: 100 QQAFVFGYQSDIFVSSALIVMYSTCGKLEDARKVFDEIPKRNIVSWTSMIRGYDLNGNAL 159

Query: 213 TAHGFFTTM------QQAGIQPDLLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDV 266
            A   F  +          +  D + LVS+ S  +++     + S+H F+++RG F   V
Sbjct: 160 DAVSLFKDLLVDENDDDDAMFLDSMGLVSVISACSRVPAKGLTESIHSFVIKRG-FDRGV 218

Query: 267 IIGNAVVDMYAKLGIINSACA--VFEGLPVKDVISWNTLITGYAQNGLASEAIEVFQMME 324
            +GN ++D YAK G    A A  +F+ +  KD +S+N++++ YAQ+G+++EA EVF+ + 
Sbjct: 219 SVGNTLLDAYAKGGEGGVAVARKIFDQIVDKDRVSYNSIMSVYAQSGMSNEAFEVFRRLV 278

Query: 325 ECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRI 384
           +   +  N  T  ++L A SH GALR G  IH +VI+  L  DV V T ++DMY KCGR+
Sbjct: 279 KNKVVTFNAITLSTVLLAVSHSGALRIGKCIHDQVIRMGLEDDVIVGTSIIDMYCKCGRV 338

Query: 385 DDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTAC 444
           + A   F ++   +   W A+I+ +G+HG   KAL  F  M+D GVRP++ITFVS+L AC
Sbjct: 339 ETARKAFDRMKNKNVRSWTAMIAGYGMHGHAAKALELFPAMIDSGVRPNYITFVSVLAAC 398

Query: 445 SHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNMPVRPDASI 504
           SH+GL  EG R+F+ M+  FG++P L+HYGCMVDL GRAG L  A++ IQ M ++PD+ I
Sbjct: 399 SHAGLHVEGWRWFNAMKGRFGVEPGLEHYGCMVDLLGRAGFLQKAYDLIQRMKMKPDSII 458

Query: 505 WGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARD 564
           W +LL ACRIH N+EL  ++  RLFE+DS N GYY+L+S+IYA+ G+W+ V+ VR + ++
Sbjct: 459 WSSLLAACRIHKNVELAEISVARLFELDSSNCGYYMLLSHIYADAGRWKDVERVRMIMKN 518

Query: 565 RGLKKTPGWSSIEVNNKVDIFYTGNRTHPKYEKIYDELRNLTAKMKSLGYVPDKSFVLQD 624
           RGL K PG+S +E+N +V +F  G+  HP+ EKIY+ L  L  K+   GYV + S V  D
Sbjct: 519 RGLVKPPGFSLLELNGEVHVFLIGDEEHPQREKIYEFLAELNRKLLEAGYVSNTSSVCHD 578

Query: 625 VEEDEKEHILTSHSERLAIAFGIISSPPKSPIQIFKNLRVCGDCHNWTKFISQITEREII 684
           V+E+EKE  L  HSE+LAIAFGI+++ P S + + KNLRVC DCHN  K IS+I +RE +
Sbjct: 579 VDEEEKEMTLRVHSEKLAIAFGIMNTVPGSTVNVVKNLRVCSDCHNVIKLISKIVDREFV 638

Query: 685 VRDSNRFHHFKDGICSCGDYW 705
           VRD+ RFHHFKDG CSCGDYW
Sbjct: 639 VRDAKRFHHFKDGGCSCGDYW 659

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LFL5|PP390_ARATH Pentatricopeptide repeat-containing protein At5g16860 OS=Arabidopsis thaliana GN=PCMP-H92 PE=2 SV=1

 Score =  530 bits (1366), Expect = e-149,   Method: Compositional matrix adjust.
 Identities = 287/743 (38%), Positives = 430/743 (57%), Gaps = 51/743 (6%)

Query: 14  AVDCFYQFTLTSGLR--PDFYTFPPVLKACRNLVD---GKKIHCSVLKLGFEWDVFVAAS 68
           A  C Y F L   L   PD YTFP V KAC  +     G+  H   L  GF  +VFV  +
Sbjct: 108 ANKCLYLFGLMHSLSWTPDNYTFPFVFKACGEISSVRCGESAHALSLVTGFISNVFVGNA 167

Query: 69  LLHMYCRFGLANVARKLFDDMPVRDSGSWNAMISGYCQSGNAVEALDILDEMRLE-GVSM 127
           L+ MY R    + ARK+FD+M V D  SWN++I  Y + G    AL++   M  E G   
Sbjct: 168 LVAMYSRCRSLSDARKVFDEMSVWDVVSWNSIIESYAKLGKPKVALEMFSRMTNEFGCRP 227

Query: 128 DPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGMMRHALRVF 187
           D IT+ ++LP CA       G  +H + V   +  N+FV N L++MYAK GMM  A  VF
Sbjct: 228 DNITLVNVLPPCASLGTHSLGKQLHCFAVTSEMIQNMFVGNCLVDMYAKCGMMDEANTVF 287

Query: 188 DQMMERDVVSWNSIIAAYEQSNDPITAHGFFTTMQQ------------------------ 223
             M  +DVVSWN+++A Y Q      A   F  MQ+                        
Sbjct: 288 SNMSVKDVVSWNAMVAGYSQIGRFEDAVRLFEKMQEEKIKMDVVTWSAAISGYAQRGLGY 347

Query: 224 -----------AGIQPDLLTLVSLTSIVAQLNDCRNSRSVHGFI------MRRGWFMEDV 266
                      +GI+P+ +TL+S+ S  A +    + + +H +       +R+    ++ 
Sbjct: 348 EALGVCRQMLSSGIKPNEVTLISVLSGCASVGALMHGKEIHCYAIKYPIDLRKNGHGDEN 407

Query: 267 IIGNAVVDMYAKLGIINSACAVFEGLPVK--DVISWNTLITGYAQNGLASEAIEVF-QMM 323
           ++ N ++DMYAK   +++A A+F+ L  K  DV++W  +I GY+Q+G A++A+E+  +M 
Sbjct: 408 MVINQLIDMYAKCKKVDTARAMFDSLSPKERDVVTWTVMIGGYSQHGDANKALELLSEMF 467

Query: 324 EECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNCL-CFDVFVATCLVDMYGKCG 382
           EE  +  PN  T    L A + + ALR G +IHA  ++N      +FV+ CL+DMY KCG
Sbjct: 468 EEDCQTRPNAFTISCALVACASLAALRIGKQIHAYALRNQQNAVPLFVSNCLIDMYAKCG 527

Query: 383 RIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLT 442
            I DA  +F  +   + V W ++++ +G+HG G++AL  F +M   G + D +T + +L 
Sbjct: 528 SISDARLVFDNMMAKNEVTWTSLMTGYGMHGYGEEALGIFDEMRRIGFKLDGVTLLVVLY 587

Query: 443 ACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNMPVRPDA 502
           ACSHSG++ +G  YF+ M+  FG+ P  +HY C+VDL GRAG L  A   I+ MP+ P  
Sbjct: 588 ACSHSGMIDQGMEYFNRMKTVFGVSPGPEHYACLVDLLGRAGRLNAALRLIEEMPMEPPP 647

Query: 503 SIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLA 562
            +W A L  CRIHG +ELG  A++++ E+ S + G Y L+SN+YAN G+W+ V  +RSL 
Sbjct: 648 VVWVAFLSCCRIHGKVELGEYAAEKITELASNHDGSYTLLSNLYANAGRWKDVTRIRSLM 707

Query: 563 RDRGLKKTPGWSSIEVNNKVDIFYTGNRTHPKYEKIYDELRNLTAKMKSLGYVPDKSFVL 622
           R +G+KK PG S +E       F+ G++THP  ++IY  L +   ++K +GYVP+  F L
Sbjct: 708 RHKGVKKRPGCSWVEGIKGTTTFFVGDKTHPHAKEIYQVLLDHMQRIKDIGYVPETGFAL 767

Query: 623 QDVEEDEKEHILTSHSERLAIAFGIISSPPKSPIQIFKNLRVCGDCHNWTKFISQITERE 682
            DV+++EK+ +L  HSE+LA+A+GI+++P  + I+I KNLRVCGDCH    ++S+I + +
Sbjct: 768 HDVDDEEKDDLLFEHSEKLALAYGILTTPQGAAIRITKNLRVCGDCHTAFTYMSRIIDHD 827

Query: 683 IIVRDSNRFHHFKDGICSCGDYW 705
           II+RDS+RFHHFK+G CSC  YW
Sbjct: 828 IILRDSSRFHHFKNGSCSCKGYW 850

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LTV8|PP224_ARATH Pentatricopeptide repeat-containing protein At3g12770 OS=Arabidopsis thaliana GN=PCMP-H43 PE=2 SV=1

 Score =  529 bits (1363), Expect = e-149,   Method: Compositional matrix adjust.
 Identities = 262/684 (38%), Positives = 428/684 (62%), Gaps = 8/684 (1%)

Query: 25  SGLRPDFYTFPPVLKACRNLVDGKKIHCSVLKLGFEWDVFVAASLLHMYCRFGLANVARK 84
           SG+  D + +  ++ +  +    K+IH  +L LG ++  F+   L+H    FG    AR+
Sbjct: 16  SGIHSDSF-YASLIDSATHKAQLKQIHARLLVLGLQFSGFLITKLIHASSSFGDITFARQ 74

Query: 85  LFDDMPVRDSGSWNAMISGYCQSGNAVEALDILDEMRLEGVSMDPITVASILPVCARSDN 144
           +FDD+P      WNA+I GY ++ +  +AL +   M+L  VS D  T   +L  C+   +
Sbjct: 75  VFDDLPRPQIFPWNAIIRGYSRNNHFQDALLMYSNMQLARVSPDSFTFPHLLKACSGLSH 134

Query: 145 ILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGMMRHALRVFD--QMMERDVVSWNSII 202
           +  G  +H  + + G + ++FV N LI +YAK   +  A  VF+   + ER +VSW +I+
Sbjct: 135 LQMGRFVHAQVFRLGFDADVFVQNGLIALYAKCRRLGSARTVFEGLPLPERTIVSWTAIV 194

Query: 203 AAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWF 262
           +AY Q+ +P+ A   F+ M++  ++PD + LVS+ +    L D +  RS+H  +++ G  
Sbjct: 195 SAYAQNGEPMEALEIFSQMRKMDVKPDWVALVSVLNAFTCLQDLKQGRSIHASVVKMGLE 254

Query: 263 ME-DVIIGNAVVDMYAKLGIINSACAVFEGLPVKDVISWNTLITGYAQNGLASEAIEVFQ 321
           +E D++I  ++  MYAK G + +A  +F+ +   ++I WN +I+GYA+NG A EAI++F 
Sbjct: 255 IEPDLLI--SLNTMYAKCGQVATAKILFDKMKSPNLILWNAMISGYAKNGYAREAIDMFH 312

Query: 322 MMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKC 381
            M    ++ P+  +  S + A + VG+L Q   ++  V ++    DVF+++ L+DM+ KC
Sbjct: 313 EMIN-KDVRPDTISITSAISACAQVGSLEQARSMYEYVGRSDYRDDVFISSALIDMFAKC 371

Query: 382 GRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLL 441
           G ++ A  +F +      V W+A+I  +G+HG+  +A++ +R M   GV P+ +TF+ LL
Sbjct: 372 GSVEGARLVFDRTLDRDVVVWSAMIVGYGLHGRAREAISLYRAMERGGVHPNDVTFLGLL 431

Query: 442 TACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNMPVRPD 501
            AC+HSG+V EG  +F+ M +   I P  +HY C++DL GRAGHL  A+  I+ MPV+P 
Sbjct: 432 MACNHSGMVREGWWFFNRMADH-KINPQQQHYACVIDLLGRAGHLDQAYEVIKCMPVQPG 490

Query: 502 ASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSL 561
            ++WGALL AC+ H ++ELG  A+ +LF +D  N G+YV +SN+YA    W+ V EVR  
Sbjct: 491 VTVWGALLSACKKHRHVELGEYAAQQLFSIDPSNTGHYVQLSNLYAAARLWDRVAEVRVR 550

Query: 562 ARDRGLKKTPGWSSIEVNNKVDIFYTGNRTHPKYEKIYDELRNLTAKMKSLGYVPDKSFV 621
            +++GL K  G S +EV  +++ F  G+++HP+YE+I  ++  + +++K  G+V +K   
Sbjct: 551 MKEKGLNKDVGCSWVEVRGRLEAFRVGDKSHPRYEEIERQVEWIESRLKEGGFVANKDAS 610

Query: 622 LQDVEEDEKEHILTSHSERLAIAFGIISSPPKSPIQIFKNLRVCGDCHNWTKFISQITER 681
           L D+ ++E E  L SHSER+AIA+G+IS+P  +P++I KNLR C +CH  TK IS++ +R
Sbjct: 611 LHDLNDEEAEETLCSHSERIAIAYGLISTPQGTPLRITKNLRACVNCHAATKLISKLVDR 670

Query: 682 EIIVRDSNRFHHFKDGICSCGDYW 705
           EI+VRD+NRFHHFKDG+CSCGDYW
Sbjct: 671 EIVVRDTNRFHHFKDGVCSCGDYW 694

Arabidopsis thaliana (taxid: 3702)

>sp|Q9M9E2|PPR45_ARATH Pentatricopeptide repeat-containing protein At1g15510, chloroplastic OS=Arabidopsis thaliana GN=PCMP-H73 PE=2 SV=1

 Score =  526 bits (1356), Expect = e-148,   Method: Compositional matrix adjust.
 Identities = 277/708 (39%), Positives = 414/708 (58%), Gaps = 12/708 (1%)

Query: 1   MISVYVRCGRLSEAVDCFYQFTLTSGLRPDFYTFPPVLKACRNLVD---GKKIHCSVLKL 57
           ++  Y + G   EA+  +++     G++PD YTFP VL+ C  + D   GK++H  V++ 
Sbjct: 166 LVGGYAKQGYFDEAMCLYHRMLWVGGVKPDVYTFPCVLRTCGGIPDLARGKEVHVHVVRY 225

Query: 58  GFEWDVFVAASLLHMYCRFGLANVARKLFDDMPVRDSGSWNAMISGYCQSGNAVEALDIL 117
           G+E D+ V  +L+ MY + G    AR LFD MP RD  SWNAMISGY ++G   E L++ 
Sbjct: 226 GYELDIDVVNALITMYVKCGDVKSARLLFDRMPRRDIISWNAMISGYFENGMCHEGLELF 285

Query: 118 DEMRLEGVSMDP--ITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYA 175
             MR  G+S+DP  +T+ S++  C    +   G  IH Y++  G   ++ V N+L  MY 
Sbjct: 286 FAMR--GLSVDPDLMTLTSVISACELLGDRRLGRDIHAYVITTGFAVDISVCNSLTQMYL 343

Query: 176 KFGMMRHALRVFDQMMERDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVS 235
             G  R A ++F +M  +D+VSW ++I+ YE +  P  A   +  M Q  ++PD +T+ +
Sbjct: 344 NAGSWREAEKLFSRMERKDIVSWTTMISGYEYNFLPDKAIDTYRMMDQDSVKPDEITVAA 403

Query: 236 LTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVK 295
           + S  A L D      +H   ++    +  VI+ N +++MY+K   I+ A  +F  +P K
Sbjct: 404 VLSACATLGDLDTGVELHKLAIK-ARLISYVIVANNLINMYSKCKCIDKALDIFHNIPRK 462

Query: 296 DVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKI 355
           +VISW ++I G   N    EA+   + M+    + PN  T  + L A + +GAL  G +I
Sbjct: 463 NVISWTSIIAGLRLNNRCFEALIFLRQMKM--TLQPNAITLTAALAACARIGALMCGKEI 520

Query: 356 HARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQG 415
           HA V++  +  D F+   L+DMY +CGR++ A S F    +     WN +++ +   GQG
Sbjct: 521 HAHVLRTGVGLDDFLPNALLDMYVRCGRMNTAWSQF-NSQKKDVTSWNILLTGYSERGQG 579

Query: 416 DKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGC 475
              +  F +M+   VRPD ITF+SLL  CS S +V +G  YF  M E++G+ P+LKHY C
Sbjct: 580 SMVVELFDRMVKSRVRPDEITFISLLCGCSKSQMVRQGLMYFSKM-EDYGVTPNLKHYAC 638

Query: 476 MVDLFGRAGHLGMAHNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSEN 535
           +VDL GRAG L  AH FIQ MPV PD ++WGALL ACRIH  ++LG +++  +FE+D ++
Sbjct: 639 VVDLLGRAGELQEAHKFIQKMPVTPDPAVWGALLNACRIHHKIDLGELSAQHIFELDKKS 698

Query: 536 VGYYVLMSNIYANVGKWEGVDEVRSLARDRGLKKTPGWSSIEVNNKVDIFYTGNRTHPKY 595
           VGYY+L+ N+YA+ GKW  V +VR + ++ GL    G S +EV  KV  F + ++ HP+ 
Sbjct: 699 VGYYILLCNLYADCGKWREVAKVRRMMKENGLTVDAGCSWVEVKGKVHAFLSDDKYHPQT 758

Query: 596 EKIYDELRNLTAKMKSLGYVPDKSFVLQDVEEDEKEHILTSHSERLAIAFGIISSPPKSP 655
           ++I   L     KM  +G          D  E  ++ I   HSER AIAFG+I++ P  P
Sbjct: 759 KEINTVLEGFYEKMSEVGLTKISESSSMDETEISRDEIFCGHSERKAIAFGLINTVPGMP 818

Query: 656 IQIFKNLRVCGDCHNWTKFISQITEREIIVRDSNRFHHFKDGICSCGD 703
           I + KNL +C +CH+  KFIS+   REI VRD+  FHHFKDG CSCGD
Sbjct: 819 IWVTKNLSMCENCHDTVKFISKTVRREISVRDAEHFHHFKDGECSCGD 866

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	705
359475368	891	PREDICTED: pentatricopeptide repeat-cont	0.998	0.790	0.770	0.0
147795292	891	hypothetical protein VITISV_001772 [Viti	0.998	0.790	0.765	0.0
359475558	848	PREDICTED: pentatricopeptide repeat-cont	0.998	0.830	0.763	0.0
124360536	1083	Tetratricopeptide-like helical [Medicago	0.995	0.648	0.702	0.0
357509307	1092	Pentatricopeptide repeat-containing prot	0.990	0.639	0.701	0.0
356569698	824	PREDICTED: pentatricopeptide repeat-cont	0.980	0.838	0.707	0.0
449439005	816	PREDICTED: pentatricopeptide repeat-cont	0.981	0.848	0.682	0.0
297798510	824	EMB2758 [Arabidopsis lyrata subsp. lyrat	0.994	0.850	0.650	0.0
18418348	823	pentatricopeptide repeat-containing prot	0.994	0.851	0.648	0.0
3297823	844	putative protein [Arabidopsis thaliana]	0.913	0.763	0.618	0.0

>gi|359475368|ref|XP_003631669.1| PREDICTED: pentatricopeptide repeat-containing protein At4g33990-like [Vitis vinifera]

 Score = 1155 bits (2988), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 543/705 (77%), Positives = 617/705 (87%), Gaps = 1/705 (0%)

Query: 1   MISVYVRCGRLSEAVDCFYQFTLTSGLRPDFYTFPPVLKACRNLVDGKKIHCSVLKLGFE 60
           MIS YV  G   EA+ CFYQ  L S +RPDFYTFPPVLKAC  LVDG+KIHC   KLGF+
Sbjct: 188 MISAYVHNGHFHEAIGCFYQLLLVSEIRPDFYTFPPVLKACGTLVDGRKIHCWAFKLGFQ 247

Query: 61  WDVFVAASLLHMYCRFGLANVARKLFDDMPVRDSGSWNAMISGYCQSGNAVEALDILDEM 120
           W+VFVAASL+HMY RFG   +AR LFDDMP RD GSWNAMISG  Q+GNA +ALD+LDEM
Sbjct: 248 WNVFVAASLIHMYSRFGFTGIARSLFDDMPFRDMGSWNAMISGLIQNGNAAQALDVLDEM 307

Query: 121 RLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGMM 180
           RLEG+ M+ +TV SILPVC +  +I + +LIHLY++KHGLEF+LFVSN LINMYAKFG +
Sbjct: 308 RLEGIKMNFVTVVSILPVCPQLGDISTAMLIHLYVIKHGLEFDLFVSNALINMYAKFGNL 367

Query: 181 RHALRVFDQMMERDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIV 240
             A + F QM   DVVSWNSIIAAYEQ++DP+TAHGFF  MQ  G QPDLLTLVSL SIV
Sbjct: 368 EDARKAFQQMFITDVVSWNSIIAAYEQNDDPVTAHGFFVKMQLNGFQPDLLTLVSLASIV 427

Query: 241 AQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDVISW 300
           AQ  DC+NSRSVHGFIMRRGW MEDV+IGNAVVDMYAKLG+++SA  VFE +PVKDVISW
Sbjct: 428 AQSRDCKNSRSVHGFIMRRGWLMEDVVIGNAVVDMYAKLGLLDSAHKVFEIIPVKDVISW 487

Query: 301 NTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVI 360
           NTLITGYAQNGLASEAIEV++MMEEC EI PNQGT+VSILPAY+HVGAL+QG+KIH RVI
Sbjct: 488 NTLITGYAQNGLASEAIEVYKMMEECKEIIPNQGTWVSILPAYAHVGALQQGMKIHGRVI 547

Query: 361 KNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALN 420
           K  L  DVFVATCL+D+YGKCGR+ DAMSLFYQVP+ SSV WNAIISCHGIHG  +K L 
Sbjct: 548 KTNLHLDVFVATCLIDVYGKCGRLVDAMSLFYQVPQESSVTWNAIISCHGIHGHAEKTLK 607

Query: 421 FFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLF 480
            F +MLDEGV+PDH+TFVSLL+ACSHSG V EG+  F +MQ E+GIKP LKHYGCMVDL 
Sbjct: 608 LFGEMLDEGVKPDHVTFVSLLSACSHSGFVEEGKWCFRLMQ-EYGIKPSLKHYGCMVDLL 666

Query: 481 GRAGHLGMAHNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYV 540
           GRAG+L MA++FI++MP++PDASIWGALLGACRIHGN+ELG  ASDRLFEVDS+NVGYYV
Sbjct: 667 GRAGYLEMAYDFIKDMPLQPDASIWGALLGACRIHGNIELGKFASDRLFEVDSKNVGYYV 726

Query: 541 LMSNIYANVGKWEGVDEVRSLARDRGLKKTPGWSSIEVNNKVDIFYTGNRTHPKYEKIYD 600
           L+SNIYANVGKWEGVD+VRSLAR+RGLKKTPGWS+IEVN KVD+FYTGN++HPK ++IY+
Sbjct: 727 LLSNIYANVGKWEGVDKVRSLARERGLKKTPGWSTIEVNRKVDVFYTGNQSHPKCKEIYE 786

Query: 601 ELRNLTAKMKSLGYVPDKSFVLQDVEEDEKEHILTSHSERLAIAFGIISSPPKSPIQIFK 660
           ELR LTAKMKSLGY+PD SFVLQDVEEDEKEHILTSHSERLAIAFGIIS+PPKSPI+IFK
Sbjct: 787 ELRVLTAKMKSLGYIPDYSFVLQDVEEDEKEHILTSHSERLAIAFGIISTPPKSPIRIFK 846

Query: 661 NLRVCGDCHNWTKFISQITEREIIVRDSNRFHHFKDGICSCGDYW 705
           NLRVCGDCHN TKFIS+IT+REI+VRDSNRFHHFKDGICSCGDYW
Sbjct: 847 NLRVCGDCHNATKFISRITQREIVVRDSNRFHHFKDGICSCGDYW 891

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147795292|emb|CAN64990.1| hypothetical protein VITISV_001772 [Vitis vinifera]

 Score = 1149 bits (2971), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 540/705 (76%), Positives = 615/705 (87%), Gaps = 1/705 (0%)

Query: 1   MISVYVRCGRLSEAVDCFYQFTLTSGLRPDFYTFPPVLKACRNLVDGKKIHCSVLKLGFE 60
           MIS YV  G   EA+ CFYQ  L S +RPDFYTFPPVLKAC  LVDG++IHC   KLGF+
Sbjct: 188 MISAYVHNGHFHEAIGCFYQLLLVSEIRPDFYTFPPVLKACGTLVDGRRIHCWAFKLGFQ 247

Query: 61  WDVFVAASLLHMYCRFGLANVARKLFDDMPVRDSGSWNAMISGYCQSGNAVEALDILDEM 120
           W+VFVAASL+HMY RFG   +AR LFDDMP RD GSWNAMISG  Q+GNA +ALD+LDEM
Sbjct: 248 WNVFVAASLIHMYSRFGFTGIARSLFDDMPFRDMGSWNAMISGLIQNGNAAQALDVLDEM 307

Query: 121 RLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGMM 180
           RLEG+ M+ +TV SILPVC +  +I + +LIHLY++KHGLEF+LFVSN LINMYAKFG +
Sbjct: 308 RLEGIKMNFVTVVSILPVCPQLGDISTAMLIHLYVIKHGLEFDLFVSNALINMYAKFGNL 367

Query: 181 RHALRVFDQMMERDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIV 240
             A + F QM   DVVSWNSIIAAYEQ++DP+TAHGFF  MQ  G QPDLLTLVSL SIV
Sbjct: 368 EDARKAFQQMFITDVVSWNSIIAAYEQNDDPVTAHGFFVKMQLNGFQPDLLTLVSLASIV 427

Query: 241 AQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDVISW 300
           AQ  DC+NSRSVHGFIMRRGW MEDV+IGNAVVDMYAKLG+++SA  VFE + VKDVISW
Sbjct: 428 AQSRDCKNSRSVHGFIMRRGWLMEDVVIGNAVVDMYAKLGLLDSAHKVFEIILVKDVISW 487

Query: 301 NTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVI 360
           NTLITGYAQNGLASEAIEV++MMEEC EI PNQGT+VSILPAY+HVGAL+QG++IH RVI
Sbjct: 488 NTLITGYAQNGLASEAIEVYKMMEECKEIIPNQGTWVSILPAYAHVGALQQGMRIHGRVI 547

Query: 361 KNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALN 420
           K  L  DVFVATCL+D+YGKCGR+ DAMSLFYQVP+ SSV WNAIISCHGIHG  +K L 
Sbjct: 548 KTNLHLDVFVATCLIDVYGKCGRLVDAMSLFYQVPQESSVTWNAIISCHGIHGHAEKTLK 607

Query: 421 FFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLF 480
            F +MLDEGV+PDH+TFVSLL+ACSHSG V EG+  F +MQ E+GIKP LKHYGCMVDL 
Sbjct: 608 LFGEMLDEGVKPDHVTFVSLLSACSHSGFVEEGKWCFRLMQ-EYGIKPSLKHYGCMVDLL 666

Query: 481 GRAGHLGMAHNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYV 540
           GRAG+L MA+ FI++MP++PDASIWGALLGACRIHGN+ELG  ASDRLFEVDS+NVGYYV
Sbjct: 667 GRAGYLEMAYGFIKDMPLQPDASIWGALLGACRIHGNIELGKFASDRLFEVDSKNVGYYV 726

Query: 541 LMSNIYANVGKWEGVDEVRSLARDRGLKKTPGWSSIEVNNKVDIFYTGNRTHPKYEKIYD 600
           L+SNIYANVGKWEGVD+VRSLAR+RGLKKTPGWS+IEVN KVD+FYTGN++HPK ++IY+
Sbjct: 727 LLSNIYANVGKWEGVDKVRSLARERGLKKTPGWSTIEVNRKVDVFYTGNQSHPKCKEIYE 786

Query: 601 ELRNLTAKMKSLGYVPDKSFVLQDVEEDEKEHILTSHSERLAIAFGIISSPPKSPIQIFK 660
           ELR LTAKMKSLGY+PD SFVLQDVEEDEKEHILTSHSERLAIAFGIIS+PPKSPI+IFK
Sbjct: 787 ELRVLTAKMKSLGYIPDYSFVLQDVEEDEKEHILTSHSERLAIAFGIISTPPKSPIRIFK 846

Query: 661 NLRVCGDCHNWTKFISQITEREIIVRDSNRFHHFKDGICSCGDYW 705
           NLRVCGDCHN TKFIS+IT+REI+VRDSNRFHHFKDGICSCGDYW
Sbjct: 847 NLRVCGDCHNATKFISRITQREIVVRDSNRFHHFKDGICSCGDYW 891

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359475558|ref|XP_003631701.1| PREDICTED: pentatricopeptide repeat-containing protein At4g33990-like [Vitis vinifera]

 Score = 1145 bits (2962), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 538/705 (76%), Positives = 613/705 (86%), Gaps = 1/705 (0%)

Query: 1   MISVYVRCGRLSEAVDCFYQFTLTSGLRPDFYTFPPVLKACRNLVDGKKIHCSVLKLGFE 60
           MIS YVR G   EA+DCFYQ  L +  + DFYTFPPVLKAC+ LVDG+KIHC V KLGF+
Sbjct: 145 MISAYVRNGHFREAIDCFYQLLLVTKFQADFYTFPPVLKACQTLVDGRKIHCWVFKLGFQ 204

Query: 61  WDVFVAASLLHMYCRFGLANVARKLFDDMPVRDSGSWNAMISGYCQSGNAVEALDILDEM 120
           WDVFVAASL+HMY RFG   +AR LFDDMP RD GSWNAMISG  Q+GNA +ALD+LDEM
Sbjct: 205 WDVFVAASLIHMYSRFGFVGIARSLFDDMPFRDMGSWNAMISGLIQNGNAAQALDVLDEM 264

Query: 121 RLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGMM 180
           RLEG++MD +TVASILPVCA+  +I +  LIHLY++KHGLEF LFVSN LINMYAKFG +
Sbjct: 265 RLEGINMDSVTVASILPVCAQLGDISTATLIHLYVIKHGLEFELFVSNALINMYAKFGNL 324

Query: 181 RHALRVFDQMMERDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIV 240
             A +VF QM  RDVVSWNSIIAAYEQ++DP+TA GFF  MQ  G++PDLLTLVSL SI 
Sbjct: 325 GDAQKVFQQMFLRDVVSWNSIIAAYEQNDDPVTARGFFFKMQLNGLEPDLLTLVSLASIA 384

Query: 241 AQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDVISW 300
           AQ  D +NSRSVHGFIMRRGW ME V+IGNAV+DMYAKLG+I+SA  VF  +PVKDV+SW
Sbjct: 385 AQSRDYKNSRSVHGFIMRRGWLMEAVVIGNAVMDMYAKLGVIDSAHKVFNLIPVKDVVSW 444

Query: 301 NTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVI 360
           NTLI+GY QNGLASEAIEV++MMEEC EI  NQGT+VSIL AY+HVGAL+QG++IH  +I
Sbjct: 445 NTLISGYTQNGLASEAIEVYRMMEECREIKLNQGTWVSILAAYAHVGALQQGMRIHGHLI 504

Query: 361 KNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALN 420
           K  L  DVFV TCL+D+YGKCGR+ DAM LFYQVPR SSVPWNAIISCHGIHG G+KAL 
Sbjct: 505 KTNLHLDVFVGTCLIDLYGKCGRLVDAMCLFYQVPRESSVPWNAIISCHGIHGHGEKALK 564

Query: 421 FFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLF 480
            FR+M DEGV+PDH+TF+SLL+ACSHSGLV EG+ +FH+MQ E+GIKP LKHYGCMVDL 
Sbjct: 565 LFREMQDEGVKPDHVTFISLLSACSHSGLVDEGKWFFHLMQ-EYGIKPSLKHYGCMVDLL 623

Query: 481 GRAGHLGMAHNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYV 540
           GRAG L MA++FI++MP+ PDASIWGALLGACRIHGN+ELG  ASDRLFEVDSENVGYYV
Sbjct: 624 GRAGFLEMAYDFIKDMPLHPDASIWGALLGACRIHGNIELGKFASDRLFEVDSENVGYYV 683

Query: 541 LMSNIYANVGKWEGVDEVRSLARDRGLKKTPGWSSIEVNNKVDIFYTGNRTHPKYEKIYD 600
           L+SNIYANVGKWEGVD+VRSLAR+RGLKKTPGWSSIEVN +VDIFYTGN++HPK ++IY 
Sbjct: 684 LLSNIYANVGKWEGVDKVRSLARERGLKKTPGWSSIEVNRRVDIFYTGNQSHPKCKEIYA 743

Query: 601 ELRNLTAKMKSLGYVPDKSFVLQDVEEDEKEHILTSHSERLAIAFGIISSPPKSPIQIFK 660
           ELR LTAKMKSLGY+PD SFVLQDVEEDEKEHILTSHSERLAIAFGIIS+PPKS I+IFK
Sbjct: 744 ELRILTAKMKSLGYIPDYSFVLQDVEEDEKEHILTSHSERLAIAFGIISTPPKSAIRIFK 803

Query: 661 NLRVCGDCHNWTKFISQITEREIIVRDSNRFHHFKDGICSCGDYW 705
           NLRVCGDCHN TKFIS+ITEREI+VRDS RFHHFK+GICSCGDYW
Sbjct: 804 NLRVCGDCHNATKFISRITEREIVVRDSKRFHHFKNGICSCGDYW 848

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|124360536|gb|ABN08546.1| Tetratricopeptide-like helical [Medicago truncatula]

 Score = 1065 bits (2753), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 495/705 (70%), Positives = 603/705 (85%), Gaps = 3/705 (0%)

Query: 1   MISVYVRCGRLSEAVDCFYQ-FTLTSG--LRPDFYTFPPVLKACRNLVDGKKIHCSVLKL 57
           +IS YVR G+  EA++C  Q F++  G  LRPDFYTFPP+LKAC +LVDGKK+HC V K+
Sbjct: 91  IISAYVRFGKYHEAMNCVNQLFSMCGGGHLRPDFYTFPPILKACVSLVDGKKVHCCVFKM 150

Query: 58  GFEWDVFVAASLLHMYCRFGLANVARKLFDDMPVRDSGSWNAMISGYCQSGNAVEALDIL 117
           GFE DVFVAASL+H+Y R+G+ +VA K+F DMPV+D GSWNAMISG+CQ+GNA  AL +L
Sbjct: 151 GFEDDVFVAASLVHLYSRYGVLDVAHKVFVDMPVKDVGSWNAMISGFCQNGNAAGALGVL 210

Query: 118 DEMRLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKF 177
           + M+ EGV MD ITVASILPVCA+SD++++G+LIHL+++KHGL+ ++FVSN LINMY+KF
Sbjct: 211 NRMKGEGVKMDTITVASILPVCAQSDDVINGVLIHLHVLKHGLDSDVFVSNALINMYSKF 270

Query: 178 GMMRHALRVFDQMMERDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLT 237
           G ++ A  VFDQM  RD+VSWNSIIAAYEQ+NDP TA  FF  MQ  GI+PDLLT+VSLT
Sbjct: 271 GRLQDAQMVFDQMEVRDLVSWNSIIAAYEQNNDPSTALRFFKGMQLGGIRPDLLTVVSLT 330

Query: 238 SIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDV 297
           SI +QL+D R SRS+ GF++RR W  +DV+IGNA+V+MYAKLG +N A  VF+ LP KD 
Sbjct: 331 SIFSQLSDQRISRSILGFVIRREWLDKDVVIGNALVNMYAKLGYMNCAHTVFDQLPRKDT 390

Query: 298 ISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHA 357
           ISWNTL+TGY QNGLASEAI+ + MMEEC +  PNQGT+VSI+PAYSHVGAL+QG+KIHA
Sbjct: 391 ISWNTLVTGYTQNGLASEAIDAYNMMEECRDTIPNQGTWVSIIPAYSHVGALQQGMKIHA 450

Query: 358 RVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDK 417
           ++IKN L  DVFVATCL+D+YGKCGR++DAMSLFY++PR +SVPWNAII+  GIHG+G++
Sbjct: 451 KLIKNSLYLDVFVATCLIDLYGKCGRLEDAMSLFYEIPRDTSVPWNAIIASLGIHGRGEE 510

Query: 418 ALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMV 477
           AL  F+ ML E V+ DHITFVSLL+ACSHSGLV EGQ+ F +MQ+E+GIKP LKHYGCMV
Sbjct: 511 ALQLFKDMLAERVKADHITFVSLLSACSHSGLVDEGQKCFDIMQKEYGIKPSLKHYGCMV 570

Query: 478 DLFGRAGHLGMAHNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVG 537
           DL GRAG+L  A+  ++NMP++PDASIWGALL AC+I+GN ELG +ASDRL EVDSENVG
Sbjct: 571 DLLGRAGYLEKAYELVRNMPIQPDASIWGALLSACKIYGNAELGTLASDRLLEVDSENVG 630

Query: 538 YYVLMSNIYANVGKWEGVDEVRSLARDRGLKKTPGWSSIEVNNKVDIFYTGNRTHPKYEK 597
           YYVL+SNIYAN  KWEGV +VRSLARDRGL+KTPGWSS+ V +K ++FYTGN+THPKY +
Sbjct: 631 YYVLLSNIYANTEKWEGVIKVRSLARDRGLRKTPGWSSVVVGSKAEVFYTGNQTHPKYTE 690

Query: 598 IYDELRNLTAKMKSLGYVPDKSFVLQDVEEDEKEHILTSHSERLAIAFGIISSPPKSPIQ 657
           IY EL+ L+AKMKSLGYVPD SFV QD+EEDEKE IL SHSERLAIAFGIIS+PP+SPI+
Sbjct: 691 IYKELKVLSAKMKSLGYVPDYSFVYQDIEEDEKEQILNSHSERLAIAFGIISTPPRSPIR 750

Query: 658 IFKNLRVCGDCHNWTKFISQITEREIIVRDSNRFHHFKDGICSCG 702
           IFKNLRVCGDCHN TK+IS+I+EREI+VRDSNRFHHFKDGICSC 
Sbjct: 751 IFKNLRVCGDCHNATKYISRISEREIVVRDSNRFHHFKDGICSCA 795

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357509307|ref|XP_003624942.1| Pentatricopeptide repeat-containing protein [Medicago truncatula] gi|355499957|gb|AES81160.1| Pentatricopeptide repeat-containing protein [Medicago truncatula]

 Score = 1054 bits (2726), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 492/701 (70%), Positives = 600/701 (85%), Gaps = 3/701 (0%)

Query: 1   MISVYVRCGRLSEAVDCFYQ-FTLTSG--LRPDFYTFPPVLKACRNLVDGKKIHCSVLKL 57
           +IS YVR G+  EA++C  Q F++  G  LRPDFYTFPP+LKAC +LVDGKK+HC V K+
Sbjct: 91  IISAYVRFGKYHEAMNCVNQLFSMCGGGHLRPDFYTFPPILKACVSLVDGKKVHCCVFKM 150

Query: 58  GFEWDVFVAASLLHMYCRFGLANVARKLFDDMPVRDSGSWNAMISGYCQSGNAVEALDIL 117
           GFE DVFVAASL+H+Y R+G+ +VA K+F DMPV+D GSWNAMISG+CQ+GNA  AL +L
Sbjct: 151 GFEDDVFVAASLVHLYSRYGVLDVAHKVFVDMPVKDVGSWNAMISGFCQNGNAAGALGVL 210

Query: 118 DEMRLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKF 177
           + M+ EGV MD ITVASILPVCA+SD++++G+LIHL+++KHGL+ ++FVSN LINMY+KF
Sbjct: 211 NRMKGEGVKMDTITVASILPVCAQSDDVINGVLIHLHVLKHGLDSDVFVSNALINMYSKF 270

Query: 178 GMMRHALRVFDQMMERDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLT 237
           G ++ A  VFDQM  RD+VSWNSIIAAYEQ+NDP TA  FF  MQ  GI+PDLLT+VSLT
Sbjct: 271 GRLQDAQMVFDQMEVRDLVSWNSIIAAYEQNNDPSTALRFFKGMQLGGIRPDLLTVVSLT 330

Query: 238 SIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDV 297
           SI +QL+D R SRS+ GF++RR W  +DV+IGNA+V+MYAKLG +N A  VF+ LP KD 
Sbjct: 331 SIFSQLSDQRISRSILGFVIRREWLDKDVVIGNALVNMYAKLGYMNCAHTVFDQLPRKDT 390

Query: 298 ISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHA 357
           ISWNTL+TGY QNGLASEAI+ + MMEEC +  PNQGT+VSI+PAYSHVGAL+QG+KIHA
Sbjct: 391 ISWNTLVTGYTQNGLASEAIDAYNMMEECRDTIPNQGTWVSIIPAYSHVGALQQGMKIHA 450

Query: 358 RVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDK 417
           ++IKN L  DVFVATCL+D+YGKCGR++DAMSLFY++PR +SVPWNAII+  GIHG+G++
Sbjct: 451 KLIKNSLYLDVFVATCLIDLYGKCGRLEDAMSLFYEIPRDTSVPWNAIIASLGIHGRGEE 510

Query: 418 ALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMV 477
           AL  F+ ML E V+ DHITFVSLL+ACSHSGLV EGQ+ F +MQ+E+GIKP LKHYGCMV
Sbjct: 511 ALQLFKDMLAERVKADHITFVSLLSACSHSGLVDEGQKCFDIMQKEYGIKPSLKHYGCMV 570

Query: 478 DLFGRAGHLGMAHNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVG 537
           DL GRAG+L  A+  ++NMP++PDASIWGALL AC+I+GN ELG +ASDRL EVDSENVG
Sbjct: 571 DLLGRAGYLEKAYELVRNMPIQPDASIWGALLSACKIYGNAELGTLASDRLLEVDSENVG 630

Query: 538 YYVLMSNIYANVGKWEGVDEVRSLARDRGLKKTPGWSSIEVNNKVDIFYTGNRTHPKYEK 597
           YYVL+SNIYAN  KWEGV +VRSLARDRGL+KTPGWSS+ V +K ++FYTGN+THPKY +
Sbjct: 631 YYVLLSNIYANTEKWEGVIKVRSLARDRGLRKTPGWSSVVVGSKAEVFYTGNQTHPKYTE 690

Query: 598 IYDELRNLTAKMKSLGYVPDKSFVLQDVEEDEKEHILTSHSERLAIAFGIISSPPKSPIQ 657
           IY EL+ L+AKMKSLGYVPD SFV QD+EEDEKE IL SHSERLAIAFGIIS+PP+SPI+
Sbjct: 691 IYKELKVLSAKMKSLGYVPDYSFVYQDIEEDEKEQILNSHSERLAIAFGIISTPPRSPIR 750

Query: 658 IFKNLRVCGDCHNWTKFISQITEREIIVRDSNRFHHFKDGI 698
           IFKNLRVCGDCHN TK+IS+I+EREI+VRDSNRFHHFKDGI
Sbjct: 751 IFKNLRVCGDCHNATKYISRISEREIVVRDSNRFHHFKDGI 791

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356569698|ref|XP_003553033.1| PREDICTED: pentatricopeptide repeat-containing protein At4g33990-like [Glycine max]

 Score = 1054 bits (2725), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 499/705 (70%), Positives = 594/705 (84%)

Query: 1   MISVYVRCGRLSEAVDCFYQFTLTSGLRPDFYTFPPVLKACRNLVDGKKIHCSVLKLGFE 60
           M+S YVR GR  +++DC  +    SG+RPDFYTFPPVLKAC +L DG+K+HC VLK+GFE
Sbjct: 120 MVSAYVRRGRYRDSMDCVTELLSLSGVRPDFYTFPPVLKACLSLADGEKMHCWVLKMGFE 179

Query: 61  WDVFVAASLLHMYCRFGLANVARKLFDDMPVRDSGSWNAMISGYCQSGNAVEALDILDEM 120
            DV+VAASL+H+Y RFG   VA K+F DMPVRD GSWNAMISG+CQ+GN  EAL +LD M
Sbjct: 180 HDVYVAASLIHLYSRFGAVEVAHKVFVDMPVRDVGSWNAMISGFCQNGNVAEALRVLDRM 239

Query: 121 RLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGMM 180
           + E V MD +TV+S+LP+CA+S++++ G+L+HLY++KHGLE ++FVSN LINMY+KFG +
Sbjct: 240 KTEEVKMDTVTVSSMLPICAQSNDVVGGVLVHLYVIKHGLESDVFVSNALINMYSKFGRL 299

Query: 181 RHALRVFDQMMERDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIV 240
           + A RVFD M  RD+VSWNSIIAAYEQ++DP+TA GFF  M   G++PDLLT+VSL SI 
Sbjct: 300 QDAQRVFDGMEVRDLVSWNSIIAAYEQNDDPVTALGFFKEMLFVGMRPDLLTVVSLASIF 359

Query: 241 AQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDVISW 300
            QL+D R  R+VHGF++R  W   D++IGNA+V+MYAKLG I+ A AVFE LP +DVISW
Sbjct: 360 GQLSDRRIGRAVHGFVVRCRWLEVDIVIGNALVNMYAKLGSIDCARAVFEQLPSRDVISW 419

Query: 301 NTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVI 360
           NTLITGYAQNGLASEAI+ + MMEE   I PNQGT+VSILPAYSHVGAL+QG+KIH R+I
Sbjct: 420 NTLITGYAQNGLASEAIDAYNMMEEGRTIVPNQGTWVSILPAYSHVGALQQGMKIHGRLI 479

Query: 361 KNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALN 420
           KNCL  DVFVATCL+DMYGKCGR++DAMSLFY++P+ +SVPWNAIIS  GIHG G+KAL 
Sbjct: 480 KNCLFLDVFVATCLIDMYGKCGRLEDAMSLFYEIPQETSVPWNAIISSLGIHGHGEKALQ 539

Query: 421 FFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLF 480
            F+ M  +GV+ DHITFVSLL+ACSHSGLV E Q  F  MQ+E+ IKP+LKHYGCMVDLF
Sbjct: 540 LFKDMRADGVKADHITFVSLLSACSHSGLVDEAQWCFDTMQKEYRIKPNLKHYGCMVDLF 599

Query: 481 GRAGHLGMAHNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYV 540
           GRAG+L  A+N + NMP++ DASIWG LL ACRIHGN ELG  ASDRL EVDSENVGYYV
Sbjct: 600 GRAGYLEKAYNLVSNMPIQADASIWGTLLAACRIHGNAELGTFASDRLLEVDSENVGYYV 659

Query: 541 LMSNIYANVGKWEGVDEVRSLARDRGLKKTPGWSSIEVNNKVDIFYTGNRTHPKYEKIYD 600
           L+SNIYANVGKWEG  +VRSLARDRGL+KTPGWSS+ V + V++FY GN++HP+  +IY+
Sbjct: 660 LLSNIYANVGKWEGAVKVRSLARDRGLRKTPGWSSVVVGSVVEVFYAGNQSHPQCAEIYE 719

Query: 601 ELRNLTAKMKSLGYVPDKSFVLQDVEEDEKEHILTSHSERLAIAFGIISSPPKSPIQIFK 660
           ELR L AKMKSLGYVPD SFVLQDVEEDEKE ILTSHSERLAI FGIIS+PPKSPI+IFK
Sbjct: 720 ELRVLNAKMKSLGYVPDYSFVLQDVEEDEKEEILTSHSERLAIVFGIISTPPKSPIRIFK 779

Query: 661 NLRVCGDCHNWTKFISQITEREIIVRDSNRFHHFKDGICSCGDYW 705
           NLRVCGDCHN TK+IS+ITEREIIVRDSNRFHHFKDGICSCGDYW
Sbjct: 780 NLRVCGDCHNATKYISKITEREIIVRDSNRFHHFKDGICSCGDYW 824

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449439005|ref|XP_004137278.1| PREDICTED: pentatricopeptide repeat-containing protein At4g33990-like [Cucumis sativus] gi|449476583|ref|XP_004154777.1| PREDICTED: pentatricopeptide repeat-containing protein At4g33990-like [Cucumis sativus]

 Score = 1043 bits (2697), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 481/705 (68%), Positives = 586/705 (83%)

Query: 1   MISVYVRCGRLSEAVDCFYQFTLTSGLRPDFYTFPPVLKACRNLVDGKKIHCSVLKLGFE 60
           MIS Y R G    AVDCF +F  TS L+ D YTFPPV++AC NL DG+K+HC VLKLGFE
Sbjct: 112 MISAYARIGHFHAAVDCFNEFLSTSFLQSDHYTFPPVIRACGNLDDGRKVHCLVLKLGFE 171

Query: 61  WDVFVAASLLHMYCRFGLANVARKLFDDMPVRDSGSWNAMISGYCQSGNAVEALDILDEM 120
            DV++AAS +H Y RFG  ++A  LFD+M +RD G+WNAMISG+  +G   EAL++ DEM
Sbjct: 172 CDVYIAASFIHFYSRFGFVSLACNLFDNMMIRDIGTWNAMISGFYLNGKVAEALEVFDEM 231

Query: 121 RLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGMM 180
           R + VSMD +T++S+LP+C + D+I+SG+LIH+Y +K GLEF+LFV N LINMYAKFG +
Sbjct: 232 RFKSVSMDSVTISSLLPICVQLDDIISGVLIHVYAIKLGLEFDLFVCNALINMYAKFGEL 291

Query: 181 RHALRVFDQMMERDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIV 240
           R A  +F+QM  RD+VSWNS++AA+EQ+  P+ A G +  M   G+ PDLLTLVSL S+ 
Sbjct: 292 RSAETIFNQMKVRDIVSWNSLLAAFEQNKKPVIALGVYNKMHSIGVVPDLLTLVSLASVA 351

Query: 241 AQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDVISW 300
           A+L +  +SRS+HGF+ RR WF+ D+ +GNA++DMYAKLG I+SA  VFEGLPVKDVISW
Sbjct: 352 AELGNFLSSRSIHGFVTRRCWFLHDIALGNAIIDMYAKLGFIDSARKVFEGLPVKDVISW 411

Query: 301 NTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVI 360
           N+LITGY+QNGLA+EAI+V+  M   +   PNQGT+VSIL A+S +GAL+QG+K H ++I
Sbjct: 412 NSLITGYSQNGLANEAIDVYSSMRYYSGAVPNQGTWVSILTAHSQLGALKQGMKAHGQLI 471

Query: 361 KNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALN 420
           KN L FD+FV+TCLVDMYGKCG++ DA+SLFY+VP  SSV WNAIISCHG+HG G KA+ 
Sbjct: 472 KNFLYFDIFVSTCLVDMYGKCGKLADALSLFYEVPHQSSVSWNAIISCHGLHGYGLKAVK 531

Query: 421 FFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLF 480
            F++M  EGV+PDHITFVSLL+ACSHSGLV EGQ  F +MQE +GI+P LKHYGCMVDLF
Sbjct: 532 LFKEMQSEGVKPDHITFVSLLSACSHSGLVDEGQWCFQLMQETYGIRPSLKHYGCMVDLF 591

Query: 481 GRAGHLGMAHNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYV 540
           GRAGHL  A NF++NMPVRPD S+WGALLGACRIH N+EL    SD L +V+SENVGYYV
Sbjct: 592 GRAGHLEKAFNFVKNMPVRPDVSVWGALLGACRIHENVELVRTVSDHLLKVESENVGYYV 651

Query: 541 LMSNIYANVGKWEGVDEVRSLARDRGLKKTPGWSSIEVNNKVDIFYTGNRTHPKYEKIYD 600
           L+SNIYA +G WEGVDEVRSLARDRGLKKTPGWSSIEV+ K+D+FYTGN+THPK E+IY 
Sbjct: 652 LLSNIYAKLGHWEGVDEVRSLARDRGLKKTPGWSSIEVDKKIDVFYTGNQTHPKCEEIYS 711

Query: 601 ELRNLTAKMKSLGYVPDKSFVLQDVEEDEKEHILTSHSERLAIAFGIISSPPKSPIQIFK 660
           ELRNLTAKMKS+GYVPD +FVLQDVE+DEKE+ILTSHSERLA+AFGIIS+PPK+ +QIFK
Sbjct: 712 ELRNLTAKMKSIGYVPDYNFVLQDVEDDEKENILTSHSERLAMAFGIISTPPKTTLQIFK 771

Query: 661 NLRVCGDCHNWTKFISQITEREIIVRDSNRFHHFKDGICSCGDYW 705
           NLRVCGDCHN TKFIS+ITEREIIVRDSNRFHHFKDG+CSCGDYW
Sbjct: 772 NLRVCGDCHNATKFISKITEREIIVRDSNRFHHFKDGVCSCGDYW 816

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297798510|ref|XP_002867139.1| EMB2758 [Arabidopsis lyrata subsp. lyrata] gi|297312975|gb|EFH43398.1| EMB2758 [Arabidopsis lyrata subsp. lyrata]

 Score =  989 bits (2556), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 459/706 (65%), Positives = 571/706 (80%), Gaps = 5/706 (0%)

Query: 1   MISVYVRCGRLSEAVDCFYQFTLTSGLRPDFYTFPPVLKACRNLVDGKKIHCSVLKLGFE 60
           MIS Y R G  SE + CF  F L+SGL+PD+ TFP VLKACRN+ DG KIHC  LK GF 
Sbjct: 123 MISGYGRAGYSSEVIRCFSLFMLSSGLQPDYRTFPSVLKACRNVTDGNKIHCLALKFGFM 182

Query: 61  WDVFVAASLLHMYCRFGLANVARKLFDDMPVRDSGSWNAMISGYCQSGNAVEALDILDEM 120
           WDV+VAASL+H+YCR+G    AR LFD+MP RD GSWNAMISGYCQSGNA EAL + D +
Sbjct: 183 WDVYVAASLIHLYCRYGAVVNARILFDEMPTRDMGSWNAMISGYCQSGNAKEALTLSDGL 242

Query: 121 RLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGMM 180
           R    +MD +TV S+L  C  + +   G+ IH Y +KHGLE  LFVSN LI++YA+FG +
Sbjct: 243 R----AMDSVTVVSLLSACTEAGDFNRGVTIHSYSIKHGLESELFVSNKLIDLYAEFGSL 298

Query: 181 RHALRVFDQMMERDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIV 240
           +   +VFD+M  RD++SWNSII AYE +  P+ A   F  M+ + IQPD LTL+SL SI+
Sbjct: 299 KDCQKVFDRMYVRDLISWNSIIKAYELNEQPLRAILLFQEMRLSRIQPDCLTLISLASIL 358

Query: 241 AQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDVISW 300
           +QL + R  RSV GF +R+GWF+ED+ IGNAVV MYAKLG+++SA AVF  LP KDVISW
Sbjct: 359 SQLGEIRACRSVQGFTLRKGWFLEDITIGNAVVVMYAKLGLVDSARAVFNWLPNKDVISW 418

Query: 301 NTLITGYAQNGLASEAIEVFQMMEE-CNEINPNQGTYVSILPAYSHVGALRQGIKIHARV 359
           NT+I+GYAQNG ASEAIE++ +MEE   EI+ NQGT+VS+LPA S  GALRQG+K+H R+
Sbjct: 419 NTIISGYAQNGFASEAIEMYNIMEEEGGEISANQGTWVSVLPACSQAGALRQGMKLHGRL 478

Query: 360 IKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKAL 419
           +KN L  DVFV T L DMYGKCGR+DDA+SLFYQ+PR +SVPWN +I+CHG HG G+KA+
Sbjct: 479 LKNGLYLDVFVGTSLADMYGKCGRLDDALSLFYQIPRVNSVPWNTLIACHGFHGHGEKAV 538

Query: 420 NFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDL 479
             F++MLDEGV+PDHITFV+LL+ACSHSGLV EG+  F MMQ ++GI P LKHYGCMVDL
Sbjct: 539 MLFKEMLDEGVKPDHITFVTLLSACSHSGLVDEGEWCFEMMQTDYGITPSLKHYGCMVDL 598

Query: 480 FGRAGHLGMAHNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYY 539
           +GRAG L +A NFI++MP++PDASIWGALL ACR+HGN++LG +AS+ LFEV+ E+VGY+
Sbjct: 599 YGRAGQLEIALNFIKSMPLQPDASIWGALLSACRVHGNVDLGKIASEHLFEVEPEHVGYH 658

Query: 540 VLMSNIYANVGKWEGVDEVRSLARDRGLKKTPGWSSIEVNNKVDIFYTGNRTHPKYEKIY 599
           VL+SN+YA+ GKWEGVDE+RS+   +GL+KTPGWSS+EV+NKV++FYTGN+THP YE++Y
Sbjct: 659 VLLSNMYASAGKWEGVDEIRSITSGKGLRKTPGWSSMEVDNKVEVFYTGNQTHPMYEEMY 718

Query: 600 DELRNLTAKMKSLGYVPDKSFVLQDVEEDEKEHILTSHSERLAIAFGIISSPPKSPIQIF 659
            EL  L  K+K +GYVPD  FVLQDVE+DEKEHIL SHSERLA+AF +I++P K+ I+IF
Sbjct: 719 RELTALHEKLKMVGYVPDHRFVLQDVEDDEKEHILMSHSERLAMAFALITTPAKTTIRIF 778

Query: 660 KNLRVCGDCHNWTKFISQITEREIIVRDSNRFHHFKDGICSCGDYW 705
           KNLRVCGDCH+ TKFIS+ITEREIIVRDSNRFHHFK+G+CSCGDYW
Sbjct: 779 KNLRVCGDCHSVTKFISKITEREIIVRDSNRFHHFKNGVCSCGDYW 824

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18418348|ref|NP_567948.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|223635622|sp|O81767.2|PP348_ARATH RecName: Full=Pentatricopeptide repeat-containing protein At4g33990; AltName: Full=Protein EMBRYO DEFECTIVE 2758 gi|332660906|gb|AEE86306.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana]

 Score =  986 bits (2549), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 457/705 (64%), Positives = 566/705 (80%), Gaps = 4/705 (0%)

Query: 1   MISVYVRCGRLSEAVDCFYQFTLTSGLRPDFYTFPPVLKACRNLVDGKKIHCSVLKLGFE 60
           MIS Y R G  SE + CF  F L+SGL PD+ TFP VLKACR ++DG KIHC  LK GF 
Sbjct: 123 MISGYGRAGNSSEVIRCFSLFMLSSGLTPDYRTFPSVLKACRTVIDGNKIHCLALKFGFM 182

Query: 61  WDVFVAASLLHMYCRFGLANVARKLFDDMPVRDSGSWNAMISGYCQSGNAVEALDILDEM 120
           WDV+VAASL+H+Y R+     AR LFD+MPVRD GSWNAMISGYCQSGNA EAL + + +
Sbjct: 183 WDVYVAASLIHLYSRYKAVGNARILFDEMPVRDMGSWNAMISGYCQSGNAKEALTLSNGL 242

Query: 121 RLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGMM 180
           R    +MD +TV S+L  C  + +   G+ IH Y +KHGLE  LFVSN LI++YA+FG +
Sbjct: 243 R----AMDSVTVVSLLSACTEAGDFNRGVTIHSYSIKHGLESELFVSNKLIDLYAEFGRL 298

Query: 181 RHALRVFDQMMERDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIV 240
           R   +VFD+M  RD++SWNSII AYE +  P+ A   F  M+ + IQPD LTL+SL SI+
Sbjct: 299 RDCQKVFDRMYVRDLISWNSIIKAYELNEQPLRAISLFQEMRLSRIQPDCLTLISLASIL 358

Query: 241 AQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDVISW 300
           +QL D R  RSV GF +R+GWF+ED+ IGNAVV MYAKLG+++SA AVF  LP  DVISW
Sbjct: 359 SQLGDIRACRSVQGFTLRKGWFLEDITIGNAVVVMYAKLGLVDSARAVFNWLPNTDVISW 418

Query: 301 NTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVI 360
           NT+I+GYAQNG ASEAIE++ +MEE  EI  NQGT+VS+LPA S  GALRQG+K+H R++
Sbjct: 419 NTIISGYAQNGFASEAIEMYNIMEEEGEIAANQGTWVSVLPACSQAGALRQGMKLHGRLL 478

Query: 361 KNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALN 420
           KN L  DVFV T L DMYGKCGR++DA+SLFYQ+PR +SVPWN +I+CHG HG G+KA+ 
Sbjct: 479 KNGLYLDVFVVTSLADMYGKCGRLEDALSLFYQIPRVNSVPWNTLIACHGFHGHGEKAVM 538

Query: 421 FFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLF 480
            F++MLDEGV+PDHITFV+LL+ACSHSGLV EGQ  F MMQ ++GI P LKHYGCMVD++
Sbjct: 539 LFKEMLDEGVKPDHITFVTLLSACSHSGLVDEGQWCFEMMQTDYGITPSLKHYGCMVDMY 598

Query: 481 GRAGHLGMAHNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYV 540
           GRAG L  A  FI++M ++PDASIWGALL ACR+HGN++LG +AS+ LFEV+ E+VGY+V
Sbjct: 599 GRAGQLETALKFIKSMSLQPDASIWGALLSACRVHGNVDLGKIASEHLFEVEPEHVGYHV 658

Query: 541 LMSNIYANVGKWEGVDEVRSLARDRGLKKTPGWSSIEVNNKVDIFYTGNRTHPKYEKIYD 600
           L+SN+YA+ GKWEGVDE+RS+A  +GL+KTPGWSS+EV+NKV++FYTGN+THP YE++Y 
Sbjct: 659 LLSNMYASAGKWEGVDEIRSIAHGKGLRKTPGWSSMEVDNKVEVFYTGNQTHPMYEEMYR 718

Query: 601 ELRNLTAKMKSLGYVPDKSFVLQDVEEDEKEHILTSHSERLAIAFGIISSPPKSPIQIFK 660
           EL  L AK+K +GYVPD  FVLQDVE+DEKEHIL SHSERLAIAF +I++P K+ I+IFK
Sbjct: 719 ELTALQAKLKMIGYVPDHRFVLQDVEDDEKEHILMSHSERLAIAFALIATPAKTTIRIFK 778

Query: 661 NLRVCGDCHNWTKFISQITEREIIVRDSNRFHHFKDGICSCGDYW 705
           NLRVCGDCH+ TKFIS+ITEREIIVRDSNRFHHFK+G+CSCGDYW
Sbjct: 779 NLRVCGDCHSVTKFISKITEREIIVRDSNRFHHFKNGVCSCGDYW 823

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|3297823|emb|CAA19881.1| putative protein [Arabidopsis thaliana] gi|7270348|emb|CAB80116.1| putative protein [Arabidopsis thaliana]

 Score =  871 bits (2250), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 410/663 (61%), Positives = 512/663 (77%), Gaps = 19/663 (2%)

Query: 1   MISVYVRCGRLSEAVDCFYQFTLTSGLRPDFYTFPPVLKACRNLVDGKKIHCSVLKLGFE 60
           MIS Y R G  SE + CF  F L+SGL PD+ TFP VLKACR ++DG KIHC  LK GF 
Sbjct: 56  MISGYGRAGNSSEVIRCFSLFMLSSGLTPDYRTFPSVLKACRTVIDGNKIHCLALKFGFM 115

Query: 61  WDVFVAASLLHMYCRFGLANVARKLFDDMPVRDSGSWNAMISGYCQSGNAVEALDILDEM 120
           WDV+VAASL+H+Y R+     AR LFD+MPVRD GSWNAMISGYCQSGNA EAL + + +
Sbjct: 116 WDVYVAASLIHLYSRYKAVGNARILFDEMPVRDMGSWNAMISGYCQSGNAKEALTLSNGL 175

Query: 121 RLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGMM 180
           R    +MD +TV S+L  C  + +   G+ IH Y +KHGLE  L               +
Sbjct: 176 R----AMDSVTVVSLLSACTEAGDFNRGVTIHSYSIKHGLESEL---------------L 216

Query: 181 RHALRVFDQMMERDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIV 240
           R   +VFD+M  RD++SWNSII AYE +  P+ A   F  M+ + IQPD LTL+SL SI+
Sbjct: 217 RDCQKVFDRMYVRDLISWNSIIKAYELNEQPLRAISLFQEMRLSRIQPDCLTLISLASIL 276

Query: 241 AQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDVISW 300
           +QL D R  RSV GF +R+GWF+ED+ IGNAVV MYAKLG+++SA AVF  LP  DVISW
Sbjct: 277 SQLGDIRACRSVQGFTLRKGWFLEDITIGNAVVVMYAKLGLVDSARAVFNWLPNTDVISW 336

Query: 301 NTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVI 360
           NT+I+GYAQNG ASEAIE++ +MEE  EI  NQGT+VS+LPA S  GALRQG+K+H R++
Sbjct: 337 NTIISGYAQNGFASEAIEMYNIMEEEGEIAANQGTWVSVLPACSQAGALRQGMKLHGRLL 396

Query: 361 KNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALN 420
           KN L  DVFV T L DMYGKCGR++DA+SLFYQ+PR +SVPWN +I+CHG HG G+KA+ 
Sbjct: 397 KNGLYLDVFVVTSLADMYGKCGRLEDALSLFYQIPRVNSVPWNTLIACHGFHGHGEKAVM 456

Query: 421 FFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLF 480
            F++MLDEGV+PDHITFV+LL+ACSHSGLV EGQ  F MMQ ++GI P LKHYGCMVD++
Sbjct: 457 LFKEMLDEGVKPDHITFVTLLSACSHSGLVDEGQWCFEMMQTDYGITPSLKHYGCMVDMY 516

Query: 481 GRAGHLGMAHNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYV 540
           GRAG L  A  FI++M ++PDASIWGALL ACR+HGN++LG +AS+ LFEV+ E+VGY+V
Sbjct: 517 GRAGQLETALKFIKSMSLQPDASIWGALLSACRVHGNVDLGKIASEHLFEVEPEHVGYHV 576

Query: 541 LMSNIYANVGKWEGVDEVRSLARDRGLKKTPGWSSIEVNNKVDIFYTGNRTHPKYEKIYD 600
           L+SN+YA+ GKWEGVDE+RS+A  +GL+KTPGWSS+EV+NKV++FYTGN+THP YE++Y 
Sbjct: 577 LLSNMYASAGKWEGVDEIRSIAHGKGLRKTPGWSSMEVDNKVEVFYTGNQTHPMYEEMYR 636

Query: 601 ELRNLTAKMKSLGYVPDKSFVLQDVEEDEKEHILTSHSERLAIAFGIISSPPKSPIQIFK 660
           EL  L AK+K +GYVPD  FVLQDVE+DEKEHIL SHSERLAIAF +I++P K+ I+IFK
Sbjct: 637 ELTALQAKLKMIGYVPDHRFVLQDVEDDEKEHILMSHSERLAIAFALIATPAKTTIRIFK 696

Query: 661 NLR 663
           NLR
Sbjct: 697 NLR 699

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	705
TAIR|locus:2118964	823	EMB2758 "embryo defective 2758	0.994	0.851	0.642	2.8e-256
TAIR|locus:2202074	809	CRR22 "CHLORORESPIRATORY REDUC	0.992	0.865	0.407	1.2e-145
TAIR|locus:2124137	871	DOT4 "DEFECTIVELY ORGANIZED TR	0.997	0.807	0.405	2.1e-141
TAIR|locus:2205200	741	OTP82 "AT1G08070" [Arabidopsis	0.757	0.720	0.438	4e-138
TAIR|locus:2103483	890	OTP84 "ORGANELLE TRANSCRIPT PR	0.936	0.741	0.394	9.5e-137
TAIR|locus:2125899	990	AT4G33170 [Arabidopsis thalian	0.991	0.706	0.380	1.2e-136
TAIR|locus:2131939	792	MEF29 "AT4G30700" [Arabidopsis	0.974	0.867	0.385	2e-136
TAIR|locus:2196583	866	ECB2 "EARLY CHLOROPLAST BIOGEN	0.987	0.803	0.385	6.7e-136
TAIR|locus:4010713776	659	AT3G26782 [Arabidopsis thalian	0.868	0.928	0.429	2.6e-134
TAIR|locus:2078653	825	AT3G02010 [Arabidopsis thalian	0.990	0.846	0.366	2.6e-132

TAIR|locus:2118964 EMB2758 "embryo defective 2758" [Arabidopsis thaliana (taxid:3702)]

 Score = 2467 (873.5 bits), Expect = 2.8e-256, P = 2.8e-256
 Identities = 453/705 (64%), Positives = 558/705 (79%)

Query:     1 MISVYVRCGRLSEAVDCFYQFTLTSGLRPDFYTFPPVLKACRNLVDGKKIHCSVLKLGFE 60
             MIS Y R G  SE + CF  F L+SGL PD+ TFP VLKACR ++DG KIHC  LK GF 
Sbjct:   123 MISGYGRAGNSSEVIRCFSLFMLSSGLTPDYRTFPSVLKACRTVIDGNKIHCLALKFGFM 182

Query:    61 WDVFVAASLLHMYCRFGLANVARKLFDDMPVRDSGSWNAMISGYCQSGNAVEALDILDEM 120
             WDV+VAASL+H+Y R+     AR LFD+MPVRD GSWNAMISGYCQSGNA EAL + + +
Sbjct:   183 WDVYVAASLIHLYSRYKAVGNARILFDEMPVRDMGSWNAMISGYCQSGNAKEALTLSNGL 242

Query:   121 RLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGMM 180
             R    +MD +TV S+L  C  + +   G+ IH Y +KHGLE  LFVSN LI++YA+FG +
Sbjct:   243 R----AMDSVTVVSLLSACTEAGDFNRGVTIHSYSIKHGLESELFVSNKLIDLYAEFGRL 298

Query:   181 RHALRVFDQMMERDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIV 240
             R   +VFD+M  RD++SWNSII AYE +  P+ A   F  M+ + IQPD LTL+SL SI+
Sbjct:   299 RDCQKVFDRMYVRDLISWNSIIKAYELNEQPLRAISLFQEMRLSRIQPDCLTLISLASIL 358

Query:   241 AQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDVISW 300
             +QL D R  RSV GF +R+GWF+ED+ IGNAVV MYAKLG+++SA AVF  LP  DVISW
Sbjct:   359 SQLGDIRACRSVQGFTLRKGWFLEDITIGNAVVVMYAKLGLVDSARAVFNWLPNTDVISW 418

Query:   301 NTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVI 360
             NT+I+GYAQNG ASEAIE++ +MEE  EI  NQGT+VS+LPA S  GALRQG+K+H R++
Sbjct:   419 NTIISGYAQNGFASEAIEMYNIMEEEGEIAANQGTWVSVLPACSQAGALRQGMKLHGRLL 478

Query:   361 KNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALN 420
             KN L  DVFV T L DMYGKCGR++DA+SLFYQ+PR +SVPWN +I+CHG HG G+KA+ 
Sbjct:   479 KNGLYLDVFVVTSLADMYGKCGRLEDALSLFYQIPRVNSVPWNTLIACHGFHGHGEKAVM 538

Query:   421 FFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLF 480
              F++MLDEGV+PDHITFV+LL+ACSHSGLV EGQ  F MMQ ++GI P LKHYGCMVD++
Sbjct:   539 LFKEMLDEGVKPDHITFVTLLSACSHSGLVDEGQWCFEMMQTDYGITPSLKHYGCMVDMY 598

Query:   481 GRAGHLGMAHNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYV 540
             GRAG L  A  FI++M ++PDASIWGALL ACR+HGN++LG +AS+ LFEV+ E+VGY+V
Sbjct:   599 GRAGQLETALKFIKSMSLQPDASIWGALLSACRVHGNVDLGKIASEHLFEVEPEHVGYHV 658

Query:   541 LMSNIYANVGKWEGVDEVRSLARDRGLKKTPGWSSIEVNNKVDIFYTGNRTHPKYEKIYD 600
             L+SN+YA+ GKWEGVDE+RS+A  +GL+KTPGWSS+EV+NKV++FYTGN+THP YE++Y 
Sbjct:   659 LLSNMYASAGKWEGVDEIRSIAHGKGLRKTPGWSSMEVDNKVEVFYTGNQTHPMYEEMYR 718

Query:   601 ELRNLTAKMKSLGYVPDKSFVLQDVEEDEKEHILTSHSERLAIAFGXXXXXXXXXXQIFK 660
             EL  L AK+K +GYVPD  FVLQDVE+DEKEHIL SHSERLAIAF           +IFK
Sbjct:   719 ELTALQAKLKMIGYVPDHRFVLQDVEDDEKEHILMSHSERLAIAFALIATPAKTTIRIFK 778

Query:   661 NLRVCGDCHNWTKFISQITEREIIVRDSNRFHHFKDGICSCGDYW 705
             NLRVCGDCH+ TKFIS+ITEREIIVRDSNRFHHFK+G+CSCGDYW
Sbjct:   779 NLRVCGDCHSVTKFISKITEREIIVRDSNRFHHFKNGVCSCGDYW 823

GO:0005739 "mitochondrion" evidence=ISM

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

TAIR|locus:2202074 CRR22 "CHLORORESPIRATORY REDUCTION22" [Arabidopsis thaliana (taxid:3702)]

 Score = 1423 (506.0 bits), Expect = 1.2e-145, P = 1.2e-145
 Identities = 289/709 (40%), Positives = 426/709 (60%)

Query:     1 MISVYVRCGRLSEAVDCFYQFTLTSGLRPDFYTFPPVLKACRNLVD---GKKIHCSVLKL 57
             M+  + +   L +A+  F +      + P  Y F  +LK C +  +   GK+IH  ++K 
Sbjct:   106 MLKGFAKVSDLDKALQFFVRMRYDD-VEPVVYNFTYLLKVCGDEAELRVGKEIHGLLVKS 164

Query:    58 GFEWDVFVAASLLHMYCRFGLANVARKLFDDMPVRDSGSWNAMISGYCQSGNAVEALDIL 117
             GF  D+F    L +MY +    N ARK+FD MP RD  SWN +++GY Q+G A  AL+++
Sbjct:   165 GFSLDLFAMTGLENMYAKCRQVNEARKVFDRMPERDLVSWNTIVAGYSQNGMARMALEMV 224

Query:   118 DEMRLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKF 177
               M  E +    IT+ S+LP  +    I  G  IH Y ++ G +  + +S  L++MYAK 
Sbjct:   225 KSMCEENLKPSFITIVSVLPAVSALRLISVGKEIHGYAMRSGFDSLVNISTALVDMYAKC 284

Query:   178 GMMRHALRVFDQMMERDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLT 237
             G +  A ++FD M+ER+VVSWNS+I AY Q+ +P  A   F  M   G++P  ++++   
Sbjct:   285 GSLETARQLFDGMLERNVVSWNSMIDAYVQNENPKEAMLIFQKMLDEGVKPTDVSVMGAL 344

Query:   238 SIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDV 297
                A L D    R +H   +  G    +V + N+++ MY K   +++A ++F  L  + +
Sbjct:   345 HACADLGDLERGRFIHKLSVELG-LDRNVSVVNSLISMYCKCKEVDTAASMFGKLQSRTL 403

Query:   298 ISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHA 357
             +SWN +I G+AQNG   +A+  F  M     + P+  TYVS++ A + +        IH 
Sbjct:   404 VSWNAMILGFAQNGRPIDALNYFSQMRS-RTVKPDTFTYVSVITAIAELSITHHAKWIHG 462

Query:   358 RVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDK 417
              V+++CL  +VFV T LVDMY KCG I  A  +F  +       WNA+I  +G HG G  
Sbjct:   463 VVMRSCLDKNVFVTTALVDMYAKCGAIMIARLIFDMMSERHVTTWNAMIDGYGTHGFGKA 522

Query:   418 ALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMV 477
             AL  F +M    ++P+ +TF+S+++ACSHSGLV  G + F+MM+E + I+  + HYG MV
Sbjct:   523 ALELFEEMQKGTIKPNGVTFLSVISACSHSGLVEAGLKCFYMMKENYSIELSMDHYGAMV 582

Query:   478 DLFGRAGHLGMAHNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVG 537
             DL GRAG L  A +FI  MPV+P  +++GA+LGAC+IH N+     A++RLFE++ ++ G
Sbjct:   583 DLLGRAGRLNEAWDFIMQMPVKPAVNVYGAMLGACQIHKNVNFAEKAAERLFELNPDDGG 642

Query:   538 YYVLMSNIYANVGKWEGVDEVR-SLARDRGLKKTPGWSSIEVNNKVDIFYTGNRTHPKYE 596
             Y+VL++NIY     WE V +VR S+ R +GL+KTPG S +E+ N+V  F++G+  HP  +
Sbjct:   643 YHVLLANIYRAASMWEKVGQVRVSMLR-QGLRKTPGCSMVEIKNEVHSFFSGSTAHPDSK 701

Query:   597 KIYDELRNLTAKMKSLGYVPDKSFVLQDVEEDEKEHILTSHSERLAIAFGXXXXXXXXXX 656
             KIY  L  L   +K  GYVPD + VL  VE D KE +L++HSE+LAI+FG          
Sbjct:   702 KIYAFLEKLICHIKEAGYVPDTNLVL-GVENDVKEQLLSTHSEKLAISFGLLNTTAGTTI 760

Query:   657 QIFKNLRVCGDCHNWTKFISQITEREIIVRDSNRFHHFKDGICSCGDYW 705
              + KNLRVC DCHN TK+IS +T REI+VRD  RFHHFK+G CSCGDYW
Sbjct:   761 HVRKNLRVCADCHNATKYISLVTGREIVVRDMQRFHHFKNGACSCGDYW 809

GO:0005739 "mitochondrion" evidence=ISM

GO:0004519 "endonuclease activity" evidence=IDA

GO:0009507 "chloroplast" evidence=IDA

GO:0016556 "mRNA modification" evidence=RCA;IMP

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

 Score = 1383 (491.9 bits), Expect = 2.1e-141, P = 2.1e-141
 Identities = 287/708 (40%), Positives = 422/708 (59%)

Query:     1 MISVYVRCGRLSEAVDCFYQFTLTSGLRPDFYTFPPVLKA---CRNLVDGKKIHCSVLKL 57
             +++   + G  S ++  F +  ++SG+  D YTF  V K+    R++  G+++H  +LK 
Sbjct:   166 LMNELAKSGDFSGSIGLFKKM-MSSGVEMDSYTFSCVSKSFSSLRSVHGGEQLHGFILKS 224

Query:    58 GFEWDVFVAASLLHMYCRFGLANVARKLFDDMPVRDSGSWNAMISGYCQSGNAVEALDIL 117
             GF     V  SL+  Y +    + ARK+FD+M  RD  SWN++I+GY  +G A + L + 
Sbjct:   225 GFGERNSVGNSLVAFYLKNQRVDSARKVFDEMTERDVISWNSIINGYVSNGLAEKGLSVF 284

Query:   118 DEMRLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKF 177
              +M + G+ +D  T+ S+   CA S  I  G  +H   VK          N L++MY+K 
Sbjct:   285 VQMLVSGIEIDLATIVSVFAGCADSRLISLGRAVHSIGVKACFSREDRFCNTLLDMYSKC 344

Query:   178 GMMRHALRVFDQMMERDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLT 237
             G +  A  VF +M +R VVS+ S+IA Y +      A   F  M++ GI PD+ T+ ++ 
Sbjct:   345 GDLDSAKAVFREMSDRSVVSYTSMIAGYAREGLAGEAVKLFEEMEEEGISPDVYTVTAVL 404

Query:   238 SIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDV 297
             +  A+       + VH +I        D+ + NA++DMYAK G +  A  VF  + VKD+
Sbjct:   405 NCCARYRLLDEGKRVHEWIKENDLGF-DIFVSNALMDMYAKCGSMQEAELVFSEMRVKDI 463

Query:   298 ISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHA 357
             ISWNT+I GY++N  A+EA+ +F ++ E    +P++ T   +LPA + + A  +G +IH 
Sbjct:   464 ISWNTIIGGYSKNCYANEALSLFNLLLEEKRFSPDERTVACVLPACASLSAFDKGREIHG 523

Query:   358 RVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDK 417
              +++N    D  VA  LVDMY KCG +  A  LF  +     V W  +I+ +G+HG G +
Sbjct:   524 YIMRNGYFSDRHVANSLVDMYAKCGALLLAHMLFDDIASKDLVSWTVMIAGYGMHGFGKE 583

Query:   418 ALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMV 477
             A+  F QM   G+  D I+FVSLL ACSHSGLV EG R+F++M+ E  I+P ++HY C+V
Sbjct:   584 AIALFNQMRQAGIEADEISFVSLLYACSHSGLVDEGWRFFNIMRHECKIEPTVEHYACIV 643

Query:   478 DLFGRAGHLGMAHNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVG 537
             D+  R G L  A+ FI+NMP+ PDA+IWGALL  CRIH +++L    ++++FE++ EN G
Sbjct:   644 DMLARTGDLIKAYRFIENMPIPPDATIWGALLCGCRIHHDVKLAEKVAEKVFELEPENTG 703

Query:   538 YYVLMSNIYANVGKWEGVDEVRSLARDRGLKKTPGWSSIEVNNKVDIFYTGNRTHPKYEK 597
             YYVLM+NIYA   KWE V  +R     RGL+K PG S IE+  +V+IF  G+ ++P+ E 
Sbjct:   704 YYVLMANIYAEAEKWEQVKRLRKRIGQRGLRKNPGCSWIEIKGRVNIFVAGDSSNPETEN 763

Query:   598 IYDELRNLTAKMKSLGYVPDKSFVLQDVEEDEKEHILTSHSERLAIAFGXXXXXXXXXXQ 657
             I   LR + A+M   GY P   + L D EE EKE  L  HSE+LA+A G          +
Sbjct:   764 IEAFLRKVRARMIEEGYSPLTKYALIDAEEMEKEEALCGHSEKLAMALGIISSGHGKIIR 823

Query:   658 IFKNLRVCGDCHNWTKFISQITEREIIVRDSNRFHHFKDGICSCGDYW 705
             + KNLRVCGDCH   KF+S++T REI++RDSNRFH FKDG CSC  +W
Sbjct:   824 VTKNLRVCGDCHEMAKFMSKLTRREIVLRDSNRFHQFKDGHCSCRGFW 871

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:2205200 OTP82 "AT1G08070" [Arabidopsis thaliana (taxid:3702)]

 Score = 1184 (421.8 bits), Expect = 4.0e-138, Sum P(2) = 4.0e-138
 Identities = 236/538 (43%), Positives = 334/538 (62%)

Query:   170 LINMYAKFGMMRHALRVFDQMMERDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPD 229
             LI  YA  G + +A ++FD++  +DVVSWN++I+ Y ++ +   A   F  M +  ++PD
Sbjct:   206 LIKGYASRGYIENAQKLFDEIPVKDVVSWNAMISGYAETGNYKEALELFKDMMKTNVRPD 265

Query:   230 LLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVF 289
               T+V++ S  AQ       R VH +I   G F  ++ I NA++D+Y+K G + +AC +F
Sbjct:   266 ESTMVTVVSACAQSGSIELGRQVHLWIDDHG-FGSNLKIVNALIDLYSKCGELETACGLF 324

Query:   290 EGLPVKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGAL 349
             E LP KDVISWNTLI GY    L  EA+ +FQ M    E  PN  T +SILPA +H+GA+
Sbjct:   325 ERLPYKDVISWNTLIGGYTHMNLYKEALLLFQEMLRSGE-TPNDVTMLSILPACAHLGAI 383

Query:   350 RQGIKIHARVIKNC--LCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIIS 407
               G  IH  + K    +     + T L+DMY KCG I+ A  +F  +   S   WNA+I 
Sbjct:   384 DIGRWIHVYIDKRLKGVTNASSLRTSLIDMYAKCGDIEAAHQVFNSILHKSLSSWNAMIF 443

Query:   408 CHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIK 467
                +HG+ D + + F +M   G++PD ITFV LL+ACSHSG++  G+  F  M +++ + 
Sbjct:   444 GFAMHGRADASFDLFSRMRKIGIQPDDITFVGLLSACSHSGMLDLGRHIFRTMTQDYKMT 503

Query:   468 PHLKHYGCMVDLFGRAGHLGMAHNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDR 527
             P L+HYGCM+DL G +G    A   I  M + PD  IW +LL AC++HGN+ELG   ++ 
Sbjct:   504 PKLEHYGCMIDLLGHSGLFKEAEEMINMMEMEPDGVIWCSLLKACKMHGNVELGESFAEN 563

Query:   528 LFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDRGLKKTPGWSSIEVNNKVDIFYT 587
             L +++ EN G YVL+SNIYA+ G+W  V + R+L  D+G+KK PG SSIE+++ V  F  
Sbjct:   564 LIKIEPENPGSYVLLSNIYASAGRWNEVAKTRALLNDKGMKKVPGCSSIEIDSVVHEFII 623

Query:   588 GNRTHPKYEKIYDELRNLTAKMKSLGYVPDKSFVLQDVEEDEKEHILTSHSERLAIAFGX 647
             G++ HP+  +IY  L  +   ++  G+VPD S VLQ++EE+ KE  L  HSE+LAIAFG 
Sbjct:   624 GDKFHPRNREIYGMLEEMEVLLEKAGFVPDTSEVLQEMEEEWKEGALRHHSEKLAIAFGL 683

Query:   648 XXXXXXXXXQIFKNLRVCGDCHNWTKFISQITEREIIVRDSNRFHHFKDGICSCGDYW 705
                       I KNLRVC +CH  TK IS+I +REII RD  RFHHF+DG+CSC DYW
Sbjct:   684 ISTKPGTKLTIVKNLRVCRNCHEATKLISKIYKREIIARDRTRFHHFRDGVCSCNDYW 741

GO:0003674 "molecular_function" evidence=ND

GO:0009507 "chloroplast" evidence=ISM

GO:0031425 "chloroplast RNA processing" evidence=IMP

TAIR|locus:2103483 OTP84 "ORGANELLE TRANSCRIPT PROCESSING 84" [Arabidopsis thaliana (taxid:3702)]

 Score = 1339 (476.4 bits), Expect = 9.5e-137, P = 9.5e-137
 Identities = 266/675 (39%), Positives = 410/675 (60%)

Query:    44 LVDGKKIHCSVLKLGFEWDVFVAASLLHMYCRFGLANVARKLFDDMPVRDSGSWNAMISG 103
             L+ GK++H   L+ G E + F+  +L+ MY + G    ++ L      RD  +WN ++S 
Sbjct:   218 LMMGKQVHAYGLRKG-ELNSFIINTLVAMYGKLGKLASSKVLLGSFGGRDLVTWNTVLSS 276

Query:   104 YCQSGNAVEALDILDEMRLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVKHG-LEF 162
              CQ+   +EAL+ L EM LEGV  D  T++S+LP C+  + + +G  +H Y +K+G L+ 
Sbjct:   277 LCQNEQLLEALEYLREMVLEGVEPDEFTISSVLPACSHLEMLRTGKELHAYALKNGSLDE 336

Query:   163 NLFVSNNLINMYAKFGMMRHALRVFDQMMERDVVSWNSIIAAYEQSNDPITAHGFFTTMQ 222
             N FV + L++MY     +    RVFD M +R +  WN++IA Y Q+     A   F  M+
Sbjct:   337 NSFVGSALVDMYCNCKQVLSGRRVFDGMFDRKIGLWNAMIAGYSQNEHDKEALLLFIGME 396

Query:   223 Q-AGIQPDLLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGI 281
             + AG+  +  T+  +     +        ++HGF+++RG    D  + N ++DMY++LG 
Sbjct:   397 ESAGLLANSTTMAGVVPACVRSGAFSRKEAIHGFVVKRG-LDRDRFVQNTLMDMYSRLGK 455

Query:   282 INSACAVFEGLPVKDVISWNTLITGYAQNGLASEAIEVFQMMEECNE----------INP 331
             I+ A  +F  +  +D+++WNT+ITGY  +    +A+ +   M+              + P
Sbjct:   456 IDIAMRIFGKMEDRDLVTWNTMITGYVFSEHHEDALLLLHKMQNLERKVSKGASRVSLKP 515

Query:   332 NQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLF 391
             N  T ++ILP+ + + AL +G +IHA  IKN L  DV V + LVDMY KCG +  +  +F
Sbjct:   516 NSITLMTILPSCAALSALAKGKEIHAYAIKNNLATDVAVGSALVDMYAKCGCLQMSRKVF 575

Query:   392 YQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVS 451
              Q+P+ + + WN II  +G+HG G +A++  R M+ +GV+P+ +TF+S+  ACSHSG+V 
Sbjct:   576 DQIPQKNVITWNVIIMAYGMHGNGQEAIDLLRMMMVQGVKPNEVTFISVFAACSHSGMVD 635

Query:   452 EGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNMPVRPD-ASIWGALLG 510
             EG R F++M+ ++G++P   HY C+VDL GRAG +  A+  +  MP   + A  W +LLG
Sbjct:   636 EGLRIFYVMKPDYGVEPSSDHYACVVDLLGRAGRIKEAYQLMNMMPRDFNKAGAWSSLLG 695

Query:   511 ACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDRGLKKT 570
             A RIH N+E+G +A+  L +++     +YVL++NIY++ G W+   EVR   +++G++K 
Sbjct:   696 ASRIHNNLEIGEIAAQNLIQLEPNVASHYVLLANIYSSAGLWDKATEVRRNMKEQGVRKE 755

Query:   571 PGWSSIEVNNKVDIFYTGNRTHPKYEKIYDELRNLTAKMKSLGYVPDKSFVLQDVEEDEK 630
             PG S IE  ++V  F  G+ +HP+ EK+   L  L  +M+  GYVPD S VL +VEEDEK
Sbjct:   756 PGCSWIEHGDEVHKFVAGDSSHPQSEKLSGYLETLWERMRKEGYVPDTSCVLHNVEEDEK 815

Query:   631 EHILTSHSERLAIAFGXXXXXXXXXXQIFKNLRVCGDCHNWTKFISQITEREIIVRDSNR 690
             E +L  HSE+LAIAFG          ++ KNLRVC DCH  TKFIS+I +REII+RD  R
Sbjct:   816 EILLCGHSEKLAIAFGILNTSPGTIIRVAKNLRVCNDCHLATKFISKIVDREIILRDVRR 875

Query:   691 FHHFKDGICSCGDYW 705
             FH FK+G CSCGDYW
Sbjct:   876 FHRFKNGTCSCGDYW 890

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0031425 "chloroplast RNA processing" evidence=IMP

TAIR|locus:2125899 AT4G33170 [Arabidopsis thaliana (taxid:3702)]

 Score = 1313 (467.3 bits), Expect = 1.2e-136, Sum P(2) = 1.2e-136
 Identities = 270/709 (38%), Positives = 419/709 (59%)

Query:     2 ISVYVRCGRLSEAVDCFYQFTLTSGLRPDFYTFPPVLKAC---RNLVDGKKIHCSVLKLG 58
             +S Y+  G+ S  + CF    + S +  D  TF  +L       +L  G+++HC  LKLG
Sbjct:   287 LSEYLHSGQYSALLKCFADM-VESDVECDQVTFILMLATAVKVDSLALGQQVHCMALKLG 345

Query:    59 FEWDVFVAASLLHMYCRFGLANVARKLFDDMPVRDSGSWNAMISGYCQSGNAVEALDILD 118
              +  + V+ SL++MYC+      AR +FD+M  RD  SWN++I+G  Q+G  VEA+ +  
Sbjct:   346 LDLMLTVSNSLINMYCKLRKFGFARTVFDNMSERDLISWNSVIAGIAQNGLEVEAVCLFM 405

Query:   119 EMRLEGVSMDPITVASILPVCARSDNILS-GLLIHLYIVKHGLEFNLFVSNNLINMYAKF 177
             ++   G+  D  T+ S+L   +     LS    +H++ +K     + FVS  LI+ Y++ 
Sbjct:   406 QLLRCGLKPDQYTMTSVLKAASSLPEGLSLSKQVHVHAIKINNVSDSFVSTALIDAYSRN 465

Query:   178 GMMRHALRVFDQMMERDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLT 237
               M+ A  +F++    D+V+WN+++A Y QS+D       F  M + G + D  TL ++ 
Sbjct:   466 RCMKEAEILFERH-NFDLVAWNAMMAGYTQSHDGHKTLKLFALMHKQGERSDDFTLATVF 524

Query:   238 SIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDV 297
                  L      + VH + ++ G+ + D+ + + ++DMY K G +++A   F+ +PV D 
Sbjct:   525 KTCGFLFAINQGKQVHAYAIKSGYDL-DLWVSSGILDMYVKCGDMSAAQFAFDSIPVPDD 583

Query:   298 ISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHA 357
             ++W T+I+G  +NG    A  VF  M     + P++ T  ++  A S + AL QG +IHA
Sbjct:   584 VAWTTMISGCIENGEEERAFHVFSQMRLMGVL-PDEFTIATLAKASSCLTALEQGRQIHA 642

Query:   358 RVIK-NCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGD 416
               +K NC   D FV T LVDMY KCG IDDA  LF ++   +   WNA++     HG+G 
Sbjct:   643 NALKLNCTN-DPFVGTSLVDMYAKCGSIDDAYCLFKRIEMMNITAWNAMLVGLAQHGEGK 701

Query:   417 KALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCM 476
             + L  F+QM   G++PD +TF+ +L+ACSHSGLVSE  ++   M  ++GIKP ++HY C+
Sbjct:   702 ETLQLFKQMKSLGIKPDKVTFIGVLSACSHSGLVSEAYKHMRSMHGDYGIKPEIEHYSCL 761

Query:   477 VDLFGRAGHLGMAHNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENV 536
              D  GRAG +  A N I++M +   AS++  LL ACR+ G+ E G   + +L E++  + 
Sbjct:   762 ADALGRAGLVKQAENLIESMSMEASASMYRTLLAACRVQGDTETGKRVATKLLELEPLDS 821

Query:   537 GYYVLMSNIYANVGKWEGVDEVRSLARDRGLKKTPGWSSIEVNNKVDIFYTGNRTHPKYE 596
               YVL+SN+YA   KW+ +   R++ +   +KK PG+S IEV NK+ IF   +R++ + E
Sbjct:   822 SAYVLLSNMYAAASKWDEMKLARTMMKGHKVKKDPGFSWIEVKNKIHIFVVDDRSNRQTE 881

Query:   597 KIYDELRNLTAKMKSLGYVPDKSFVLQDVEEDEKEHILTSHSERLAIAFGXXXXXXXXXX 656
              IY +++++   +K  GYVP+  F L DVEE+EKE  L  HSE+LA+AFG          
Sbjct:   882 LIYRKVKDMIRDIKQEGYVPETDFTLVDVEEEEKERALYYHSEKLAVAFGLLSTPPSTPI 941

Query:   657 QIFKNLRVCGDCHNWTKFISQITEREIIVRDSNRFHHFKDGICSCGDYW 705
             ++ KNLRVCGDCHN  K+I+++  REI++RD+NRFH FKDGICSCGDYW
Sbjct:   942 RVIKNLRVCGDCHNAMKYIAKVYNREIVLRDANRFHRFKDGICSCGDYW 990

GO:0005739 "mitochondrion" evidence=ISM

TAIR|locus:2131939 MEF29 "AT4G30700" [Arabidopsis thaliana (taxid:3702)]

 Score = 1336 (475.4 bits), Expect = 2.0e-136, P = 2.0e-136
 Identities = 268/696 (38%), Positives = 412/696 (59%)

Query:    14 AVDCFYQFTLTSGLRPDFYTFPPVLKACRNLVD---GKKIHCSVLKLGFEWDVFVAASLL 70
             ++  F     ++ L+P+  T+   + A     D   G+ IH   +  G + ++ + ++++
Sbjct:   102 SLSVFAHLRKSTDLKPNSSTYAFAISAASGFRDDRAGRVIHGQAVVDGCDSELLLGSNIV 161

Query:    71 HMYCRFGLANVARKLFDDMPVRDSGSWNAMISGYCQSGNAVEALDILDEMRLEGVS-MDP 129
              MY +F     ARK+FD MP +D+  WN MISGY ++   VE++ +  ++  E  + +D 
Sbjct:   162 KMYFKFWRVEDARKVFDRMPEKDTILWNTMISGYRKNEMYVESIQVFRDLINESCTRLDT 221

Query:   130 ITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGMMRHALRVFDQ 189
              T+  ILP  A    +  G+ IH    K G   + +V    I++Y+K G ++    +F +
Sbjct:   222 TTLLDILPAVAELQELRLGMQIHSLATKTGCYSHDYVLTGFISLYSKCGKIKMGSALFRE 281

Query:   190 MMERDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQLNDCRNS 249
               + D+V++N++I  Y  + +   +   F  +  +G +    TLVSL  +   L      
Sbjct:   282 FRKPDIVAYNAMIHGYTSNGETELSLSLFKELMLSGARLRSSTLVSLVPVSGHL---MLI 338

Query:   250 RSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDVISWNTLITGYAQ 309
              ++HG+ ++   F+    +  A+  +Y+KL  I SA  +F+  P K + SWN +I+GY Q
Sbjct:   339 YAIHGYCLKSN-FLSHASVSTALTTVYSKLNEIESARKLFDESPEKSLPSWNAMISGYTQ 397

Query:   310 NGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVF 369
             NGL  +AI +F+ M++ +E +PN  T   IL A + +GAL  G  +H  V        ++
Sbjct:   398 NGLTEDAISLFREMQK-SEFSPNPVTITCILSACAQLGALSLGKWVHDLVRSTDFESSIY 456

Query:   370 VATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEG 429
             V+T L+ MY KCG I +A  LF  + + + V WN +IS +G+HGQG +ALN F +ML+ G
Sbjct:   457 VSTALIGMYAKCGSIAEARRLFDLMTKKNEVTWNTMISGYGLHGQGQEALNIFYEMLNSG 516

Query:   430 VRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMA 489
             + P  +TF+ +L ACSH+GLV EG   F+ M   +G +P +KHY CMVD+ GRAGHL  A
Sbjct:   517 ITPTPVTFLCVLYACSHAGLVKEGDEIFNSMIHRYGFEPSVKHYACMVDILGRAGHLQRA 576

Query:   490 HNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANV 549
               FI+ M + P +S+W  LLGACRIH +  L    S++LFE+D +NVGY+VL+SNI++  
Sbjct:   577 LQFIEAMSIEPGSSVWETLLGACRIHKDTNLARTVSEKLFELDPDNVGYHVLLSNIHSAD 636

Query:   550 GKWEGVDEVRSLARDRGLKKTPGWSSIEVNNKVDIFYTGNRTHPKYEKIYDELRNLTAKM 609
               +     VR  A+ R L K PG++ IE+     +F +G+++HP+ ++IY++L  L  KM
Sbjct:   637 RNYPQAATVRQTAKKRKLAKAPGYTLIEIGETPHVFTSGDQSHPQVKEIYEKLEKLEGKM 696

Query:   610 KSLGYVPDKSFVLQDVEEDEKEHILTSHSERLAIAFGXXXXXXXXXXQIFKNLRVCGDCH 669
             +  GY P+    L DVEE+E+E ++  HSERLAIAFG          +I KNLRVC DCH
Sbjct:   697 REAGYQPETELALHDVEEEERELMVKVHSERLAIAFGLIATEPGTEIRIIKNLRVCLDCH 756

Query:   670 NWTKFISQITEREIIVRDSNRFHHFKDGICSCGDYW 705
               TK IS+ITER I+VRD+NRFHHFKDG+CSCGDYW
Sbjct:   757 TVTKLISKITERVIVVRDANRFHHFKDGVCSCGDYW 792

GO:0003674 "molecular_function" evidence=ND

GO:0000963 "mitochondrial RNA processing" evidence=IMP

GO:0005739 "mitochondrion" evidence=IDA

GO:0009507 "chloroplast" evidence=IDA

GO:0016554 "cytidine to uridine editing" evidence=IMP

GO:0080156 "mitochondrial mRNA modification" evidence=IMP

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

 Score = 1331 (473.6 bits), Expect = 6.7e-136, P = 6.7e-136
 Identities = 273/708 (38%), Positives = 407/708 (57%)

Query:     1 MISVYVRCGRLSEAVDCFYQFTLTSGLRPDFYTFPPVLKACRNLVD---GKKIHCSVLKL 57
             ++  Y + G   EA+  +++     G++PD YTFP VL+ C  + D   GK++H  V++ 
Sbjct:   166 LVGGYAKQGYFDEAMCLYHRMLWVGGVKPDVYTFPCVLRTCGGIPDLARGKEVHVHVVRY 225

Query:    58 GFEWDVFVAASLLHMYCRFGLANVARKLFDDMPVRDSGSWNAMISGYCQSGNAVEALDIL 117
             G+E D+ V  +L+ MY + G    AR LFD MP RD  SWNAMISGY ++G   E L++ 
Sbjct:   226 GYELDIDVVNALITMYVKCGDVKSARLLFDRMPRRDIISWNAMISGYFENGMCHEGLELF 285

Query:   118 DEMRLEGVSMDP--ITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYA 175
               MR  G+S+DP  +T+ S++  C    +   G  IH Y++  G   ++ V N+L  MY 
Sbjct:   286 FAMR--GLSVDPDLMTLTSVISACELLGDRRLGRDIHAYVITTGFAVDISVCNSLTQMYL 343

Query:   176 KFGMMRHALRVFDQMMERDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVS 235
               G  R A ++F +M  +D+VSW ++I+ YE +  P  A   +  M Q  ++PD +T+ +
Sbjct:   344 NAGSWREAEKLFSRMERKDIVSWTTMISGYEYNFLPDKAIDTYRMMDQDSVKPDEITVAA 403

Query:   236 LTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVK 295
             + S  A L D      +H   ++    +  VI+ N +++MY+K   I+ A  +F  +P K
Sbjct:   404 VLSACATLGDLDTGVELHKLAIKAR-LISYVIVANNLINMYSKCKCIDKALDIFHNIPRK 462

Query:   296 DVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKI 355
             +VISW ++I G   N    EA+   + M+    + PN  T  + L A + +GAL  G +I
Sbjct:   463 NVISWTSIIAGLRLNNRCFEALIFLRQMKMT--LQPNAITLTAALAACARIGALMCGKEI 520

Query:   356 HARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQG 415
             HA V++  +  D F+   L+DMY +CGR++ A S F    +     WN +++ +   GQG
Sbjct:   521 HAHVLRTGVGLDDFLPNALLDMYVRCGRMNTAWSQFNS-QKKDVTSWNILLTGYSERGQG 579

Query:   416 DKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGC 475
                +  F +M+   VRPD ITF+SLL  CS S +V +G  YF  M E++G+ P+LKHY C
Sbjct:   580 SMVVELFDRMVKSRVRPDEITFISLLCGCSKSQMVRQGLMYFSKM-EDYGVTPNLKHYAC 638

Query:   476 MVDLFGRAGHLGMAHNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSEN 535
             +VDL GRAG L  AH FIQ MPV PD ++WGALL ACRIH  ++LG +++  +FE+D ++
Sbjct:   639 VVDLLGRAGELQEAHKFIQKMPVTPDPAVWGALLNACRIHHKIDLGELSAQHIFELDKKS 698

Query:   536 VGYYVLMSNIYANVGKWEGVDEVRSLARDRGLKKTPGWSSIEVNNKVDIFYTGNRTHPKY 595
             VGYY+L+ N+YA+ GKW  V +VR + ++ GL    G S +EV  KV  F + ++ HP+ 
Sbjct:   699 VGYYILLCNLYADCGKWREVAKVRRMMKENGLTVDAGCSWVEVKGKVHAFLSDDKYHPQT 758

Query:   596 EKIYDELRNLTAKMKSLGYVPDKSFVLQDVEEDEKEHILTSHSERLAIAFGXXXXXXXXX 655
             ++I   L     KM  +G          D  E  ++ I   HSER AIAFG         
Sbjct:   759 KEINTVLEGFYEKMSEVGLTKISESSSMDETEISRDEIFCGHSERKAIAFGLINTVPGMP 818

Query:   656 XQIFKNLRVCGDCHNWTKFISQITEREIIVRDSNRFHHFKDGICSCGD 703
               + KNL +C +CH+  KFIS+   REI VRD+  FHHFKDG CSCGD
Sbjct:   819 IWVTKNLSMCENCHDTVKFISKTVRREISVRDAEHFHHFKDGECSCGD 866

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:4010713776 AT3G26782 [Arabidopsis thaliana (taxid:3702)]

 Score = 1316 (468.3 bits), Expect = 2.6e-134, P = 2.6e-134
 Identities = 267/621 (42%), Positives = 391/621 (62%)

Query:    93 DSGSWNAMISGYCQSGNAVEALDILDEMRLEGVSMDPITVASILPVCARSDNILSGLLIH 152
             D  SWN++I+   +SG++ EAL     MR   +     +    +  C+   +I SG   H
Sbjct:    40 DVFSWNSVIADLARSGDSAEALLAFSSMRKLSLYPTRSSFPCAIKACSSLFDIFSGKQTH 99

Query:   153 LYIVKHGLEFNLFVSNNLINMYAKFGMMRHALRVFDQMMERDVVSWNSIIAAYEQSNDPI 212
                   G + ++FVS+ LI MY+  G +  A +VFD++ +R++VSW S+I  Y+ + + +
Sbjct:   100 QQAFVFGYQSDIFVSSALIVMYSTCGKLEDARKVFDEIPKRNIVSWTSMIRGYDLNGNAL 159

Query:   213 TAHGFFTTM------QQAGIQPDLLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDV 266
              A   F  +          +  D + LVS+ S  +++     + S+H F+++RG F   V
Sbjct:   160 DAVSLFKDLLVDENDDDDAMFLDSMGLVSVISACSRVPAKGLTESIHSFVIKRG-FDRGV 218

Query:   267 IIGNAVVDMYAKLGIINSACA--VFEGLPVKDVISWNTLITGYAQNGLASEAIEVFQMME 324
              +GN ++D YAK G    A A  +F+ +  KD +S+N++++ YAQ+G+++EA EVF+ + 
Sbjct:   219 SVGNTLLDAYAKGGEGGVAVARKIFDQIVDKDRVSYNSIMSVYAQSGMSNEAFEVFRRLV 278

Query:   325 ECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRI 384
             +   +  N  T  ++L A SH GALR G  IH +VI+  L  DV V T ++DMY KCGR+
Sbjct:   279 KNKVVTFNAITLSTVLLAVSHSGALRIGKCIHDQVIRMGLEDDVIVGTSIIDMYCKCGRV 338

Query:   385 DDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTAC 444
             + A   F ++   +   W A+I+ +G+HG   KAL  F  M+D GVRP++ITFVS+L AC
Sbjct:   339 ETARKAFDRMKNKNVRSWTAMIAGYGMHGHAAKALELFPAMIDSGVRPNYITFVSVLAAC 398

Query:   445 SHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNMPVRPDASI 504
             SH+GL  EG R+F+ M+  FG++P L+HYGCMVDL GRAG L  A++ IQ M ++PD+ I
Sbjct:   399 SHAGLHVEGWRWFNAMKGRFGVEPGLEHYGCMVDLLGRAGFLQKAYDLIQRMKMKPDSII 458

Query:   505 WGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARD 564
             W +LL ACRIH N+EL  ++  RLFE+DS N GYY+L+S+IYA+ G+W+ V+ VR + ++
Sbjct:   459 WSSLLAACRIHKNVELAEISVARLFELDSSNCGYYMLLSHIYADAGRWKDVERVRMIMKN 518

Query:   565 RGLKKTPGWSSIEVNNKVDIFYTGNRTHPKYEKIYDELRNLTAKMKSLGYVPDKSFVLQD 624
             RGL K PG+S +E+N +V +F  G+  HP+ EKIY+ L  L  K+   GYV + S V  D
Sbjct:   519 RGLVKPPGFSLLELNGEVHVFLIGDEEHPQREKIYEFLAELNRKLLEAGYVSNTSSVCHD 578

Query:   625 VEEDEKEHILTSHSERLAIAFGXXXXXXXXXXQIFKNLRVCGDCHNWTKFISQITEREII 684
             V+E+EKE  L  HSE+LAIAFG           + KNLRVC DCHN  K IS+I +RE +
Sbjct:   579 VDEEEKEMTLRVHSEKLAIAFGIMNTVPGSTVNVVKNLRVCSDCHNVIKLISKIVDREFV 638

Query:   685 VRDSNRFHHFKDGICSCGDYW 705
             VRD+ RFHHFKDG CSCGDYW
Sbjct:   639 VRDAKRFHHFKDGGCSCGDYW 659

GO:0005739 "mitochondrion" evidence=ISM;IDA

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

 Score = 1280 (455.6 bits), Expect = 2.6e-132, Sum P(2) = 2.6e-132
 Identities = 260/709 (36%), Positives = 400/709 (56%)

Query:     5 YVRCGRLSEAVDCFYQFTLTSGLR-PDFYTFPPVLKACRNLVDGK---KIHCSVLKLGFE 60
             Y R     EA   F Q   +S    PD  TF  +L  C + V      ++H   +KLGF+
Sbjct:   120 YARNSHFDEAFKLFRQMCRSSSCTLPDHVTFTTLLPGCNDAVPQNAVGQVHAFAVKLGFD 179

Query:    61 WDVFVAAS--LLHMYCRFGLANVARKLFDDMPVRDSGSWNAMISGYCQSGNAVEALDILD 118
              + F+  S  LL  YC     ++A  LF+++P +DS ++N +I+GY + G   E++ +  
Sbjct:   180 TNPFLTVSNVLLKSYCEVRRLDLACVLFEEIPEKDSVTFNTLITGYEKDGLYTESIHLFL 239

Query:   119 EMRLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFG 178
             +MR  G      T + +L       +   G  +H   V  G   +  V N +++ Y+K  
Sbjct:   240 KMRQSGHQPSDFTFSGVLKAVVGLHDFALGQQLHALSVTTGFSRDASVGNQILDFYSKHD 299

Query:   179 MMRHALRVFDQMMERDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTS 238
              +     +FD+M E D VS+N +I++Y Q++    +  FF  MQ  G         ++ S
Sbjct:   300 RVLETRMLFDEMPELDFVSYNVVISSYSQADQYEASLHFFREMQCMGFDRRNFPFATMLS 359

Query:   239 IVAQLNDCRNSRSVHGFIMRRGWFMEDVI-IGNAVVDMYAKLGIINSACAVFEGLPVKDV 297
             I A L+  +  R +H   +      + ++ +GN++VDMYAK  +   A  +F+ LP +  
Sbjct:   360 IAANLSSLQMGRQLHCQALLAT--ADSILHVGNSLVDMYAKCEMFEEAELIFKSLPQRTT 417

Query:   298 ISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHA 357
             +SW  LI+GY Q GL    +++F  M   N +  +Q T+ ++L A +   +L  G ++HA
Sbjct:   418 VSWTALISGYVQKGLHGAGLKLFTKMRGSN-LRADQSTFATVLKASASFASLLLGKQLHA 476

Query:   358 RVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDK 417
              +I++    +VF  + LVDMY KCG I DA+ +F ++P  ++V WNA+IS H  +G G+ 
Sbjct:   477 FIIRSGNLENVFSGSGLVDMYAKCGSIKDAVQVFEEMPDRNAVSWNALISAHADNGDGEA 536

Query:   418 ALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMV 477
             A+  F +M++ G++PD ++ + +LTACSH G V +G  YF  M   +GI P  KHY CM+
Sbjct:   537 AIGAFAKMIESGLQPDSVSILGVLTACSHCGFVEQGTEYFQAMSPIYGITPKKKHYACML 596

Query:   478 DLFGRAGHLGMAHNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDS-ENV 536
             DL GR G    A   +  MP  PD  +W ++L ACRIH N  L   A+++LF ++   + 
Sbjct:   597 DLLGRNGRFAEAEKLMDEMPFEPDEIMWSSVLNACRIHKNQSLAERAAEKLFSMEKLRDA 656

Query:   537 GYYVLMSNIYANVGKWEGVDEVRSLARDRGLKKTPGWSSIEVNNKVDIFYTGNRTHPKYE 596
               YV MSNIYA  G+WE V +V+   R+RG+KK P +S +EVN+K+ +F + ++THP  +
Sbjct:   657 AAYVSMSNIYAAAGEWEKVRDVKKAMRERGIKKVPAYSWVEVNHKIHVFSSNDQTHPNGD 716

Query:   597 KIYDELRNLTAKMKSLGYVPDKSFVLQDVEEDEKEHILTSHSERLAIAFGXXXXXXXXXX 656
             +I  ++  LTA+++  GY PD S V+QDV+E  K   L  HSERLA+AF           
Sbjct:   717 EIVRKINELTAEIEREGYKPDTSSVVQDVDEQMKIESLKYHSERLAVAFALISTPEGCPI 776

Query:   657 QIFKNLRVCGDCHNWTKFISQITEREIIVRDSNRFHHFKDGICSCGDYW 705
              + KNLR C DCH   K IS+I +REI VRD++RFHHF +G+CSCGDYW
Sbjct:   777 VVMKNLRACRDCHAAIKLISKIVKREITVRDTSRFHHFSEGVCSCGDYW 825

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
O81767	PP348_ARATH	No assigned EC number	0.6482	0.9943	0.8517	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	705
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	0.0
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-167
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	5e-86
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	4e-62
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-60
pfam14432	116	pfam14432, DYW_deaminase, DYW family of nucleic ac	9e-23
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-15
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	6e-10
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-09
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-08
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-07
pfam01535	31	pfam01535, PPR, PPR repeat	5e-07
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	5e-06
pfam01535	31	pfam01535, PPR, PPR repeat	8e-06
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-05
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-05
pfam12854	34	pfam12854, PPR_1, PPR repeat	2e-05
pfam13041	50	pfam13041, PPR_2, PPR repeat family	6e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	1e-04
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-04
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-04
pfam12854	34	pfam12854, PPR_1, PPR repeat	3e-04
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	6e-04
pfam01535	31	pfam01535, PPR, PPR repeat	6e-04
pfam01535	31	pfam01535, PPR, PPR repeat	6e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	7e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	0.003

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

 Score =  638 bits (1646), Expect = 0.0
 Identities = 297/706 (42%), Positives = 432/706 (61%), Gaps = 9/706 (1%)

Query: 1   MISVYVRCGRLSEAVDCFYQFTLTSGLRPDFYTFPPVLKACRNLVD---GKKIHCSVLKL 57
           ++  Y + G   EA+ C Y   L +G+RPD YTFP VL+ C  + D   G+++H  V++ 
Sbjct: 158 LVGGYAKAGYFDEAL-CLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRF 216

Query: 58  GFEWDVFVAASLLHMYCRFGLANVARKLFDDMPVRDSGSWNAMISGYCQSGNAVEALDIL 117
           GFE DV V  +L+ MY + G    AR +FD MP RD  SWNAMISGY ++G  +E L++ 
Sbjct: 217 GFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELF 276

Query: 118 DEMRLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKF 177
             MR   V  D +T+ S++  C    +   G  +H Y+VK G   ++ V N+LI MY   
Sbjct: 277 FTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSL 336

Query: 178 GMMRHALRVFDQMMERDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLT 237
           G    A +VF +M  +D VSW ++I+ YE++  P  A   +  M+Q  + PD +T+ S+ 
Sbjct: 337 GSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVL 396

Query: 238 SIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDV 297
           S  A L D      +H    R+G  +  V++ NA+++MY+K   I+ A  VF  +P KDV
Sbjct: 397 SACACLGDLDVGVKLHELAERKG-LISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDV 455

Query: 298 ISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHA 357
           ISW ++I G   N    EA+  F+ M     + PN  T ++ L A + +GAL  G +IHA
Sbjct: 456 ISWTSIIAGLRLNNRCFEALIFFRQML--LTLKPNSVTLIAALSACARIGALMCGKEIHA 513

Query: 358 RVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDK 417
            V++  + FD F+   L+D+Y +CGR++ A + F        V WN +++ +  HG+G  
Sbjct: 514 HVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQF-NSHEKDVVSWNILLTGYVAHGKGSM 572

Query: 418 ALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMV 477
           A+  F +M++ GV PD +TF+SLL ACS SG+V++G  YFH M+E++ I P+LKHY C+V
Sbjct: 573 AVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVV 632

Query: 478 DLFGRAGHLGMAHNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVG 537
           DL GRAG L  A+NFI  MP+ PD ++WGALL ACRIH ++ELG +A+  +FE+D  +VG
Sbjct: 633 DLLGRAGKLTEAYNFINKMPITPDPAVWGALLNACRIHRHVELGELAAQHIFELDPNSVG 692

Query: 538 YYVLMSNIYANVGKWEGVDEVRSLARDRGLKKTPGWSSIEVNNKVDIFYTGNRTHPKYEK 597
           YY+L+ N+YA+ GKW+ V  VR   R+ GL   PG S +EV  KV  F T + +HP+ ++
Sbjct: 693 YYILLCNLYADAGKWDEVARVRKTMRENGLTVDPGCSWVEVKGKVHAFLTDDESHPQIKE 752

Query: 598 IYDELRNLTAKMKSLGYVPDKSFVLQDVEEDEKEHILTSHSERLAIAFGIISSPPKSPIQ 657
           I   L     KMK+ G    +S  + ++E  + + I   HSERLAIAFG+I++ P  PI 
Sbjct: 753 INTVLEGFYEKMKASGLAGSESSSMDEIEVSKDD-IFCGHSERLAIAFGLINTVPGMPIW 811

Query: 658 IFKNLRVCGDCHNWTKFISQITEREIIVRDSNRFHHFKDGICSCGD 703
           + KNL +C +CHN  KFIS+I  REI VRD+ +FHHFKDG CSCGD
Sbjct: 812 VTKNLYMCENCHNTVKFISKIVRREISVRDTEQFHHFKDGECSCGD 857

Length = 857

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

 Score =  497 bits (1281), Expect = e-167
 Identities = 212/595 (35%), Positives = 358/595 (60%), Gaps = 3/595 (0%)

Query: 112 EALDILDEMRLEG-VSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNL 170
           EAL++ + +      ++   T  +++  C    +I     ++ ++   G E + ++ N +
Sbjct: 105 EALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRV 164

Query: 171 INMYAKFGMMRHALRVFDQMMERDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDL 230
           + M+ K GM+  A R+FD+M ER++ SW +II     + +   A   F  M + G   + 
Sbjct: 165 LLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEP 224

Query: 231 LTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFE 290
            T V +    A L   R  + +H  +++ G  + D  +  A++DMY+K G I  A  VF+
Sbjct: 225 RTFVVMLRASAGLGSARAGQQLHCCVLKTG-VVGDTFVSCALIDMYSKCGDIEDARCVFD 283

Query: 291 GLPVKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALR 350
           G+P K  ++WN+++ GYA +G + EA+ ++  M + + ++ +Q T+  ++  +S +  L 
Sbjct: 284 GMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRD-SGVSIDQFTFSIMIRIFSRLALLE 342

Query: 351 QGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHG 410
              + HA +I+     D+   T LVD+Y K GR++DA ++F ++PR + + WNA+I+ +G
Sbjct: 343 HAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYG 402

Query: 411 IHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHL 470
            HG+G KA+  F +M+ EGV P+H+TF+++L+AC +SGL  +G   F  M E   IKP  
Sbjct: 403 NHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRA 462

Query: 471 KHYGCMVDLFGRAGHLGMAHNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFE 530
            HY CM++L GR G L  A+  I+  P +P  ++W ALL ACRIH N+ELG +A+++L+ 
Sbjct: 463 MHYACMIELLGREGLLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYG 522

Query: 531 VDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDRGLKKTPGWSSIEVNNKVDIFYTGNR 590
           +  E +  YV++ N+Y + G+     +V    + +GL   P  + IEV  +   F++G+R
Sbjct: 523 MGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLSMHPACTWIEVKKQDHSFFSGDR 582

Query: 591 THPKYEKIYDELRNLTAKMKSLGYVPDKSFVLQDVEEDEKEHILTSHSERLAIAFGIISS 650
            HP+  +IY +L  L  ++   GYV +++ +L DV+EDE++     HSE+LAIAFG+I++
Sbjct: 583 LHPQSREIYQKLDELMKEISEYGYVAEENELLPDVDEDEEKVSGRYHSEKLAIAFGLINT 642

Query: 651 PPKSPIQIFKNLRVCGDCHNWTKFISQITEREIIVRDSNRFHHFKDGICSCGDYW 705
              +P+QI ++ R+C DCH   KFI+ +T+REI+VRD++RFHHFK G CSCGDYW
Sbjct: 643 SEWTPLQITQSHRICKDCHKVIKFIALVTKREIVVRDASRFHHFKLGKCSCGDYW 697

Length = 697

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

 Score =  288 bits (739), Expect = 5e-86
 Identities = 159/508 (31%), Positives = 266/508 (52%), Gaps = 11/508 (2%)

Query: 29  PDFYTFPPVLKAC---RNLVDGKKIHCSVLKLGFEWDVFVAASLLHMYCRFGLANVARKL 85
            D   +  + + C   R + +G ++    L       V +  ++L M+ RFG    A  +
Sbjct: 84  VDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLGNAMLSMFVRFGELVHAWYV 143

Query: 86  FDDMPVRDSGSWNAMISGYCQSGNAVEALDILDEMRLEGVSMDPITVASILPVCARSDNI 145
           F  MP RD  SWN ++ GY ++G   EAL +   M   GV  D  T   +L  C    ++
Sbjct: 144 FGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDL 203

Query: 146 LSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGMMRHALRVFDQMMERDVVSWNSIIAAY 205
             G  +H ++V+ G E ++ V N LI MY K G +  A  VFD+M  RD +SWN++I+ Y
Sbjct: 204 ARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGY 263

Query: 206 EQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMED 265
            ++ + +     F TM++  + PDL+T+ S+ S    L D R  R +HG++++ G F  D
Sbjct: 264 FENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTG-FAVD 322

Query: 266 VIIGNAVVDMYAKLGIINSACAVFEGLPVKDVISWNTLITGYAQNGLASEAIEVFQMMEE 325
           V + N+++ MY  LG    A  VF  +  KD +SW  +I+GY +NGL  +A+E + +ME+
Sbjct: 323 VSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQ 382

Query: 326 CNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRID 385
            + ++P++ T  S+L A + +G L  G+K+H    +  L   V VA  L++MY KC  ID
Sbjct: 383 -DNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCID 441

Query: 386 DAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACS 445
            A+ +F+ +P    + W +II+   ++ +  +AL FFRQML   ++P+ +T ++ L+AC+
Sbjct: 442 KALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLLT-LKPNSVTLIAALSACA 500

Query: 446 HSGLVSEGQR-YFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNMPVRPDASI 504
             G +  G+  + H+++   G    L +   ++DL+ R G +  A N  Q      D   
Sbjct: 501 RIGALMCGKEIHAHVLRTGIGFDGFLPN--ALLDLYVRCGRMNYAWN--QFNSHEKDVVS 556

Query: 505 WGALLGACRIHGNMELGAVASDRLFEVD 532
           W  LL     HG   +     +R+ E  
Sbjct: 557 WNILLTGYVAHGKGSMAVELFNRMVESG 584

Length = 857

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

 Score =  222 bits (568), Expect = 4e-62
 Identities = 119/422 (28%), Positives = 205/422 (48%), Gaps = 12/422 (2%)

Query: 98  NAMISGYCQSGNAVEALDILDEMRLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVK 157
           N+ +   C  G   +AL +L+ M+   V +D     ++  +C     +  G  +    + 
Sbjct: 55  NSQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALS 114

Query: 158 HGLEFNLFVSNNLINMYAKFGMMRHALRVFDQMMERDVVSWNSIIAAYEQSNDPITAHGF 217
                 + + N +++M+ +FG + HA  VF +M ERD+ SWN ++  Y ++     A   
Sbjct: 115 SHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCL 174

Query: 218 FTTMQQAGIQPDLLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYA 277
           +  M  AG++PD+ T   +      + D    R VH  ++R G F  DV + NA++ MY 
Sbjct: 175 YHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFG-FELDVDVVNALITMYV 233

Query: 278 KLGIINSACAVFEGLPVKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYV 337
           K G + SA  VF+ +P +D ISWN +I+GY +NG   E +E+F  M E   ++P+  T  
Sbjct: 234 KCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRE-LSVDPDLMTIT 292

Query: 338 SILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRS 397
           S++ A   +G  R G ++H  V+K     DV V   L+ MY   G   +A  +F ++   
Sbjct: 293 SVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETK 352

Query: 398 SSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYF 457
            +V W A+IS +  +G  DKAL  +  M  + V PD IT  S+L+AC+  G +  G    
Sbjct: 353 DAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVG---- 408

Query: 458 HMMQEEFGIKPHLKHY----GCMVDLFGRAGHLGMAHNFIQNMPVRPDASIWGALLGACR 513
            +   E   +  L  Y      +++++ +   +  A     N+P   D   W +++   R
Sbjct: 409 -VKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIP-EKDVISWTSIIAGLR 466

Query: 514 IH 515
           ++
Sbjct: 467 LN 468

Length = 857

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

 Score =  215 bits (550), Expect = 1e-60
 Identities = 133/458 (29%), Positives = 236/458 (51%), Gaps = 12/458 (2%)

Query: 2   ISVYVRCGRLSEAVDCFYQFTLTSGLRPDFYTFPPVLKAC---RNLVDGKKIHCSVLKLG 58
           I   V CGR  EA++ F              T+  +++AC   +++   K ++  V   G
Sbjct: 94  IEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSG 153

Query: 59  FEWDVFVAASLLHMYCRFGLANVARKLFDDMPVRDSGSWNAMISGYCQSGNAVEALDILD 118
           FE D ++   +L M+ + G+   AR+LFD+MP R+  SW  +I G   +GN  EA  +  
Sbjct: 154 FEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFR 213

Query: 119 EMRLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFG 178
           EM  +G   +P T   +L   A   +  +G  +H  ++K G+  + FVS  LI+MY+K G
Sbjct: 214 EMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCG 273

Query: 179 MMRHALRVFDQMMERDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTS 238
            +  A  VFD M E+  V+WNS++A Y        A   +  M+ +G+  D  T   +  
Sbjct: 274 DIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIR 333

Query: 239 IVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGN-AVVDMYAKLGIINSACAVFEGLPVKDV 297
           I ++L    +++  H  ++R G+ ++  I+ N A+VD+Y+K G +  A  VF+ +P K++
Sbjct: 334 IFSRLALLEHAKQAHAGLIRTGFPLD--IVANTALVDLYSKWGRMEDARNVFDRMPRKNL 391

Query: 298 ISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHA 357
           ISWN LI GY  +G  ++A+E+F+ M     + PN  T++++L A  + G   QG +I  
Sbjct: 392 ISWNALIAGYGNHGRGTKAVEMFERMIAEG-VAPNHVTFLAVLSACRYSGLSEQGWEIFQ 450

Query: 358 RVIKNC-LCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVP-WNAIISCHGIHGQG 415
            + +N  +        C++++ G+ G +D+A ++  + P   +V  W A+++   IH   
Sbjct: 451 SMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNL 510

Query: 416 DKALNFFRQMLDEGVRPDHI-TFVSLLTACSHSGLVSE 452
           +       ++   G+ P+ +  +V LL   + SG  +E
Sbjct: 511 ELGRLAAEKLY--GMGPEKLNNYVVLLNLYNSSGRQAE 546

Length = 697

>gnl|CDD|222749 pfam14432, DYW_deaminase, DYW family of nucleic acid deaminases

 Score = 93.6 bits (233), Expect = 9e-23
 Identities = 46/132 (34%), Positives = 70/132 (53%), Gaps = 23/132 (17%)

Query: 571 PGWSSIEVNNKVDIFYTGNRTHPKYEKIYDELRNLTAKMKSLGYVPDKSFVLQDVEEDE- 629
           PG    E         +G+ +HP           L  ++K  G VP+   +  DV+ +E 
Sbjct: 1   PGCVWSEGK----KTLSGDGSHPT------SKEELFQRIKVEGVVPETKEIGHDVDAEEF 50

Query: 630 -----KEHILTSHSERLAIAFGIISSPPKSPIQIFKNL-RVCGDCHNWTKFISQITEREI 683
                K  +L SH+E+ A+A+G++        +I K L R+CGDCH + ++I++ T REI
Sbjct: 51  RDNGIKGKLLASHAEKQALAYGLL------TTRIIKVLKRMCGDCHEFFRYIAKYTGREI 104

Query: 684 IVRDSNRFHHFK 695
           IVRD +RFHHFK
Sbjct: 105 IVRDPSRFHHFK 116

A family of nucleic acid deaminases prototyped by the plant PPR DYW proteins that are implicated in chloroplast and mitochondrial RNA transcript maturation by numerous C to U editing events. The name derives from the DYW motif present at the C-terminus of the classical plant PPR DYW deaminases. Members of this family are present in bacteria, plants, Naegleria, and fungi. Plants and Naegleria show lineage-specific expansions of this family. The classical DYW family contain an additional C-terminal metal-binding cluster composed of 2 histidines and a CxC motif and are often fused to PPR repeats. Ascomycete versions, which are independent lateral transfers, contain a large insert within the domain and are often fused to ankyrin repeats. Bacterial versions are predicted to function as toxins in polymorphic toxin systems. Length = 116

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

 Score = 79.9 bits (197), Expect = 2e-15
 Identities = 75/282 (26%), Positives = 122/282 (43%), Gaps = 57/282 (20%)

Query: 416 DKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGC 475
           D AL   R + + G++ D   + +L++ C+ SG V      FH M    G++ ++  +G 
Sbjct: 454 DGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEM-VNAGVEANVHTFGA 512

Query: 476 MVDLFGRAGHLGMA---HNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEV- 531
           ++D   RAG +  A   +  +++  V+PD  ++ AL+ AC      + GAV  DR F+V 
Sbjct: 513 LIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACG-----QSGAV--DRAFDVL 565

Query: 532 ----------DSENVGYYVLMSNIYANVGKWEGVDEVRSLARDRGLKKTPGWSSIEVNN- 580
                     D +++    LM    AN G+ +   EV  +  +  +K TP   +I VN+ 
Sbjct: 566 AEMKAETHPIDPDHITVGALMKAC-ANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSC 624

Query: 581 --KVDIFYTGNRTHPKYEKIYDELRNLTAKMKSLGYVPDKSFV--LQDVEEDEKEHILTS 636
             K D  +           IYD+       MK  G  PD+ F   L DV           
Sbjct: 625 SQKGDWDFA--------LSIYDD-------MKKKGVKPDEVFFSALVDV---------AG 660

Query: 637 HSERLAIAFGIISSPPKSPIQI----FKNLR-VCGDCHNWTK 673
           H+  L  AF I+    K  I++    + +L   C +  NW K
Sbjct: 661 HAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKK 702

Length = 1060

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

 Score = 62.6 bits (152), Expect = 6e-10
 Identities = 74/310 (23%), Positives = 115/310 (37%), Gaps = 54/310 (17%)

Query: 218 FTTMQQAGIQPDLLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYA 277
           F  M  AG++ ++ T  +L    A+      +   +G IMR      D ++ NA++    
Sbjct: 495 FHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYG-IMRSKNVKPDRVVFNALISACG 553

Query: 278 KLGIINSACAVF-----EGLPVK-DVISWNTLITGYAQNGLASEAIEVFQMMEECNEINP 331
           + G ++ A  V      E  P+  D I+   L+   A  G    A EV+QM+ E N I  
Sbjct: 554 QSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYN-IKG 612

Query: 332 NQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLF 391
               Y   + + S  G     + I+  + K  +  D    + LVD+ G  G +D A  + 
Sbjct: 613 TPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEIL 672

Query: 392 YQVPRSSSVP------------------W----------------------NAIIS--CH 409
            Q  R   +                   W                      NA+I+  C 
Sbjct: 673 -QDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCE 731

Query: 410 GIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPH 469
           G   Q  KAL    +M   G+ P+ IT+  LL A         G       +E+ GIKP+
Sbjct: 732 G--NQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKED-GIKPN 788

Query: 470 LKHYGCMVDL 479
           L    C+  L
Sbjct: 789 LVMCRCITGL 798

Length = 1060

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

 Score = 52.8 bits (128), Expect = 3e-09
 Identities = 18/51 (35%), Positives = 29/51 (56%), Gaps = 1/51 (1%)

Query: 295 KDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSH 345
            DV+++NTLI GY + G   EA+++F  M++   I PN  TY  ++     
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKK-RGIKPNVYTYSILIDGLCK 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 = 51.3 bits (124), Expect = 1e-08
 Identities = 12/49 (24%), Positives = 24/49 (48%)

Query: 398 SSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSH 446
             V +N +I  +   G+ ++AL  F +M   G++P+  T+  L+     
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 = 47.0 bits (113), Expect = 3e-07
 Identities = 14/49 (28%), Positives = 27/49 (55%)

Query: 93  DSGSWNAMISGYCQSGNAVEALDILDEMRLEGVSMDPITVASILPVCAR 141
           D  ++N +I GYC+ G   EAL + +EM+  G+  +  T + ++    +
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|144943 pfam01535, PPR, PPR repeat

 Score = 45.9 bits (110), Expect = 5e-07
 Identities = 14/30 (46%), Positives = 24/30 (80%)

Query: 96  SWNAMISGYCQSGNAVEALDILDEMRLEGV 125
           ++N++ISGYC++G   EAL++  EM+ +GV
Sbjct: 2   TYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 43.2 bits (103), Expect = 5e-06
 Identities = 12/33 (36%), Positives = 21/33 (63%)

Query: 96  SWNAMISGYCQSGNAVEALDILDEMRLEGVSMD 128
           ++N +I G C++G   EAL++  EM+  G+  D
Sbjct: 2   TYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34

This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam model pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. 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. Length = 35

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

 Score = 42.8 bits (102), Expect = 8e-06
 Identities = 12/30 (40%), Positives = 22/30 (73%)

Query: 298 ISWNTLITGYAQNGLASEAIEVFQMMEECN 327
           +++N+LI+GY + G   EA+E+F+ M+E  
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

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

 Score = 48.7 bits (116), Expect = 1e-05
 Identities = 62/305 (20%), Positives = 125/305 (40%), Gaps = 51/305 (16%)

Query: 97  WNAMISGYCQSGNAVEALDILDEMRLEGVSMDP--ITVASILPVCARSDNILSGLLIHLY 154
           +NA+IS   QSG    A D+L EM+ E   +DP  ITV +++  CA +  +     ++  
Sbjct: 545 FNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQM 604

Query: 155 IVKHGLEFNLFVSNNLINMYAKFGMMRHALRVFDQMMERDV----VSWNSIIAAYEQSND 210
           I ++ ++    V    +N  ++ G    AL ++D M ++ V    V +++++     + D
Sbjct: 605 IHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGD 664

Query: 211 PITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGN 270
              A       ++ GI+   ++  SL         C N+++         W         
Sbjct: 665 LDKAFEILQDARKQGIKLGTVSYSSLMGA------CSNAKN---------W--------- 700

Query: 271 AVVDMYAKLGIINSACAVFEGL---PVKDVIS-WNTLITGYAQNGLASEAIEVFQMMEEC 326
                         A  ++E +    ++  +S  N LIT   +     +A+EV   M+  
Sbjct: 701 ------------KKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRL 748

Query: 327 NEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKC-GRID 385
             + PN  TY  +L A         G+ + ++  ++ +  ++ +  C+  +   C  R +
Sbjct: 749 G-LCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGL---CLRRFE 804

Query: 386 DAMSL 390
            A +L
Sbjct: 805 KACAL 809

Length = 1060

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

 Score = 47.6 bits (113), Expect = 2e-05
 Identities = 57/256 (22%), Positives = 106/256 (41%), Gaps = 54/256 (21%)

Query: 271 AVVDMYAKLGIINSACAVFEGLPVKDV----ISWNTLITGYAQNGLASEAIEVF-QMMEE 325
           A++D  A+ G +  A   +  +  K+V    + +N LI+   Q+G    A +V  +M  E
Sbjct: 512 ALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAE 571

Query: 326 CNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRID 385
            + I+P+  T           GAL          +K C                  G++D
Sbjct: 572 THPIDPDHITV----------GAL----------MKACA---------------NAGQVD 596

Query: 386 DAMSLFYQVPRSSSVP-----WNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSL 440
            A  + YQ+    ++      +   ++     G  D AL+ +  M  +GV+PD + F +L
Sbjct: 597 RAKEV-YQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSAL 655

Query: 441 LTACSHSGLVSEGQRYFHMMQE--EFGIKPHLKHYGCMVDLFGRAGHLGMA---HNFIQN 495
           +    H+G + +    F ++Q+  + GIK     Y  ++     A +   A   +  I++
Sbjct: 656 VDVAGHAGDLDKA---FEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKS 712

Query: 496 MPVRPDASIWGALLGA 511
           + +RP  S   AL+ A
Sbjct: 713 IKLRPTVSTMNALITA 728

Length = 1060

>gnl|CDD|205109 pfam12854, PPR_1, PPR repeat

 Score = 42.0 bits (100), Expect = 2e-05
 Identities = 13/29 (44%), Positives = 19/29 (65%)

Query: 296 DVISWNTLITGYAQNGLASEAIEVFQMME 324
           DV+++NTLI G  + G   EA+E+   ME
Sbjct: 6   DVVTYNTLIDGLCRAGRVDEAVELLDEME 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|205222 pfam13041, PPR_2, PPR repeat family

 Score = 40.5 bits (96), Expect = 6e-05
 Identities = 13/42 (30%), Positives = 25/42 (59%), Gaps = 4/42 (9%)

Query: 168 NNLINMYAKFGMMRHALRVFDQMMER----DVVSWNSIIAAY 205
           N LI+ Y K G +  AL++F++M +R    +V +++ +I   
Sbjct: 7   NTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 48

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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 39.4 bits (93), Expect = 1e-04
 Identities = 10/32 (31%), Positives = 19/32 (59%)

Query: 402 WNAIISCHGIHGQGDKALNFFRQMLDEGVRPD 433
           +N +I      G+ ++AL  F++M + G+ PD
Sbjct: 3   YNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34

This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam model pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. 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. Length = 35

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

 Score = 39.3 bits (93), Expect = 2e-04
 Identities = 13/39 (33%), Positives = 23/39 (58%)

Query: 194 DVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLT 232
           DVV++N++I  Y +      A   F  M++ GI+P++ T
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYT 40

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 = 39.3 bits (93), Expect = 2e-04
 Identities = 15/49 (30%), Positives = 26/49 (53%), Gaps = 4/49 (8%)

Query: 62  DVFVAASLLHMYCRFGLANVARKLFDDMPVR----DSGSWNAMISGYCQ 106
           DV    +L+  YC+ G    A KLF++M  R    +  +++ +I G C+
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|205109 pfam12854, PPR_1, PPR repeat

 Score = 38.1 bits (90), Expect = 3e-04
 Identities = 11/26 (42%), Positives = 19/26 (73%)

Query: 96  SWNAMISGYCQSGNAVEALDILDEMR 121
           ++N +I G C++G   EA+++LDEM 
Sbjct: 9   TYNTLIDGLCRAGRVDEAVELLDEME 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|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 42.9 bits (101), Expect = 6e-04
 Identities = 56/258 (21%), Positives = 116/258 (44%), Gaps = 20/258 (7%)

Query: 1   MISVYVRCGRLSEAVDCFYQFTL-TSGLRPDFYTFPPVLKACRNL--VDGKK-----IHC 52
           +IS   + G +  A D   +    T  + PD  T   ++KAC N   VD  K     IH 
Sbjct: 548 LISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHE 607

Query: 53  SVLKLGFEWDVFVAASLLHMYCRFGLANVARKLFDDMP----VRDSGSWNAMISGYCQSG 108
             +K G   +V+  A  ++   + G  + A  ++DDM       D   ++A++     +G
Sbjct: 608 YNIK-GTP-EVYTIA--VNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAG 663

Query: 109 NAVEALDILDEMRLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSN 168
           +  +A +IL + R +G+ +  ++ +S++  C+ + N    L ++  I    L   +   N
Sbjct: 664 DLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMN 723

Query: 169 NLINMYAKFGMMRHALRVFDQM----MERDVVSWNSIIAAYEQSNDPITAHGFFTTMQQA 224
            LI    +   +  AL V  +M    +  + ++++ ++ A E+ +D        +  ++ 
Sbjct: 724 ALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKED 783

Query: 225 GIQPDLLTLVSLTSIVAQ 242
           GI+P+L+    +T +  +
Sbjct: 784 GIKPNLVMCRCITGLCLR 801

Length = 1060

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

 Score = 37.4 bits (88), Expect = 6e-04
 Identities = 12/28 (42%), Positives = 18/28 (64%)

Query: 168 NNLINMYAKFGMMRHALRVFDQMMERDV 195
           N+LI+ Y K G +  AL +F +M E+ V
Sbjct: 4   NSLISGYCKAGKLEEALELFKEMKEKGV 31

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 = 37.4 bits (88), Expect = 6e-04
 Identities = 11/31 (35%), Positives = 22/31 (70%)

Query: 400 VPWNAIISCHGIHGQGDKALNFFRQMLDEGV 430
           V +N++IS +   G+ ++AL  F++M ++GV
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 37.1 bits (87), Expect = 7e-04
 Identities = 14/35 (40%), Positives = 23/35 (65%), Gaps = 1/35 (2%)

Query: 298 ISWNTLITGYAQNGLASEAIEVFQMMEECNEINPN 332
           +++NTLI G  + G   EA+E+F+ M+E   I P+
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERG-IEPD 34

This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam model pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. 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. Length = 35

>gnl|CDD|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 35.1 bits (82), Expect = 0.003
 Identities = 11/29 (37%), Positives = 16/29 (55%)

Query: 168 NNLINMYAKFGMMRHALRVFDQMMERDVV 196
           N LI+   K G +  AL +F +M ER + 
Sbjct: 4   NTLIDGLCKAGRVEEALELFKEMKERGIE 32

This model describes a domain called the PPR motif, or pentatricopeptide repeat. Its consensus sequence is 35 positions long and typically is found in four or more tandem copies. This family is strongly represented in plant proteins, particularly those sorted to chloroplasts or mitochondria. The pfam model pfam01535, domain of unknown function DUF17, consists of 6 copies of this repeat. 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. Length = 35

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	705
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	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
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
PF14432	116	DYW_deaminase: DYW family of nucleic acid deaminas	100.0
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.94
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.94
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.92
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.92
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.91
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.87
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.85
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.84
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.83
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.81
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.81
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.8
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.8
PRK14574	822	hmsH outer membrane protein; Provisional	99.78
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.78
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.77
PRK14574	822	hmsH outer membrane protein; Provisional	99.75
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.74
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.7
KOG2003	840	consensus TPR repeat-containing protein [General f	99.67
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.65
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.59
KOG2076	895	consensus RNA polymerase III transcription factor	99.57
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.54
KOG2076	895	consensus RNA polymerase III transcription factor	99.51
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.49
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.49
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.49
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.49
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.46
KOG1126	638	consensus DNA-binding cell division cycle control	99.45
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.44
KOG1126	638	consensus DNA-binding cell division cycle control	99.44
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.41
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.41
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.4
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.39
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.39
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.38
KOG2003	840	consensus TPR repeat-containing protein [General f	99.36
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.33
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.28
PF13041	50	PPR_2: PPR repeat family	99.28
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.27
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.27
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.26
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.25
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.25
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.24
PF13041	50	PPR_2: PPR repeat family	99.22
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.21
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.19
PRK12370	553	invasion protein regulator; Provisional	99.17
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.16
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.13
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.12
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.12
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.1
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.08
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.06
PRK11189	296	lipoprotein NlpI; Provisional	99.05
PRK12370	553	invasion protein regulator; Provisional	99.04
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.03
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.03
KOG1129	478	consensus TPR repeat-containing protein [General f	99.02
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	99.01
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	98.97
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.96
PRK11189	296	lipoprotein NlpI; Provisional	98.95
KOG1129	478	consensus TPR repeat-containing protein [General f	98.94
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	98.9
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	98.88
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.87
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.85
KOG1125	579	consensus TPR repeat-containing protein [General f	98.83
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.82
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.81
PRK04841	903	transcriptional regulator MalT; Provisional	98.8
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.8
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	98.8
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.79
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.74
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.72
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.66
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.64
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.64
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.62
PF12854	34	PPR_1: PPR repeat	98.6
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.6
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.59
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.59
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.57
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.54
PRK15359	144	type III secretion system chaperone protein SscB;	98.51
PRK04841	903	transcriptional regulator MalT; Provisional	98.49
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.49
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.49
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.48
PF12854	34	PPR_1: PPR repeat	98.48
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.46
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.45
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.44
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.44
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.43
KOG1125	579	consensus TPR repeat-containing protein [General f	98.42
PRK15359	144	type III secretion system chaperone protein SscB;	98.41
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.37
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.3
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.3
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.29
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.26
PLN02789	320	farnesyltranstransferase	98.25
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.24
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.22
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.18
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.16
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.15
PLN02789	320	farnesyltranstransferase	98.14
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.13
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.13
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.12
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.06
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.03
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.01
COG4783	484	Putative Zn-dependent protease, contains TPR repea	97.95
TIGR02552	135	LcrH_SycD type III secretion low calcium response	97.92
PF13812	34	PPR_3: Pentatricopeptide repeat domain	97.91
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	97.9
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	97.89
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	97.88
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	97.84
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	97.81
PRK14720	906	transcript cleavage factor/unknown domain fusion p	97.79
KOG3060	289	consensus Uncharacterized conserved protein [Funct	97.77
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.76
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.73
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.72
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.7
KOG0553	304	consensus TPR repeat-containing protein [General f	97.68
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.67
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.66
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.66
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.65
KOG3060	289	consensus Uncharacterized conserved protein [Funct	97.65
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.65
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.62
COG3898	531	Uncharacterized membrane-bound protein [Function u	97.62
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.62
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	97.6
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.6
KOG0553	304	consensus TPR repeat-containing protein [General f	97.54
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.53
PRK15331	165	chaperone protein SicA; Provisional	97.49
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.47
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.4
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.4
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.39
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.3
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.29
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.26
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.26
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.23
PF13371	73	TPR_9: Tetratricopeptide repeat	97.23
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	97.21
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	97.21
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.14
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.13
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.13
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.12
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.12
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.11
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.07
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.07
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.06
PF13431	34	TPR_17: Tetratricopeptide repeat	97.04
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.03
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	96.95
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	96.93
COG4700	251	Uncharacterized protein conserved in bacteria cont	96.89
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	96.87
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	96.84
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	96.82
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.8
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	96.79
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	96.78
KOG2041	1189	consensus WD40 repeat protein [General function pr	96.78
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	96.76
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.76
PF12688	120	TPR_5: Tetratrico peptide repeat	96.75
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	96.71
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	96.69
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	96.68
PF13428	44	TPR_14: Tetratricopeptide repeat	96.67
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	96.63
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.54
PRK10803	263	tol-pal system protein YbgF; Provisional	96.54
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.53
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	96.47
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	96.45
PF12688	120	TPR_5: Tetratrico peptide repeat	96.4
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	96.37
PF13371	73	TPR_9: Tetratricopeptide repeat	96.33
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.28
COG0457	291	NrfG FOG: TPR repeat [General function prediction	96.28
PRK10803	263	tol-pal system protein YbgF; Provisional	96.19
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	96.13
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	96.1
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	96.01
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	95.91
COG3898	531	Uncharacterized membrane-bound protein [Function u	95.88
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	95.79
PRK11906	458	transcriptional regulator; Provisional	95.76
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	95.61
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	95.6
PF03704	146	BTAD: Bacterial transcriptional activator domain;	95.6
KOG4555	175	consensus TPR repeat-containing protein [Function	95.54
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	95.17
KOG1585	308	consensus Protein required for fusion of vesicles	95.15
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	95.09
PF03704	146	BTAD: Bacterial transcriptional activator domain;	95.07
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	95.03
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	95.01
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	94.97
COG0457	291	NrfG FOG: TPR repeat [General function prediction	94.87
KOG3941	406	consensus Intermediate in Toll signal transduction	94.82
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	94.79
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	94.76
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	94.68
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	94.63
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	94.58
KOG3941	406	consensus Intermediate in Toll signal transduction	94.46
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	94.26
KOG1258	577	consensus mRNA processing protein [RNA processing	94.2
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	94.15
smart00299	140	CLH Clathrin heavy chain repeat homology.	94.12
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	93.93
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	93.93
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	93.78
smart00299	140	CLH Clathrin heavy chain repeat homology.	93.78
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	93.71
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	93.63
PRK11906	458	transcriptional regulator; Provisional	93.43
KOG1941	518	consensus Acetylcholine receptor-associated protei	93.19
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	93.1
PF13512	142	TPR_18: Tetratricopeptide repeat	93.09
COG3118	304	Thioredoxin domain-containing protein [Posttransla	92.93
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	92.74
PF13512	142	TPR_18: Tetratricopeptide repeat	92.73
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	92.45
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	92.31
COG3118	304	Thioredoxin domain-containing protein [Posttransla	92.3
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	91.94
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	91.89
COG4105	254	ComL DNA uptake lipoprotein [General function pred	91.88
PRK11619	644	lytic murein transglycosylase; Provisional	91.82
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	91.64
KOG2610	491	consensus Uncharacterized conserved protein [Funct	91.57
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	91.33
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	91.19
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	91.08
KOG2610	491	consensus Uncharacterized conserved protein [Funct	90.92
PRK09687	280	putative lyase; Provisional	90.87
PRK15331	165	chaperone protein SicA; Provisional	90.85
KOG4234	271	consensus TPR repeat-containing protein [General f	90.75
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	90.75
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	90.68
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	90.39
COG4105	254	ComL DNA uptake lipoprotein [General function pred	89.92
KOG1585	308	consensus Protein required for fusion of vesicles	89.74
KOG4555	175	consensus TPR repeat-containing protein [Function	89.65
COG3629	280	DnrI DNA-binding transcriptional activator of the	89.11
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	88.79
KOG1550	552	consensus Extracellular protein SEL-1 and related	88.2
PF13428	44	TPR_14: Tetratricopeptide repeat	88.01
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	87.57
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	87.4
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	87.07
COG3629	280	DnrI DNA-binding transcriptional activator of the	86.99
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	86.64
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	86.49
PRK09687	280	putative lyase; Provisional	86.46
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	86.18
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	86.15
KOG4570	418	consensus Uncharacterized conserved protein [Funct	85.27
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	85.18
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	85.03
KOG1941	518	consensus Acetylcholine receptor-associated protei	84.95
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	84.94
COG3947	361	Response regulator containing CheY-like receiver a	84.47
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	84.45
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	84.18
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	84.18
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	84.13
KOG4279	1226	consensus Serine/threonine protein kinase [Signal	83.82
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	83.8
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	83.3
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	83.28
KOG0403	645	consensus Neoplastic transformation suppressor Pdc	83.27
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	83.2
KOG3364	149	consensus Membrane protein involved in organellar	83.13
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	83.09
PF14853	53	Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repe	83.02
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	82.52
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	82.26
KOG4648	536	consensus Uncharacterized conserved protein, conta	82.12
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	81.24
PF13431	34	TPR_17: Tetratricopeptide repeat	80.78
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	80.52
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	80.29

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=3.3e-139  Score=1199.05  Aligned_cols=697  Identities=43%  Similarity=0.774  Sum_probs=687.0

Q ss_pred             CccchhhcCCchHHHHHHHHHhHhCCCCCCccchHHHHHHhcCCch---HHHHHHHHHHhCCCCCHHHHHHHHHHHHcCC
Q 005268            1 MISVYVRCGRLSEAVDCFYQFTLTSGLRPDFYTFPPVLKACRNLVD---GKKIHCSVLKLGFEWDVFVAASLLHMYCRFG   77 (705)
Q Consensus         1 li~~~~~~g~~~~A~~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~---~~~~~~~~~~~g~~~~~~~~~~ll~~y~~~g   77 (705)
                      ||++|++.|++++|+++|++ |...|+.||.+||+++|++|+..++   +.++|..+.+.|+.||+.++|+||.+|+++|
T Consensus       158 li~~~~~~g~~~~A~~~f~~-M~~~g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~Li~~y~k~g  236 (857)
T PLN03077        158 LVGGYAKAGYFDEALCLYHR-MLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCG  236 (857)
T ss_pred             HHHHHHhCCCHHHHHHHHHH-HHHcCCCCChhHHHHHHHHhCCccchhhHHHHHHHHHHcCCCcccchHhHHHHHHhcCC
Confidence            58899999999999999999 8889999999999999999988776   9999999999999999999999999999999


Q ss_pred             ChhHHHHHhccCCCCCcchHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHhHHHHhhcCCChHHHHHHHHHHHH
Q 005268           78 LANVARKLFDDMPVRDSGSWNAMISGYCQSGNAVEALDILDEMRLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVK  157 (705)
Q Consensus        78 ~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~  157 (705)
                      ++++|.++|++|++||+++||+||.+|+++|++++|+++|++|.+.|+.||..||+.++.+|++.|+++.|.++|..+.+
T Consensus       237 ~~~~A~~lf~~m~~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~  316 (857)
T PLN03077        237 DVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVK  316 (857)
T ss_pred             CHHHHHHHHhcCCCCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hCCCCchhHHHHHHHHHHccCCHHHHHHHHhccCCCCeehHHHHHHHHHcCCChhhHHHHHHHHHHCCCCCChhhHHHHH
Q 005268          158 HGLEFNLFVSNNLINMYAKFGMMRHALRVFDQMMERDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLT  237 (705)
Q Consensus       158 ~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll  237 (705)
                      .|+.||..+||+|+.+|+++|++++|.++|++|.+||+++||+||.+|++.|++++|+++|++|.+.|+.||..||++++
T Consensus       317 ~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll  396 (857)
T PLN03077        317 TGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVL  396 (857)
T ss_pred             hCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHccCChhhHHHHHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHHcCChhHHH
Q 005268          238 SIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDVISWNTLITGYAQNGLASEAI  317 (705)
Q Consensus       238 ~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~  317 (705)
                      .+|++.|+++.|.++|+.+.+.| +.++..++|+|+++|+++|++++|.++|++|.++|+++||++|.+|+++|+.++|+
T Consensus       397 ~a~~~~g~~~~a~~l~~~~~~~g-~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~vs~~~mi~~~~~~g~~~eA~  475 (857)
T PLN03077        397 SACACLGDLDVGVKLHELAERKG-LISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEAL  475 (857)
T ss_pred             HHHhccchHHHHHHHHHHHHHhC-CCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHCCCHHHHH
Confidence            99999999999999999999999 99999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhhhhcCCCCCCcccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCCCC
Q 005268          318 EVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRS  397 (705)
Q Consensus       318 ~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~~~  397 (705)
                      .+|++|..  +++||..||++++.+|++.|+++.+.++|..+.+.|+.+|..++|+|+++|+|+|++++|.++|+.+ .+
T Consensus       476 ~lf~~m~~--~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~-~~  552 (857)
T PLN03077        476 IFFRQMLL--TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH-EK  552 (857)
T ss_pred             HHHHHHHh--CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhc-CC
Confidence            99999985  5999999999999999999999999999999999999999999999999999999999999999999 99


Q ss_pred             CcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHH
Q 005268          398 SSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMV  477 (705)
Q Consensus       398 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li  477 (705)
                      |.++||+||.+|+++|+.++|+++|++|.+.|+.||.+||+.++.+|++.|++++|.++|+.|.+.+|+.|+..+|++|+
T Consensus       553 d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv  632 (857)
T PLN03077        553 DVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVV  632 (857)
T ss_pred             ChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999997789999999999999


Q ss_pred             HHHHhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHH
Q 005268          478 DLFGRAGHLGMAHNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDE  557 (705)
Q Consensus       478 ~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~  557 (705)
                      ++|+|.|++++|.+++++|+++||..+|++|+.+|+.+|+.+.|+.+.+++++++|+++..|+.|+++|+..|+|++|.+
T Consensus       633 ~~l~r~G~~~eA~~~~~~m~~~pd~~~~~aLl~ac~~~~~~e~~e~~a~~l~~l~p~~~~~y~ll~n~ya~~g~~~~a~~  712 (857)
T PLN03077        633 DLLGRAGKLTEAYNFINKMPITPDPAVWGALLNACRIHRHVELGELAAQHIFELDPNSVGYYILLCNLYADAGKWDEVAR  712 (857)
T ss_pred             HHHHhCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhhCCCCcchHHHHHHHHHHCCChHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhCCCccCCceeEEEECCEEEEEEeCCCCCCCcHHHHHHHHHHHHHHHhCCcccCCcccccccchhhhhhhhccc
Q 005268          558 VRSLARDRGLKKTPGWSSIEVNNKVDIFYTGNRTHPKYEKIYDELRNLTAKMKSLGYVPDKSFVLQDVEEDEKEHILTSH  637 (705)
Q Consensus       558 ~~~~m~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~m~~~g~~pd~~~~~~~~~~~~~~~~~~~~  637 (705)
                      +++.|+++|++|+||+|||++++++|.|.+||..||+.++||..+++|..+|++.||+||+..++ ++++++|+..|++|
T Consensus       713 vr~~M~~~g~~k~~g~s~ie~~~~~~~f~~~d~~h~~~~~i~~~l~~l~~~~~~~g~~~~~~~~~-~~~~~~k~~~~~~h  791 (857)
T PLN03077        713 VRKTMRENGLTVDPGCSWVEVKGKVHAFLTDDESHPQIKEINTVLEGFYEKMKASGLAGSESSSM-DEIEVSKDDIFCGH  791 (857)
T ss_pred             HHHHHHHcCCCCCCCccEEEECCEEEEEecCCCCCcchHHHHHHHHHHHHHHHhCCcCCCcchhc-cccHHHHHHHHHhc
Confidence            99999999999999999999999999999999999999999999999999999999999999888 55888999999999


Q ss_pred             chhhHHhcccccCCCCCceEEeeccccccchhHHHHHHhhhhCceEEEecCCccccccccccCCCC
Q 005268          638 SERLAIAFGIISSPPKSPIQIFKNLRVCGDCHNWTKFISQITEREIIVRDSNRFHHFKDGICSCGD  703 (705)
Q Consensus       638 ~~~la~~~~~~~~~~~~~~~~~~n~~~~~~~h~~~~~~s~~~~~~~~~~~~~~~h~~~~g~~s~~~  703 (705)
                      |||||+|||||+||+|+||||+||||||+|||+++||||++++|+|||||.+|||||++|+|||+|
T Consensus       792 se~la~a~~l~~~~~~~~i~i~knlr~c~dch~~~k~~s~~~~r~i~~rd~~rfh~f~~g~csc~d  857 (857)
T PLN03077        792 SERLAIAFGLINTVPGMPIWVTKNLYMCENCHNTVKFISKIVRREISVRDTEQFHHFKDGECSCGD  857 (857)
T ss_pred             cHHHHHHHhhhcCCCCCeEEEeCCCEeCccHHHHHHHHHHHhCeEEEEecCCcceeCCCCcccCCC
Confidence            999999999999999999999999999999999999999999999999999999999999999998

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

Probab=100.00  E-value=3.7e-126  Score=1065.50  Aligned_cols=613  Identities=35%  Similarity=0.673  Sum_probs=605.6

Q ss_pred             CCCcchHHHHHHHHHhCCChhHHHHHHHHHHHCC-CCCChhhHHhHHHHhhcCCChHHHHHHHHHHHHhCCCCchhHHHH
Q 005268           91 VRDSGSWNAMISGYCQSGNAVEALDILDEMRLEG-VSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNN  169 (705)
Q Consensus        91 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~  169 (705)
                      .++..+|+++|.+|.+.|++++|+++|+.|...+ ..||..||+.++.+|++.++++.|.++|..|.+.|+.||..++|.
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            4577899999999999999999999999999764 789999999999999999999999999999999999999999999


Q ss_pred             HHHHHHccCCHHHHHHHHhccCCCCeehHHHHHHHHHcCCChhhHHHHHHHHHHCCCCCChhhHHHHHHHHHccCChhhH
Q 005268          170 LINMYAKFGMMRHALRVFDQMMERDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQLNDCRNS  249 (705)
Q Consensus       170 Li~~y~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a  249 (705)
                      |+++|+++|++++|.++|++|++||+++||+||.+|++.|++++|+++|++|.+.|+.||..||+.++.+|+..+..+.+
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             HHHHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCC
Q 005268          250 RSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEI  329 (705)
Q Consensus       250 ~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~  329 (705)
                      +++|..+.+.| +.+|..++|+|+++|+++|++++|.++|++|+++|+++||+||.+|++.|+.++|+++|++|.+ .|+
T Consensus       244 ~~l~~~~~~~g-~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~-~g~  321 (697)
T PLN03081        244 QQLHCCVLKTG-VVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRD-SGV  321 (697)
T ss_pred             HHHHHHHHHhC-CCccceeHHHHHHHHHHCCCHHHHHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHH-cCC
Confidence            99999999999 9999999999999999999999999999999999999999999999999999999999999999 999


Q ss_pred             CCCcccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCcchHHHHHHHH
Q 005268          330 NPNQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCH  409 (705)
Q Consensus       330 ~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~~~~~~~~~~li~~~  409 (705)
                      .||..||++++.+|++.|+++.|.++|..+.+.|+.||..++|+|+++|+|+|++++|.++|++|.++|+++||+||.+|
T Consensus       322 ~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~~d~~t~n~lI~~y  401 (697)
T PLN03081        322 SIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGY  401 (697)
T ss_pred             CCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCCCCeeeHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHH
Q 005268          410 GIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMA  489 (705)
Q Consensus       410 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A  489 (705)
                      +++|+.++|+++|++|.+.|+.||.+||+.++.+|++.|++++|.++|+.|.+.+|+.|+..+|++|+++|++.|++++|
T Consensus       402 ~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA  481 (697)
T PLN03081        402 GNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEA  481 (697)
T ss_pred             HHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHH
Confidence            99999999999999999999999999999999999999999999999999998889999999999999999999999999


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhCCCcc
Q 005268          490 HNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDRGLKK  569 (705)
Q Consensus       490 ~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~  569 (705)
                      .+++++|+.+|+..+|++|+.+|+.+|+++.|+.+++++++++|++...|+.|+++|++.|+|++|.++++.|+++|+++
T Consensus       482 ~~~~~~~~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~~p~~~~~y~~L~~~y~~~G~~~~A~~v~~~m~~~g~~k  561 (697)
T PLN03081        482 YAMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLSM  561 (697)
T ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhCCCCCCCcchHHHHHHHHhCCCHHHHHHHHHHHHHcCCcc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCceeEEEECCEEEEEEeCCCCCCCcHHHHHHHHHHHHHHHhCCcccCCcccccccchhhhhhhhcccchhhHHhccccc
Q 005268          570 TPGWSSIEVNNKVDIFYTGNRTHPKYEKIYDELRNLTAKMKSLGYVPDKSFVLQDVEEDEKEHILTSHSERLAIAFGIIS  649 (705)
Q Consensus       570 ~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~m~~~g~~pd~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~  649 (705)
                      .||+||+++++++|.|.+||..||+..++|.++.++..+|++.||.||+.++++|+++++|+..|++||||||+|||||+
T Consensus       562 ~~g~s~i~~~~~~~~f~~~d~~h~~~~~i~~~l~~l~~~~~~~gy~~~~~~~~~~~~~~~~~~~~~~hsekla~a~~l~~  641 (697)
T PLN03081        562 HPACTWIEVKKQDHSFFSGDRLHPQSREIYQKLDELMKEISEYGYVAEENELLPDVDEDEEKVSGRYHSEKLAIAFGLIN  641 (697)
T ss_pred             CCCeeEEEECCeEEEEccCCCCCccHHHHHHHHHHHHHHHHHcCCCCCcchhhccccHHHHHHHHHhccHHHHHHhhCcc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCceEEeeccccccchhHHHHHHhhhhCceEEEecCCccccccccccCCCCCC
Q 005268          650 SPPKSPIQIFKNLRVCGDCHNWTKFISQITEREIIVRDSNRFHHFKDGICSCGDYW  705 (705)
Q Consensus       650 ~~~~~~~~~~~n~~~~~~~h~~~~~~s~~~~~~~~~~~~~~~h~~~~g~~s~~~~w  705 (705)
                      ||+|+||||+||||+|+|||+|+||||++++|+|||||.+|||||++|+|||+|||
T Consensus       642 ~~~~~~i~i~knlr~c~dch~~~k~~s~~~~r~i~~rd~~rfh~f~~g~csc~d~w  697 (697)
T PLN03081        642 TSEWTPLQITQSHRICKDCHKVIKFIALVTKREIVVRDASRFHHFKLGKCSCGDYW  697 (697)
T ss_pred             CCCCCeEEEecCCEECCCchhhHHHHhhhcceEEEEecCCccccCCCCcccccccC
Confidence            99999999999999999999999999999999999999999999999999999999

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=2.6e-86  Score=761.29  Aligned_cols=676  Identities=26%  Similarity=0.414  Sum_probs=604.2

Q ss_pred             CccchhhcCCchHHHHHHHHHhHhCCCCCCccchHHHHHHhcCCch---HHHHHHHHHHhCCCCCHHHHHHHHHHHHcCC
Q 005268            1 MISVYVRCGRLSEAVDCFYQFTLTSGLRPDFYTFPPVLKACRNLVD---GKKIHCSVLKLGFEWDVFVAASLLHMYCRFG   77 (705)
Q Consensus         1 li~~~~~~g~~~~A~~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~---~~~~~~~~~~~g~~~~~~~~~~ll~~y~~~g   77 (705)
                      +|.+|++.|++++|+.+|+. |...|+.|+..+|..++++|.+.+.   |.++|..+.+.|..++..++|+|+.+|+++|
T Consensus        57 ~i~~l~~~g~~~~A~~l~~~-m~~~g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~n~li~~~~~~g  135 (857)
T PLN03077         57 QLRALCSHGQLEQALKLLES-MQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLGNAMLSMFVRFG  135 (857)
T ss_pred             HHHHHHhCCCHHHHHHHHHH-HHhcCCCCChhHHHHHHHHHhhCCCHHHHHHHHHHHHHcCCCCCchHHHHHHHHHHhCC
Confidence            46789999999999999999 9999999999999999999987665   9999999999999999999999999999999


Q ss_pred             ChhHHHHHhccCCCCCcchHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHhHHHHhhcCCChHHHHHHHHHHHH
Q 005268           78 LANVARKLFDDMPVRDSGSWNAMISGYCQSGNAVEALDILDEMRLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVK  157 (705)
Q Consensus        78 ~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~  157 (705)
                      +++.|+++|++|++||+++||+||.+|++.|++++|+++|++|...|+.||.+||+.++++|+..+++..+.++|..+++
T Consensus       136 ~~~~A~~~f~~m~~~d~~~~n~li~~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~  215 (857)
T PLN03077        136 ELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVR  215 (857)
T ss_pred             ChHHHHHHHhcCCCCCeeEHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHhCCccchhhHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hCCCCchhHHHHHHHHHHccCCHHHHHHHHhccCCCCeehHHHHHHHHHcCCChhhHHHHHHHHHHCCCCCChhhHHHHH
Q 005268          158 HGLEFNLFVSNNLINMYAKFGMMRHALRVFDQMMERDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLT  237 (705)
Q Consensus       158 ~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll  237 (705)
                      .|+.||..++|+|+.+|+++|++++|.++|++|++||+++||+||.+|++.|++++|+++|++|.+.|+.||..||++++
T Consensus       216 ~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll  295 (857)
T PLN03077        216 FGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVI  295 (857)
T ss_pred             cCCCcccchHhHHHHHHhcCCCHHHHHHHHhcCCCCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHccCChhhHHHHHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHHcCChhHHH
Q 005268          238 SIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDVISWNTLITGYAQNGLASEAI  317 (705)
Q Consensus       238 ~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~  317 (705)
                      .+|+..|+.+.|+++|..+.+.| +.||..+||+|+++|+++|++++|.++|++|..+|+++||+||.+|++.|++++|+
T Consensus       296 ~a~~~~g~~~~a~~l~~~~~~~g-~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~s~n~li~~~~~~g~~~~A~  374 (857)
T PLN03077        296 SACELLGDERLGREMHGYVVKTG-FAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKAL  374 (857)
T ss_pred             HHHHhcCChHHHHHHHHHHHHhC-CccchHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCeeeHHHHHHHHHhCCCHHHHH
Confidence            99999999999999999999999 99999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhhhhcCCCCCCcccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCCCC
Q 005268          318 EVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRS  397 (705)
Q Consensus       318 ~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~~~  397 (705)
                      ++|++|.+ .|+.||..||++++.+|++.|+++.|.++|+.+.+.|+.|+..++|+|+++|+++|++++|.++|++|.++
T Consensus       375 ~lf~~M~~-~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~  453 (857)
T PLN03077        375 ETYALMEQ-DNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEK  453 (857)
T ss_pred             HHHHHHHH-hCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCC
Confidence            99999999 99999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHH
Q 005268          398 SSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMV  477 (705)
Q Consensus       398 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li  477 (705)
                      |+++||+||.+|+++|+.++|+++|++|.. +++||.+||+.++.+|++.|.++.+.+++..+.+. |+.++..++++|+
T Consensus       454 d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~-g~~~~~~~~naLi  531 (857)
T PLN03077        454 DVISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRT-GIGFDGFLPNALL  531 (857)
T ss_pred             CeeeHHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHh-CCCccceechHHH
Confidence            999999999999999999999999999986 59999999999999999999999999999999876 9999999999999


Q ss_pred             HHHHhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHhcc--CCCCcchhhhhhhhhhhcCCcchH
Q 005268          478 DLFGRAGHLGMAHNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEV--DSENVGYYVLMSNIYANVGKWEGV  555 (705)
Q Consensus       478 ~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~--~p~~~~~~~~l~~~~~~~g~~~~a  555 (705)
                      ++|+++|++++|.++|+++  +||..+|++|+.+|.++|+.++|.++|++|.+.  .| |..+|..++.+|.+.|++++|
T Consensus       532 ~~y~k~G~~~~A~~~f~~~--~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~P-d~~T~~~ll~a~~~~g~v~ea  608 (857)
T PLN03077        532 DLYVRCGRMNYAWNQFNSH--EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNP-DEVTFISLLCACSRSGMVTQG  608 (857)
T ss_pred             HHHHHcCCHHHHHHHHHhc--CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCC-CcccHHHHHHHHhhcChHHHH
Confidence            9999999999999999999  799999999999999999999999999999875  46 668899999999999999999


Q ss_pred             HHHHHHHH-hCCCccCCceeEEEECCEEEEEEeCCCCCCCcHHHHHHHHHHHHHHHhCCcccCCcccccccchhhhhhhh
Q 005268          556 DEVRSLAR-DRGLKKTPGWSSIEVNNKVDIFYTGNRTHPKYEKIYDELRNLTAKMKSLGYVPDKSFVLQDVEEDEKEHIL  634 (705)
Q Consensus       556 ~~~~~~m~-~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~m~~~g~~pd~~~~~~~~~~~~~~~~~  634 (705)
                      .++|+.|. +.|+.|+......        .+......+       .+++..+.+++++..||...|-.-+..+...+-+
T Consensus       609 ~~~f~~M~~~~gi~P~~~~y~~--------lv~~l~r~G-------~~~eA~~~~~~m~~~pd~~~~~aLl~ac~~~~~~  673 (857)
T PLN03077        609 LEYFHSMEEKYSITPNLKHYAC--------VVDLLGRAG-------KLTEAYNFINKMPITPDPAVWGALLNACRIHRHV  673 (857)
T ss_pred             HHHHHHHHHHhCCCCchHHHHH--------HHHHHHhCC-------CHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCh
Confidence            99999999 6787665321000        000011111       1344555556668999987766555554321111


Q ss_pred             cccchhhH-HhcccccCCCCCceEEeeccccccchhHHHHHHhhhhCceEEE-------ecCCccccccccccC
Q 005268          635 TSHSERLA-IAFGIISSPPKSPIQIFKNLRVCGDCHNWTKFISQITEREIIV-------RDSNRFHHFKDGICS  700 (705)
Q Consensus       635 ~~~~~~la-~~~~~~~~~~~~~~~~~~n~~~~~~~h~~~~~~s~~~~~~~~~-------~~~~~~h~~~~g~~s  700 (705)
                      . -.|+.| ..+.+.|...+.-+.+..-....|+-.++.+....|..+.+--       --.+..|-|..|--|
T Consensus       674 e-~~e~~a~~l~~l~p~~~~~y~ll~n~ya~~g~~~~a~~vr~~M~~~g~~k~~g~s~ie~~~~~~~f~~~d~~  746 (857)
T PLN03077        674 E-LGELAAQHIFELDPNSVGYYILLCNLYADAGKWDEVARVRKTMRENGLTVDPGCSWVEVKGKVHAFLTDDES  746 (857)
T ss_pred             H-HHHHHHHHHHhhCCCCcchHHHHHHHHHHCCChHHHHHHHHHHHHcCCCCCCCccEEEECCEEEEEecCCCC
Confidence            0 012222 2244555544444333333457889999999999888773321       113567888766544

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

Probab=100.00  E-value=2.6e-70  Score=614.09  Aligned_cols=462  Identities=29%  Similarity=0.500  Sum_probs=444.7

Q ss_pred             CccchhhcCCchHHHHHHHHHhHhC-CCCCCccchHHHHHHhcCCch---HHHHHHHHHHhCCCCCHHHHHHHHHHHHcC
Q 005268            1 MISVYVRCGRLSEAVDCFYQFTLTS-GLRPDFYTFPPVLKACRNLVD---GKKIHCSVLKLGFEWDVFVAASLLHMYCRF   76 (705)
Q Consensus         1 li~~~~~~g~~~~A~~~~~~~m~~~-g~~p~~~~~~~ll~~~~~~~~---~~~~~~~~~~~g~~~~~~~~~~ll~~y~~~   76 (705)
                      +|.+|++.|++++|+++|+. |... +..||..+|++++.+|++.+.   +.++|..|.+.|+.||..++|.|+++|+++
T Consensus        93 ~i~~l~~~g~~~~Al~~f~~-m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~Li~~y~k~  171 (697)
T PLN03081         93 QIEKLVACGRHREALELFEI-LEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKC  171 (697)
T ss_pred             HHHHHHcCCCHHHHHHHHHH-HHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHHHHHHHhcC
Confidence            36789999999999999999 7655 478999999999999988776   899999999999999999999999999999


Q ss_pred             CChhHHHHHhccCCCCCcchHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHhHHHHhhcCCChHHHHHHHHHHH
Q 005268           77 GLANVARKLFDDMPVRDSGSWNAMISGYCQSGNAVEALDILDEMRLEGVSMDPITVASILPVCARSDNILSGLLIHLYIV  156 (705)
Q Consensus        77 g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~  156 (705)
                      |++++|.++|++|++||+++||++|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|..+.+.++|..+.
T Consensus       172 g~~~~A~~lf~~m~~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~  251 (697)
T PLN03081        172 GMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVL  251 (697)
T ss_pred             CCHHHHHHHHhcCCCCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhCCCCchhHHHHHHHHHHccCCHHHHHHHHhccCCCCeehHHHHHHHHHcCCChhhHHHHHHHHHHCCCCCChhhHHHH
Q 005268          157 KHGLEFNLFVSNNLINMYAKFGMMRHALRVFDQMMERDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSL  236 (705)
Q Consensus       157 ~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~l  236 (705)
                      +.|+.||..++|+|+++|+++|++++|.++|++|+++|+++||+||.+|++.|++++|+++|++|.+.|+.||..||+++
T Consensus       252 ~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~l  331 (697)
T PLN03081        252 KTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIM  331 (697)
T ss_pred             HhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHccCChhhHHHHHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHHcCChhHH
Q 005268          237 TSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDVISWNTLITGYAQNGLASEA  316 (705)
Q Consensus       237 l~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A  316 (705)
                      +.+|++.|.++.|+++|..+.+.| +++|..++|+|+++|+++|++++|.++|++|.++|+++||+||.+|++.|+.++|
T Consensus       332 l~a~~~~g~~~~a~~i~~~m~~~g-~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~~d~~t~n~lI~~y~~~G~~~~A  410 (697)
T PLN03081        332 IRIFSRLALLEHAKQAHAGLIRTG-FPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKA  410 (697)
T ss_pred             HHHHHhccchHHHHHHHHHHHHhC-CCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHcCCHHHH
Confidence            999999999999999999999999 9999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhhhcCCCCCCcccccchhHHhhccCchHHHHHHHHHHHH-hCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCC
Q 005268          317 IEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIK-NCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVP  395 (705)
Q Consensus       317 ~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~-~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~  395 (705)
                      +++|++|.+ .|+.||..||++++.+|++.|.+++|.++|+.|.+ .|+.|+..+|++++++|++.|++++|.++|++|+
T Consensus       411 ~~lf~~M~~-~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~~  489 (697)
T PLN03081        411 VEMFERMIA-EGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAP  489 (697)
T ss_pred             HHHHHHHHH-hCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHHCC
Confidence            999999999 99999999999999999999999999999999986 6999999999999999999999999999999998


Q ss_pred             -CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcC
Q 005268          396 -RSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPD-HITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKP  468 (705)
Q Consensus       396 -~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p  468 (705)
                       .|+..+|++|+.+|..+|+.+.|..+++++.+  +.|+ ..+|+.+++.|++.|++++|.++++.|.+. |+.+
T Consensus       490 ~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~--~~p~~~~~y~~L~~~y~~~G~~~~A~~v~~~m~~~-g~~k  561 (697)
T PLN03081        490 FKPTVNMWAALLTACRIHKNLELGRLAAEKLYG--MGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRK-GLSM  561 (697)
T ss_pred             CCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhC--CCCCCCcchHHHHHHHHhCCCHHHHHHHHHHHHHc-CCcc
Confidence             78888999999999999999999999999976  5675 568999999999999999999999999876 7754

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=6.6e-67  Score=587.83  Aligned_cols=503  Identities=19%  Similarity=0.249  Sum_probs=466.4

Q ss_pred             CCCHHHHHHHHHHHHcCCChhHHHHHhccCCCCCcch-----HHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHh
Q 005268           60 EWDVFVAASLLHMYCRFGLANVARKLFDDMPVRDSGS-----WNAMISGYCQSGNAVEALDILDEMRLEGVSMDPITVAS  134 (705)
Q Consensus        60 ~~~~~~~~~ll~~y~~~g~~~~A~~~f~~~~~~~~~~-----~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~  134 (705)
                      .++...|..++..++++|++++|+++|++|+.++...     ++.++.+|.+.|..++|+.+|+.|..    ||..||+.
T Consensus       367 ~~~~~~~~~~y~~l~r~G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~~----pd~~Tyn~  442 (1060)
T PLN03218        367 KRKSPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRN----PTLSTFNM  442 (1060)
T ss_pred             CCCchHHHHHHHHHHHCcCHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcCC----CCHHHHHH
Confidence            5678889999999999999999999999999766554     55667789999999999999999974    99999999


Q ss_pred             HHHHhhcCCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHccCCHHHHHHHHhccC----CCCeehHHHHHHHHHcCCC
Q 005268          135 ILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGMMRHALRVFDQMM----ERDVVSWNSIIAAYEQSND  210 (705)
Q Consensus       135 ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~----~~~~~~~~~li~~~~~~g~  210 (705)
                      ++.+|++.|+++.|.++|+.|.+.|+.||..+|++||.+|+++|++++|.++|++|.    .||.++||+||.+|++.|+
T Consensus       443 LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~  522 (1060)
T PLN03218        443 LMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQ  522 (1060)
T ss_pred             HHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcC
Confidence            999999999999999999999999999999999999999999999999999999997    4899999999999999999


Q ss_pred             hhhHHHHHHHHHHCCCCCChhhHHHHHHHHHccCChhhHHHHHHHHHH--hcCCCchhHHHHHHHHHHHhcCCHHHHHHH
Q 005268          211 PITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQLNDCRNSRSVHGFIMR--RGWFMEDVIIGNAVVDMYAKLGIINSACAV  288 (705)
Q Consensus       211 ~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~--~g~~~~~~~~~~~li~~y~~~g~~~~A~~~  288 (705)
                      +++|+++|++|.+.|+.||..||+.++.+|++.|+++.|.+++..|.+  .| +.||..+|++|+++|+++|++++|.++
T Consensus       523 ~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~g-i~PD~vTynaLI~ay~k~G~ldeA~el  601 (1060)
T PLN03218        523 VAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHP-IDPDHITVGALMKACANAGQVDRAKEV  601 (1060)
T ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCC-CCCcHHHHHHHHHHHHHCCCHHHHHHH
Confidence            999999999999999999999999999999999999999999999987  45 899999999999999999999999999


Q ss_pred             HhcCCC----CChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccccchhHHhhccCchHHHHHHHHHHHHhCC
Q 005268          289 FEGLPV----KDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNCL  364 (705)
Q Consensus       289 f~~~~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~  364 (705)
                      |+.|.+    ++..+||++|.+|++.|++++|+++|++|.+ .|+.||..||+.++.+|++.|++++|.++|+.|.+.|+
T Consensus       602 f~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~-~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~  680 (1060)
T PLN03218        602 YQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKK-KGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGI  680 (1060)
T ss_pred             HHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHH-cCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCC
Confidence            999974    4679999999999999999999999999999 99999999999999999999999999999999999999


Q ss_pred             CCchhHHHHHHHHHHhcCCHHHHHHHHhhCC----CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHH
Q 005268          365 CFDVFVATCLVDMYGKCGRIDDAMSLFYQVP----RSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSL  440 (705)
Q Consensus       365 ~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~l  440 (705)
                      .||..+|++||++|+++|++++|.++|++|.    .||.++||+||.+|++.|++++|+++|++|.+.|+.||..||+.+
T Consensus       681 ~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sL  760 (1060)
T PLN03218        681 KLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSIL  760 (1060)
T ss_pred             CCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHH
Confidence            9999999999999999999999999999995    789999999999999999999999999999999999999999999


Q ss_pred             HHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHH----hcC-------------------CHHHHHHHHHhC-
Q 005268          441 LTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFG----RAG-------------------HLGMAHNFIQNM-  496 (705)
Q Consensus       441 l~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~----~~g-------------------~~~~A~~~~~~~-  496 (705)
                      +.+|++.|++++|.++|+.|.+. |+.||..+|++|++++.    +++                   ..++|..+|++| 
T Consensus       761 L~a~~k~G~le~A~~l~~~M~k~-Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~g~~~~~n~w~~~Al~lf~eM~  839 (1060)
T PLN03218        761 LVASERKDDADVGLDLLSQAKED-GIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWALMVYRETI  839 (1060)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccccccchHHHHHHHHHHHH
Confidence            99999999999999999999876 99999999999997643    332                   246799999999 


Q ss_pred             --CCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHhc-cCCCCcchhhhhhhhhhhcCCc-chHHHHHHHHHhCCCccCCc
Q 005268          497 --PVRPDASIWGALLGACRIHGNMELGAVASDRLFE-VDSENVGYYVLMSNIYANVGKW-EGVDEVRSLARDRGLKKTPG  572 (705)
Q Consensus       497 --~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~-~~p~~~~~~~~l~~~~~~~g~~-~~a~~~~~~m~~~~~~~~~~  572 (705)
                        .+.||..+|++++.++.+.+..+.+..+++.+.. -.+.+..+|..|++.+   |++ ++|..+++.|.+.|+.|+..
T Consensus       840 ~~Gi~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~~~~~~~~~~~y~~Li~g~---~~~~~~A~~l~~em~~~Gi~p~~~  916 (1060)
T PLN03218        840 SAGTLPTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGF---GEYDPRAFSLLEEAASLGVVPSVS  916 (1060)
T ss_pred             HCCCCCCHHHHHHHHHHhcccccHHHHHHHHHHhccCCCCcchhhhHHHHHhh---ccChHHHHHHHHHHHHcCCCCCcc
Confidence              5889999999999887788888888888877653 2355778899999987   443 58999999999999987753

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=1.1e-64  Score=569.94  Aligned_cols=502  Identities=15%  Similarity=0.190  Sum_probs=470.7

Q ss_pred             CCCCCccchHHHHHHhcCCch---HHHHHHHHHHhCC-CCCHHHHHHHHHHHHcCCChhHHHHHhccCCCCCcchHHHHH
Q 005268           26 GLRPDFYTFPPVLKACRNLVD---GKKIHCSVLKLGF-EWDVFVAASLLHMYCRFGLANVARKLFDDMPVRDSGSWNAMI  101 (705)
Q Consensus        26 g~~p~~~~~~~ll~~~~~~~~---~~~~~~~~~~~g~-~~~~~~~~~ll~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li  101 (705)
                      ...++...|..++..+.+.+.   |.++++.|.+.|+ .++..+++.++..|.+.|.+++|.++|+.|+.||..+||.+|
T Consensus       365 ~~~~~~~~~~~~y~~l~r~G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~~pd~~Tyn~LL  444 (1060)
T PLN03218        365 SGKRKSPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRNPTLSTFNMLM  444 (1060)
T ss_pred             CCCCCchHHHHHHHHHHHCcCHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcCCCCHHHHHHHH
Confidence            345667778888888755554   9999999999995 578888999999999999999999999999999999999999


Q ss_pred             HHHHhCCChhHHHHHHHHHHHCCCCCChhhHHhHHHHhhcCCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHccCCHH
Q 005268          102 SGYCQSGNAVEALDILDEMRLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGMMR  181 (705)
Q Consensus       102 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~  181 (705)
                      .+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.||.+|++.|+++
T Consensus       445 ~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~e  524 (1060)
T PLN03218        445 SVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVA  524 (1060)
T ss_pred             HHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhccCC----CCeehHHHHHHHHHcCCChhhHHHHHHHHHH--CCCCCChhhHHHHHHHHHccCChhhHHHHHHH
Q 005268          182 HALRVFDQMME----RDVVSWNSIIAAYEQSNDPITAHGFFTTMQQ--AGIQPDLLTLVSLTSIVAQLNDCRNSRSVHGF  255 (705)
Q Consensus       182 ~A~~~f~~m~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~--~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~  255 (705)
                      +|.++|+.|.+    ||.++||.||.+|++.|++++|.++|.+|..  .|+.||..||++++.+|++.|+++.|.++++.
T Consensus       525 eAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~  604 (1060)
T PLN03218        525 KAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQM  604 (1060)
T ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            99999999954    8999999999999999999999999999976  68999999999999999999999999999999


Q ss_pred             HHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCC----CCChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCC
Q 005268          256 IMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLP----VKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINP  331 (705)
Q Consensus       256 ~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p  331 (705)
                      |.+.| ++|+..+|+.+|.+|++.|++++|.++|++|.    .||..+|+++|.+|++.|+.++|.++|++|.+ .|+.|
T Consensus       605 M~e~g-i~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k-~G~~p  682 (1060)
T PLN03218        605 IHEYN-IKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARK-QGIKL  682 (1060)
T ss_pred             HHHcC-CCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHH-cCCCC
Confidence            99999 99999999999999999999999999999997    56999999999999999999999999999999 99999


Q ss_pred             CcccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCC----CCCcchHHHHHH
Q 005268          332 NQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVP----RSSSVPWNAIIS  407 (705)
Q Consensus       332 ~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~----~~~~~~~~~li~  407 (705)
                      |..+|++++.+|++.|++++|.++|+.|.+.|+.||..+||+||.+|++.|++++|.++|++|.    .||..+|++++.
T Consensus       683 d~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~  762 (1060)
T PLN03218        683 GTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLV  762 (1060)
T ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999986    689999999999


Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc----c-------------------CcHHHHHHHHHHhHHhh
Q 005268          408 CHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSH----S-------------------GLVSEGQRYFHMMQEEF  464 (705)
Q Consensus       408 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~----~-------------------g~~~~a~~~~~~m~~~~  464 (705)
                      +|++.|+.++|.++|++|.+.|+.||..+|+.++..|.+    .                   +..++|..+|++|.+. 
T Consensus       763 a~~k~G~le~A~~l~~~M~k~Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~g~~~~~n~w~~~Al~lf~eM~~~-  841 (1060)
T PLN03218        763 ASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWALMVYRETISA-  841 (1060)
T ss_pred             HHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccccccchHHHHHHHHHHHHHC-
Confidence            999999999999999999999999999999999876542    1                   2246799999999987 


Q ss_pred             CCcCCcchHHHHHHHHHhcCCHHHHHHHHHhCC---CCCCHHHHHHHHHHHHhcCChhHHHHHHHHHhccC
Q 005268          465 GIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNMP---VRPDASIWGALLGACRIHGNMELGAVASDRLFEVD  532 (705)
Q Consensus       465 ~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  532 (705)
                      |+.||..+|+.++..+.+.+..+.+..+++.|.   ..|+..+|++|+.++.+.  .++|..++++|.+..
T Consensus       842 Gi~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~~~~~~~~~~~y~~Li~g~~~~--~~~A~~l~~em~~~G  910 (1060)
T PLN03218        842 GTLPTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGFGEY--DPRAFSLLEEAASLG  910 (1060)
T ss_pred             CCCCCHHHHHHHHHHhcccccHHHHHHHHHHhccCCCCcchhhhHHHHHhhccC--hHHHHHHHHHHHHcC
Confidence            999999999999999999999999999999884   556789999999998433  368999999998865

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

Probab=100.00  E-value=1.4e-31  Score=314.84  Aligned_cols=546  Identities=12%  Similarity=0.072  Sum_probs=386.3

Q ss_pred             chhhcCCchHHHHHHHHHhHhCCCCCCc-cchHHHHHHhcCCch---HHHHHHHHHHhCCCCCHHHHHHHHHHHHcCCCh
Q 005268            4 VYVRCGRLSEAVDCFYQFTLTSGLRPDF-YTFPPVLKACRNLVD---GKKIHCSVLKLGFEWDVFVAASLLHMYCRFGLA   79 (705)
Q Consensus         4 ~~~~~g~~~~A~~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~~~---~~~~~~~~~~~g~~~~~~~~~~ll~~y~~~g~~   79 (705)
                      .+.+.|++++|...|.. ....  .|+. ..+..+...+...+.   +.+.+..+.+.. +.+...++.+...|.+.|++
T Consensus       304 ~~~~~g~~~~A~~~~~~-~~~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~  379 (899)
T TIGR02917       304 SEYQLGNLEQAYQYLNQ-ILKY--APNSHQARRLLASIQLRLGRVDEAIATLSPALGLD-PDDPAALSLLGEAYLALGDF  379 (899)
T ss_pred             HHHHcCCHHHHHHHHHH-HHHh--CCCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCCCH
Confidence            35678889999998888 4332  2332 233333333333333   777777776654 45677788888888888999


Q ss_pred             hHHHHHhccCCC---CCcchHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHhHHHHhhcCCChHHHHHHHHHHH
Q 005268           80 NVARKLFDDMPV---RDSGSWNAMISGYCQSGNAVEALDILDEMRLEGVSMDPITVASILPVCARSDNILSGLLIHLYIV  156 (705)
Q Consensus        80 ~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~  156 (705)
                      ++|.+.|+++..   .+...|..+...+...|++++|++.|+++.+... .+......++..+.+.|++++|..++..+.
T Consensus       380 ~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  458 (899)
T TIGR02917       380 EKAAEYLAKATELDPENAAARTQLGISKLSQGDPSEAIADLETAAQLDP-ELGRADLLLILSYLRSGQFDKALAAAKKLE  458 (899)
T ss_pred             HHHHHHHHHHHhcCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhhCC-cchhhHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            999888887652   3455677777888888888888888888876532 123445556667777888888888888777


Q ss_pred             HhCCCCchhHHHHHHHHHHccCCHHHHHHHHhccCC---CCeehHHHHHHHHHcCCChhhHHHHHHHHHHCCCCCChhhH
Q 005268          157 KHGLEFNLFVSNNLINMYAKFGMMRHALRVFDQMME---RDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTL  233 (705)
Q Consensus       157 ~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~  233 (705)
                      +.. +++..+++.+...|...|++++|...|+++.+   .+...+..+...+...|++++|.+.|+++...+ +.+..++
T Consensus       459 ~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~  536 (899)
T TIGR02917       459 KKQ-PDNASLHNLLGAIYLGKGDLAKAREAFEKALSIEPDFFPAAANLARIDIQEGNPDDAIQRFEKVLTID-PKNLRAI  536 (899)
T ss_pred             HhC-CCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHH
Confidence            653 44667777788888888888888888877643   244566677777788888888888888877653 3345566


Q ss_pred             HHHHHHHHccCChhhHHHHHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCC---CCChhHHHHHHHHHHHc
Q 005268          234 VSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLP---VKDVISWNTLITGYAQN  310 (705)
Q Consensus       234 ~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~---~~~~~~~~~li~~~~~~  310 (705)
                      ..+...+...|+.+++...+..+.+.+  +.+...+..++..|.+.|++++|..+++.+.   ..+...|..+...|...
T Consensus       537 ~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~  614 (899)
T TIGR02917       537 LALAGLYLRTGNEEEAVAWLEKAAELN--PQEIEPALALAQYYLGKGQLKKALAILNEAADAAPDSPEAWLMLGRAQLAA  614 (899)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhC--ccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHc
Confidence            777777777788888888887777664  5566677777788888888888888877664   33566777788888888


Q ss_pred             CChhHHHHHHHhhhhcCCCCC-CcccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHH
Q 005268          311 GLASEAIEVFQMMEECNEINP-NQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMS  389 (705)
Q Consensus       311 g~~~~A~~~~~~m~~~~~~~p-~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~  389 (705)
                      |++++|+..|+++.+   ..| +...+..+...+...|++++|...+..+.+.. +.+...+..++..+.+.|++++|..
T Consensus       615 ~~~~~A~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~  690 (899)
T TIGR02917       615 GDLNKAVSSFKKLLA---LQPDSALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKK  690 (899)
T ss_pred             CCHHHHHHHHHHHHH---hCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            888888888887766   334 34456667777777788888888887777653 3456677777777778888888888


Q ss_pred             HHhhCCC---CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCC
Q 005268          390 LFYQVPR---SSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGI  466 (705)
Q Consensus       390 ~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~  466 (705)
                      +++.+..   .+...|..+...+...|++++|++.|+++...  .|+..++..+..++.+.|++++|.+.++.+.+.  .
T Consensus       691 ~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~--~  766 (899)
T TIGR02917       691 IAKSLQKQHPKAALGFELEGDLYLRQKDYPAAIQAYRKALKR--APSSQNAIKLHRALLASGNTAEAVKTLEAWLKT--H  766 (899)
T ss_pred             HHHHHHhhCcCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHCCCHHHHHHHHHHHHHh--C
Confidence            7777762   34445777777777778888888888877773  455566667777777777777777777777653  2


Q ss_pred             cCCcchHHHHHHHHHhcCCHHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhh
Q 005268          467 KPHLKHYGCMVDLFGRAGHLGMAHNFIQNM-P-VRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSN  544 (705)
Q Consensus       467 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~  544 (705)
                      +.+...+..+...|.+.|+.++|.+.|+++ . .+++..+++.+...+...|+ ++|+..+++++++.|+++..+..++.
T Consensus       767 ~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~~~~  845 (899)
T TIGR02917       767 PNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKAPDNAVVLNNLAWLYLELKD-PRALEYAEKALKLAPNIPAILDTLGW  845 (899)
T ss_pred             CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhCCCCcHHHHHHHH
Confidence            335567777777777777777777777776 2 23456677777777777777 66777777777777777777777777


Q ss_pred             hhhhcCCcchHHHHHHHHHhCCC
Q 005268          545 IYANVGKWEGVDEVRSLARDRGL  567 (705)
Q Consensus       545 ~~~~~g~~~~a~~~~~~m~~~~~  567 (705)
                      +|...|++++|.++++++.+.+.
T Consensus       846 ~~~~~g~~~~A~~~~~~a~~~~~  868 (899)
T TIGR02917       846 LLVEKGEADRALPLLRKAVNIAP  868 (899)
T ss_pred             HHHHcCCHHHHHHHHHHHHhhCC
Confidence            77777777777777777776554

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=3.5e-31  Score=311.48  Aligned_cols=545  Identities=12%  Similarity=0.049  Sum_probs=450.5

Q ss_pred             hhhcCCchHHHHHHHHHhHhCCCCCCccchHHHH-HHh---cCCchHHHHHHHHHHhCCCCCHHHHHHHHHHHHcCCChh
Q 005268            5 YVRCGRLSEAVDCFYQFTLTSGLRPDFYTFPPVL-KAC---RNLVDGKKIHCSVLKLGFEWDVFVAASLLHMYCRFGLAN   80 (705)
Q Consensus         5 ~~~~g~~~~A~~~~~~~m~~~g~~p~~~~~~~ll-~~~---~~~~~~~~~~~~~~~~g~~~~~~~~~~ll~~y~~~g~~~   80 (705)
                      +.+.|++++|++.|+. ....  .|+.......+ ..+   ++...|.+.+..+++.. +.+...+..+...+.+.|+++
T Consensus       271 ~~~~~~~~~A~~~~~~-~l~~--~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~g~~~  346 (899)
T TIGR02917       271 DFQKKNYEDARETLQD-ALKS--APEYLPALLLAGASEYQLGNLEQAYQYLNQILKYA-PNSHQARRLLASIQLRLGRVD  346 (899)
T ss_pred             HHHhcCHHHHHHHHHH-HHHh--CCCchhHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHCCCHH
Confidence            4568999999999998 4433  34432211111 122   23333888888887764 456777888889999999999


Q ss_pred             HHHHHhccCCC---CCcchHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHhHHHHhhcCCChHHHHHHHHHHHH
Q 005268           81 VARKLFDDMPV---RDSGSWNAMISGYCQSGNAVEALDILDEMRLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVK  157 (705)
Q Consensus        81 ~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~  157 (705)
                      +|...++.+..   .+...|+.+...+.+.|++++|.+.|+++.+.. +.+...+..+...+...|++++|...+..+.+
T Consensus       347 ~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~  425 (899)
T TIGR02917       347 EAIATLSPALGLDPDDPAALSLLGEAYLALGDFEKAAEYLAKATELD-PENAAARTQLGISKLSQGDPSEAIADLETAAQ  425 (899)
T ss_pred             HHHHHHHHHHhcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHhCCChHHHHHHHHHHHh
Confidence            99999988753   456678999999999999999999999998753 33556677778888899999999999999988


Q ss_pred             hCCCCchhHHHHHHHHHHccCCHHHHHHHHhccCC---CCeehHHHHHHHHHcCCChhhHHHHHHHHHHCCCCCChhhHH
Q 005268          158 HGLEFNLFVSNNLINMYAKFGMMRHALRVFDQMME---RDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLV  234 (705)
Q Consensus       158 ~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~  234 (705)
                      ..+. .......++..|.+.|++++|..+++.+..   ++..+|+.+...|...|++++|.+.|+++.+.. +.+...+.
T Consensus       426 ~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~  503 (899)
T TIGR02917       426 LDPE-LGRADLLLILSYLRSGQFDKALAAAKKLEKKQPDNASLHNLLGAIYLGKGDLAKAREAFEKALSIE-PDFFPAAA  503 (899)
T ss_pred             hCCc-chhhHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhC-CCcHHHHH
Confidence            7643 345667788899999999999999998865   356789999999999999999999999997753 23445677


Q ss_pred             HHHHHHHccCChhhHHHHHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCC---CCChhHHHHHHHHHHHcC
Q 005268          235 SLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLP---VKDVISWNTLITGYAQNG  311 (705)
Q Consensus       235 ~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~---~~~~~~~~~li~~~~~~g  311 (705)
                      .+...+...|+++.|...+..+.+..  +.+..++..+...|.+.|+.++|..+|+++.   ..+...+..++..|...|
T Consensus       504 ~la~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  581 (899)
T TIGR02917       504 NLARIDIQEGNPDDAIQRFEKVLTID--PKNLRAILALAGLYLRTGNEEEAVAWLEKAAELNPQEIEPALALAQYYLGKG  581 (899)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhC--cCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchhHHHHHHHHHHHCC
Confidence            77888889999999999999998875  6778899999999999999999999998874   345677888999999999


Q ss_pred             ChhHHHHHHHhhhhcCCCCCCcccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHH
Q 005268          312 LASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLF  391 (705)
Q Consensus       312 ~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~  391 (705)
                      ++++|..+++++.+ . .+.+..++..+...+...|+++.|...+..+.+.. +.+...+..+...|.+.|++++|...|
T Consensus       582 ~~~~A~~~~~~~~~-~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~  658 (899)
T TIGR02917       582 QLKKALAILNEAAD-A-APDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAITSL  658 (899)
T ss_pred             CHHHHHHHHHHHHH-c-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHH
Confidence            99999999999986 2 23356778888999999999999999999998764 446778888999999999999999999


Q ss_pred             hhCC---CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcC
Q 005268          392 YQVP---RSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKP  468 (705)
Q Consensus       392 ~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p  468 (705)
                      +++.   +.+..+|..++..+...|++++|.++++.+.+.+ +++...+..+...+...|++++|.+.|+.+...   .|
T Consensus       659 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~---~~  734 (899)
T TIGR02917       659 KRALELKPDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPAAIQAYRKALKR---AP  734 (899)
T ss_pred             HHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhh---CC
Confidence            9876   4456679999999999999999999999999864 455677888888999999999999999988754   56


Q ss_pred             CcchHHHHHHHHHhcCCHHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhh
Q 005268          469 HLKHYGCMVDLFGRAGHLGMAHNFIQNM-P-VRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIY  546 (705)
Q Consensus       469 ~~~~~~~li~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  546 (705)
                      +...+..++..+.+.|++++|.+.++++ . .+.+..++..+...|...|+.++|...++++++..|+++..+..+++++
T Consensus       735 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~  814 (899)
T TIGR02917       735 SSQNAIKLHRALLASGNTAEAVKTLEAWLKTHPNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKAPDNAVVLNNLAWLY  814 (899)
T ss_pred             CchHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            6678888999999999999999999887 2 3346778889999999999999999999999999999999999999999


Q ss_pred             hhcCCcchHHHHHHHHHhCC
Q 005268          547 ANVGKWEGVDEVRSLARDRG  566 (705)
Q Consensus       547 ~~~g~~~~a~~~~~~m~~~~  566 (705)
                      ...|+ ++|..+++++.+..
T Consensus       815 ~~~~~-~~A~~~~~~~~~~~  833 (899)
T TIGR02917       815 LELKD-PRALEYAEKALKLA  833 (899)
T ss_pred             HhcCc-HHHHHHHHHHHhhC
Confidence            99999 88999999887753

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.

>PF14432 DYW_deaminase: DYW family of nucleic acid deaminases

Probab=100.00  E-value=7.1e-34  Score=234.41  Aligned_cols=106  Identities=64%  Similarity=1.027  Sum_probs=98.4

Q ss_pred             ceeEEEECCEEEEEEeCCCCCCCcHHHHHHHHHHHHHHHhCCcccCCcccccccchhhh--------hhhhcccchhhHH
Q 005268          572 GWSSIEVNNKVDIFYTGNRTHPKYEKIYDELRNLTAKMKSLGYVPDKSFVLQDVEEDEK--------EHILTSHSERLAI  643 (705)
Q Consensus       572 ~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~m~~~g~~pd~~~~~~~~~~~~~--------~~~~~~~~~~la~  643 (705)
                      |+||+++    |.|++|+.+||+.        ++..++...||.|++..+.++++++++        +..+++||||||+
T Consensus         2 ~~~w~~~----h~F~sgd~shp~~--------~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~d~~~~~~~~~~HSEKlAi   69 (116)
T PF14432_consen    2 GCSWIEV----HSFVSGDRSHPQS--------ELINKMKEEGYVPDTKEVGHDVDEEEKHDYDEEEKEESLCYHSEKLAI   69 (116)
T ss_pred             CCCccce----EEEEeCCCcCccH--------HHHHHHHHcCCcchhhhhCCCchhhhhhhcccccchhhhhccHHHHHH
Confidence            6899887    9999999999987        566778889999999999998888766        5688999999999


Q ss_pred             hcccccCCCCCceEEeecc-ccccchhHHHHHHhhhhCceEEEecCCcccccc
Q 005268          644 AFGIISSPPKSPIQIFKNL-RVCGDCHNWTKFISQITEREIIVRDSNRFHHFK  695 (705)
Q Consensus       644 ~~~~~~~~~~~~~~~~~n~-~~~~~~h~~~~~~s~~~~~~~~~~~~~~~h~~~  695 (705)
                      ||||+++      ||+||+ |||+|||+|+|+||++++|+|+|||++|||||+
T Consensus        70 afgli~~------~vvkn~~RvC~DCH~~~K~iS~~~~ReIiVRD~~rfHhFk  116 (116)
T PF14432_consen   70 AFGLINT------RVVKNLKRVCGDCHSFIKFISKITGREIIVRDSNRFHHFK  116 (116)
T ss_pred             Hhcccce------eEEecCCccchHHHHHHHHHHHHHCeEEEEeCCCeeeeCC
Confidence            9999999      899999 999999999999999999999999999999996

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.94  E-value=2.5e-22  Score=237.11  Aligned_cols=539  Identities=12%  Similarity=0.084  Sum_probs=400.7

Q ss_pred             chhhcCCchHHHHHHHHHhHhCCCCCCccchHH-HHHHh----cCCchHHHHHHHHHHhCCCCCHHHHHHHHHHHHcCCC
Q 005268            4 VYVRCGRLSEAVDCFYQFTLTSGLRPDFYTFPP-VLKAC----RNLVDGKKIHCSVLKLGFEWDVFVAASLLHMYCRFGL   78 (705)
Q Consensus         4 ~~~~~g~~~~A~~~~~~~m~~~g~~p~~~~~~~-ll~~~----~~~~~~~~~~~~~~~~g~~~~~~~~~~ll~~y~~~g~   78 (705)
                      .+.+.|++++|+..|+. ... +.+|+. .+.. .....    .+...|.+.+..+++.. +.+...+..+...+.+.|+
T Consensus       121 ll~~~g~~~eA~~~~~~-~l~-~~p~~~-~la~~y~~~~~~~~g~~~~A~~~L~~ll~~~-P~~~~~~~~LA~ll~~~g~  196 (1157)
T PRK11447        121 LLATTGRTEEALASYDK-LFN-GAPPEL-DLAVEYWRLVAKLPAQRPEAINQLQRLNADY-PGNTGLRNTLALLLFSSGR  196 (1157)
T ss_pred             HHHhCCCHHHHHHHHHH-Hcc-CCCCCh-HHHHHHHHHHhhCCccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHccCC
Confidence            36778999999999999 433 223332 2111 12221    22223888888888774 4467788899999999999


Q ss_pred             hhHHHHHhccCCCCCc------chH-----------------HHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHhH
Q 005268           79 ANVARKLFDDMPVRDS------GSW-----------------NAMISGYCQSGNAVEALDILDEMRLEGVSMDPITVASI  135 (705)
Q Consensus        79 ~~~A~~~f~~~~~~~~------~~~-----------------~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~l  135 (705)
                      .++|...|+++.....      ..|                 ...+..+-.......|...+.++......|+... ...
T Consensus       197 ~~eAl~~l~~~~~~~~~~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~dp~~~~-~~~  275 (1157)
T PRK11447        197 RDEGFAVLEQMAKSPAGRDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQLADPAFRA-RAQ  275 (1157)
T ss_pred             HHHHHHHHHHHhhCCCchHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhccCcchHH-HHH
Confidence            9999999998753211      111                 1112222222234455566655544322333221 223


Q ss_pred             HHHhhcCCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHccCCHHHHHHHHhccCC--CCe---ehHHHH---------
Q 005268          136 LPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGMMRHALRVFDQMME--RDV---VSWNSI---------  201 (705)
Q Consensus       136 l~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~--~~~---~~~~~l---------  201 (705)
                      ...+...|++++|...++.+++..+ .+..++..|...|.+.|++++|+..|++..+  |+.   ..|..+         
T Consensus       276 G~~~~~~g~~~~A~~~l~~aL~~~P-~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~  354 (1157)
T PRK11447        276 GLAAVDSGQGGKAIPELQQAVRANP-KDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLL  354 (1157)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHH
Confidence            4456788999999999999998753 3778899999999999999999999988754  321   123222         


Q ss_pred             ---HHHHHcCCChhhHHHHHHHHHHCCCCCChhhHHHHHHHHHccCChhhHHHHHHHHHHhcCCCchhHHHHHHHHHHHh
Q 005268          202 ---IAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAK  278 (705)
Q Consensus       202 ---i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~  278 (705)
                         ...+.+.|++++|+..|++..+.. +.+...+..+...+...|++++|.+.++.+.+..  +.+...+..+...|. 
T Consensus       355 ~~~g~~~~~~g~~~eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~--p~~~~a~~~L~~l~~-  430 (1157)
T PRK11447        355 IQQGDAALKANNLAQAERLYQQARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMD--PGNTNAVRGLANLYR-  430 (1157)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHH-
Confidence               345678999999999999998863 2344566778888999999999999999999874  566777778888875 


Q ss_pred             cCCHHHHHHHHhcCCCCC------------hhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCC-cccccchhHHhhc
Q 005268          279 LGIINSACAVFEGLPVKD------------VISWNTLITGYAQNGLASEAIEVFQMMEECNEINPN-QGTYVSILPAYSH  345 (705)
Q Consensus       279 ~g~~~~A~~~f~~~~~~~------------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~-~~t~~~ll~a~~~  345 (705)
                      .++.++|...++.++...            ...+..+...+...|++++|++.|++..+   ..|+ ...+..+...+..
T Consensus       431 ~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~---~~P~~~~~~~~LA~~~~~  507 (1157)
T PRK11447        431 QQSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLA---LDPGSVWLTYRLAQDLRQ  507 (1157)
T ss_pred             hcCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHH
Confidence            467899999998876432            12355567778899999999999999988   6775 4456677888999


Q ss_pred             cCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCcc-------------hHHHHHHHHHhc
Q 005268          346 VGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSV-------------PWNAIISCHGIH  412 (705)
Q Consensus       346 ~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~~~~~~-------------~~~~li~~~~~~  412 (705)
                      .|++++|...++.+++.. +.+...+..+...+.+.|+.++|...++.++.....             .+..+...+...
T Consensus       508 ~G~~~~A~~~l~~al~~~-P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~  586 (1157)
T PRK11447        508 AGQRSQADALMRRLAQQK-PNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDS  586 (1157)
T ss_pred             cCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHC
Confidence            999999999999998753 334555555666678899999999999998743211             123456778899


Q ss_pred             CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHH
Q 005268          413 GQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHN  491 (705)
Q Consensus       413 g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~  491 (705)
                      |+.++|+++++.     .+++...+..+...+...|++++|++.|+...+.   .| +...+..++.+|...|++++|++
T Consensus       587 G~~~eA~~~l~~-----~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~---~P~~~~a~~~la~~~~~~g~~~eA~~  658 (1157)
T PRK11447        587 GKEAEAEALLRQ-----QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTR---EPGNADARLGLIEVDIAQGDLAAARA  658 (1157)
T ss_pred             CCHHHHHHHHHh-----CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            999999999872     3445567777888999999999999999998864   45 56788999999999999999999


Q ss_pred             HHHhCC-CCCC-HHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcc------hhhhhhhhhhhcCCcchHHHHHHHHH
Q 005268          492 FIQNMP-VRPD-ASIWGALLGACRIHGNMELGAVASDRLFEVDSENVG------YYVLMSNIYANVGKWEGVDEVRSLAR  563 (705)
Q Consensus       492 ~~~~~~-~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~------~~~~l~~~~~~~g~~~~a~~~~~~m~  563 (705)
                      .++... ..|+ ..++..+..++...|++++|...++++++..|+++.      .+..++.++...|++++|...++...
T Consensus       659 ~l~~ll~~~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al  738 (1157)
T PRK11447        659 QLAKLPATANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYKDAM  738 (1157)
T ss_pred             HHHHHhccCCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            999874 4454 567788888999999999999999999998775543      45567999999999999999998886


Q ss_pred             h
Q 005268          564 D  564 (705)
Q Consensus       564 ~  564 (705)
                      .
T Consensus       739 ~  739 (1157)
T PRK11447        739 V  739 (1157)
T ss_pred             h
Confidence            3

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.94  E-value=1.7e-22  Score=238.58  Aligned_cols=386  Identities=11%  Similarity=0.053  Sum_probs=300.6

Q ss_pred             HHHHHHccCCHHHHHHHHhccCC--C-CeehHHHHHHHHHcCCChhhHHHHHHHHHHCCCCCCh-hhH------------
Q 005268          170 LINMYAKFGMMRHALRVFDQMME--R-DVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDL-LTL------------  233 (705)
Q Consensus       170 Li~~y~~~g~~~~A~~~f~~m~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~t~------------  233 (705)
                      +...+...|++++|+..|++..+  | +...+..|...|.+.|++++|+..|++..+....... ..+            
T Consensus       275 ~G~~~~~~g~~~~A~~~l~~aL~~~P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~  354 (1157)
T PRK11447        275 QGLAAVDSGQGGKAIPELQQAVRANPKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLL  354 (1157)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHH
Confidence            34567788999999999988755  3 5678888999999999999999999998775322211 111            


Q ss_pred             HHHHHHHHccCChhhHHHHHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCC---CCChhHHHHHHHHHHHc
Q 005268          234 VSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLP---VKDVISWNTLITGYAQN  310 (705)
Q Consensus       234 ~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~---~~~~~~~~~li~~~~~~  310 (705)
                      ......+...|++++|...+..+++..  +.+...+..+...|.+.|++++|++.|++..   ..+...+..+...|. .
T Consensus       355 ~~~g~~~~~~g~~~eA~~~~~~Al~~~--P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~~~~a~~~L~~l~~-~  431 (1157)
T PRK11447        355 IQQGDAALKANNLAQAERLYQQARQVD--NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMDPGNTNAVRGLANLYR-Q  431 (1157)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH-h
Confidence            112345678899999999999999884  6677788889999999999999999999876   335566777777774 4


Q ss_pred             CChhHHHHHHHhhhhcCCCCC--------CcccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcC
Q 005268          311 GLASEAIEVFQMMEECNEINP--------NQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCG  382 (705)
Q Consensus       311 g~~~~A~~~~~~m~~~~~~~p--------~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g  382 (705)
                      ++.++|+..++.+.. ....+        ....+..+...+...|++++|.+.++.+++.. +.+..++..+...|.+.|
T Consensus       432 ~~~~~A~~~l~~l~~-~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~-P~~~~~~~~LA~~~~~~G  509 (1157)
T PRK11447        432 QSPEKALAFIASLSA-SQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALD-PGSVWLTYRLAQDLRQAG  509 (1157)
T ss_pred             cCHHHHHHHHHhCCH-HHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcC
Confidence            678999998877654 11000        01123345566778899999999999998874 335677888999999999


Q ss_pred             CHHHHHHHHhhCC---CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH---------HHHHHHHHHhccCcH
Q 005268          383 RIDDAMSLFYQVP---RSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHI---------TFVSLLTACSHSGLV  450 (705)
Q Consensus       383 ~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~---------t~~~ll~a~~~~g~~  450 (705)
                      ++++|...|+++.   ..+...+..+...+...|+.++|+..++++......++..         .+..+...+...|+.
T Consensus       510 ~~~~A~~~l~~al~~~P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~  589 (1157)
T PRK11447        510 QRSQADALMRRLAQQKPNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKE  589 (1157)
T ss_pred             CHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCH
Confidence            9999999999875   3344456666666778999999999998865432222221         233456678899999


Q ss_pred             HHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHH
Q 005268          451 SEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVASDRL  528 (705)
Q Consensus       451 ~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~  528 (705)
                      ++|.++++.      .+++...+..+.+.|.+.|++++|++.|++. ...| +...+..++..+...|+.++|+..++++
T Consensus       590 ~eA~~~l~~------~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~P~~~~a~~~la~~~~~~g~~~eA~~~l~~l  663 (1157)
T PRK11447        590 AEAEALLRQ------QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTREPGNADARLGLIEVDIAQGDLAAARAQLAKL  663 (1157)
T ss_pred             HHHHHHHHh------CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            999998861      2445667788999999999999999999988 3455 4778999999999999999999999999


Q ss_pred             hccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhCC
Q 005268          529 FEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDRG  566 (705)
Q Consensus       529 ~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  566 (705)
                      .+..|+++..+..++.++...|++++|.++++.+....
T Consensus       664 l~~~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~  701 (1157)
T PRK11447        664 PATANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQA  701 (1157)
T ss_pred             hccCCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhC
Confidence            99999999999999999999999999999999988754

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

Probab=99.92  E-value=1.3e-21  Score=195.10  Aligned_cols=446  Identities=15%  Similarity=0.150  Sum_probs=364.8

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHhHHHHhhcCCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHc
Q 005268           97 WNAMISGYCQSGNAVEALDILDEMRLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAK  176 (705)
Q Consensus        97 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~  176 (705)
                      -..|..-..+.|++.+|.+.-...-+.+ +.+..+...+-..+.+..+++...+.-...++.. +.-..+|+.+.+.+-.
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            4455666678899999988755443332 2233344444445566666666555554555543 3356788999999999


Q ss_pred             cCCHHHHHHHHhccCC---CCeehHHHHHHHHHcCCChhhHHHHHHHHHHCCCCCChhhHHH-HHHHHHccCChhhHHHH
Q 005268          177 FGMMRHALRVFDQMME---RDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVS-LTSIVAQLNDCRNSRSV  252 (705)
Q Consensus       177 ~g~~~~A~~~f~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~-ll~a~~~~~~~~~a~~i  252 (705)
                      .|++++|+..++.+.+   ..+..|..+..++...|+.+.|.+.|.+..+  +.|+.+...+ +-......|.+.++..-
T Consensus       129 rg~~~~al~~y~~aiel~p~fida~inla~al~~~~~~~~a~~~~~~alq--lnP~l~ca~s~lgnLlka~Grl~ea~~c  206 (966)
T KOG4626|consen  129 RGQLQDALALYRAAIELKPKFIDAYINLAAALVTQGDLELAVQCFFEALQ--LNPDLYCARSDLGNLLKAEGRLEEAKAC  206 (966)
T ss_pred             hchHHHHHHHHHHHHhcCchhhHHHhhHHHHHHhcCCCcccHHHHHHHHh--cCcchhhhhcchhHHHHhhcccchhHHH
Confidence            9999999999998866   2567899999999999999999999998876  4566554433 33344567889999999


Q ss_pred             HHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCCCCC---hhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCC
Q 005268          253 HGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKD---VISWNTLITGYAQNGLASEAIEVFQMMEECNEI  329 (705)
Q Consensus       253 ~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~  329 (705)
                      +...++..  +.=..+|+.|...+-..|++..|+..|++...-|   ...|-.|...|...+.+++|+..+.+...   .
T Consensus       207 YlkAi~~q--p~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkldP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~---l  281 (966)
T KOG4626|consen  207 YLKAIETQ--PCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLDPNFLDAYINLGNVYKEARIFDRAVSCYLRALN---L  281 (966)
T ss_pred             HHHHHhhC--CceeeeehhcchHHhhcchHHHHHHHHHHhhcCCCcchHHHhhHHHHHHHHhcchHHHHHHHHHHh---c
Confidence            98888764  4556789999999999999999999999876443   46788899999999999999999999876   7


Q ss_pred             CCC-cccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCcchHHHH
Q 005268          330 NPN-QGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVP---RSSSVPWNAI  405 (705)
Q Consensus       330 ~p~-~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~---~~~~~~~~~l  405 (705)
                      .|+ .+.+..+...|...|.++.|+..+++.++.. +.-...|+.|..++...|++.+|.+.+.+..   .....+.+.|
T Consensus       282 rpn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~-P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p~hadam~NL  360 (966)
T KOG4626|consen  282 RPNHAVAHGNLACIYYEQGLLDLAIDTYKRALELQ-PNFPDAYNNLANALKDKGSVTEAVDCYNKALRLCPNHADAMNNL  360 (966)
T ss_pred             CCcchhhccceEEEEeccccHHHHHHHHHHHHhcC-CCchHHHhHHHHHHHhccchHHHHHHHHHHHHhCCccHHHHHHH
Confidence            785 5678888888999999999999999998863 2346789999999999999999999999876   3445678999


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCC-cchHHHHHHHHHhc
Q 005268          406 ISCHGIHGQGDKALNFFRQMLDEGVRPDH-ITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPH-LKHYGCMVDLFGRA  483 (705)
Q Consensus       406 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~  483 (705)
                      ...|...|..++|..+|....+  +.|.- ..++.|...|-+.|++++|+..+++..   .+.|+ ...|+.|...|-..
T Consensus       361 gni~~E~~~~e~A~~ly~~al~--v~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykeal---rI~P~fAda~~NmGnt~ke~  435 (966)
T KOG4626|consen  361 GNIYREQGKIEEATRLYLKALE--VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEAL---RIKPTFADALSNMGNTYKEM  435 (966)
T ss_pred             HHHHHHhccchHHHHHHHHHHh--hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHH---hcCchHHHHHHhcchHHHHh
Confidence            9999999999999999999998  78875 589999999999999999999999887   67886 46899999999999


Q ss_pred             CCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHH
Q 005268          484 GHLGMAHNFIQNM-PVRPD-ASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDE  557 (705)
Q Consensus       484 g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~  557 (705)
                      |+.++|.+.+.+. .++|. ....+.|.+.|...|++.+|+..|+.+++++|+.+.+|-.++..+.-..+|.+=.+
T Consensus       436 g~v~~A~q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkPDfpdA~cNllh~lq~vcdw~D~d~  511 (966)
T KOG4626|consen  436 GDVSAAIQCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKPDFPDAYCNLLHCLQIVCDWTDYDK  511 (966)
T ss_pred             hhHHHHHHHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCCCCchhhhHHHHHHHHHhcccchHH
Confidence            9999999999887 57776 56889999999999999999999999999999999999999888877888877433

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.92  E-value=9.3e-20  Score=205.55  Aligned_cols=535  Identities=9%  Similarity=-0.012  Sum_probs=317.6

Q ss_pred             cCCchHHHHHHHHHhHhCCCCCCc-cchHHHHHHhcCCch---HHHHHHHHHHhCCCCCHHHHHHHHHHHHcCCChhHHH
Q 005268            8 CGRLSEAVDCFYQFTLTSGLRPDF-YTFPPVLKACRNLVD---GKKIHCSVLKLGFEWDVFVAASLLHMYCRFGLANVAR   83 (705)
Q Consensus         8 ~g~~~~A~~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~~~---~~~~~~~~~~~g~~~~~~~~~~ll~~y~~~g~~~~A~   83 (705)
                      .|++++|+..|++.+.   +.|+. ..+..+.+.+...+.   |.......++.. +.|...+..+ ..+   ++.++|.
T Consensus        57 ~Gd~~~A~~~l~~Al~---~dP~n~~~~~~LA~~yl~~g~~~~A~~~~~kAv~ld-P~n~~~~~~L-a~i---~~~~kA~  128 (987)
T PRK09782         57 NNDEATAIREFEYIHQ---QVPDNIPLTLYLAEAYRHFGHDDRARLLLEDQLKRH-PGDARLERSL-AAI---PVEVKSV  128 (987)
T ss_pred             CCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-cccHHHHHHH-HHh---ccChhHH
Confidence            3666666666666322   23433 223334444444433   555555444442 2233333333 222   6666666


Q ss_pred             HHhccCCC--C-CcchHHHHHHH--------HHhCCChhHHHHHHHHHHHCCCCCChhhHHhH-HHHhhcCCChHHHHHH
Q 005268           84 KLFDDMPV--R-DSGSWNAMISG--------YCQSGNAVEALDILDEMRLEGVSMDPITVASI-LPVCARSDNILSGLLI  151 (705)
Q Consensus        84 ~~f~~~~~--~-~~~~~~~li~~--------~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~l-l~~~~~~~~~~~a~~~  151 (705)
                      .+++++..  | +...+..+...        |.+.+...+++   + .......|+..+.... ...+...++++++..+
T Consensus       129 ~~ye~l~~~~P~n~~~~~~la~~~~~~~~l~y~q~eqAl~AL---~-lr~~~~~~~~~vL~L~~~rlY~~l~dw~~Ai~l  204 (987)
T PRK09782        129 TTVEELLAQQKACDAVPTLRCRSEVGQNALRLAQLPVARAQL---N-DATFAASPEGKTLRTDLLQRAIYLKQWSQADTL  204 (987)
T ss_pred             HHHHHHHHhCCCChhHHHHHHHHhhccchhhhhhHHHHHHHH---H-HhhhCCCCCcHHHHHHHHHHHHHHhCHHHHHHH
Confidence            66666542  2 22233333332        44443333333   3 2222223334433333 5566666666666666


Q ss_pred             HHHHHHhCCCCchhHHHHHHHHHHc-cCCHHHHHHHHhccCCCCeehHHHHHHHHHcCCChhhHHHHHHHHHHCCCC-CC
Q 005268          152 HLYIVKHGLEFNLFVSNNLINMYAK-FGMMRHALRVFDQMMERDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQ-PD  229 (705)
Q Consensus       152 ~~~~~~~g~~~~~~~~~~Li~~y~~-~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~  229 (705)
                      +..+.+.++. +......|..+|.. .++ +.+..+++...+.|...+..+...|.+.|+.++|..+++++...-.. |+
T Consensus       205 L~~L~k~~pl-~~~~~~~L~~ay~q~l~~-~~a~al~~~~lk~d~~l~~ala~~yi~~G~~~~A~~~L~~~~~~~~~~~~  282 (987)
T PRK09782        205 YNEARQQNTL-SAAERRQWFDVLLAGQLD-DRLLALQSQGIFTDPQSRITYATALAYRGEKARLQHYLIENKPLFTTDAQ  282 (987)
T ss_pred             HHHHHhcCCC-CHHHHHHHHHHHHHhhCH-HHHHHHhchhcccCHHHHHHHHHHHHHCCCHHHHHHHHHhCcccccCCCc
Confidence            6666666532 33334445555555 244 55555555443445556666666666666666666666665432111 22


Q ss_pred             hhhHHHH------------------------------HHHHHcc-----------------------------CChhhHH
Q 005268          230 LLTLVSL------------------------------TSIVAQL-----------------------------NDCRNSR  250 (705)
Q Consensus       230 ~~t~~~l------------------------------l~a~~~~-----------------------------~~~~~a~  250 (705)
                      ..++.-.                              +..+...                             +...++.
T Consensus       283 ~~~~~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~  362 (987)
T PRK09782        283 EKSWLYLLSKYSANPVQALANYTVQFADNRQYVVGATLPVLLKEGQYDAAQKLLATLPANEMLEERYAVSVATRNKAEAL  362 (987)
T ss_pred             cHHHHHHHHhccCchhhhccchhhhhHHHHHHHHHHHHHHHHhccHHHHHHHHhcCCCcchHHHHHHhhccccCchhHHH
Confidence            2222111                              1111112                             2233333


Q ss_pred             HHHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCCC-C-----ChhHHHHHHHHHHHcCC---hhHHHHH--
Q 005268          251 SVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPV-K-----DVISWNTLITGYAQNGL---ASEAIEV--  319 (705)
Q Consensus       251 ~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~-~-----~~~~~~~li~~~~~~g~---~~~A~~~--  319 (705)
                      +....+.+.  .+.+....--+.-...+.|+.++|.++|++.-+ +     +...-+-++..|.+.+.   ..++..+  
T Consensus       363 ~~~~~~y~~--~~~~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~  440 (987)
T PRK09782        363 RLARLLYQQ--EPANLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATPAKVAILSK  440 (987)
T ss_pred             HHHHHHHhc--CCCCHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccchHHHHHhcc
Confidence            333333333  133444444455556677888888888887654 1     22234466677766655   3333333  


Q ss_pred             --------------------HHhhhhcCCCCCC---cccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHH
Q 005268          320 --------------------FQMMEECNEINPN---QGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVD  376 (705)
Q Consensus       320 --------------------~~~m~~~~~~~p~---~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~  376 (705)
                                          ........+..|+   ...+..+..++.. +..++|...+.......  |+......+..
T Consensus       441 ~~~~~~~~~~~~~~~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~~--Pd~~~~L~lA~  517 (987)
T PRK09782        441 PLPLAEQRQWQSQLPGIADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQRQ--PDAWQHRAVAY  517 (987)
T ss_pred             ccccchhHHHHhhhhhhhhhHHHHHHhcccCCCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHHhC--CchHHHHHHHH
Confidence                                1111111122233   2333444444444 78888888777776653  45444444455


Q ss_pred             HHHhcCCHHHHHHHHhhCCC--CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHhccCcHHHH
Q 005268          377 MYGKCGRIDDAMSLFYQVPR--SSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHI-TFVSLLTACSHSGLVSEG  453 (705)
Q Consensus       377 ~y~k~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a  453 (705)
                      .+.+.|++++|...|+++..  ++...+..+...+.+.|+.++|...|++.++.  .|+.. .+..+.......|++++|
T Consensus       518 al~~~Gr~eeAi~~~rka~~~~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l--~P~~~~l~~~La~~l~~~Gr~~eA  595 (987)
T PRK09782        518 QAYQVEDYATALAAWQKISLHDMSNEDLLAAANTAQAAGNGAARDRWLQQAEQR--GLGDNALYWWLHAQRYIPGQPELA  595 (987)
T ss_pred             HHHHCCCHHHHHHHHHHHhccCCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHhCCCHHHH
Confidence            55689999999999987763  44455777788888999999999999999885  35443 333444455567999999


Q ss_pred             HHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCChhHHHHHHHHHhcc
Q 005268          454 QRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRPD-ASIWGALLGACRIHGNMELGAVASDRLFEV  531 (705)
Q Consensus       454 ~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  531 (705)
                      ...++...+   +.|+...|..+..++.+.|+.++|+..+++. ...|+ ...++.+..++...|+.++|+..+++++++
T Consensus       596 l~~~~~AL~---l~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l  672 (987)
T PRK09782        596 LNDLTRSLN---IAPSANAYVARATIYRQRHNVPAAVSDLRAALELEPNNSNYQAALGYALWDSGDIAQSREMLERAHKG  672 (987)
T ss_pred             HHHHHHHHH---hCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            999988874   4677888899999999999999999999887 45564 667888888999999999999999999999


Q ss_pred             CCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhCC
Q 005268          532 DSENVGYYVLMSNIYANVGKWEGVDEVRSLARDRG  566 (705)
Q Consensus       532 ~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  566 (705)
                      +|+++..+..++.+|...|++++|...+++..+..
T Consensus       673 ~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~  707 (987)
T PRK09782        673 LPDDPALIRQLAYVNQRLDDMAATQHYARLVIDDI  707 (987)
T ss_pred             CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            99999999999999999999999999999887653

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.91  E-value=8.9e-20  Score=205.70  Aligned_cols=543  Identities=12%  Similarity=0.037  Sum_probs=390.6

Q ss_pred             ccchhhcCCchHHHHHHHHHhHhCCCCCCccchHHHHHHhcCCchHHHHHHHHHHhCCCCCHHHHHHHHHH--------H
Q 005268            2 ISVYVRCGRLSEAVDCFYQFTLTSGLRPDFYTFPPVLKACRNLVDGKKIHCSVLKLGFEWDVFVAASLLHM--------Y   73 (705)
Q Consensus         2 i~~~~~~g~~~~A~~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~ll~~--------y   73 (705)
                      ...|.+.|++++|+..+++ ..  ...|+...+..++........+..+++.+.+.. +.+..++..+...        |
T Consensus        85 A~~yl~~g~~~~A~~~~~k-Av--~ldP~n~~~~~~La~i~~~~kA~~~ye~l~~~~-P~n~~~~~~la~~~~~~~~l~y  160 (987)
T PRK09782         85 AEAYRHFGHDDRARLLLED-QL--KRHPGDARLERSLAAIPVEVKSVTTVEELLAQQ-KACDAVPTLRCRSEVGQNALRL  160 (987)
T ss_pred             HHHHHHCCCHHHHHHHHHH-HH--hcCcccHHHHHHHHHhccChhHHHHHHHHHHhC-CCChhHHHHHHHHhhccchhhh
Confidence            4678999999999999998 33  346666666666666655555889999998875 3445566666665        8


Q ss_pred             HcCCChhHHHHHhccCCCCC--cch-HHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHhHHHHhhc-CCChHHHH
Q 005268           74 CRFGLANVARKLFDDMPVRD--SGS-WNAMISGYCQSGNAVEALDILDEMRLEGVSMDPITVASILPVCAR-SDNILSGL  149 (705)
Q Consensus        74 ~~~g~~~~A~~~f~~~~~~~--~~~-~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~-~~~~~~a~  149 (705)
                      .+.+...+|++  .+...|+  ... .-.+...|.+.|++++|++++.++.+.+. .+..-...+-.++.. .++ +.+.
T Consensus       161 ~q~eqAl~AL~--lr~~~~~~~~~vL~L~~~rlY~~l~dw~~Ai~lL~~L~k~~p-l~~~~~~~L~~ay~q~l~~-~~a~  236 (987)
T PRK09782        161 AQLPVARAQLN--DATFAASPEGKTLRTDLLQRAIYLKQWSQADTLYNEARQQNT-LSAAERRQWFDVLLAGQLD-DRLL  236 (987)
T ss_pred             hhHHHHHHHHH--HhhhCCCCCcHHHHHHHHHHHHHHhCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHhhCH-HHHH
Confidence            88877777777  3333343  333 44448999999999999999999999763 334445555556666 355 7777


Q ss_pred             HHHHHHHHhCCCCchhHHHHHHHHHHccCCHHHHHHHHhccCC-----CCeehHH-------------------------
Q 005268          150 LIHLYIVKHGLEFNLFVSNNLINMYAKFGMMRHALRVFDQMME-----RDVVSWN-------------------------  199 (705)
Q Consensus       150 ~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~-----~~~~~~~-------------------------  199 (705)
                      .++..    .+..+..+...+.+.|.+.|+.++|.+++.+++.     |+..+|-                         
T Consensus       237 al~~~----~lk~d~~l~~ala~~yi~~G~~~~A~~~L~~~~~~~~~~~~~~~~~~~l~r~~~~~~~~~~~~~~~~~~~~  312 (987)
T PRK09782        237 ALQSQ----GIFTDPQSRITYATALAYRGEKARLQHYLIENKPLFTTDAQEKSWLYLLSKYSANPVQALANYTVQFADNR  312 (987)
T ss_pred             HHhch----hcccCHHHHHHHHHHHHHCCCHHHHHHHHHhCcccccCCCccHHHHHHHHhccCchhhhccchhhhhHHHH
Confidence            77443    3446888999999999999999999999998853     2111111                         


Q ss_pred             -----HHHHHHHcCCChhhHHHHHHH--------HHHCCCC-------------------C-ChhhHHHHHHHHHccCCh
Q 005268          200 -----SIIAAYEQSNDPITAHGFFTT--------MQQAGIQ-------------------P-DLLTLVSLTSIVAQLNDC  246 (705)
Q Consensus       200 -----~li~~~~~~g~~~~A~~~~~~--------m~~~g~~-------------------p-~~~t~~~ll~a~~~~~~~  246 (705)
                           .++..+.++++++.+.++..-        +.-.+..                   | +......+--.....|+.
T Consensus       313 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~y~~~~~~~~~l~q~~~~~~~~~~~  392 (987)
T PRK09782        313 QYVVGATLPVLLKEGQYDAAQKLLATLPANEMLEERYAVSVATRNKAEALRLARLLYQQEPANLTRLDQLTWQLMQNGQS  392 (987)
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHhcCCCcchHHHHHHhhccccCchhHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcccH
Confidence                 124455556666655444210        0000110                   1 111222222234567888


Q ss_pred             hhHHHHHHHHHH-hcCCCchhHHHHHHHHHHHhcCC---HHHHHHH-------------------------HhcCC---C
Q 005268          247 RNSRSVHGFIMR-RGWFMEDVIIGNAVVDMYAKLGI---INSACAV-------------------------FEGLP---V  294 (705)
Q Consensus       247 ~~a~~i~~~~~~-~g~~~~~~~~~~~li~~y~~~g~---~~~A~~~-------------------------f~~~~---~  294 (705)
                      ++|.+++..... .+.-..+..+.+.|+..|.+.+.   ..++..+                         +....   .
T Consensus       393 ~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~~~p  472 (987)
T PRK09782        393 REAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATPAKVAILSKPLPLAEQRQWQSQLPGIADNCPAIVRLLGDMS  472 (987)
T ss_pred             HHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccchHHHHHhccccccchhHHHHhhhhhhhhhHHHHHHhcccCC
Confidence            999999888766 22122355667788899988876   3333222                         11111   1


Q ss_pred             C--ChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHH
Q 005268          295 K--DVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVAT  372 (705)
Q Consensus       295 ~--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~  372 (705)
                      .  +...|..+...+.. ++.++|+..|.+...   ..|+......+..++...|++++|...++.+...  +|+...+.
T Consensus       473 ~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~---~~Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~  546 (987)
T PRK09782        473 PSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQ---RQPDAWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLL  546 (987)
T ss_pred             CCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHH---hCCchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHH
Confidence            2  55677888877776 899999998888877   5577655444455556899999999999987654  34444566


Q ss_pred             HHHHHHHhcCCHHHHHHHHhhCCCCCcchHHHHHH---HHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCc
Q 005268          373 CLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIIS---CHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGL  449 (705)
Q Consensus       373 ~li~~y~k~g~~~~A~~~~~~~~~~~~~~~~~li~---~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~  449 (705)
                      .+...+.+.|++++|...|++....+...++....   .....|++++|+..|++.++  +.|+...+..+..++.+.|+
T Consensus       547 ~la~all~~Gd~~eA~~~l~qAL~l~P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~--l~P~~~a~~~LA~~l~~lG~  624 (987)
T PRK09782        547 AAANTAQAAGNGAARDRWLQQAEQRGLGDNALYWWLHAQRYIPGQPELALNDLTRSLN--IAPSANAYVARATIYRQRHN  624 (987)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHhCCCHHHHHHHHHHHHH--hCCCHHHHHHHHHHHHHCCC
Confidence            77788899999999999999887555444443333   33345999999999999998  67888889999999999999


Q ss_pred             HHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHH
Q 005268          450 VSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVASD  526 (705)
Q Consensus       450 ~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~  526 (705)
                      +++|...++....   ..| +...+..+...+...|++++|++.+++. ...| +...+..+..++...|++++|+..++
T Consensus       625 ~deA~~~l~~AL~---l~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P~~~~a~~nLA~al~~lGd~~eA~~~l~  701 (987)
T PRK09782        625 VPAAVSDLRAALE---LEPNNSNYQAALGYALWDSGDIAQSREMLERAHKGLPDDPALIRQLAYVNQRLDDMAATQHYAR  701 (987)
T ss_pred             HHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            9999999999885   466 4567888889999999999999999987 4556 47789999999999999999999999


Q ss_pred             HHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhCCC
Q 005268          527 RLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDRGL  567 (705)
Q Consensus       527 ~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  567 (705)
                      ++++++|++.......+++..+..+++.|.+-++..-...+
T Consensus       702 ~Al~l~P~~a~i~~~~g~~~~~~~~~~~a~~~~~r~~~~~~  742 (987)
T PRK09782        702 LVIDDIDNQALITPLTPEQNQQRFNFRRLHEEVGRRWTFSF  742 (987)
T ss_pred             HHHhcCCCCchhhhhhhHHHHHHHHHHHHHHHHHHHhhcCc
Confidence            99999999999999999999999999999887777665544

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

Probab=99.87  E-value=4.4e-20  Score=184.41  Aligned_cols=420  Identities=11%  Similarity=0.129  Sum_probs=338.7

Q ss_pred             hHHHHhhcCCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHccCCHHHHHHHHhccCCC---CeehHHHHHHHHHcCCC
Q 005268          134 SILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGMMRHALRVFDQMMER---DVVSWNSIIAAYEQSND  210 (705)
Q Consensus       134 ~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~~---~~~~~~~li~~~~~~g~  210 (705)
                      .+..-.-+.|++.+|++--..+-... +.+....-.+-..|....+++....--....+.   -..+|..+...+-..|+
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            34444556788888877655443332 222222223335666666666544332222222   34589999999999999


Q ss_pred             hhhHHHHHHHHHHCCCCCC-hhhHHHHHHHHHccCChhhHHHHHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHH
Q 005268          211 PITAHGFFTTMQQAGIQPD-LLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVF  289 (705)
Q Consensus       211 ~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f  289 (705)
                      .++|+.+++.|.+.  +|+ ...|..+..++...|+.+.+.+.+...++..  |....+.+-+....-..|++++|...+
T Consensus       132 ~~~al~~y~~aiel--~p~fida~inla~al~~~~~~~~a~~~~~~alqln--P~l~ca~s~lgnLlka~Grl~ea~~cY  207 (966)
T KOG4626|consen  132 LQDALALYRAAIEL--KPKFIDAYINLAAALVTQGDLELAVQCFFEALQLN--PDLYCARSDLGNLLKAEGRLEEAKACY  207 (966)
T ss_pred             HHHHHHHHHHHHhc--CchhhHHHhhHHHHHHhcCCCcccHHHHHHHHhcC--cchhhhhcchhHHHHhhcccchhHHHH
Confidence            99999999999884  554 4588899999999999999999999998864  444455566777777889999999988


Q ss_pred             hcCCCC---ChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCc-ccccchhHHhhccCchHHHHHHHHHHHHhCCC
Q 005268          290 EGLPVK---DVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQ-GTYVSILPAYSHVGALRQGIKIHARVIKNCLC  365 (705)
Q Consensus       290 ~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~-~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~  365 (705)
                      .+..+.   =.+.|+.|...+-.+|+...|++.|++..+   +.|+- ..|..+...|...+.++.|...+.++.... +
T Consensus       208 lkAi~~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvk---ldP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lr-p  283 (966)
T KOG4626|consen  208 LKAIETQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVK---LDPNFLDAYINLGNVYKEARIFDRAVSCYLRALNLR-P  283 (966)
T ss_pred             HHHHhhCCceeeeehhcchHHhhcchHHHHHHHHHHhhc---CCCcchHHHhhHHHHHHHHhcchHHHHHHHHHHhcC-C
Confidence            765433   347899999999999999999999999988   88863 467777788888888888888888777642 3


Q ss_pred             CchhHHHHHHHHHHhcCCHHHHHHHHhhCCCCC---cchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH-HHHHHHH
Q 005268          366 FDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSS---SVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDH-ITFVSLL  441 (705)
Q Consensus       366 ~~~~~~~~li~~y~k~g~~~~A~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~t~~~ll  441 (705)
                      ....++..+...|-..|.++-|...+++....+   ...|+.|..++-..|+..+|.+.|.+.+.  +.|+. ...+.|.
T Consensus       284 n~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~--l~p~hadam~NLg  361 (966)
T KOG4626|consen  284 NHAVAHGNLACIYYEQGLLDLAIDTYKRALELQPNFPDAYNNLANALKDKGSVTEAVDCYNKALR--LCPNHADAMNNLG  361 (966)
T ss_pred             cchhhccceEEEEeccccHHHHHHHHHHHHhcCCCchHHHhHHHHHHHhccchHHHHHHHHHHHH--hCCccHHHHHHHH
Confidence            356677778888999999999999999887433   34599999999999999999999999999  67876 5889999


Q ss_pred             HHHhccCcHHHHHHHHHHhHHhhCCcCC-cchHHHHHHHHHhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCCh
Q 005268          442 TACSHSGLVSEGQRYFHMMQEEFGIKPH-LKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRPD-ASIWGALLGACRIHGNM  518 (705)
Q Consensus       442 ~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~g~~  518 (705)
                      ..+...|.+++|..+|....   .+.|. ....+.|...|-.+|++++|+..+++. .++|+ ...++.+...|...|++
T Consensus       362 ni~~E~~~~e~A~~ly~~al---~v~p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI~P~fAda~~NmGnt~ke~g~v  438 (966)
T KOG4626|consen  362 NIYREQGKIEEATRLYLKAL---EVFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALRIKPTFADALSNMGNTYKEMGDV  438 (966)
T ss_pred             HHHHHhccchHHHHHHHHHH---hhChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhcCchHHHHHHhcchHHHHhhhH
Confidence            99999999999999998876   45665 467899999999999999999999887 78888 56899999999999999


Q ss_pred             hHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhCCC
Q 005268          519 ELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDRGL  567 (705)
Q Consensus       519 ~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  567 (705)
                      +.|.+.+.+++..+|.-..++..|+.+|-.+|+..+|..-++...+...
T Consensus       439 ~~A~q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkP  487 (966)
T KOG4626|consen  439 SAAIQCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKP  487 (966)
T ss_pred             HHHHHHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCC
Confidence            9999999999999999999999999999999999999999998876543

>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=99.85  E-value=5.7e-18  Score=188.07  Aligned_cols=250  Identities=12%  Similarity=0.057  Sum_probs=189.2

Q ss_pred             cCChhHHHHHHHhhhhcCCCCCC-cccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHH
Q 005268          310 NGLASEAIEVFQMMEECNEINPN-QGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAM  388 (705)
Q Consensus       310 ~g~~~~A~~~~~~m~~~~~~~p~-~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~  388 (705)
                      .+++++|++.|++..+.....|+ ...+..+...+...|++++|...++.+++.. +.+...+..+...|...|++++|.
T Consensus       307 ~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~  385 (615)
T TIGR00990       307 DESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELD-PRVTQSYIKRASMNLELGDPDKAE  385 (615)
T ss_pred             hhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHCCCHHHHH
Confidence            35677788888777761123342 3345555566667788888888888777653 223556777788888888999998


Q ss_pred             HHHhhCC---CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhh
Q 005268          389 SLFYQVP---RSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPD-HITFVSLLTACSHSGLVSEGQRYFHMMQEEF  464 (705)
Q Consensus       389 ~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~  464 (705)
                      ..|++..   +.+...|..+...+...|++++|+..|++.++  +.|+ ...+..+..++.+.|++++|...|+...+. 
T Consensus       386 ~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~--l~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~-  462 (615)
T TIGR00990       386 EDFDKALKLNSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSID--LDPDFIFSHIQLGVTQYKEGSIASSMATFRRCKKN-  462 (615)
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--cCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-
Confidence            8888765   34456688888889999999999999999988  4565 456777778888999999999999988753 


Q ss_pred             CCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCCCH-H-------HHHHHHHHHHhcCChhHHHHHHHHHhccCCC
Q 005268          465 GIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRPDA-S-------IWGALLGACRIHGNMELGAVASDRLFEVDSE  534 (705)
Q Consensus       465 ~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~~-~-------~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~  534 (705)
                        .| +...|..+..+|...|++++|++.|++. ...|+. .       .++..+..+...|++++|+..++++++++|+
T Consensus       463 --~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~p~  540 (615)
T TIGR00990       463 --FPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALIIDPE  540 (615)
T ss_pred             --CCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCC
Confidence              34 4678888999999999999999999886 344421 1       1222223344469999999999999999999


Q ss_pred             CcchhhhhhhhhhhcCCcchHHHHHHHHHhC
Q 005268          535 NVGYYVLMSNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       535 ~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      +...+..++.+|...|++++|.+.++...+.
T Consensus       541 ~~~a~~~la~~~~~~g~~~eAi~~~e~A~~l  571 (615)
T TIGR00990       541 CDIAVATMAQLLLQQGDVDEALKLFERAAEL  571 (615)
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            9888999999999999999999999988764

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.84  E-value=3.9e-19  Score=187.45  Aligned_cols=297  Identities=15%  Similarity=0.159  Sum_probs=175.8

Q ss_pred             HHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHhHHHHhhcCCChHHHHHHHHHHHHhCCCCc---hhHHHHHHHHHHcc
Q 005268          101 ISGYCQSGNAVEALDILDEMRLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLEFN---LFVSNNLINMYAKF  177 (705)
Q Consensus       101 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~---~~~~~~Li~~y~~~  177 (705)
                      ...+...|++++|+..|+++.+.+ +.+..++..+...+...|++++|..+++.+++.+..++   ..++..|...|.+.
T Consensus        42 g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~  120 (389)
T PRK11788         42 GLNFLLNEQPDKAIDLFIEMLKVD-PETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKA  120 (389)
T ss_pred             HHHHHhcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHC
Confidence            334556677777777777777653 22344666677777777777777777777766432221   24567788888888


Q ss_pred             CCHHHHHHHHhccCC---CCeehHHHHHHHHHcCCChhhHHHHHHHHHHCCCCCChhhHHHHHHHHHccCChhhHHHHHH
Q 005268          178 GMMRHALRVFDQMME---RDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQLNDCRNSRSVHG  254 (705)
Q Consensus       178 g~~~~A~~~f~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~  254 (705)
                      |++++|..+|+++.+   .+..+++.++..+.+.|++++|++.++.+.+.+..++..                       
T Consensus       121 g~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~-----------------------  177 (389)
T PRK11788        121 GLLDRAEELFLQLVDEGDFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRV-----------------------  177 (389)
T ss_pred             CCHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchH-----------------------
Confidence            888888888888865   355678888888888888888888888887653221110                       


Q ss_pred             HHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCC---CCChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCC
Q 005268          255 FIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLP---VKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINP  331 (705)
Q Consensus       255 ~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p  331 (705)
                               .....+..+...+.+.|++++|...|+++.   +.+...+..+...|.+.|++++|.+.|+++.+   ..|
T Consensus       178 ---------~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~---~~p  245 (389)
T PRK11788        178 ---------EIAHFYCELAQQALARGDLDAARALLKKALAADPQCVRASILLGDLALAQGDYAAAIEALERVEE---QDP  245 (389)
T ss_pred             ---------HHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH---HCh
Confidence                     011123445556666677777776666653   22345666667777777777777777777765   223


Q ss_pred             C--cccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCC--CCCcchHHHHHH
Q 005268          332 N--QGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVP--RSSSVPWNAIIS  407 (705)
Q Consensus       332 ~--~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~--~~~~~~~~~li~  407 (705)
                      +  ..++..+..++...|++++|...+..+.+..  |+...+..++..|.+.|++++|..+|+++.  .|+..+++.++.
T Consensus       246 ~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~~P~~~~~~~l~~  323 (389)
T PRK11788        246 EYLSEVLPKLMECYQALGDEAEGLEFLRRALEEY--PGADLLLALAQLLEEQEGPEAAQALLREQLRRHPSLRGFHRLLD  323 (389)
T ss_pred             hhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCchHHHHHHHHHHHhCCHHHHHHHHHHHHHhCcCHHHHHHHHH
Confidence            2  2233444445555555555555555544432  333333445555555555555555554433  234444444444


Q ss_pred             HHHh---cCChHHHHHHHHHHHHcCCCCCHH
Q 005268          408 CHGI---HGQGDKALNFFRQMLDEGVRPDHI  435 (705)
Q Consensus       408 ~~~~---~g~~~~A~~~~~~m~~~g~~p~~~  435 (705)
                      .+..   .|+.++++.+|++|.+.+++|++.
T Consensus       324 ~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p~  354 (389)
T PRK11788        324 YHLAEAEEGRAKESLLLLRDLVGEQLKRKPR  354 (389)
T ss_pred             HhhhccCCccchhHHHHHHHHHHHHHhCCCC
Confidence            4332   334555555555555544444443

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.83  E-value=1.1e-18  Score=184.13  Aligned_cols=290  Identities=12%  Similarity=0.093  Sum_probs=212.1

Q ss_pred             HHHhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCC---cccccchhHHhhccCc
Q 005268          275 MYAKLGIINSACAVFEGLPV---KDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPN---QGTYVSILPAYSHVGA  348 (705)
Q Consensus       275 ~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~---~~t~~~ll~a~~~~~~  348 (705)
                      .+...|++++|...|+++..   .+..+|..+...+...|++++|..+++.+.. .+..++   ..++..+...+...|+
T Consensus        44 ~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~-~~~~~~~~~~~~~~~La~~~~~~g~  122 (389)
T PRK11788         44 NFLLNEQPDKAIDLFIEMLKVDPETVELHLALGNLFRRRGEVDRAIRIHQNLLS-RPDLTREQRLLALQELGQDYLKAGL  122 (389)
T ss_pred             HHHhcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCcHHHHHHHHHHHhc-CCCCCHHHHHHHHHHHHHHHHHCCC
Confidence            34566777777777776652   2345666777777777777777777777765 321111   1345556666777777


Q ss_pred             hHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCcc--------hHHHHHHHHHhcCChHHHHH
Q 005268          349 LRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSV--------PWNAIISCHGIHGQGDKALN  420 (705)
Q Consensus       349 ~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~~~~~~--------~~~~li~~~~~~g~~~~A~~  420 (705)
                      ++.|..++..+.+.. +.+..+++.++..|.+.|++++|.+.|+.+.+.+..        .|..+...+.+.|++++|+.
T Consensus       123 ~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~  201 (389)
T PRK11788        123 LDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARA  201 (389)
T ss_pred             HHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHH
Confidence            777777777776642 345667778888888888888888888877532211        24567777888899999999


Q ss_pred             HHHHHHHcCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCC--cchHHHHHHHHHhcCCHHHHHHHHHhC-
Q 005268          421 FFRQMLDEGVRPD-HITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPH--LKHYGCMVDLFGRAGHLGMAHNFIQNM-  496 (705)
Q Consensus       421 ~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~~-  496 (705)
                      .|+++.+.  .|+ ...+..+...+.+.|++++|.++++++.+.   .|+  ...+..++.+|.+.|++++|...++++ 
T Consensus       202 ~~~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~---~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~  276 (389)
T PRK11788        202 LLKKALAA--DPQCVRASILLGDLALAQGDYAAAIEALERVEEQ---DPEYLSEVLPKLMECYQALGDEAEGLEFLRRAL  276 (389)
T ss_pred             HHHHHHhH--CcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH---ChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            99998884  454 456777778888999999999999988754   343  356788889999999999999999887 


Q ss_pred             CCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhh---cCCcchHHHHHHHHHhCCCccCCc
Q 005268          497 PVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYAN---VGKWEGVDEVRSLARDRGLKKTPG  572 (705)
Q Consensus       497 ~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~---~g~~~~a~~~~~~m~~~~~~~~~~  572 (705)
                      ...|+...+..++..+.+.|++++|...++++++..|+++. +..+...+..   .|+.+++..+++.|.+++++++|.
T Consensus       277 ~~~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~~P~~~~-~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p~  354 (389)
T PRK11788        277 EEYPGADLLLALAQLLEEQEGPEAAQALLREQLRRHPSLRG-FHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKPR  354 (389)
T ss_pred             HhCCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHhCcCHHH-HHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCCCC
Confidence            45677777788889999999999999999999999997754 4444444332   568999999999999999988886

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.81  E-value=8.9e-17  Score=177.87  Aligned_cols=367  Identities=10%  Similarity=-0.005  Sum_probs=277.7

Q ss_pred             ccCCHHHHHHHHhccCCC------CeehHHHHHHHHHcCCChhhHHHHHHHHHHCCCCCChhhHHHHHHHHHccCChhhH
Q 005268          176 KFGMMRHALRVFDQMMER------DVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQLNDCRNS  249 (705)
Q Consensus       176 ~~g~~~~A~~~f~~m~~~------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a  249 (705)
                      +..+++.---.|..-++.      +.......+..+.+.|++++|+.+++........+. ..+..++.+....|+++.|
T Consensus        17 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~~~-~~l~~l~~~~l~~g~~~~A   95 (656)
T PRK15174         17 KQEDWEGLCLYFSQHPEKVRDSAGNEQNIILFAIACLRKDETDVGLTLLSDRVLTAKNGR-DLLRRWVISPLASSQPDAV   95 (656)
T ss_pred             hhhchhhHhHHhhcccHhhhhhcccccCHHHHHHHHHhcCCcchhHHHhHHHHHhCCCch-hHHHHHhhhHhhcCCHHHH
Confidence            445555555555555441      223344566778888889999988888877643333 2344444556678888888


Q ss_pred             HHHHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCC---CCChhHHHHHHHHHHHcCChhHHHHHHHhhhhc
Q 005268          250 RSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLP---VKDVISWNTLITGYAQNGLASEAIEVFQMMEEC  326 (705)
Q Consensus       250 ~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  326 (705)
                      ...+..+.+..  |.+...+..+...+.+.|++++|...|++..   +.+...|..+...+...|++++|...++.+.. 
T Consensus        96 ~~~l~~~l~~~--P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~-  172 (656)
T PRK15174         96 LQVVNKLLAVN--VCQPEDVLLVASVLLKSKQYATVADLAEQAWLAFSGNSQIFALHLRTLVLMDKELQAISLARTQAQ-  172 (656)
T ss_pred             HHHHHHHHHhC--CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCChHHHHHHHHHHHH-
Confidence            88888888874  6777888889999999999999999998765   34667888899999999999999999998876 


Q ss_pred             CCCCCCcccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCcchHH
Q 005268          327 NEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVP---RSSSVPWN  403 (705)
Q Consensus       327 ~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~---~~~~~~~~  403 (705)
                        ..|+.......+..+...|++++|...+..+++....++......+...+.+.|++++|...|++..   ..+...+.
T Consensus       173 --~~P~~~~a~~~~~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p~~~~~~~  250 (656)
T PRK15174        173 --EVPPRGDMIATCLSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARGLDGAALRR  250 (656)
T ss_pred             --hCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHH
Confidence              4454433332334577889999999999988776433444555666778889999999999998876   34455688


Q ss_pred             HHHHHHHhcCChHH----HHHHHHHHHHcCCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCC-cchHHHHH
Q 005268          404 AIISCHGIHGQGDK----ALNFFRQMLDEGVRPDH-ITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPH-LKHYGCMV  477 (705)
Q Consensus       404 ~li~~~~~~g~~~~----A~~~~~~m~~~g~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li  477 (705)
                      .+...|.+.|++++    |+..|++..+  +.|+. ..+..+...+...|++++|...++...+.   .|+ ...+..+.
T Consensus       251 ~Lg~~l~~~G~~~eA~~~A~~~~~~Al~--l~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l---~P~~~~a~~~La  325 (656)
T PRK15174        251 SLGLAYYQSGRSREAKLQAAEHWRHALQ--FNSDNVRIVTLYADALIRTGQNEKAIPLLQQSLAT---HPDLPYVRAMYA  325 (656)
T ss_pred             HHHHHHHHcCCchhhHHHHHHHHHHHHh--hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCCHHHHHHHH
Confidence            89999999999986    8999999998  56664 57888888999999999999999998754   554 45677788


Q ss_pred             HHHHhcCCHHHHHHHHHhC-CCCCCHHHH-HHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchH
Q 005268          478 DLFGRAGHLGMAHNFIQNM-PVRPDASIW-GALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGV  555 (705)
Q Consensus       478 ~~~~~~g~~~~A~~~~~~~-~~~p~~~~~-~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a  555 (705)
                      .+|.+.|++++|...++++ ...|+...+ ..+..++...|+.++|...++++++..|++.            ...|++|
T Consensus       326 ~~l~~~G~~~eA~~~l~~al~~~P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~~P~~~------------~~~~~ea  393 (656)
T PRK15174        326 RALRQVGQYTAASDEFVQLAREKGVTSKWNRYAAAALLQAGKTSEAESVFEHYIQARASHL------------PQSFEEG  393 (656)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhChhhc------------hhhHHHH
Confidence            9999999999999999887 356765443 4456778999999999999999999999764            2444566


Q ss_pred             HHHHHHHHhC
Q 005268          556 DEVRSLARDR  565 (705)
Q Consensus       556 ~~~~~~m~~~  565 (705)
                      ...+....+.
T Consensus       394 ~~~~~~~~~~  403 (656)
T PRK15174        394 LLALDGQISA  403 (656)
T ss_pred             HHHHHHHHHh
Confidence            6666665543

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.81  E-value=9e-16  Score=173.64  Aligned_cols=154  Identities=12%  Similarity=0.056  Sum_probs=84.1

Q ss_pred             HHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHhHHHHhhcCCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHccCCH
Q 005268          101 ISGYCQSGNAVEALDILDEMRLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGMM  180 (705)
Q Consensus       101 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~  180 (705)
                      +......|+.++|++++.+..... +.+...+..+..++...|++++|.++++..++.. +.+...+..+..++...|+.
T Consensus        22 ~~ia~~~g~~~~A~~~~~~~~~~~-~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~l~~~g~~   99 (765)
T PRK10049         22 LQIALWAGQDAEVITVYNRYRVHM-QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLE-PQNDDYQRGLILTLADAGQY   99 (765)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCH
Confidence            334445566666666666655311 2233345555555555566666666665555542 22334444555555555555


Q ss_pred             HHHHHHHhccCC--C-CeehHHHHHHHHHcCCChhhHHHHHHHHHHCCCCCChhhHHHHHHHHHccCChhhHHHHHHHHH
Q 005268          181 RHALRVFDQMME--R-DVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQLNDCRNSRSVHGFIM  257 (705)
Q Consensus       181 ~~A~~~f~~m~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~  257 (705)
                      ++|...+++..+  | +.. |..+...+...|+.++|+..++++.+                                  
T Consensus       100 ~eA~~~l~~~l~~~P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~----------------------------------  144 (765)
T PRK10049        100 DEALVKAKQLVSGAPDKAN-LLALAYVYKRAGRHWDELRAMTQALP----------------------------------  144 (765)
T ss_pred             HHHHHHHHHHHHhCCCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHH----------------------------------
Confidence            555555555432  1 222 44455555555555555555555544                                  


Q ss_pred             HhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCCC
Q 005268          258 RRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPV  294 (705)
Q Consensus       258 ~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~  294 (705)
                       .  .|.+..++..+...+.+.|..+.|...++....
T Consensus       145 -~--~P~~~~~~~~la~~l~~~~~~e~Al~~l~~~~~  178 (765)
T PRK10049        145 -R--APQTQQYPTEYVQALRNNRLSAPALGAIDDANL  178 (765)
T ss_pred             -h--CCCCHHHHHHHHHHHHHCCChHHHHHHHHhCCC
Confidence             3  355555666677777777888888888876664

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.80  E-value=3.2e-16  Score=177.30  Aligned_cols=385  Identities=10%  Similarity=0.034  Sum_probs=258.6

Q ss_pred             HHHHHHccCCHHHHHHHHhccCC-C--CeehHHHHHHHHHcCCChhhHHHHHHHHHHCCCCCC-hhhHHHHHHHHHccCC
Q 005268          170 LINMYAKFGMMRHALRVFDQMME-R--DVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPD-LLTLVSLTSIVAQLND  245 (705)
Q Consensus       170 Li~~y~~~g~~~~A~~~f~~m~~-~--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~~~  245 (705)
                      .+......|+.++|++++..... .  +...+..+...+.+.|++++|.++|++..+.  .|+ ......+...+...|+
T Consensus        21 ~~~ia~~~g~~~~A~~~~~~~~~~~~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~la~~l~~~g~   98 (765)
T PRK10049         21 WLQIALWAGQDAEVITVYNRYRVHMQLPARGYAAVAVAYRNLKQWQNSLTLWQKALSL--EPQNDDYQRGLILTLADAGQ   98 (765)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCC
Confidence            33344444444444444444432 1  1122444444444555555555555544432  222 2223333344444555


Q ss_pred             hhhHHHHHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCC---CCChhHHHHHHHHHHHcCChhHHHHHHHh
Q 005268          246 CRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLP---VKDVISWNTLITGYAQNGLASEAIEVFQM  322 (705)
Q Consensus       246 ~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~  322 (705)
                      .++|...++.+++.  .|.+.. +..+..++...|+.++|...++++.   +.+...+..+...+...+..++|++.++.
T Consensus        99 ~~eA~~~l~~~l~~--~P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P~~~~~~~~la~~l~~~~~~e~Al~~l~~  175 (765)
T PRK10049         99 YDEALVKAKQLVSG--APDKAN-LLALAYVYKRAGRHWDELRAMTQALPRAPQTQQYPTEYVQALRNNRLSAPALGAIDD  175 (765)
T ss_pred             HHHHHHHHHHHHHh--CCCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCChHHHHHHHHh
Confidence            55555555555444  356666 8888999999999999999998876   33666777788888899999999999886


Q ss_pred             hhhcCCCCCCcc------cccchhHHh-----hccCch---HHHHHHHHHHHHh-CCCCchh-H-HHH---HHHHHHhcC
Q 005268          323 MEECNEINPNQG------TYVSILPAY-----SHVGAL---RQGIKIHARVIKN-CLCFDVF-V-ATC---LVDMYGKCG  382 (705)
Q Consensus       323 m~~~~~~~p~~~------t~~~ll~a~-----~~~~~~---~~a~~~~~~~~~~-g~~~~~~-~-~~~---li~~y~k~g  382 (705)
                      ...    .|+..      .....+...     ...+.+   +.|...++.+++. ...|+.. . ...   .+.++...|
T Consensus       176 ~~~----~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g  251 (765)
T PRK10049        176 ANL----TPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGALLARD  251 (765)
T ss_pred             CCC----CHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhh
Confidence            653    33310      011111111     122233   6778888888764 2223221 1 111   123445679


Q ss_pred             CHHHHHHHHhhCCCCCc--ch--HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-----HHHHHHHHHHHhccCcHHHH
Q 005268          383 RIDDAMSLFYQVPRSSS--VP--WNAIISCHGIHGQGDKALNFFRQMLDEGVRPD-----HITFVSLLTACSHSGLVSEG  453 (705)
Q Consensus       383 ~~~~A~~~~~~~~~~~~--~~--~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-----~~t~~~ll~a~~~~g~~~~a  453 (705)
                      ++++|+..|+.+.+.+.  ..  -..+...|...|++++|+..|+++.+.  .|.     ......+..++...|++++|
T Consensus       252 ~~~eA~~~~~~ll~~~~~~P~~a~~~la~~yl~~g~~e~A~~~l~~~l~~--~p~~~~~~~~~~~~L~~a~~~~g~~~eA  329 (765)
T PRK10049        252 RYKDVISEYQRLKAEGQIIPPWAQRWVASAYLKLHQPEKAQSILTELFYH--PETIADLSDEELADLFYSLLESENYPGA  329 (765)
T ss_pred             hHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhc--CCCCCCCChHHHHHHHHHHHhcccHHHH
Confidence            99999999999985431  11  122577899999999999999998874  332     23456667788999999999


Q ss_pred             HHHHHHhHHhhC----------CcCC---cchHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCh
Q 005268          454 QRYFHMMQEEFG----------IKPH---LKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNM  518 (705)
Q Consensus       454 ~~~~~~m~~~~~----------~~p~---~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~  518 (705)
                      .++++.+.....          -.|+   ...+..++.++...|++++|++.++++ ...| +...+..+...+...|+.
T Consensus       330 ~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~P~n~~l~~~lA~l~~~~g~~  409 (765)
T PRK10049        330 LTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNAPGNQGLRIDYASVLQARGWP  409 (765)
T ss_pred             HHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCH
Confidence            999999875411          0122   124566788999999999999999987 3344 577899999999999999


Q ss_pred             hHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhC
Q 005268          519 ELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       519 ~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      ++|+..++++++++|+++..+..++..+...|+|++|..+++.+.+.
T Consensus       410 ~~A~~~l~~al~l~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~  456 (765)
T PRK10049        410 RAAENELKKAEVLEPRNINLEVEQAWTALDLQEWRQMDVLTDDVVAR  456 (765)
T ss_pred             HHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999875

>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=99.80  E-value=6.8e-16  Score=171.55  Aligned_cols=418  Identities=12%  Similarity=0.010  Sum_probs=281.1

Q ss_pred             hHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHhHHHHhhcCCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHH
Q 005268           96 SWNAMISGYCQSGNAVEALDILDEMRLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYA  175 (705)
Q Consensus        96 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~  175 (705)
                      .+......+.+.|++++|+..|++..+  ..|+...|..+..++...|++++|...+..+++.. +.+...+..+..+|.
T Consensus       129 ~~k~~G~~~~~~~~~~~Ai~~y~~al~--~~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~a~a~~  205 (615)
T TIGR00990       129 KLKEKGNKAYRNKDFNKAIKLYSKAIE--CKPDPVYYSNRAACHNALGDWEKVVEDTTAALELD-PDYSKALNRRANAYD  205 (615)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHh--cCCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHH
Confidence            355667777888888888888888775  35677777777777888888888888888887764 235567777888888


Q ss_pred             ccCCHHHHHHHHhccCCCC---eehHHHHHHHHHcCCChhhHHHHHHHHHHCCCCCChhhHHHHHHHHHccCChhhHHHH
Q 005268          176 KFGMMRHALRVFDQMMERD---VVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQLNDCRNSRSV  252 (705)
Q Consensus       176 ~~g~~~~A~~~f~~m~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i  252 (705)
                      ..|++++|..-|......+   ......++..+..    ..+........+.. +++...+..+.. +...........-
T Consensus       206 ~lg~~~eA~~~~~~~~~~~~~~~~~~~~~~~~~l~----~~a~~~~~~~l~~~-~~~~~~~~~~~~-~~~~~~~~~~~~~  279 (615)
T TIGR00990       206 GLGKYADALLDLTASCIIDGFRNEQSAQAVERLLK----KFAESKAKEILETK-PENLPSVTFVGN-YLQSFRPKPRPAG  279 (615)
T ss_pred             HcCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHH----HHHHHHHHHHHhcC-CCCCCCHHHHHH-HHHHccCCcchhh
Confidence            8888888877765443211   1111111111111    12222233322221 111112221111 1111111111110


Q ss_pred             HHHHHHhcCCCchhHHHHHHHHHH------HhcCCHHHHHHHHhcCCC------CChhHHHHHHHHHHHcCChhHHHHHH
Q 005268          253 HGFIMRRGWFMEDVIIGNAVVDMY------AKLGIINSACAVFEGLPV------KDVISWNTLITGYAQNGLASEAIEVF  320 (705)
Q Consensus       253 ~~~~~~~g~~~~~~~~~~~li~~y------~~~g~~~~A~~~f~~~~~------~~~~~~~~li~~~~~~g~~~~A~~~~  320 (705)
                      +....     ..+......++..+      ...+++++|.+.|+....      .+...|+.+...+...|++++|+..|
T Consensus       280 ~~~~~-----~~~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~  354 (615)
T TIGR00990       280 LEDSN-----ELDEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADL  354 (615)
T ss_pred             hhccc-----ccccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            11000     00111111111111      234678888888876653      24567888888888999999999999


Q ss_pred             HhhhhcCCCCCC-cccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCC---C
Q 005268          321 QMMEECNEINPN-QGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVP---R  396 (705)
Q Consensus       321 ~~m~~~~~~~p~-~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~---~  396 (705)
                      ++..+   +.|+ ...|..+...+...|++++|...++.+++.. +.+..++..+...|...|++++|...|++..   +
T Consensus       355 ~kal~---l~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P  430 (615)
T TIGR00990       355 SKSIE---LDPRVTQSYIKRASMNLELGDPDKAEEDFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDP  430 (615)
T ss_pred             HHHHH---cCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCc
Confidence            99887   6675 3466777778888999999999999988763 4467788889999999999999999999876   3


Q ss_pred             CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCc-ch--
Q 005268          397 SSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPD-HITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHL-KH--  472 (705)
Q Consensus       397 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~-~~--  472 (705)
                      .+...|..+...+.+.|++++|+..|++.++.  .|+ ...+..+..++...|++++|.+.|+...+   +.|+. ..  
T Consensus       431 ~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~---l~p~~~~~~~  505 (615)
T TIGR00990       431 DFIFSHIQLGVTQYKEGSIASSMATFRRCKKN--FPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIE---LEKETKPMYM  505 (615)
T ss_pred             cCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHccCHHHHHHHHHHHHh---cCCccccccc
Confidence            34556888889999999999999999999884  555 56888888899999999999999998874   34431 11  


Q ss_pred             -----HHHHHHHHHhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCc
Q 005268          473 -----YGCMVDLFGRAGHLGMAHNFIQNM-PVRPD-ASIWGALLGACRIHGNMELGAVASDRLFEVDSENV  536 (705)
Q Consensus       473 -----~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  536 (705)
                           ++.....+...|++++|.+++++. ...|+ ...+..+...+...|++++|...++++.++.+...
T Consensus       506 ~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~p~~~~a~~~la~~~~~~g~~~eAi~~~e~A~~l~~~~~  576 (615)
T TIGR00990       506 NVLPLINKALALFQWKQDFIEAENLCEKALIIDPECDIAVATMAQLLLQQGDVDEALKLFERAAELARTEG  576 (615)
T ss_pred             cHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHhccHH
Confidence                 122223344579999999999886 55565 55789999999999999999999999999877543

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.78  E-value=6e-15  Score=163.53  Aligned_cols=435  Identities=12%  Similarity=0.043  Sum_probs=274.2

Q ss_pred             HHHcCCChhHHHHHhccCCCCCcc---hHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhH---HhHHHHhhcCCCh
Q 005268           72 MYCRFGLANVARKLFDDMPVRDSG---SWNAMISGYCQSGNAVEALDILDEMRLEGVSMDPITV---ASILPVCARSDNI  145 (705)
Q Consensus        72 ~y~~~g~~~~A~~~f~~~~~~~~~---~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~---~~ll~~~~~~~~~  145 (705)
                      ...+.|+++.|+..|++..+.+..   ....++..+...|+.++|+..+++..    .|+...+   ..+...+...|++
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            456889999999999888743322   23477888888899999999998887    3433332   2234466777999


Q ss_pred             HHHHHHHHHHHHhCCCCchhHHHHHHHHHHccCCHHHHHHHHhccCCCCeehHHHHHHHHHc--CCChhhHHHHHHHHHH
Q 005268          146 LSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGMMRHALRVFDQMMERDVVSWNSIIAAYEQ--SNDPITAHGFFTTMQQ  223 (705)
Q Consensus       146 ~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~--~g~~~~A~~~~~~m~~  223 (705)
                      +.|.++++.+++..+. +..++..|+..|...++.++|+..++++...+......+..+|..  .++..+|++.++++.+
T Consensus       119 d~Aiely~kaL~~dP~-n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~dp~~~~~l~layL~~~~~~~~~AL~~~ekll~  197 (822)
T PRK14574        119 DQALALWQSSLKKDPT-NPDLISGMIMTQADAGRGGVVLKQATELAERDPTVQNYMTLSYLNRATDRNYDALQASSEAVR  197 (822)
T ss_pred             HHHHHHHHHHHhhCCC-CHHHHHHHHHHHhhcCCHHHHHHHHHHhcccCcchHHHHHHHHHHHhcchHHHHHHHHHHHHH
Confidence            9999999999887644 466777888888888999999999888876544433334444444  4555568888888877


Q ss_pred             CCCCCC-hhhHHHHHHHHHccCChhhHHHHHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHH
Q 005268          224 AGIQPD-LLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDVISWNT  302 (705)
Q Consensus       224 ~g~~p~-~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~  302 (705)
                      .  .|+ ...+.....++.+.|-...|.++...-...  +.+....+  |        +.+.|.+..+.-..++      
T Consensus       198 ~--~P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~--f~~~~~~~--l--------~~~~~a~~vr~a~~~~------  257 (822)
T PRK14574        198 L--APTSEEVLKNHLEILQRNRIVEPALRLAKENPNL--VSAEHYRQ--L--------ERDAAAEQVRMAVLPT------  257 (822)
T ss_pred             h--CCCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccc--cCHHHHHH--H--------HHHHHHHHHhhccccc------
Confidence            5  233 333444455555555554444433321110  11111000  0        0011111111000000      


Q ss_pred             HHHHHHHcCC---hhHHHHHHHhhhhcCCCCCCccc-----ccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHH
Q 005268          303 LITGYAQNGL---ASEAIEVFQMMEECNEINPNQGT-----YVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCL  374 (705)
Q Consensus       303 li~~~~~~g~---~~~A~~~~~~m~~~~~~~p~~~t-----~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l  374 (705)
                          -....+   .+.|+.-++.+....+-.|....     ..-.+-++...++..++++.++.+...+.+....+-.++
T Consensus       258 ----~~~~~r~~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~  333 (822)
T PRK14574        258 ----RSETERFDIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWA  333 (822)
T ss_pred             ----ccchhhHHHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHH
Confidence                000111   23444444444431222232211     113345666778888888888888877766556677788


Q ss_pred             HHHHHhcCCHHHHHHHHhhCCCCC---------cchHHHHHHHHHhcCChHHHHHHHHHHHHcCC-----------CC--
Q 005268          375 VDMYGKCGRIDDAMSLFYQVPRSS---------SVPWNAIISCHGIHGQGDKALNFFRQMLDEGV-----------RP--  432 (705)
Q Consensus       375 i~~y~k~g~~~~A~~~~~~~~~~~---------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-----------~p--  432 (705)
                      .++|...+++++|..+|+++...+         ......|.-+|...+++++|..+++++.+.-.           .|  
T Consensus       334 adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~  413 (822)
T PRK14574        334 ASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPND  413 (822)
T ss_pred             HHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCc
Confidence            888888888888888888775322         11135677788888888888888888887311           12  


Q ss_pred             CHH-HHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCCC-HHHHHHH
Q 005268          433 DHI-TFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRPD-ASIWGAL  508 (705)
Q Consensus       433 ~~~-t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l  508 (705)
                      |-. .+..++..+.-.|++.+|.+.++.+...   .| |......+.+++...|++.+|++.++.. ...|+ ..+....
T Consensus       414 d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~---aP~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l~P~~~~~~~~~  490 (822)
T PRK14574        414 DWIEGQTLLVQSLVALNDLPTAQKKLEDLSST---APANQNLRIALASIYLARDLPRKAEQELKAVESLAPRSLILERAQ  490 (822)
T ss_pred             cHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhCCccHHHHHHH
Confidence            222 3344455677888888888888888643   44 6678888888888888888888888766 34565 4456667


Q ss_pred             HHHHHhcCChhHHHHHHHHHhccCCCCcch
Q 005268          509 LGACRIHGNMELGAVASDRLFEVDSENVGY  538 (705)
Q Consensus       509 l~~~~~~g~~~~a~~~~~~~~~~~p~~~~~  538 (705)
                      +.+....+++++|..+.+.+.+..|+++..
T Consensus       491 ~~~al~l~e~~~A~~~~~~l~~~~Pe~~~~  520 (822)
T PRK14574        491 AETAMALQEWHQMELLTDDVISRSPEDIPS  520 (822)
T ss_pred             HHHHHhhhhHHHHHHHHHHHHhhCCCchhH
Confidence            777778888888888888888888887643

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

Probab=99.78  E-value=8.1e-15  Score=155.09  Aligned_cols=550  Identities=12%  Similarity=0.047  Sum_probs=368.6

Q ss_pred             cCCchHHHHHHHHHhH-hCCCCCCccchHH-HHHHhcCCchHHHHHHHHHHhCCCCCHHHHHHHHHHHHcCC---ChhHH
Q 005268            8 CGRLSEAVDCFYQFTL-TSGLRPDFYTFPP-VLKACRNLVDGKKIHCSVLKLGFEWDVFVAASLLHMYCRFG---LANVA   82 (705)
Q Consensus         8 ~g~~~~A~~~~~~~m~-~~g~~p~~~~~~~-ll~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~ll~~y~~~g---~~~~A   82 (705)
                      .|++..|+.+|...+. .+...||+..-.. -+--|.....|...|.+.++... .++.++-.|--+-....   .+..+
T Consensus       177 kkdY~~al~yyk~al~inp~~~aD~rIgig~Cf~kl~~~~~a~~a~~ralqLdp-~~v~alv~L~~~~l~~~d~~s~~~~  255 (1018)
T KOG2002|consen  177 KKDYRGALKYYKKALRINPACKADVRIGIGHCFWKLGMSEKALLAFERALQLDP-TCVSALVALGEVDLNFNDSDSYKKG  255 (1018)
T ss_pred             cccHHHHHHHHHHHHhcCcccCCCccchhhhHHHhccchhhHHHHHHHHHhcCh-hhHHHHHHHHHHHHHccchHHHHHH
Confidence            4667777777776322 2334455543211 01112222236666666665531 12222222221111222   23444


Q ss_pred             HHHhccCC---CCCcchHHHHHHHHHhCCChhHHHHHHHHHHHCCCC--CChhhHHhHHHHhhcCCChHHHHHHHHHHHH
Q 005268           83 RKLFDDMP---VRDSGSWNAMISGYCQSGNAVEALDILDEMRLEGVS--MDPITVASILPVCARSDNILSGLLIHLYIVK  157 (705)
Q Consensus        83 ~~~f~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~--p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~  157 (705)
                      ..++...-   ..|++..|.|.+-|.-.|+++.++.+...+......  .-...|-.+.+++-..|+++.|...|-+..+
T Consensus       256 ~~ll~~ay~~n~~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k  335 (1018)
T KOG2002|consen  256 VQLLQRAYKENNENPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLK  335 (1018)
T ss_pred             HHHHHHHHhhcCCCcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHc
Confidence            44444332   357888999999999999999999999988764311  1234588889999999999999999988887


Q ss_pred             hCCCCchhHHHHHHHHHHccCCHHHHHHHHhccCC--C-CeehHHHHHHHHHcCC----ChhhHHHHHHHHHHCCCCCCh
Q 005268          158 HGLEFNLFVSNNLINMYAKFGMMRHALRVFDQMME--R-DVVSWNSIIAAYEQSN----DPITAHGFFTTMQQAGIQPDL  230 (705)
Q Consensus       158 ~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~--~-~~~~~~~li~~~~~~g----~~~~A~~~~~~m~~~g~~p~~  230 (705)
                      .....-+..+-.|..+|.+.|+++.|...|+.+..  | +..+...|...|...+    ..+.|..++.+..+.- +.|.
T Consensus       336 ~~~d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k~~p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~-~~d~  414 (1018)
T KOG2002|consen  336 ADNDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLKQLPNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQT-PVDS  414 (1018)
T ss_pred             cCCCCccccccchhHHHHHhchHHHHHHHHHHHHHhCcchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcc-cccH
Confidence            65333244556788999999999999999999865  3 3445555666666664    4466666666655542 3445


Q ss_pred             hhHHHHHHHHHccCChhhHHHHHHH----HHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCCCC-------Chh-
Q 005268          231 LTLVSLTSIVAQLNDCRNSRSVHGF----IMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVK-------DVI-  298 (705)
Q Consensus       231 ~t~~~ll~a~~~~~~~~~a~~i~~~----~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~-------~~~-  298 (705)
                      ..|..+-..+....- ......+..    +...+ -+..+.+.|.+...+...|.++.|...|++....       |.. 
T Consensus       415 ~a~l~laql~e~~d~-~~sL~~~~~A~d~L~~~~-~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~  492 (1018)
T KOG2002|consen  415 EAWLELAQLLEQTDP-WASLDAYGNALDILESKG-KQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGK  492 (1018)
T ss_pred             HHHHHHHHHHHhcCh-HHHHHHHHHHHHHHHHcC-CCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccc
Confidence            566666555544433 333555544    34455 4577888999999999999999999999865422       221 


Q ss_pred             -----HHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccc-cchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHH
Q 005268          299 -----SWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTY-VSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVAT  372 (705)
Q Consensus       299 -----~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~-~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~  372 (705)
                           +--.+...+-..++++.|.+.|..+.+   ..|+.+.- .-++...-..+...+|...+..+.... ..++.+++
T Consensus       493 ~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilk---ehp~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d-~~np~ars  568 (1018)
T KOG2002|consen  493 STNLTLKYNLARLLEELHDTEVAEEMYKSILK---EHPGYIDAYLRLGCMARDKNNLYEASLLLKDALNID-SSNPNARS  568 (1018)
T ss_pred             cchhHHHHHHHHHHHhhhhhhHHHHHHHHHHH---HCchhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcc-cCCcHHHH
Confidence                 122234455566789999999999988   55654432 222212223466778888888877642 45666677


Q ss_pred             HHHHHHHhcCCHHHHHHHHhhCC-----CCCcchHHHHHHHHH------------hcCChHHHHHHHHHHHHcCCCCCHH
Q 005268          373 CLVDMYGKCGRIDDAMSLFYQVP-----RSSSVPWNAIISCHG------------IHGQGDKALNFFRQMLDEGVRPDHI  435 (705)
Q Consensus       373 ~li~~y~k~g~~~~A~~~~~~~~-----~~~~~~~~~li~~~~------------~~g~~~~A~~~~~~m~~~g~~p~~~  435 (705)
                      -+.+.|.+...+..|.+-|..+.     .+|..+.-+|.+.|.            ..+..++|+++|.+.++.. +-|..
T Consensus       569 l~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~d-pkN~y  647 (1018)
T KOG2002|consen  569 LLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRND-PKNMY  647 (1018)
T ss_pred             HHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcC-cchhh
Confidence            77778888888888888666554     234444444444333            2346788999999999842 33556


Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhCC----CCCCHHHHHHHHHH
Q 005268          436 TFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNMP----VRPDASIWGALLGA  511 (705)
Q Consensus       436 t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~----~~p~~~~~~~ll~~  511 (705)
                      .-+.+.-.++..|++.+|+.+|....+..  .....+|-.+.+.|..+|++..|+++|+..-    .+.+..+...|..+
T Consensus       648 AANGIgiVLA~kg~~~~A~dIFsqVrEa~--~~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara  725 (1018)
T KOG2002|consen  648 AANGIGIVLAEKGRFSEARDIFSQVREAT--SDFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARA  725 (1018)
T ss_pred             hccchhhhhhhccCchHHHHHHHHHHHHH--hhCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHH
Confidence            77788888999999999999999998752  3345588889999999999999999998761    23467788999999


Q ss_pred             HHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhh-------------------hhcCCcchHHHHHHHHHhCCCc
Q 005268          512 CRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIY-------------------ANVGKWEGVDEVRSLARDRGLK  568 (705)
Q Consensus       512 ~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~-------------------~~~g~~~~a~~~~~~m~~~~~~  568 (705)
                      +...|.+.+|.+.+..+..+.|.|+.....++-+.                   ...+..++|.++|..+.+.+-+
T Consensus       726 ~y~~~~~~eak~~ll~a~~~~p~~~~v~FN~a~v~kkla~s~lr~~k~t~eev~~a~~~le~a~r~F~~ls~~~d~  801 (1018)
T KOG2002|consen  726 WYEAGKLQEAKEALLKARHLAPSNTSVKFNLALVLKKLAESILRLEKRTLEEVLEAVKELEEARRLFTELSKNGDK  801 (1018)
T ss_pred             HHHhhhHHHHHHHHHHHHHhCCccchHHhHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence            99999999999999999999999987766555333                   3334577888888888876543

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.77  E-value=8e-16  Score=170.30  Aligned_cols=326  Identities=10%  Similarity=-0.030  Sum_probs=267.9

Q ss_pred             hhhHHHHHHHHHccCChhhHHHHHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCC---CCChhHHHHHHHH
Q 005268          230 LLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLP---VKDVISWNTLITG  306 (705)
Q Consensus       230 ~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~---~~~~~~~~~li~~  306 (705)
                      ..-...++..+.+.|+.+.|..++..++...  +.+......++......|++++|...|+++.   +.+...|..+...
T Consensus        42 ~~~~~~~~~~~~~~g~~~~A~~l~~~~l~~~--p~~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~P~~~~a~~~la~~  119 (656)
T PRK15174         42 EQNIILFAIACLRKDETDVGLTLLSDRVLTA--KNGRDLLRRWVISPLASSQPDAVLQVVNKLLAVNVCQPEDVLLVASV  119 (656)
T ss_pred             ccCHHHHHHHHHhcCCcchhHHHhHHHHHhC--CCchhHHHHHhhhHhhcCCHHHHHHHHHHHHHhCCCChHHHHHHHHH
Confidence            3345567778889999999999999998885  6666667777777888999999999999875   3466788999999


Q ss_pred             HHHcCChhHHHHHHHhhhhcCCCCCC-cccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHH
Q 005268          307 YAQNGLASEAIEVFQMMEECNEINPN-QGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRID  385 (705)
Q Consensus       307 ~~~~g~~~~A~~~~~~m~~~~~~~p~-~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~  385 (705)
                      +.+.|++++|+..|++...   +.|+ ...+..+...+...|++++|...+..+......+ ...+..+ ..+.+.|+++
T Consensus       120 l~~~g~~~~Ai~~l~~Al~---l~P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P~~-~~a~~~~-~~l~~~g~~~  194 (656)
T PRK15174        120 LLKSKQYATVADLAEQAWL---AFSGNSQIFALHLRTLVLMDKELQAISLARTQAQEVPPR-GDMIATC-LSFLNKSRLP  194 (656)
T ss_pred             HHHcCCHHHHHHHHHHHHH---hCCCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCCC-HHHHHHH-HHHHHcCCHH
Confidence            9999999999999999988   6775 4566778888999999999999999887764333 3333333 3478899999


Q ss_pred             HHHHHHhhCCCCC----cchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCcHHH----HHHH
Q 005268          386 DAMSLFYQVPRSS----SVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPD-HITFVSLLTACSHSGLVSE----GQRY  456 (705)
Q Consensus       386 ~A~~~~~~~~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~----a~~~  456 (705)
                      +|...++.+.+.+    ...+..+...+...|++++|+..|+++.+.  .|+ ...+..+..++...|++++    |...
T Consensus       195 eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~--~p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~  272 (656)
T PRK15174        195 EDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALAR--GLDGAALRRSLGLAYYQSGRSREAKLQAAEH  272 (656)
T ss_pred             HHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHcCCchhhHHHHHHH
Confidence            9999999876432    223455567888999999999999999985  455 4577778889999999986    7899


Q ss_pred             HHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCChhHHHHHHHHHhccCC
Q 005268          457 FHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRPD-ASIWGALLGACRIHGNMELGAVASDRLFEVDS  533 (705)
Q Consensus       457 ~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p  533 (705)
                      |+...+   +.| +...+..+..++.+.|++++|...+++. ...|+ ...+..+..++...|++++|+..++++++.+|
T Consensus       273 ~~~Al~---l~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~P  349 (656)
T PRK15174        273 WRHALQ---FNSDNVRIVTLYADALIRTGQNEKAIPLLQQSLATHPDLPYVRAMYARALRQVGQYTAASDEFVQLAREKG  349 (656)
T ss_pred             HHHHHh---hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCc
Confidence            988875   356 4568889999999999999999999887 34555 56788889999999999999999999999999


Q ss_pred             CCcchhhhhhhhhhhcCCcchHHHHHHHHHhCCC
Q 005268          534 ENVGYYVLMSNIYANVGKWEGVDEVRSLARDRGL  567 (705)
Q Consensus       534 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  567 (705)
                      +++..+..++.++...|++++|...++...+...
T Consensus       350 ~~~~~~~~~a~al~~~G~~deA~~~l~~al~~~P  383 (656)
T PRK15174        350 VTSKWNRYAAAALLQAGKTSEAESVFEHYIQARA  383 (656)
T ss_pred             cchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCh
Confidence            8877777788899999999999999999887644

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.75  E-value=3e-14  Score=157.99  Aligned_cols=441  Identities=9%  Similarity=0.042  Sum_probs=310.3

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCh--hhHHhHHHHhhcCCChHHHHHHHHHHHHhCCCCchhHHHHHHHHH
Q 005268           97 WNAMISGYCQSGNAVEALDILDEMRLEGVSMDP--ITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMY  174 (705)
Q Consensus        97 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y  174 (705)
                      |...| ...+.|++++|++.|++..+.  .|+.  ..+ .++..+...|+.++|...++..+.. -.........+...|
T Consensus        38 y~~ai-i~~r~Gd~~~Al~~L~qaL~~--~P~~~~av~-dll~l~~~~G~~~~A~~~~eka~~p-~n~~~~~llalA~ly  112 (822)
T PRK14574         38 YDSLI-IRARAGDTAPVLDYLQEESKA--GPLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQSS-MNISSRGLASAARAY  112 (822)
T ss_pred             HHHHH-HHHhCCCHHHHHHHHHHHHhh--CccchhhHH-HHHHHHHHcCCcHHHHHHHHHhccC-CCCCHHHHHHHHHHH
Confidence            44333 467899999999999999875  4554  233 7777788889999999999888721 122233333446688


Q ss_pred             HccCCHHHHHHHHhccCCC---CeehHHHHHHHHHcCCChhhHHHHHHHHHHCCCCCChhhHHHHHHHHHccCChhhHHH
Q 005268          175 AKFGMMRHALRVFDQMMER---DVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQLNDCRNSRS  251 (705)
Q Consensus       175 ~~~g~~~~A~~~f~~m~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~  251 (705)
                      ...|++++|..+|+++.+.   |...+..++..|.+.++.++|++.++++...  .|+...+..++..+...++...+.+
T Consensus       113 ~~~gdyd~Aiely~kaL~~dP~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~~AL~  190 (822)
T PRK14574        113 RNEKRWDQALALWQSSLKKDPTNPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNYDALQ  190 (822)
T ss_pred             HHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHHHHHH
Confidence            8889999999999998663   3456667788889999999999999998764  5555555444444444555655888


Q ss_pred             HHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCCCC-ChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCC
Q 005268          252 VHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVK-DVISWNTLITGYAQNGLASEAIEVFQMMEECNEIN  330 (705)
Q Consensus       252 i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~  330 (705)
                      .++.+++..  |.+...+..++....+.|-...|.++..+-+.- +...+.-+        +.+.|.+..+.     +..
T Consensus       191 ~~ekll~~~--P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~l--------~~~~~a~~vr~-----a~~  255 (822)
T PRK14574        191 ASSEAVRLA--PTSEEVLKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQL--------ERDAAAEQVRM-----AVL  255 (822)
T ss_pred             HHHHHHHhC--CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHHH--------HHHHHHHHHhh-----ccc
Confidence            888888874  777788888888888888888888887765421 11111111        11222222211     111


Q ss_pred             CCcccccchhHHhhccCchHHHHHHHHHHHHh-CCCC-chhH-HHHH---HHHHHhcCCHHHHHHHHhhCCCCC--cch-
Q 005268          331 PNQGTYVSILPAYSHVGALRQGIKIHARVIKN-CLCF-DVFV-ATCL---VDMYGKCGRIDDAMSLFYQVPRSS--SVP-  401 (705)
Q Consensus       331 p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~-g~~~-~~~~-~~~l---i~~y~k~g~~~~A~~~~~~~~~~~--~~~-  401 (705)
                      |+..-    -   .+.--.+.+..-++.+... +-.| .... ..+.   +-++.+.|+..++.+.|+.+....  +.. 
T Consensus       256 ~~~~~----~---~r~~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y  328 (822)
T PRK14574        256 PTRSE----T---ERFDIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDY  328 (822)
T ss_pred             ccccc----h---hhHHHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHH
Confidence            21100    0   0111234555555555542 2112 2122 2233   446678899999999999999443  233 


Q ss_pred             -HHHHHHHHHhcCChHHHHHHHHHHHHcCC-----CCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhC----------
Q 005268          402 -WNAIISCHGIHGQGDKALNFFRQMLDEGV-----RPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFG----------  465 (705)
Q Consensus       402 -~~~li~~~~~~g~~~~A~~~~~~m~~~g~-----~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~----------  465 (705)
                       -.++..+|...+++++|+.+|+++....-     .++......|.-++...+++++|..+++.+.+...          
T Consensus       329 ~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~  408 (822)
T PRK14574        329 ARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPG  408 (822)
T ss_pred             HHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCC
Confidence             46688999999999999999999977431     22333457788899999999999999999986311          


Q ss_pred             CcCCc---chHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhh
Q 005268          466 IKPHL---KHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYV  540 (705)
Q Consensus       466 ~~p~~---~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~  540 (705)
                      -.|+.   ..+..++..+...|++.+|++.++++ ...| |...+..+...+...|+..+|+..++.+..++|++.....
T Consensus       409 ~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~aP~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l~P~~~~~~~  488 (822)
T PRK14574        409 KEPNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSSTAPANQNLRIALASIYLARDLPRKAEQELKAVESLAPRSLILER  488 (822)
T ss_pred             CCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhCCccHHHHH
Confidence            01222   23455678889999999999999998 2334 6889999999999999999999999999999999999999


Q ss_pred             hhhhhhhhcCCcchHHHHHHHHHhCC
Q 005268          541 LMSNIYANVGKWEGVDEVRSLARDRG  566 (705)
Q Consensus       541 ~l~~~~~~~g~~~~a~~~~~~m~~~~  566 (705)
                      .++..+...|+|++|..+.+...+.-
T Consensus       489 ~~~~~al~l~e~~~A~~~~~~l~~~~  514 (822)
T PRK14574        489 AQAETAMALQEWHQMELLTDDVISRS  514 (822)
T ss_pred             HHHHHHHhhhhHHHHHHHHHHHHhhC
Confidence            99999999999999999998887653

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

Probab=99.74  E-value=3.8e-14  Score=150.11  Aligned_cols=541  Identities=13%  Similarity=0.094  Sum_probs=374.1

Q ss_pred             chHHHHHHHHHhHhCCCCCCccchHHHHHHhcCCc-----hHHHHHHHHHHh--CCCCCHHHHHHHHHHHHcCCChhHHH
Q 005268           11 LSEAVDCFYQFTLTSGLRPDFYTFPPVLKACRNLV-----DGKKIHCSVLKL--GFEWDVFVAASLLHMYCRFGLANVAR   83 (705)
Q Consensus        11 ~~~A~~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~-----~~~~~~~~~~~~--g~~~~~~~~~~ll~~y~~~g~~~~A~   83 (705)
                      ++.|...|..+...   .|+.. ...+-+||...+     .+..+|..++..  ...||+.+.-  -..+.++|+.+.|+
T Consensus       146 ~~~A~a~F~~Vl~~---sp~Ni-l~LlGkA~i~ynkkdY~~al~yyk~al~inp~~~aD~rIgi--g~Cf~kl~~~~~a~  219 (1018)
T KOG2002|consen  146 MDDADAQFHFVLKQ---SPDNI-LALLGKARIAYNKKDYRGALKYYKKALRINPACKADVRIGI--GHCFWKLGMSEKAL  219 (1018)
T ss_pred             HHHHHHHHHHHHhh---CCcch-HHHHHHHHHHhccccHHHHHHHHHHHHhcCcccCCCccchh--hhHHHhccchhhHH
Confidence            47777778773333   23322 223455654333     277777776554  3456655432  24566889999999


Q ss_pred             HHhccCCCCCcchHHHHHHHH---Hh---CCChhHHHHHHHHHHHCCCCCChhhHHhHHHHhhcCCChHHHHHHHHHHHH
Q 005268           84 KLFDDMPVRDSGSWNAMISGY---CQ---SGNAVEALDILDEMRLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVK  157 (705)
Q Consensus        84 ~~f~~~~~~~~~~~~~li~~~---~~---~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~  157 (705)
                      ..|.+..+-|+..-++++...   ..   ...+..++.++...-... +-|+...+.|..-+.-.|+++.+..+...+++
T Consensus       220 ~a~~ralqLdp~~v~alv~L~~~~l~~~d~~s~~~~~~ll~~ay~~n-~~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~  298 (1018)
T KOG2002|consen  220 LAFERALQLDPTCVSALVALGEVDLNFNDSDSYKKGVQLLQRAYKEN-NENPVALNHLANHFYFKKDYERVWHLAEHAIK  298 (1018)
T ss_pred             HHHHHHHhcChhhHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhhc-CCCcHHHHHHHHHHhhcccHHHHHHHHHHHHH
Confidence            999888765554444444321   12   223455666665554432 34667778888888889999999999888887


Q ss_pred             hCCCC--chhHHHHHHHHHHccCCHHHHHHHHhccCC--CC--eehHHHHHHHHHcCCChhhHHHHHHHHHHCCCCCC-h
Q 005268          158 HGLEF--NLFVSNNLINMYAKFGMMRHALRVFDQMME--RD--VVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPD-L  230 (705)
Q Consensus       158 ~g~~~--~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~--~~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~  230 (705)
                      .....  -...|--+..+|-..|++++|...|-+-..  +|  +..+--|...|.+.|+.+.+...|......  .|| .
T Consensus       299 ~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k~--~p~~~  376 (1018)
T KOG2002|consen  299 NTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLKQ--LPNNY  376 (1018)
T ss_pred             hhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCCccccccchhHHHHHhchHHHHHHHHHHHHHh--CcchH
Confidence            65221  123466688899999999999999877654  33  334556778899999999999999998775  344 4


Q ss_pred             hhHHHHHHHHHccC----ChhhHHHHHHHHHHhcCCCchhHHHHHHHHHHHhcCCH------HHHHHHHhc-CCCCChhH
Q 005268          231 LTLVSLTSIVAQLN----DCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGII------NSACAVFEG-LPVKDVIS  299 (705)
Q Consensus       231 ~t~~~ll~a~~~~~----~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~------~~A~~~f~~-~~~~~~~~  299 (705)
                      .|...+...|+..+    ..+.|..+.....+.  .+.|...|-.+..+|....-+      ..|..++.. +....+..
T Consensus       377 etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~--~~~d~~a~l~laql~e~~d~~~sL~~~~~A~d~L~~~~~~ip~E~  454 (1018)
T KOG2002|consen  377 ETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQ--TPVDSEAWLELAQLLEQTDPWASLDAYGNALDILESKGKQIPPEV  454 (1018)
T ss_pred             HHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhc--ccccHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHHcCCCCCHHH
Confidence            46666666666554    456666677766666  367788888888877765443      344433332 23456778


Q ss_pred             HHHHHHHHHHcCChhHHHHHHHhhhhcC---CCCCCcc------cccchhHHhhccCchHHHHHHHHHHHHhCCCCchhH
Q 005268          300 WNTLITGYAQNGLASEAIEVFQMMEECN---EINPNQG------TYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFV  370 (705)
Q Consensus       300 ~~~li~~~~~~g~~~~A~~~~~~m~~~~---~~~p~~~------t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~  370 (705)
                      .|.+...+...|++++|...|..... .   ...+|..      +--.+....-..++.+.|.+.+..+++.. +.-+..
T Consensus       455 LNNvaslhf~~g~~~~A~~~f~~A~~-~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilkeh-p~YId~  532 (1018)
T KOG2002|consen  455 LNNVASLHFRLGNIEKALEHFKSALG-KLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKEH-PGYIDA  532 (1018)
T ss_pred             HHhHHHHHHHhcChHHHHHHHHHHhh-hhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHC-chhHHH
Confidence            89999999999999999999998876 3   2333432      11223444456778999999999998863 223334


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhCC---CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHhc
Q 005268          371 ATCLVDMYGKCGRIDDAMSLFYQVP---RSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEG-VRPDHITFVSLLTACSH  446 (705)
Q Consensus       371 ~~~li~~y~k~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~t~~~ll~a~~~  446 (705)
                      |-.+..+....+...+|...+..+.   ..++..|+-+...|.....+..|-.-|+.....- ..+|..+..+|.+.|..
T Consensus       533 ylRl~~ma~~k~~~~ea~~~lk~~l~~d~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~  612 (1018)
T KOG2002|consen  533 YLRLGCMARDKNNLYEASLLLKDALNIDSSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQ  612 (1018)
T ss_pred             HHHhhHHHHhccCcHHHHHHHHHHHhcccCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHH
Confidence            4444434444467788888888776   5566678888888988888888888777666532 23677777777776543


Q ss_pred             ------------cCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhCC--CCCCHHHHHHHHHHH
Q 005268          447 ------------SGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNMP--VRPDASIWGALLGAC  512 (705)
Q Consensus       447 ------------~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~ll~~~  512 (705)
                                  .+..+.|+++|....+.  -+.|...-+.+.-.++..|++.+|.++|.+..  ...+..+|-.+...|
T Consensus       613 ~l~~~~rn~ek~kk~~~KAlq~y~kvL~~--dpkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~~~~dv~lNlah~~  690 (1018)
T KOG2002|consen  613 ALHNPSRNPEKEKKHQEKALQLYGKVLRN--DPKNMYAANGIGIVLAEKGRFSEARDIFSQVREATSDFEDVWLNLAHCY  690 (1018)
T ss_pred             HhcccccChHHHHHHHHHHHHHHHHHHhc--CcchhhhccchhhhhhhccCchHHHHHHHHHHHHHhhCCceeeeHHHHH
Confidence                        34567788888877642  23366777888899999999999999998873  223456899999999


Q ss_pred             HhcCChhHHHHHHHHHhccC--CCCcchhhhhhhhhhhcCCcchHHHHHHHHHhCC
Q 005268          513 RIHGNMELGAVASDRLFEVD--SENVGYYVLMSNIYANVGKWEGVDEVRSLARDRG  566 (705)
Q Consensus       513 ~~~g~~~~a~~~~~~~~~~~--p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  566 (705)
                      ...|++..|+++|+..+...  .+++.....|+.++.+.|+|.+|.+.........
T Consensus       691 ~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~  746 (1018)
T KOG2002|consen  691 VEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLA  746 (1018)
T ss_pred             HHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhC
Confidence            99999999999999988743  4466777889999999999999999888776653

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.70  E-value=4.3e-13  Score=129.38  Aligned_cols=433  Identities=13%  Similarity=0.134  Sum_probs=261.9

Q ss_pred             hcCCchHHHHHHHHHhHhCCCCCCccchHHHHHHhcCCc--h----HHHHHHHHHHhCCCCCHHHHHHHHHHHHcCCChh
Q 005268            7 RCGRLSEAVDCFYQFTLTSGLRPDFYTFPPVLKACRNLV--D----GKKIHCSVLKLGFEWDVFVAASLLHMYCRFGLAN   80 (705)
Q Consensus         7 ~~g~~~~A~~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~--~----~~~~~~~~~~~g~~~~~~~~~~ll~~y~~~g~~~   80 (705)
                      .+|...++.-+|+. |+..|+..+...-..|++..+...  .    -.+.|-.|.+.| +.+..+|        |.|.+.
T Consensus       127 S~~EvKDs~ilY~~-m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~-E~S~~sW--------K~G~vA  196 (625)
T KOG4422|consen  127 SSREVKDSCILYER-MRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFG-EDSTSSW--------KSGAVA  196 (625)
T ss_pred             hhcccchhHHHHHH-HHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhccccc-ccccccc--------ccccHH
Confidence            45666666666666 666666555544444444321111  1    122222333333 1222222        344444


Q ss_pred             HHHHHhccCCCCCcchHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHhHHHHhhcCCChHHHHHHHHHHHHhCC
Q 005268           81 VARKLFDDMPVRDSGSWNAMISGYCQSGNAVEALDILDEMRLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVKHGL  160 (705)
Q Consensus        81 ~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~  160 (705)
                      +  -+|+. ..+...++.+||.++++--..+.|.+++++-.....+.+..+|+.+|.+.+-    ..++.+..+|+....
T Consensus       197 d--L~~E~-~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~----~~~K~Lv~EMisqkm  269 (625)
T KOG4422|consen  197 D--LLFET-LPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSY----SVGKKLVAEMISQKM  269 (625)
T ss_pred             H--HHHhh-cCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHh----hccHHHHHHHHHhhc
Confidence            3  34444 4455578999999999999999999999999988889999999999987653    344889999999999


Q ss_pred             CCchhHHHHHHHHHHccCCHHHHHHHH----hcc----CCCCeehHHHHHHHHHcCCChhh-HHHHHHHHHHC----CCC
Q 005268          161 EFNLFVSNNLINMYAKFGMMRHALRVF----DQM----MERDVVSWNSIIAAYEQSNDPIT-AHGFFTTMQQA----GIQ  227 (705)
Q Consensus       161 ~~~~~~~~~Li~~y~~~g~~~~A~~~f----~~m----~~~~~~~~~~li~~~~~~g~~~~-A~~~~~~m~~~----g~~  227 (705)
                      .||..++|+++.+.++.|+++.|++.+    .+|    .+|...+|..+|..+.+.+++.+ |..++.+....    ..+
T Consensus       270 ~Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fk  349 (625)
T KOG4422|consen  270 TPNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFK  349 (625)
T ss_pred             CCchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCccc
Confidence            999999999999999999998876655    444    34788899999998888888754 44444444332    222


Q ss_pred             ---C-ChhhHHHHHHHHHccCChhhHHHHHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHH
Q 005268          228 ---P-DLLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDVISWNTL  303 (705)
Q Consensus       228 ---p-~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~l  303 (705)
                         | |...|.+.+..|.+..+.+.|.++++.+.....              |...|..           .....-|..+
T Consensus       350 p~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N--------------~~~ig~~-----------~~~~fYyr~~  404 (625)
T KOG4422|consen  350 PITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDN--------------WKFIGPD-----------QHRNFYYRKF  404 (625)
T ss_pred             CCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCc--------------hhhcChH-----------HHHHHHHHHH
Confidence               3 344677788888888888888888876643320              0000100           0012334555


Q ss_pred             HHHHHHcCChhHHHHHHHhhhhcCCCCCCcccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCC
Q 005268          304 ITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGR  383 (705)
Q Consensus       304 i~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~  383 (705)
                      ....++....+.-+..|+.|.- .-.-|+..+...+++|....+.++-..+++..++..|.........-+...+++.. 
T Consensus       405 ~~licq~es~~~~~~~Y~~lVP-~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k-  482 (625)
T KOG4422|consen  405 FDLICQMESIDVTLKWYEDLVP-SAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARDK-  482 (625)
T ss_pred             HHHHHHHHHHHHHHHHHHHhcc-ceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCC-
Confidence            6666677777777777777776 66777777777788877777777777777777777664333222222222222111 


Q ss_pred             HHHHHHHHhhCCCCCcchHHHHHHHHHh--cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhH
Q 005268          384 IDDAMSLFYQVPRSSSVPWNAIISCHGI--HGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQ  461 (705)
Q Consensus       384 ~~~A~~~~~~~~~~~~~~~~~li~~~~~--~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~  461 (705)
                                 +.++...-..+-...++  ..-.+.....-.+|.+....|  ...+.++..+.+.|..++|.++|..+.
T Consensus       483 -----------~hp~tp~r~Ql~~~~ak~aad~~e~~e~~~~R~r~~~~~~--t~l~~ia~Ll~R~G~~qkA~e~l~l~~  549 (625)
T KOG4422|consen  483 -----------LHPLTPEREQLQVAFAKCAADIKEAYESQPIRQRAQDWPA--TSLNCIAILLLRAGRTQKAWEMLGLFL  549 (625)
T ss_pred             -----------CCCCChHHHHHHHHHHHHHHHHHHHHHhhHHHHHhccCCh--hHHHHHHHHHHHcchHHHHHHHHHHHH
Confidence                       01111111111111111  001111222233445433333  344445555677788888888887775


Q ss_pred             HhhCCcCCcchHHHHH---HHHHhcCCHHHHHHHHHhC
Q 005268          462 EEFGIKPHLKHYGCMV---DLFGRAGHLGMAHNFIQNM  496 (705)
Q Consensus       462 ~~~~~~p~~~~~~~li---~~~~~~g~~~~A~~~~~~~  496 (705)
                      +.+.-.|.....++|+   +.-.+....-.|...++-|
T Consensus       550 ~~~~~ip~~p~lnAm~El~d~a~~~~spsqA~~~lQ~a  587 (625)
T KOG4422|consen  550 RKHNKIPRSPLLNAMAELMDSAKVSNSPSQAIEVLQLA  587 (625)
T ss_pred             hcCCcCCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            5544455555555444   4445666777777777666

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

Probab=99.67  E-value=1.2e-13  Score=133.74  Aligned_cols=444  Identities=13%  Similarity=0.105  Sum_probs=304.4

Q ss_pred             HHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHH-hHHHHhhcCCChHHHHHHHHHHHHhCCCCchh----HHHHHHHHH
Q 005268          100 MISGYCQSGNAVEALDILDEMRLEGVSMDPITVA-SILPVCARSDNILSGLLIHLYIVKHGLEFNLF----VSNNLINMY  174 (705)
Q Consensus       100 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~-~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~----~~~~Li~~y  174 (705)
                      |.+-|..+....+|+..|+-..+...-||.-.+. .+...+.+..++..|..++...+..-+..+..    ..+.+--.+
T Consensus       207 laqqy~~ndm~~ealntyeiivknkmf~nag~lkmnigni~~kkr~fskaikfyrmaldqvpsink~~rikil~nigvtf  286 (840)
T KOG2003|consen  207 LAQQYEANDMTAEALNTYEIIVKNKMFPNAGILKMNIGNIHFKKREFSKAIKFYRMALDQVPSINKDMRIKILNNIGVTF  286 (840)
T ss_pred             HHHHhhhhHHHHHHhhhhhhhhcccccCCCceeeeeecceeeehhhHHHHHHHHHHHHhhccccchhhHHHHHhhcCeeE
Confidence            4456667788899999999988877777765432 34455677788999999998888764433332    344444567


Q ss_pred             HccCCHHHHHHHHhccCC--CCeehHHHHHHHHHcCCChhhHHHHHHHHHHCCCCCChh------------hHHHHHH--
Q 005268          175 AKFGMMRHALRVFDQMME--RDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLL------------TLVSLTS--  238 (705)
Q Consensus       175 ~~~g~~~~A~~~f~~m~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~------------t~~~ll~--  238 (705)
                      .+.|++++|..-|+...+  ||..+--.|+-++..-|+.++..+.|.+|..-...||..            ..+..+.  
T Consensus       287 iq~gqy~dainsfdh~m~~~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~~~ll~eai~nd  366 (840)
T KOG2003|consen  287 IQAGQYDDAINSFDHCMEEAPNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPDDNLLNEAIKND  366 (840)
T ss_pred             EecccchhhHhhHHHHHHhCccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcchHHHHHHHhhH
Confidence            889999999999998755  676665556666777899999999999997654433332            2222221  


Q ss_pred             ---HHHccCC--hhhHHHHHHHHHHhcCCCchh---------------------HHHHHHHHHHHhcCCHHHHHHHHhcC
Q 005268          239 ---IVAQLND--CRNSRSVHGFIMRRGWFMEDV---------------------IIGNAVVDMYAKLGIINSACAVFEGL  292 (705)
Q Consensus       239 ---a~~~~~~--~~~a~~i~~~~~~~g~~~~~~---------------------~~~~~li~~y~~~g~~~~A~~~f~~~  292 (705)
                         -..+.+.  .+.+...-..++..- +.|+-                     ..--.-..-|.+.|+++.|.+++.-.
T Consensus       367 ~lk~~ek~~ka~aek~i~ta~kiiapv-i~~~fa~g~dwcle~lk~s~~~~la~dlei~ka~~~lk~~d~~~aieilkv~  445 (840)
T KOG2003|consen  367 HLKNMEKENKADAEKAIITAAKIIAPV-IAPDFAAGCDWCLESLKASQHAELAIDLEINKAGELLKNGDIEGAIEILKVF  445 (840)
T ss_pred             HHHHHHHhhhhhHHHHHHHHHHHhccc-cccchhcccHHHHHHHHHhhhhhhhhhhhhhHHHHHHhccCHHHHHHHHHHH
Confidence               1111111  111111111111100 11110                     00011233577899999999988877


Q ss_pred             CCCChhHHHH----H-HHHHHHc-CChhHHHHHHHhhhhcCCCCCCcccccchhHHhhccCchHHHHHHHHHHHHhCCCC
Q 005268          293 PVKDVISWNT----L-ITGYAQN-GLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCF  366 (705)
Q Consensus       293 ~~~~~~~~~~----l-i~~~~~~-g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~  366 (705)
                      ..+|..+-++    | +.-|.+. .++..|.+.-+.......  -|....+.-.+.....|+++.|.+.+.+++...-..
T Consensus       446 ~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~dr--yn~~a~~nkgn~~f~ngd~dka~~~ykeal~ndasc  523 (840)
T KOG2003|consen  446 EKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNIDR--YNAAALTNKGNIAFANGDLDKAAEFYKEALNNDASC  523 (840)
T ss_pred             HhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhcccc--cCHHHhhcCCceeeecCcHHHHHHHHHHHHcCchHH
Confidence            6665433222    2 2223333 356666666555543111  122222223333445799999999999998865444


Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 005268          367 DVFVATCLVDMYGKCGRIDDAMSLFYQVP---RSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTA  443 (705)
Q Consensus       367 ~~~~~~~li~~y~k~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a  443 (705)
                      ....||. .-.+-+.|++++|++.|-++.   ..+......+.+.|....++.+|++++.+.... ++.|+.....|...
T Consensus       524 ~ealfni-glt~e~~~~ldeald~f~klh~il~nn~evl~qianiye~led~aqaie~~~q~~sl-ip~dp~ilskl~dl  601 (840)
T KOG2003|consen  524 TEALFNI-GLTAEALGNLDEALDCFLKLHAILLNNAEVLVQIANIYELLEDPAQAIELLMQANSL-IPNDPAILSKLADL  601 (840)
T ss_pred             HHHHHHh-cccHHHhcCHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhccc-CCCCHHHHHHHHHH
Confidence            4444443 335678899999999997765   566666777888999999999999999888773 44456788888899


Q ss_pred             HhccCcHHHHHHHHHHhHHhhCC-cCCcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCCCHHHHHHHHHHHH-hcCChhH
Q 005268          444 CSHSGLVSEGQRYFHMMQEEFGI-KPHLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRPDASIWGALLGACR-IHGNMEL  520 (705)
Q Consensus       444 ~~~~g~~~~a~~~~~~m~~~~~~-~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~ll~~~~-~~g~~~~  520 (705)
                      |-+.|+-.+|.+.+..-   |.. +-+.++...|..-|....-+++|+.+|++. -+.|+.+-|..++..|. +.|+++.
T Consensus       602 ydqegdksqafq~~yds---yryfp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp~~~kwqlmiasc~rrsgnyqk  678 (840)
T KOG2003|consen  602 YDQEGDKSQAFQCHYDS---YRYFPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQPNQSKWQLMIASCFRRSGNYQK  678 (840)
T ss_pred             hhcccchhhhhhhhhhc---ccccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCccHHHHHHHHHHHHHhcccHHH
Confidence            99999999999987643   344 447888888999999999999999999998 47899999999998774 6799999


Q ss_pred             HHHHHHHHhccCCCCcchhhhhhhhhhhcCC
Q 005268          521 GAVASDRLFEVDSENVGYYVLMSNIYANVGK  551 (705)
Q Consensus       521 a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  551 (705)
                      |..+|+.....-|.+....-.|..++...|.
T Consensus       679 a~d~yk~~hrkfpedldclkflvri~~dlgl  709 (840)
T KOG2003|consen  679 AFDLYKDIHRKFPEDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             HHHHHHHHHHhCccchHHHHHHHHHhccccc
Confidence            9999999999999999888888888888775

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

Probab=99.65  E-value=3.9e-12  Score=129.06  Aligned_cols=496  Identities=11%  Similarity=0.044  Sum_probs=386.2

Q ss_pred             CCCHHHHHHHHHHHHcCCChhHHHHHhccCCC---CCcchHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHhHH
Q 005268           60 EWDVFVAASLLHMYCRFGLANVARKLFDDMPV---RDSGSWNAMISGYCQSGNAVEALDILDEMRLEGVSMDPITVASIL  136 (705)
Q Consensus        60 ~~~~~~~~~ll~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll  136 (705)
                      +.++..|-+.+.    .-..++|+-++.+..+   .+...|.    +|++..-++.|..++.+.++. ++.+...|.+..
T Consensus       377 P~sv~LWKaAVe----lE~~~darilL~rAveccp~s~dLwl----AlarLetYenAkkvLNkaRe~-iptd~~IWitaa  447 (913)
T KOG0495|consen  377 PRSVRLWKAAVE----LEEPEDARILLERAVECCPQSMDLWL----ALARLETYENAKKVLNKAREI-IPTDREIWITAA  447 (913)
T ss_pred             CchHHHHHHHHh----ccChHHHHHHHHHHHHhccchHHHHH----HHHHHHHHHHHHHHHHHHHhh-CCCChhHHHHHH
Confidence            455666665554    4566668888876653   2333344    455666778888898888774 677888888877


Q ss_pred             HHhhcCCChHHHHHHHHHHH----HhCCCCchhHHHHHHHHHHccCCHHHHHHHHhccCC-----C-CeehHHHHHHHHH
Q 005268          137 PVCARSDNILSGLLIHLYIV----KHGLEFNLFVSNNLINMYAKFGMMRHALRVFDQMME-----R-DVVSWNSIIAAYE  206 (705)
Q Consensus       137 ~~~~~~~~~~~a~~~~~~~~----~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~-----~-~~~~~~~li~~~~  206 (705)
                      ..=-..|+.+....+.+.-+    ..|+..+...|-.=...+-+.|..-.+..+......     . -..+|+.-...|.
T Consensus       448 ~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~e~agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~  527 (913)
T KOG0495|consen  448 KLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAEACEDAGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCE  527 (913)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHHhhcCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHH
Confidence            77778888888877766543    457777777777777777788887777777766532     1 2358888889999


Q ss_pred             cCCChhhHHHHHHHHHHCCCCCChhhHHHHHHHHHccCChhhHHHHHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHH
Q 005268          207 QSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSAC  286 (705)
Q Consensus       207 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~  286 (705)
                      +.+.++-|..+|....+. .+-+...|......=-..|..+.-..++..++..  .+.....|-....-+-+.|++..|+
T Consensus       528 k~~~~~carAVya~alqv-fp~k~slWlra~~~ek~hgt~Esl~Allqkav~~--~pkae~lwlM~ake~w~agdv~~ar  604 (913)
T KOG0495|consen  528 KRPAIECARAVYAHALQV-FPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQ--CPKAEILWLMYAKEKWKAGDVPAAR  604 (913)
T ss_pred             hcchHHHHHHHHHHHHhh-ccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHh--CCcchhHHHHHHHHHHhcCCcHHHH
Confidence            999999999998888764 2333445555555556678888888888888877  4667777888888888899999999


Q ss_pred             HHHhcCC---CCChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccccchhHHhhccCchHHHHHHHHHHHHhC
Q 005268          287 AVFEGLP---VKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNC  363 (705)
Q Consensus       287 ~~f~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g  363 (705)
                      .++.+.-   ..+...|-.-+.....+.+++.|..+|.+...   ..|+...|.--+..---++..++|.+++++.++. 
T Consensus       605 ~il~~af~~~pnseeiwlaavKle~en~e~eraR~llakar~---~sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~-  680 (913)
T KOG0495|consen  605 VILDQAFEANPNSEEIWLAAVKLEFENDELERARDLLAKARS---ISGTERVWMKSANLERYLDNVEEALRLLEEALKS-  680 (913)
T ss_pred             HHHHHHHHhCCCcHHHHHHHHHHhhccccHHHHHHHHHHHhc---cCCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHh-
Confidence            9887654   33667899999999999999999999999977   6777777776666666788999999999999886 


Q ss_pred             CCCchhHHHHHHHHHHhcCCHHHHHHHHhhCC--CCCcch-HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHH
Q 005268          364 LCFDVFVATCLVDMYGKCGRIDDAMSLFYQVP--RSSSVP-WNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSL  440 (705)
Q Consensus       364 ~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~--~~~~~~-~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~l  440 (705)
                      ++.-...|-.+.+.+-+.++++.|.+.|..-.  -|+..+ |-.|...--+.|+..+|..+|++.+-.+ +-|...|...
T Consensus       681 fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~cP~~ipLWllLakleEk~~~~~rAR~ildrarlkN-Pk~~~lwle~  759 (913)
T KOG0495|consen  681 FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKKCPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKN-PKNALLWLES  759 (913)
T ss_pred             CCchHHHHHHHhHHHHHHHHHHHHHHHHHhccccCCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcC-CCcchhHHHH
Confidence            55556788889999999999999999998766  344444 8888888888999999999999998864 4466789999


Q ss_pred             HHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhH
Q 005268          441 LTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNMPVRPDASIWGALLGACRIHGNMEL  520 (705)
Q Consensus       441 l~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~  520 (705)
                      +..=.+.|..++|..+.....++  .+.+-..|.--|.+..+.++-..+.+.+++..-  |+.+.-++...+.....++.
T Consensus       760 Ir~ElR~gn~~~a~~lmakALQe--cp~sg~LWaEaI~le~~~~rkTks~DALkkce~--dphVllaia~lfw~e~k~~k  835 (913)
T KOG0495|consen  760 IRMELRAGNKEQAELLMAKALQE--CPSSGLLWAEAIWLEPRPQRKTKSIDALKKCEH--DPHVLLAIAKLFWSEKKIEK  835 (913)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHh--CCccchhHHHHHHhccCcccchHHHHHHHhccC--CchhHHHHHHHHHHHHHHHH
Confidence            99999999999999999888864  455667888888888899988888888888753  55555677777888889999


Q ss_pred             HHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhCCCccCCceeEEEE
Q 005268          521 GAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDRGLKKTPGWSSIEV  578 (705)
Q Consensus       521 a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~s~~~~  578 (705)
                      |..-|++++..+|++..++..+-..+...|.-++-.+++.+....  .|.-|-.|.-+
T Consensus       836 ar~Wf~Ravk~d~d~GD~wa~fykfel~hG~eed~kev~~~c~~~--EP~hG~~W~av  891 (913)
T KOG0495|consen  836 AREWFERAVKKDPDNGDAWAWFYKFELRHGTEEDQKEVLKKCETA--EPTHGELWQAV  891 (913)
T ss_pred             HHHHHHHHHccCCccchHHHHHHHHHHHhCCHHHHHHHHHHHhcc--CCCCCcHHHHH
Confidence            999999999999999999999988999999999999998877654  23445556443

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.59  E-value=2.1e-11  Score=117.91  Aligned_cols=416  Identities=12%  Similarity=0.111  Sum_probs=271.6

Q ss_pred             cchHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHhHHHHhh--cCCChHHH-HHHHHHHHHhCCCCchhHHHHH
Q 005268           94 SGSWNAMISGYCQSGNAVEALDILDEMRLEGVSMDPITVASILPVCA--RSDNILSG-LLIHLYIVKHGLEFNLFVSNNL  170 (705)
Q Consensus        94 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~--~~~~~~~a-~~~~~~~~~~g~~~~~~~~~~L  170 (705)
                      +++=|.|+. ...+|....+.-+|+.|.+.|+......-..++...+  ...++--+ .+-|-.|.+.|- .+..+|   
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-MISSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGE-DSTSSW---  190 (625)
T ss_pred             hcchhHHHH-HHhhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhcccccc-cccccc---
Confidence            456666665 4567889999999999999998877766666655433  23333222 223333444432 222233   


Q ss_pred             HHHHHccCCHHHHHHHHhccCCCCeehHHHHHHHHHcCCChhhHHHHHHHHHHCCCCCChhhHHHHHHHHHccCChhhHH
Q 005268          171 INMYAKFGMMRHALRVFDQMMERDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQLNDCRNSR  250 (705)
Q Consensus       171 i~~y~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~  250 (705)
                           +.|.+.+  -+|+..+ +...++..||.|+++--..+.|.+++++-.....+.+..+|+.++.+.+-.    .++
T Consensus       191 -----K~G~vAd--L~~E~~P-KT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~----~~K  258 (625)
T KOG4422|consen  191 -----KSGAVAD--LLFETLP-KTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYS----VGK  258 (625)
T ss_pred             -----ccccHHH--HHHhhcC-CCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhh----ccH
Confidence                 4455544  4455444 466899999999999999999999999999988999999999999876433    448


Q ss_pred             HHHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHh----cCC----CCChhHHHHHHHHHHHcCChhH-HHHHHH
Q 005268          251 SVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFE----GLP----VKDVISWNTLITGYAQNGLASE-AIEVFQ  321 (705)
Q Consensus       251 ~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~----~~~----~~~~~~~~~li~~~~~~g~~~~-A~~~~~  321 (705)
                      .+...|+... +.||..++|+++....+.|+++.|++-+-    +|.    +|...+|..+|..+++.++..+ |..++.
T Consensus       259 ~Lv~EMisqk-m~Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~  337 (625)
T KOG4422|consen  259 KLVAEMISQK-MTPNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWIN  337 (625)
T ss_pred             HHHHHHHHhh-cCCchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHH
Confidence            8889999888 99999999999999999999988776554    333    6788899999999999888754 444444


Q ss_pred             hhhhc---CCCCC----CcccccchhHHhhccCchHHHHHHHHHHHHh----CCCCc---hhHHHHHHHHHHhcCCHHHH
Q 005268          322 MMEEC---NEINP----NQGTYVSILPAYSHVGALRQGIKIHARVIKN----CLCFD---VFVATCLVDMYGKCGRIDDA  387 (705)
Q Consensus       322 ~m~~~---~~~~p----~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~----g~~~~---~~~~~~li~~y~k~g~~~~A  387 (705)
                      ++..+   ..++|    |..-|.+.++.|.+..+.+.|.+++......    -+.|+   ...|..+.++.++...++.-
T Consensus       338 dI~N~ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~  417 (625)
T KOG4422|consen  338 DIQNSLTGKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVT  417 (625)
T ss_pred             HHHHhhccCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44320   22344    3445678889999999999999998876532    12232   34566777888888889999


Q ss_pred             HHHHhhCCC----CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccC---------------
Q 005268          388 MSLFYQVPR----SSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSG---------------  448 (705)
Q Consensus       388 ~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g---------------  448 (705)
                      ...|+.|.+    ++..+-.-++.+....|.++-.-+++.+|...|..-+...-..++..+++..               
T Consensus       418 ~~~Y~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k~hp~tp~r~Ql~~~~  497 (625)
T KOG4422|consen  418 LKWYEDLVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARDKLHPLTPEREQLQVAF  497 (625)
T ss_pred             HHHHHHhccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCCCCCCChHHHHHHHHH
Confidence            999998874    3444455566677777888877788888877664444333333333333221               


Q ss_pred             -----cHHHHHH-HHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhC-------CCCCCHHHHHHHHHHHHhc
Q 005268          449 -----LVSEGQR-YFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNM-------PVRPDASIWGALLGACRIH  515 (705)
Q Consensus       449 -----~~~~a~~-~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-------~~~p~~~~~~~ll~~~~~~  515 (705)
                           ++.++.+ --.+|.   .........++..-++.|.|+.++|.+++.-.       +..|.....--|..+-.+.
T Consensus       498 ak~aad~~e~~e~~~~R~r---~~~~~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~d~a~~~  574 (625)
T KOG4422|consen  498 AKCAADIKEAYESQPIRQR---AQDWPATSLNCIAILLLRAGRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELMDSAKVS  574 (625)
T ss_pred             HHHHHHHHHHHHhhHHHHH---hccCChhHHHHHHHHHHHcchHHHHHHHHHHHHhcCCcCCCCcchhhHHHHHHHHHhc
Confidence                 0111111 001111   22333446677777778888888887776544       1223322223444445555


Q ss_pred             CChhHHHHHHHHHhc
Q 005268          516 GNMELGAVASDRLFE  530 (705)
Q Consensus       516 g~~~~a~~~~~~~~~  530 (705)
                      ++.-.|..+++-+..
T Consensus       575 ~spsqA~~~lQ~a~~  589 (625)
T KOG4422|consen  575 NSPSQAIEVLQLASA  589 (625)
T ss_pred             CCHHHHHHHHHHHHH
Confidence            555556555555543

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

Probab=99.57  E-value=2.7e-10  Score=120.64  Aligned_cols=517  Identities=12%  Similarity=0.122  Sum_probs=327.6

Q ss_pred             CCchHHHHHHHHHHhCCCCCHHHHHHHHHHHHcCCChhHHHHHhccC---CCCCcchHHHHHHHHHhCCChhHHHHHHHH
Q 005268           43 NLVDGKKIHCSVLKLGFEWDVFVAASLLHMYCRFGLANVARKLFDDM---PVRDSGSWNAMISGYCQSGNAVEALDILDE  119 (705)
Q Consensus        43 ~~~~~~~~~~~~~~~g~~~~~~~~~~ll~~y~~~g~~~~A~~~f~~~---~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  119 (705)
                      +...|..++..+++.. +.+...|-.|...|-..|+.+++...+-..   .+.|..-|-.+..-..+.|++++|.-.|.+
T Consensus       154 ~~eeA~~i~~EvIkqd-p~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~d~e~W~~ladls~~~~~i~qA~~cy~r  232 (895)
T KOG2076|consen  154 DLEEAEEILMEVIKQD-PRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPKDYELWKRLADLSEQLGNINQARYCYSR  232 (895)
T ss_pred             CHHHHHHHHHHHHHhC-ccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcccHHHHHHHHHH
Confidence            3333777777777765 456667778888888888888877665432   345566787777777888888888888888


Q ss_pred             HHHCCCCCChhhHHhHHHHhhcCCChHHHHHHHHHHHHhCCCCchhHHHHH----HHHHHccCCHHHHHHHHhccCC--C
Q 005268          120 MRLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNL----INMYAKFGMMRHALRVFDQMME--R  193 (705)
Q Consensus       120 m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~L----i~~y~~~g~~~~A~~~f~~m~~--~  193 (705)
                      .++.. +++...+--=...|-+.|+...|..-+.++....++.|..-.-.+    +..|...++-+.|.+.++....  .
T Consensus       233 AI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s~~~  311 (895)
T KOG2076|consen  233 AIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGALSKEK  311 (895)
T ss_pred             HHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhcc
Confidence            87653 334333334445566778888888888888776543333333333    4455566666777777766644  2


Q ss_pred             ---CeehHHHHHHHHHcCCChhhHHHHHHHHHHCCCCC----------------------ChhhHH----HHHHHHHccC
Q 005268          194 ---DVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQP----------------------DLLTLV----SLTSIVAQLN  244 (705)
Q Consensus       194 ---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p----------------------~~~t~~----~ll~a~~~~~  244 (705)
                         +...+|.++..|.+...++.|......+......+                      +...|.    -+.-++....
T Consensus       312 ~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~rl~icL~~L~  391 (895)
T KOG2076|consen  312 DEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVIRLMICLVHLK  391 (895)
T ss_pred             ccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhHhHhhhhhccc
Confidence               33467888888888888888888888876621111                      211111    2223345566


Q ss_pred             ChhhHHHHHHHHHHhc-CCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCCCC----ChhHHHHHHHHHHHcCChhHHHHH
Q 005268          245 DCRNSRSVHGFIMRRG-WFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVK----DVISWNTLITGYAQNGLASEAIEV  319 (705)
Q Consensus       245 ~~~~a~~i~~~~~~~g-~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~----~~~~~~~li~~~~~~g~~~~A~~~  319 (705)
                      ..+....+...+.+.. +...++..+.-+.++|...|.+.+|.++|..+...    +...|--+..+|...|.+++|++.
T Consensus       392 ~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~A~e~  471 (895)
T KOG2076|consen  392 ERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYEEAIEF  471 (895)
T ss_pred             ccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHHHHHHH
Confidence            6666666777666665 12345678888999999999999999999888643    567899999999999999999999


Q ss_pred             HHhhhhcCCCCCCc-ccccchhHHhhccCchHHHHHHHHHHH--------HhCCCCchhHHHHHHHHHHhcCCHHHHHHH
Q 005268          320 FQMMEECNEINPNQ-GTYVSILPAYSHVGALRQGIKIHARVI--------KNCLCFDVFVATCLVDMYGKCGRIDDAMSL  390 (705)
Q Consensus       320 ~~~m~~~~~~~p~~-~t~~~ll~a~~~~~~~~~a~~~~~~~~--------~~g~~~~~~~~~~li~~y~k~g~~~~A~~~  390 (705)
                      |.....   ..|+. ..-.++-..+.+.|+.++|.+.++.+.        ..+..|+....--..+.|.+.|+.++=..+
T Consensus       472 y~kvl~---~~p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~~~gk~E~fi~t  548 (895)
T KOG2076|consen  472 YEKVLI---LAPDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILFQVGKREEFINT  548 (895)
T ss_pred             HHHHHh---cCCCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHHHhhhHHHHHHH
Confidence            999987   66743 344566677788999999999988743        234556666666777888888887764443


Q ss_pred             HhhCCC--------------------------CCcchHHHHHHHHHhcCChHHHH------HHHHHHHHcCCCCCH--HH
Q 005268          391 FYQVPR--------------------------SSSVPWNAIISCHGIHGQGDKAL------NFFRQMLDEGVRPDH--IT  436 (705)
Q Consensus       391 ~~~~~~--------------------------~~~~~~~~li~~~~~~g~~~~A~------~~~~~m~~~g~~p~~--~t  436 (705)
                      -..|..                          .+...-..++.+-.+.++.....      ..+..-...|+.-+.  ..
T Consensus       549 ~~~Lv~~~~~~~~~f~~~~k~r~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~l~d~~~~~~~e~~~Lsiddwfel  628 (895)
T KOG2076|consen  549 ASTLVDDFLKKRYIFPRNKKKRRRAIAGTTSKRYSELLKQIIRAREKATDDNVMEKALSDGTEFRAVELRGLSIDDWFEL  628 (895)
T ss_pred             HHHHHHHHHHHHHhcchHHHHHHHhhccccccccchhHHHHHHHHhccCchHHhhhcccchhhhhhhhhccCcHHHHHHH
Confidence            322210                          01111222233333332211111      111111222333332  24


Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcc----hHHHHHHHHHhcCCHHHHHHHHHhCC------CCCC-HHHH
Q 005268          437 FVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLK----HYGCMVDLFGRAGHLGMAHNFIQNMP------VRPD-ASIW  505 (705)
Q Consensus       437 ~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~----~~~~li~~~~~~g~~~~A~~~~~~~~------~~p~-~~~~  505 (705)
                      |..++.+..+.+++++|..+...+...+-+..+..    .-.+++.+-...+++.+|.+.++.|-      ..|. ...|
T Consensus       629 ~~e~i~~L~k~~r~qeAl~vv~~a~~~~~f~~~~~~~k~l~~~~l~~s~~~~d~~~a~~~lR~~i~~~~~~~~~~q~~l~  708 (895)
T KOG2076|consen  629 FRELILSLAKLQRVQEALSVVFTALEAYIFFQDSEIRKELQFLGLKASLYARDPGDAFSYLRSVITQFQFYLDVYQLNLW  708 (895)
T ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHhhhhhhccHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhhhhhHHHHHH
Confidence            56666777888888888888877766544433332    23344555567788888888777762      1232 4467


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHhccCCCC-cchhhhhhhhhhhcCCcchHHHHHHHHHh
Q 005268          506 GALLGACRIHGNMELGAVASDRLFEVDSEN-VGYYVLMSNIYANVGKWEGVDEVRSLARD  564 (705)
Q Consensus       506 ~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~-~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  564 (705)
                      +...+...++++-.--.+....+....|++ +..+...+......|.|..|...+-..-.
T Consensus       709 n~~~s~~~~~~q~v~~~R~~~~~~~~~~~~~~~l~~i~gh~~~~~~s~~~Al~~y~ra~~  768 (895)
T KOG2076|consen  709 NLDFSYFSKYGQRVCYLRLIMRLLVKNKDDTPPLALIYGHNLFVNASFKHALQEYMRAFR  768 (895)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhccCccCCcceeeeechhHhhccchHHHHHHHHHHHH
Confidence            766666666666554555555555566665 44455566667777888888776555443

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

Probab=99.54  E-value=2.1e-14  Score=143.30  Aligned_cols=255  Identities=13%  Similarity=0.145  Sum_probs=109.8

Q ss_pred             HHHHHHcCChhHHHHHHHhhhhcCCCCCCcccccc-hhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcC
Q 005268          304 ITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVS-ILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCG  382 (705)
Q Consensus       304 i~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~-ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g  382 (705)
                      ...+.+.|++++|++++++... ....|+...|.. +...+...++.+.|.+.++.+...+.. ++..+..++.. ...+
T Consensus        15 A~~~~~~~~~~~Al~~L~~~~~-~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~~~~   91 (280)
T PF13429_consen   15 ARLLYQRGDYEKALEVLKKAAQ-KIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-LQDG   91 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccc-cccccccccccccccccccccccccccccccccccccccc-ccccccccccc-cccc
Confidence            4445566666666666644332 211344444433 333344566677777777776665422 45556666666 5778


Q ss_pred             CHHHHHHHHhhCC--CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHhccCcHHHHHHHHHH
Q 005268          383 RIDDAMSLFYQVP--RSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEG-VRPDHITFVSLLTACSHSGLVSEGQRYFHM  459 (705)
Q Consensus       383 ~~~~A~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~  459 (705)
                      ++++|.+++...-  .++...|..++..+.+.++++++.+++++..... .+++...|..+...+.+.|+.++|.+.++.
T Consensus        92 ~~~~A~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~  171 (280)
T PF13429_consen   92 DPEEALKLAEKAYERDGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRK  171 (280)
T ss_dssp             --------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHH
T ss_pred             cccccccccccccccccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            8888888877664  3445557778888888899999999998877533 244556777788888999999999999998


Q ss_pred             hHHhhCCcCC-cchHHHHHHHHHhcCCHHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCc
Q 005268          460 MQEEFGIKPH-LKHYGCMVDLFGRAGHLGMAHNFIQNMP--VRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENV  536 (705)
Q Consensus       460 m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  536 (705)
                      ..+.   .|+ ......++..+...|+.+++.++++...  .+.|...|..+..++...|+.++|...++++.+..|+|+
T Consensus       172 al~~---~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p~d~  248 (280)
T PF13429_consen  172 ALEL---DPDDPDARNALAWLLIDMGDYDEAREALKRLLKAAPDDPDLWDALAAAYLQLGRYEEALEYLEKALKLNPDDP  248 (280)
T ss_dssp             HHHH----TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHSTT-H
T ss_pred             HHHc---CCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHHHHHHHHHHHhcccccccccccccccccccccccc
Confidence            8854   664 6678888999999999998877776652  234567889999999999999999999999999999999


Q ss_pred             chhhhhhhhhhhcCCcchHHHHHHHHHh
Q 005268          537 GYYVLMSNIYANVGKWEGVDEVRSLARD  564 (705)
Q Consensus       537 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~  564 (705)
                      .....+++++...|+.++|.+++++...
T Consensus       249 ~~~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  249 LWLLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             HHHHHHHHHHT-----------------
T ss_pred             cccccccccccccccccccccccccccc
Confidence            9999999999999999999999887643

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

Probab=99.51  E-value=2.2e-11  Score=128.72  Aligned_cols=325  Identities=14%  Similarity=0.145  Sum_probs=204.9

Q ss_pred             CChhhHHHHHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHh---cCCCCChhHHHHHHHHHHHcCChhHHHHHH
Q 005268          244 NDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFE---GLPVKDVISWNTLITGYAQNGLASEAIEVF  320 (705)
Q Consensus       244 ~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~---~~~~~~~~~~~~li~~~~~~g~~~~A~~~~  320 (705)
                      |+++.|..++..+++..  +.+...|..|...|-..|+.+++...+-   .+.+.|...|-.+..-..+.|++++|.-.|
T Consensus       153 g~~eeA~~i~~EvIkqd--p~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~d~e~W~~ladls~~~~~i~qA~~cy  230 (895)
T KOG2076|consen  153 GDLEEAEEILMEVIKQD--PRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPKDYELWKRLADLSEQLGNINQARYCY  230 (895)
T ss_pred             CCHHHHHHHHHHHHHhC--ccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcccHHHHHHHH
Confidence            55555555555555553  5555566666666666666666554442   222445556666666666666666666666


Q ss_pred             HhhhhcCCCCCCcc-cccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHH----HHHHHHHHhcCCHHHHHHHHhhCC
Q 005268          321 QMMEECNEINPNQG-TYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVA----TCLVDMYGKCGRIDDAMSLFYQVP  395 (705)
Q Consensus       321 ~~m~~~~~~~p~~~-t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~----~~li~~y~k~g~~~~A~~~~~~~~  395 (705)
                      .+..+   ..|+.. .+.--...|-+.|+...|..-+.++.....+.|..-.    -..+..|...++-+.|.+.++...
T Consensus       231 ~rAI~---~~p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~  307 (895)
T KOG2076|consen  231 SRAIQ---ANPSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGAL  307 (895)
T ss_pred             HHHHh---cCCcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            66655   344332 2222334455556666666666665554322222211    223444555566666766666655


Q ss_pred             C--CC---cchHHHHHHHHHhcCChHHHHHHHHHHHHcCC---------------------------CCCHHHHHHHHHH
Q 005268          396 R--SS---SVPWNAIISCHGIHGQGDKALNFFRQMLDEGV---------------------------RPDHITFVSLLTA  443 (705)
Q Consensus       396 ~--~~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~---------------------------~p~~~t~~~ll~a  443 (705)
                      .  .+   ...+|.++..|....+++.|......+.....                           .++...+ .+.-+
T Consensus       308 s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~-rl~ic  386 (895)
T KOG2076|consen  308 SKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVI-RLMIC  386 (895)
T ss_pred             hhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhH-hHhhh
Confidence            3  22   23367777777777777777777777665222                           2222221 12223


Q ss_pred             HhccCcHHHHHHHHHHhHHhhCCcC--CcchHHHHHHHHHhcCCHHHHHHHHHhCCCC---CCHHHHHHHHHHHHhcCCh
Q 005268          444 CSHSGLVSEGQRYFHMMQEEFGIKP--HLKHYGCMVDLFGRAGHLGMAHNFIQNMPVR---PDASIWGALLGACRIHGNM  518 (705)
Q Consensus       444 ~~~~g~~~~a~~~~~~m~~~~~~~p--~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---p~~~~~~~ll~~~~~~g~~  518 (705)
                      +.+....+....+..-..+. .+.|  +...|.-+.++|.+.|++.+|+.++..+...   .+..+|--+...|...|.+
T Consensus       387 L~~L~~~e~~e~ll~~l~~~-n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~  465 (895)
T KOG2076|consen  387 LVHLKERELLEALLHFLVED-NVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEY  465 (895)
T ss_pred             hhcccccchHHHHHHHHHHh-cCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhH
Confidence            33444333333333333332 5334  5678999999999999999999999988322   3577999999999999999


Q ss_pred             hHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhCCCccCCceeE
Q 005268          519 ELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDRGLKKTPGWSS  575 (705)
Q Consensus       519 ~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~s~  575 (705)
                      ++|.+.|++++.+.|++..+-..|+.+|.+.|+.++|.+.+..+..-+-+..+++.|
T Consensus       466 e~A~e~y~kvl~~~p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~  522 (895)
T KOG2076|consen  466 EEAIEFYEKVLILAPDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAW  522 (895)
T ss_pred             HHHHHHHHHHHhcCCCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccc
Confidence            999999999999999999999999999999999999999999887544444466666

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

Probab=99.49  E-value=1e-10  Score=123.12  Aligned_cols=530  Identities=11%  Similarity=0.031  Sum_probs=297.4

Q ss_pred             HHHHHHhHhCCCCCCccchHHHHHHhcCCch--HHHHHHHHHHhCCCCCHHHHHHHHHHHHcCCChhHHHHHhccCCCCC
Q 005268           16 DCFYQFTLTSGLRPDFYTFPPVLKACRNLVD--GKKIHCSVLKLGFEWDVFVAASLLHMYCRFGLANVARKLFDDMPVRD   93 (705)
Q Consensus        16 ~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~--~~~~~~~~~~~g~~~~~~~~~~ll~~y~~~g~~~~A~~~f~~~~~~~   93 (705)
                      .++.. +...|+.|+.+||.+++..|+..++  |..++..|.-..++.+..+++.++....+.++.+.|.       +|.
T Consensus        11 nfla~-~e~~gi~PnRvtyqsLiarYc~~gdieaatif~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-------ep~   82 (1088)
T KOG4318|consen   11 NFLAL-HEISGILPNRVTYQSLIARYCTKGDIEAATIFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-------EPL   82 (1088)
T ss_pred             hHHHH-HHHhcCCCchhhHHHHHHHHcccCCCccccchhhhhcccccccchhHHHHHhcccccccccCCC-------CCc
Confidence            34555 7889999999999999999998888  5558999988888888899999999999999888776       678


Q ss_pred             cchHHHHHHHHHhCCChhHHHHHHHH-HH-------HCCCCCChhhHHhHHHHhhcC-CCh------HHHHHHHHHHHHh
Q 005268           94 SGSWNAMISGYCQSGNAVEALDILDE-MR-------LEGVSMDPITVASILPVCARS-DNI------LSGLLIHLYIVKH  158 (705)
Q Consensus        94 ~~~~~~li~~~~~~g~~~~A~~~~~~-m~-------~~g~~p~~~t~~~ll~~~~~~-~~~------~~a~~~~~~~~~~  158 (705)
                      ..+|+.|..+|.+.|+... ++.-++ |.       ..|+..-..-+-..+..|... .+.      .--+.+++..++.
T Consensus        83 aDtyt~Ll~ayr~hGDli~-fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllkl  161 (1088)
T KOG4318|consen   83 ADTYTNLLKAYRIHGDLIL-FEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLKL  161 (1088)
T ss_pred             hhHHHHHHHHHHhccchHH-HHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHHH
Confidence            8899999999999998765 333232 22       123222222222222222111 010      0111223333333


Q ss_pred             CCCCchhHHHHHHHHHHcc-----CCHHHHHHHHhccCC-CCeehHHHHHHHHHcCCChhhHHHHHHHHHHCCCCCChhh
Q 005268          159 GLEFNLFVSNNLINMYAKF-----GMMRHALRVFDQMME-RDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLT  232 (705)
Q Consensus       159 g~~~~~~~~~~Li~~y~~~-----g~~~~A~~~f~~m~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t  232 (705)
                      +....+..++.=...+.+.     ..+++-........+ ++..++.+++..-..+|+.+.|..++.+|.+.|.+.+.+-
T Consensus       162 l~~~Pvsa~~~p~~vfLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~Hy  241 (1088)
T KOG4318|consen  162 LAKVPVSAWNAPFQVFLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHY  241 (1088)
T ss_pred             HhhCCcccccchHHHHHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCccccc
Confidence            3111111111111111221     223333333344444 7888999999999999999999999999999999999998


Q ss_pred             HHHHHHHHHccCChhhHHHHHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHHcCC
Q 005268          233 LVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDVISWNTLITGYAQNGL  312 (705)
Q Consensus       233 ~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~  312 (705)
                      |-.++-+   .++......+..-+...| +.|+..++.-.+-...++|....+....+.-.--....+..+..+...+.+
T Consensus       242 FwpLl~g---~~~~q~~e~vlrgmqe~g-v~p~seT~adyvip~l~N~~t~~~~e~sq~~hg~tAavrsaa~rg~~a~k~  317 (1088)
T KOG4318|consen  242 FWPLLLG---INAAQVFEFVLRGMQEKG-VQPGSETQADYVIPQLSNGQTKYGEEGSQLAHGFTAAVRSAACRGLLANKR  317 (1088)
T ss_pred             chhhhhc---CccchHHHHHHHHHHHhc-CCCCcchhHHHHHhhhcchhhhhcccccchhhhhhHHHHHHHhcccHhHHH
Confidence            8888766   777888888888888888 889888888776666665553333222110000011122222222111111


Q ss_pred             hhH-----HHHHHHhhhhcCCCCCCcccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHH
Q 005268          313 ASE-----AIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDA  387 (705)
Q Consensus       313 ~~~-----A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A  387 (705)
                      .+.     ....+.+..- .|+.-....|. +..-....|.-+...++-..+..-    ....-+.-+++|.     +.+
T Consensus       318 l~~nl~~~v~~s~k~~fL-lg~d~~~aiws-~c~~l~hQgk~e~veqlvg~l~np----t~r~s~~~V~a~~-----~~l  386 (1088)
T KOG4318|consen  318 LRQNLRKSVIGSTKKLFL-LGTDILEAIWS-MCEKLRHQGKGEEVEQLVGQLLNP----TLRDSGQNVDAFG-----ALL  386 (1088)
T ss_pred             HHHHHHHHHHHHhhHHHH-hccccchHHHH-HHHHHHHcCCCchHHHHHhhhcCC----ccccCcchHHHHH-----HHH
Confidence            111     1111111111 12211111111 111112244445555544444321    1111111112211     223


Q ss_pred             HHHHhhCCCCCcch-HHHHHHHHHh---cC------------ChHHHHHHHHHHHHc----CCCC----C---HHHHHHH
Q 005268          388 MSLFYQVPRSSSVP-WNAIISCHGI---HG------------QGDKALNFFRQMLDE----GVRP----D---HITFVSL  440 (705)
Q Consensus       388 ~~~~~~~~~~~~~~-~~~li~~~~~---~g------------~~~~A~~~~~~m~~~----g~~p----~---~~t~~~l  440 (705)
                      .+.|.++..+.... ++ .-.+...   ..            +...+++-+..+...    -..|    .   ...-+.+
T Consensus       387 rqyFrr~e~~~~~~i~~-~~qgls~~l~se~tp~vsell~~lrkns~lr~lv~Lss~Eler~he~~~~~~h~irdi~~ql  465 (1088)
T KOG4318|consen  387 RQYFRRIERHICSRIYY-AGQGLSLNLNSEDTPRVSELLENLRKNSFLRQLVGLSSTELERSHEPWPLIAHLIRDIANQL  465 (1088)
T ss_pred             HHHHHHHHhhHHHHHHH-HHHHHHhhhchhhhHHHHHHHHHhCcchHHHHHhhhhHHHHhcccccchhhhhHHHHHHHHH
Confidence            44444444332222 22 1111111   11            122222222111110    1111    0   1123445


Q ss_pred             HHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhCC-----CCCCHHHHHHHHHHHHhc
Q 005268          441 LTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNMP-----VRPDASIWGALLGACRIH  515 (705)
Q Consensus       441 l~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~-----~~p~~~~~~~ll~~~~~~  515 (705)
                      +..|.+.-+..++...-+..... -+ |  ..|..||+.+....++++|..+.++..     +.-|..-+..+.+...++
T Consensus       466 ~l~l~se~n~lK~l~~~ekye~~-lf-~--g~ya~Li~l~~~hdkle~Al~~~~e~d~~d~s~~Ld~~~m~~l~dLL~r~  541 (1088)
T KOG4318|consen  466 HLTLNSEYNKLKILCDEEKYEDL-LF-A--GLYALLIKLMDLHDKLEYALSFVDEIDTRDESIHLDLPLMTSLQDLLQRL  541 (1088)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHH-Hh-h--hHHHHHhhhHHHHHHHHHHHhchhhhcccchhhhcccHhHHHHHHHHHHh
Confidence            55566555555555443333221 22 2  579999999999999999999998884     223455567888888899


Q ss_pred             CChhHHHHHHHHHhcc---CCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhCCCccCCceeE
Q 005268          516 GNMELGAVASDRLFEV---DSENVGYYVLMSNIYANVGKWEGVDEVRSLARDRGLKKTPGWSS  575 (705)
Q Consensus       516 g~~~~a~~~~~~~~~~---~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~s~  575 (705)
                      +....+..+.+++.+.   .|.-......+.+..+..|+.+...++++-....|+.- .|--|
T Consensus       542 ~~l~dl~tiL~e~ks~a~n~~~~a~~~f~~lns~a~agqqe~Lkkl~d~lvslgl~e-tgPl~  603 (1088)
T KOG4318|consen  542 AILYDLSTILYEDKSSAENEPLVAIILFPLLNSGAPAGQQEKLKKLADILVSLGLSE-TGPLW  603 (1088)
T ss_pred             HHHHHHHHHHhhhhHHhhCCchHHHHHHHHHhhhhhccCHHHHHHHHHHHHHhhhhh-cccce
Confidence            9888888888877652   34344556677888888999999999999999888865 34444

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

Probab=99.49  E-value=2.6e-09  Score=109.01  Aligned_cols=497  Identities=11%  Similarity=0.063  Sum_probs=384.3

Q ss_pred             CCCccchHHHHHHhcCCchHHHHHHHHHHhCCCCCHHHHHHHHHHHHcCCChhHHHHHhccCC---CCCcchHHHHHHHH
Q 005268           28 RPDFYTFPPVLKACRNLVDGKKIHCSVLKLGFEWDVFVAASLLHMYCRFGLANVARKLFDDMP---VRDSGSWNAMISGY  104 (705)
Q Consensus        28 ~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~ll~~y~~~g~~~~A~~~f~~~~---~~~~~~~~~li~~~  104 (705)
                      -|+.+.+--..--+-...+++.++.+..+.- +.+...|.    +|++...++.|..+++...   ..+...|.+-...=
T Consensus       376 iP~sv~LWKaAVelE~~~darilL~rAvecc-p~s~dLwl----AlarLetYenAkkvLNkaRe~iptd~~IWitaa~LE  450 (913)
T KOG0495|consen  376 IPRSVRLWKAAVELEEPEDARILLERAVECC-PQSMDLWL----ALARLETYENAKKVLNKAREIIPTDREIWITAAKLE  450 (913)
T ss_pred             CCchHHHHHHHHhccChHHHHHHHHHHHHhc-cchHHHHH----HHHHHHHHHHHHHHHHHHHhhCCCChhHHHHHHHHH
Confidence            4555543222222233333777777776653 33444444    4566667788888887654   45777888877777


Q ss_pred             HhCCChhHHHHHHHH----HHHCCCCCChhhHHhHHHHhhcCCChHHHHHHHHHHHHhCCCCc--hhHHHHHHHHHHccC
Q 005268          105 CQSGNAVEALDILDE----MRLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLEFN--LFVSNNLINMYAKFG  178 (705)
Q Consensus       105 ~~~g~~~~A~~~~~~----m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~--~~~~~~Li~~y~~~g  178 (705)
                      -.+|+.+...++..+    +...|+..|...|..=..+|-..|..-....+....+.-|++..  ..+|+.-...|.+.+
T Consensus       451 E~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~e~agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~  530 (913)
T KOG0495|consen  451 EANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAEACEDAGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRP  530 (913)
T ss_pred             HhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHHhhcCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcc
Confidence            788999888888755    45679999999999999999999999999999999998887543  457888889999999


Q ss_pred             CHHHHHHHHhccCC---CCeehHHHHHHHHHcCCChhhHHHHHHHHHHCCCCCChhhHHHHHHHHHccCChhhHHHHHHH
Q 005268          179 MMRHALRVFDQMME---RDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQLNDCRNSRSVHGF  255 (705)
Q Consensus       179 ~~~~A~~~f~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~  255 (705)
                      .++-|+.+|....+   .+...|...+..--..|..++-..+|++....- +-...-+....+-.-..|+...++.++..
T Consensus       531 ~~~carAVya~alqvfp~k~slWlra~~~ek~hgt~Esl~Allqkav~~~-pkae~lwlM~ake~w~agdv~~ar~il~~  609 (913)
T KOG0495|consen  531 AIECARAVYAHALQVFPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQC-PKAEILWLMYAKEKWKAGDVPAARVILDQ  609 (913)
T ss_pred             hHHHHHHHHHHHHhhccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHhcCCcHHHHHHHHH
Confidence            99999999987765   356678887777777899999999999998762 23333444445556677999999999999


Q ss_pred             HHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCC--CCChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCc
Q 005268          256 IMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLP--VKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQ  333 (705)
Q Consensus       256 ~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~  333 (705)
                      +.+..  +.+..+|-+-+..-....+++.|+.+|.+..  .+....|.--+...--.++.++|++++++..+   .-|+-
T Consensus       610 af~~~--pnseeiwlaavKle~en~e~eraR~llakar~~sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk---~fp~f  684 (913)
T KOG0495|consen  610 AFEAN--PNSEEIWLAAVKLEFENDELERARDLLAKARSISGTERVWMKSANLERYLDNVEEALRLLEEALK---SFPDF  684 (913)
T ss_pred             HHHhC--CCcHHHHHHHHHHhhccccHHHHHHHHHHHhccCCcchhhHHHhHHHHHhhhHHHHHHHHHHHHH---hCCch
Confidence            99885  6688899999999999999999999998765  34566676666666677899999999999887   66765


Q ss_pred             cc-ccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCcchHHHHHHHH
Q 005268          334 GT-YVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVP---RSSSVPWNAIISCH  409 (705)
Q Consensus       334 ~t-~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~---~~~~~~~~~li~~~  409 (705)
                      .- |..+...+-+.++++.|+..|..=.+. ++..+..|-.|...=-+.|.+-.|+.+|++..   +.|...|-..|..-
T Consensus       685 ~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~-cP~~ipLWllLakleEk~~~~~rAR~ildrarlkNPk~~~lwle~Ir~E  763 (913)
T KOG0495|consen  685 HKLWLMLGQIEEQMENIEMAREAYLQGTKK-CPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKNPKNALLWLESIRME  763 (913)
T ss_pred             HHHHHHHhHHHHHHHHHHHHHHHHHhcccc-CCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcCCCcchhHHHHHHHH
Confidence            43 445556677778888888877765554 45677888899999999999999999999877   55667799999999


Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHH
Q 005268          410 GIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMA  489 (705)
Q Consensus       410 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A  489 (705)
                      .+.|..+.|..+..+.++. .+.+...|..-|...-+.++-......++      ..+-|+.+.-.+..++-...+++.|
T Consensus       764 lR~gn~~~a~~lmakALQe-cp~sg~LWaEaI~le~~~~rkTks~DALk------kce~dphVllaia~lfw~e~k~~ka  836 (913)
T KOG0495|consen  764 LRAGNKEQAELLMAKALQE-CPSSGLLWAEAIWLEPRPQRKTKSIDALK------KCEHDPHVLLAIAKLFWSEKKIEKA  836 (913)
T ss_pred             HHcCCHHHHHHHHHHHHHh-CCccchhHHHHHHhccCcccchHHHHHHH------hccCCchhHHHHHHHHHHHHHHHHH
Confidence            9999999999999998885 45556788887777777766555444433      3355677888888899999999999


Q ss_pred             HHHHHhC-CCCCC-HHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhh
Q 005268          490 HNFIQNM-PVRPD-ASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMS  543 (705)
Q Consensus       490 ~~~~~~~-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~  543 (705)
                      .+-|.+. ...|| ..+|.-+..-+.+||.-+.-.+++.+....+|.....+...+
T Consensus       837 r~Wf~Ravk~d~d~GD~wa~fykfel~hG~eed~kev~~~c~~~EP~hG~~W~avS  892 (913)
T KOG0495|consen  837 REWFERAVKKDPDNGDAWAWFYKFELRHGTEEDQKEVLKKCETAEPTHGELWQAVS  892 (913)
T ss_pred             HHHHHHHHccCCccchHHHHHHHHHHHhCCHHHHHHHHHHHhccCCCCCcHHHHHh
Confidence            9999888 55666 568999999999999999999999999999998766555443

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

Probab=99.49  E-value=7e-11  Score=116.41  Aligned_cols=213  Identities=12%  Similarity=0.119  Sum_probs=168.0

Q ss_pred             cCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCcchHHHHHHHHHhcCChHHHHHHH
Q 005268          346 VGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVP---RSSSVPWNAIISCHGIHGQGDKALNFF  422 (705)
Q Consensus       346 ~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~  422 (705)
                      .|+.-.+.+-++.+++....+ ...|--+..+|....+.++-...|+...   +.|...|.--...+.-.+++++|+.=|
T Consensus       339 ~g~~~~a~~d~~~~I~l~~~~-~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~n~dvYyHRgQm~flL~q~e~A~aDF  417 (606)
T KOG0547|consen  339 KGDSLGAQEDFDAAIKLDPAF-NSLYIKRAAAYADENQSEKMWKDFNKAEDLDPENPDVYYHRGQMRFLLQQYEEAIADF  417 (606)
T ss_pred             cCCchhhhhhHHHHHhcCccc-chHHHHHHHHHhhhhccHHHHHHHHHHHhcCCCCCchhHhHHHHHHHHHHHHHHHHHH
Confidence            456667777777777754332 2336666677888888888888888765   455566777777777788999999999


Q ss_pred             HHHHHcCCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCC
Q 005268          423 RQMLDEGVRPDH-ITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP  500 (705)
Q Consensus       423 ~~m~~~g~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p  500 (705)
                      ++.++  +.|+. ..|.-+-.+..+.+.++++...|++..++  ++.-++.|+-....+..+++++.|.+.|+.. .++|
T Consensus       418 ~Kai~--L~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk--FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~  493 (606)
T KOG0547|consen  418 QKAIS--LDPENAYAYIQLCCALYRQHKIAESMKTFEEAKKK--FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEP  493 (606)
T ss_pred             HHHhh--cChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhcc
Confidence            99998  67765 57877877888899999999999999875  5556789999999999999999999999876 4444


Q ss_pred             C---------HHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHh
Q 005268          501 D---------ASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARD  564 (705)
Q Consensus       501 ~---------~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  564 (705)
                      +         +.+-.+++-.-. .+++..|+.+++++++++|....+|..|+.+-.+.|+.++|.++|++...
T Consensus       494 ~~~~~~v~~~plV~Ka~l~~qw-k~d~~~a~~Ll~KA~e~Dpkce~A~~tlaq~~lQ~~~i~eAielFEksa~  565 (606)
T KOG0547|consen  494 REHLIIVNAAPLVHKALLVLQW-KEDINQAENLLRKAIELDPKCEQAYETLAQFELQRGKIDEAIELFEKSAQ  565 (606)
T ss_pred             ccccccccchhhhhhhHhhhch-hhhHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            3         223333333333 38999999999999999999999999999999999999999999988654

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

Probab=99.49  E-value=1.3e-09  Score=107.01  Aligned_cols=491  Identities=11%  Similarity=0.091  Sum_probs=350.3

Q ss_pred             CHHHHHHHHHHHHcCCChhHHHHHhccCC---CCCcchHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHhHHHH
Q 005268           62 DVFVAASLLHMYCRFGLANVARKLFDDMP---VRDSGSWNAMISGYCQSGNAVEALDILDEMRLEGVSMDPITVASILPV  138 (705)
Q Consensus        62 ~~~~~~~ll~~y~~~g~~~~A~~~f~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~  138 (705)
                      +...|-.-.+-=...+++..|+.+|++..   .++...|-.-+..=.++.....|..++++....=.+.|.. |---+..
T Consensus        72 ~~~~WikYaqwEesq~e~~RARSv~ERALdvd~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVdql-WyKY~ym  150 (677)
T KOG1915|consen   72 NMQVWIKYAQWEESQKEIQRARSVFERALDVDYRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVDQL-WYKYIYM  150 (677)
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHHHH-HHHHHHH
Confidence            33444443444445678889999999876   3667778888888899999999999999988642222332 3333334


Q ss_pred             hhcCCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHccCCHHHHHHHHhcc--CCCCeehHHHHHHHHHcCCChhhHHH
Q 005268          139 CARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGMMRHALRVFDQM--MERDVVSWNSIIAAYEQSNDPITAHG  216 (705)
Q Consensus       139 ~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m--~~~~~~~~~~li~~~~~~g~~~~A~~  216 (705)
                      =-..|++..|+++|+.-.+  .+|+...|++.|+.=.+...++.|+.+++..  ..|++.+|--...-=-++|....|..
T Consensus       151 EE~LgNi~gaRqiferW~~--w~P~eqaW~sfI~fElRykeieraR~IYerfV~~HP~v~~wikyarFE~k~g~~~~aR~  228 (677)
T KOG1915|consen  151 EEMLGNIAGARQIFERWME--WEPDEQAWLSFIKFELRYKEIERARSIYERFVLVHPKVSNWIKYARFEEKHGNVALARS  228 (677)
T ss_pred             HHHhcccHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHheecccHHHHHHHHHHHHhcCcHHHHHH
Confidence            4567999999999998776  5899999999999999999999999999986  45899999888888889999999999


Q ss_pred             HHHHHHHCCCCCChhhHHHHHHHH----HccCChhhHHHHHHHHHHhcCCCch--hHHHHHHHHHHHhcCCHHHHHHH--
Q 005268          217 FFTTMQQAGIQPDLLTLVSLTSIV----AQLNDCRNSRSVHGFIMRRGWFMED--VIIGNAVVDMYAKLGIINSACAV--  288 (705)
Q Consensus       217 ~~~~m~~~g~~p~~~t~~~ll~a~----~~~~~~~~a~~i~~~~~~~g~~~~~--~~~~~~li~~y~~~g~~~~A~~~--  288 (705)
                      +|....+.  -.|...-..+..++    .+...++.++.++...+..  +|.+  ...+..+...--+-|+...-...  
T Consensus       229 VyerAie~--~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~--~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv  304 (677)
T KOG1915|consen  229 VYERAIEF--LGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDH--IPKGRAEELYKKYTAFEKQFGDKEGIEDAIV  304 (677)
T ss_pred             HHHHHHHH--hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--cCcccHHHHHHHHHHHHHHhcchhhhHHHHh
Confidence            99887653  12223223333333    4556788899999998887  3444  56666666666666764433332  


Q ss_pred             ------HhcCCCC---ChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcc-------cccchhHHh---hccCch
Q 005268          289 ------FEGLPVK---DVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQG-------TYVSILPAY---SHVGAL  349 (705)
Q Consensus       289 ------f~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~-------t~~~ll~a~---~~~~~~  349 (705)
                            ++.+...   |-.+|-..+..--..|+.+...++|++...  +++|-..       .|.-+=-+|   ....+.
T Consensus       305 ~KRk~qYE~~v~~np~nYDsWfdylrL~e~~g~~~~Ire~yErAIa--nvpp~~ekr~W~RYIYLWinYalyeEle~ed~  382 (677)
T KOG1915|consen  305 GKRKFQYEKEVSKNPYNYDSWFDYLRLEESVGDKDRIRETYERAIA--NVPPASEKRYWRRYIYLWINYALYEELEAEDV  382 (677)
T ss_pred             hhhhhHHHHHHHhCCCCchHHHHHHHHHHhcCCHHHHHHHHHHHHc--cCCchhHHHHHHHHHHHHHHHHHHHHHHhhhH
Confidence                  2222222   567888888888888999999999999885  4666321       121111122   346789


Q ss_pred             HHHHHHHHHHHHhCCCCchhHHHHHHHHHH----hcCCHHHHHHHHhhCC--CCCcchHHHHHHHHHhcCChHHHHHHHH
Q 005268          350 RQGIKIHARVIKNCLCFDVFVATCLVDMYG----KCGRIDDAMSLFYQVP--RSSSVPWNAIISCHGIHGQGDKALNFFR  423 (705)
Q Consensus       350 ~~a~~~~~~~~~~g~~~~~~~~~~li~~y~----k~g~~~~A~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~  423 (705)
                      +.++++++..++. ++...+++..+--+|+    ++.++..|.+++....  .|-...+-..|..-.+.++++....+++
T Consensus       383 ertr~vyq~~l~l-IPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~cPK~KlFk~YIelElqL~efDRcRkLYE  461 (677)
T KOG1915|consen  383 ERTRQVYQACLDL-IPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIGKCPKDKLFKGYIELELQLREFDRCRKLYE  461 (677)
T ss_pred             HHHHHHHHHHHhh-cCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhccCCchhHHHHHHHHHHHHhhHHHHHHHHH
Confidence            9999999999984 6667777777666665    5788999999998776  4555667777777788999999999999


Q ss_pred             HHHHcCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCCC
Q 005268          424 QMLDEGVRP-DHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRPD  501 (705)
Q Consensus       424 ~m~~~g~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~  501 (705)
                      +.++  ..| |..+|......=...|+.+.|..+|.-......+.-....|.+.|+-=...|.++.|..++++. ...+.
T Consensus       462 kfle--~~Pe~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~rt~h  539 (677)
T KOG1915|consen  462 KFLE--FSPENCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDRTQH  539 (677)
T ss_pred             HHHh--cChHhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHhccc
Confidence            9999  455 4578888888788899999999999988765333334456777888888999999999999887 33455


Q ss_pred             HHHHHHHHHHHH-----hcC-----------ChhHHHHHHHHHhc----cCCCCcc--hhhhhhhhhhhcCCcchHHHHH
Q 005268          502 ASIWGALLGACR-----IHG-----------NMELGAVASDRLFE----VDSENVG--YYVLMSNIYANVGKWEGVDEVR  559 (705)
Q Consensus       502 ~~~~~~ll~~~~-----~~g-----------~~~~a~~~~~~~~~----~~p~~~~--~~~~l~~~~~~~g~~~~a~~~~  559 (705)
                      ..+|-++..--.     +.+           ++..|..+|+++..    .+|....  .....-+.-...|...+...+-
T Consensus       540 ~kvWisFA~fe~s~~~~~~~~~~~~~e~~~~~~~~AR~iferAn~~~k~~~~KeeR~~LLEaw~~~E~~~G~~~d~~~V~  619 (677)
T KOG1915|consen  540 VKVWISFAKFEASASEGQEDEDLAELEITDENIKRARKIFERANTYLKESTPKEERLMLLEAWKNMEETFGTEGDVERVQ  619 (677)
T ss_pred             chHHHhHHHHhccccccccccchhhhhcchhHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCchhhHHHHH
Confidence            668888765433     333           56678888888765    2332211  1122334445567666777776


Q ss_pred             HHHHh
Q 005268          560 SLARD  564 (705)
Q Consensus       560 ~~m~~  564 (705)
                      ++|.+
T Consensus       620 s~mPk  624 (677)
T KOG1915|consen  620 SKMPK  624 (677)
T ss_pred             HhccH
Confidence            66654

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

Probab=99.46  E-value=3.2e-10  Score=111.26  Aligned_cols=390  Identities=12%  Similarity=0.121  Sum_probs=288.7

Q ss_pred             HccCCHHHHHHHHhccCC---CCeehHHHHHHHHHcCCChhhHHHHHHHHHHCCCCCChhhHHHHHHHHHccCChhhHHH
Q 005268          175 AKFGMMRHALRVFDQMME---RDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQLNDCRNSRS  251 (705)
Q Consensus       175 ~~~g~~~~A~~~f~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~  251 (705)
                      ...+++..|+.+|+....   +++..|---+..=.++.....|..++++....=...|.. +---+-.=-.+|+...+++
T Consensus        84 esq~e~~RARSv~ERALdvd~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVdql-WyKY~ymEE~LgNi~gaRq  162 (677)
T KOG1915|consen   84 ESQKEIQRARSVFERALDVDYRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVDQL-WYKYIYMEEMLGNIAGARQ  162 (677)
T ss_pred             HhHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHHHH-HHHHHHHHHHhcccHHHHH
Confidence            345667778888877755   566677777777778888888888888776542222222 2223333455788888999


Q ss_pred             HHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCC--CCChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCC
Q 005268          252 VHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLP--VKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEI  329 (705)
Q Consensus       252 i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~  329 (705)
                      ++..-+.   ..|+...|++.|+.-.+-..++.|+.+++...  .|++.+|--....-.++|+..-|..+|....+   .
T Consensus       163 iferW~~---w~P~eqaW~sfI~fElRykeieraR~IYerfV~~HP~v~~wikyarFE~k~g~~~~aR~VyerAie---~  236 (677)
T KOG1915|consen  163 IFERWME---WEPDEQAWLSFIKFELRYKEIERARSIYERFVLVHPKVSNWIKYARFEEKHGNVALARSVYERAIE---F  236 (677)
T ss_pred             HHHHHHc---CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHheecccHHHHHHHHHHHHhcCcHHHHHHHHHHHHH---H
Confidence            9888776   57999999999999999999999999998754  68888888888888889999999999988776   2


Q ss_pred             CCCcccccchhHHh----hccCchHHHHHHHHHHHHhCCCCc--hhHHHHHHHHHHhcCCHHHHHHH--------HhhCC
Q 005268          330 NPNQGTYVSILPAY----SHVGALRQGIKIHARVIKNCLCFD--VFVATCLVDMYGKCGRIDDAMSL--------FYQVP  395 (705)
Q Consensus       330 ~p~~~t~~~ll~a~----~~~~~~~~a~~~~~~~~~~g~~~~--~~~~~~li~~y~k~g~~~~A~~~--------~~~~~  395 (705)
                      -.|...-..+..++    .....++.|.-++..+++. ++.+  ...|..+...=-+-|+.....+.        ++.+.
T Consensus       237 ~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~-~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v  315 (677)
T KOG1915|consen  237 LGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDH-IPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEV  315 (677)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-cCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHHH
Confidence            22333323333444    3456788899999998886 3333  45566666555556664443332        22222


Q ss_pred             ---CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH--H---HHHH-HH-HH---hccCcHHHHHHHHHHhHH
Q 005268          396 ---RSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHI--T---FVSL-LT-AC---SHSGLVSEGQRYFHMMQE  462 (705)
Q Consensus       396 ---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~--t---~~~l-l~-a~---~~~g~~~~a~~~~~~m~~  462 (705)
                         .-|..+|--.+..-...|+.+...++|++.+.. ++|-..  -   |..| ++ +|   ....+++.+.++++...+
T Consensus       316 ~~np~nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l~  394 (677)
T KOG1915|consen  316 SKNPYNYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACLD  394 (677)
T ss_pred             HhCCCCchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence               345566877888888889999999999999986 666421  1   2222 12 22   347789999999998875


Q ss_pred             hhCCcCCcchHHHHHHHHH----hcCCHHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcc
Q 005268          463 EFGIKPHLKHYGCMVDLFG----RAGHLGMAHNFIQNM-PVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVG  537 (705)
Q Consensus       463 ~~~~~p~~~~~~~li~~~~----~~g~~~~A~~~~~~~-~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~  537 (705)
                        -++....++.-+--+|+    |+.++..|.+++..+ +.-|...++...|..-.+.++++....+|++.++-.|.|..
T Consensus       395 --lIPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~cPK~KlFk~YIelElqL~efDRcRkLYEkfle~~Pe~c~  472 (677)
T KOG1915|consen  395 --LIPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIGKCPKDKLFKGYIELELQLREFDRCRKLYEKFLEFSPENCY  472 (677)
T ss_pred             --hcCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhcChHhhH
Confidence              23445567776665554    888999999999776 67799999999999999999999999999999999999999


Q ss_pred             hhhhhhhhhhhcCCcchHHHHHHHHHhCCCccCCceeE
Q 005268          538 YYVLMSNIYANVGKWEGVDEVRSLARDRGLKKTPGWSS  575 (705)
Q Consensus       538 ~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~s~  575 (705)
                      ++...+..-...|+++.|+.+|..++.......|..-|
T Consensus       473 ~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellw  510 (677)
T KOG1915|consen  473 AWSKYAELETSLGDTDRARAIFELAISQPALDMPELLW  510 (677)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHH
Confidence            99999999999999999999999999887767777666

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

Probab=99.45  E-value=4.1e-12  Score=130.16  Aligned_cols=244  Identities=12%  Similarity=0.123  Sum_probs=161.0

Q ss_pred             ChhHHHHHHHhhhhcCCCCC-CcccccchhHHhhccCchHHHHHHHHHHHHhC--CCCchhHHHHHHHHHHhcCCHHHHH
Q 005268          312 LASEAIEVFQMMEECNEINP-NQGTYVSILPAYSHVGALRQGIKIHARVIKNC--LCFDVFVATCLVDMYGKCGRIDDAM  388 (705)
Q Consensus       312 ~~~~A~~~~~~m~~~~~~~p-~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g--~~~~~~~~~~li~~y~k~g~~~~A~  388 (705)
                      +..+|+..|.....   ..+ +......+..+|..++++++++.+|+.+.+..  .-.+..+|++.+.-+-+.=.+..--
T Consensus       334 ~~~~A~~~~~klp~---h~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~La  410 (638)
T KOG1126|consen  334 NCREALNLFEKLPS---HHYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLA  410 (638)
T ss_pred             HHHHHHHHHHhhHH---hcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHH
Confidence            45677777776443   233 33444556667777777777777777776542  1124556666654433221111111


Q ss_pred             HHHhhCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCc
Q 005268          389 SLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRP-DHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIK  467 (705)
Q Consensus       389 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~  467 (705)
                      +-+-.+.+..+.+|-++..+|..+++.+.|++.|++.++  +.| ...+|+.+..-+.....+|.|...|+...     .
T Consensus       411 q~Li~~~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQ--ldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al-----~  483 (638)
T KOG1126|consen  411 QDLIDTDPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQ--LDPRFAYAYTLLGHESIATEEFDKAMKSFRKAL-----G  483 (638)
T ss_pred             HHHHhhCCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhc--cCCccchhhhhcCChhhhhHHHHhHHHHHHhhh-----c
Confidence            112222345567788888888888888888888888877  667 34677777666777777888888876554     3


Q ss_pred             CCcchHHH---HHHHHHhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhh
Q 005268          468 PHLKHYGC---MVDLFGRAGHLGMAHNFIQNM-PVRPD-ASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLM  542 (705)
Q Consensus       468 p~~~~~~~---li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l  542 (705)
                      .++.+|++   |.-.|.|+++++.|+-.|+++ .+.|. .++...+...+.+.|+.++|++++++++.++|.|+-.-...
T Consensus       484 ~~~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~~  563 (638)
T KOG1126|consen  484 VDPRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEINPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYHR  563 (638)
T ss_pred             CCchhhHHHHhhhhheeccchhhHHHHHHHhhhcCCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHHH
Confidence            34445554   455677888888888888777 56664 55566666777777888888888888888888888777778


Q ss_pred             hhhhhhcCCcchHHHHHHHHHhC
Q 005268          543 SNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       543 ~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      +.++...+++++|...++++++.
T Consensus       564 ~~il~~~~~~~eal~~LEeLk~~  586 (638)
T KOG1126|consen  564 ASILFSLGRYVEALQELEELKEL  586 (638)
T ss_pred             HHHHHhhcchHHHHHHHHHHHHh
Confidence            88888888888888888877664

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

Probab=99.44  E-value=6.2e-10  Score=109.24  Aligned_cols=370  Identities=13%  Similarity=0.126  Sum_probs=244.0

Q ss_pred             CCCchhHHHHHHHHHHccCCHHHHHHHHhccCCCCeehHHHHHHHHHcCCChhhHHHHHHHHHHCCCCCChhhHH--HHH
Q 005268          160 LEFNLFVSNNLINMYAKFGMMRHALRVFDQMMERDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLV--SLT  237 (705)
Q Consensus       160 ~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~--~ll  237 (705)
                      ...|.+.+-...-.+-+.|....|+..|-.....-+..|.+.+....-..+.+.+..+.     .|...|...+.  .+.
T Consensus       160 ~~~D~fllYL~Gvv~k~~~~~s~A~~sfv~~v~~~P~~W~AWleL~~lit~~e~~~~l~-----~~l~~~~h~M~~~F~~  234 (559)
T KOG1155|consen  160 GEKDEFLLYLYGVVLKELGLLSLAIDSFVEVVNRYPWFWSAWLELSELITDIEILSILV-----VGLPSDMHWMKKFFLK  234 (559)
T ss_pred             ccchhHHHHHHHHHHHhhchHHHHHHHHHHHHhcCCcchHHHHHHHHhhchHHHHHHHH-----hcCcccchHHHHHHHH
Confidence            34455444444455667788888888888776655555555443322222222222111     12222222222  234


Q ss_pred             HHHHccCChhhHHHHHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCCCC------ChhHHHHHHHHHHHcC
Q 005268          238 SIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVK------DVISWNTLITGYAQNG  311 (705)
Q Consensus       238 ~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~------~~~~~~~li~~~~~~g  311 (705)
                      .++......+++.+-.......| ++.+..+-+.....+-...+++.|+.+|+++...      |..+|+..+-  .++.
T Consensus       235 ~a~~el~q~~e~~~k~e~l~~~g-f~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LY--v~~~  311 (559)
T KOG1155|consen  235 KAYQELHQHEEALQKKERLSSVG-FPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLY--VKND  311 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhcc-CCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHH--HHhh
Confidence            56666677778888888888888 8888877777777778888999999999988754      4456665543  3332


Q ss_pred             Chh---HHHHHHHhhhhcCCCCCCcccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHH
Q 005268          312 LAS---EAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAM  388 (705)
Q Consensus       312 ~~~---~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~  388 (705)
                      +..   -|..+++ +   ...+  +.|...+.+-|+-.++.+.|...|+++++.+ +....+++.+..-|....+...|.
T Consensus       312 ~skLs~LA~~v~~-i---dKyR--~ETCCiIaNYYSlr~eHEKAv~YFkRALkLN-p~~~~aWTLmGHEyvEmKNt~AAi  384 (559)
T KOG1155|consen  312 KSKLSYLAQNVSN-I---DKYR--PETCCIIANYYSLRSEHEKAVMYFKRALKLN-PKYLSAWTLMGHEYVEMKNTHAAI  384 (559)
T ss_pred             hHHHHHHHHHHHH-h---ccCC--ccceeeehhHHHHHHhHHHHHHHHHHHHhcC-cchhHHHHHhhHHHHHhcccHHHH
Confidence            221   1222221 1   2233  3466777788888888888999998888865 335667888888888888888888


Q ss_pred             HHHhhCC---CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhh
Q 005268          389 SLFYQVP---RSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPD-HITFVSLLTACSHSGLVSEGQRYFHMMQEEF  464 (705)
Q Consensus       389 ~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~  464 (705)
                      +-+++..   +.|-..|..|..+|...+.+.-|+-.|++..+  ++|+ +..|..|..+|.+.++.++|++.|.....- 
T Consensus       385 ~sYRrAvdi~p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~--~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~-  461 (559)
T KOG1155|consen  385 ESYRRAVDINPRDYRAWYGLGQAYEIMKMHFYALYYFQKALE--LKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILL-  461 (559)
T ss_pred             HHHHHHHhcCchhHHHHhhhhHHHHHhcchHHHHHHHHHHHh--cCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhc-
Confidence            8888665   66777788899999888888888888888888  5665 468888888888899999999888877653 


Q ss_pred             CCcCCcchHHHHHHHHHhcCCHHHHHHHHHhCC--------CCCCHH-HHHHHHHHHHhcCChhHHHHHHHHHhccCCCC
Q 005268          465 GIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNMP--------VRPDAS-IWGALLGACRIHGNMELGAVASDRLFEVDSEN  535 (705)
Q Consensus       465 ~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~--------~~p~~~-~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  535 (705)
                       -..+...+..|.++|-+.++.++|...|++.-        ..|... +.--|..-+.+.+++++|.....+...-+|  
T Consensus       462 -~dte~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~~~~~~--  538 (559)
T KOG1155|consen  462 -GDTEGSALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYYATLVLKGET--  538 (559)
T ss_pred             -cccchHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHHHHHHhcCCc--
Confidence             23345678888888888888888887776541        223211 222244556677777777765555444322  


Q ss_pred             cchhhhhhhhhhhcCCcchHHHHHHHHHhC
Q 005268          536 VGYYVLMSNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       536 ~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                                     ..+||..+++..+..
T Consensus       539 ---------------e~eeak~LlReir~~  553 (559)
T KOG1155|consen  539 ---------------ECEEAKALLREIRKI  553 (559)
T ss_pred             ---------------hHHHHHHHHHHHHHh
Confidence                           346777777766554

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

Probab=99.44  E-value=7.9e-12  Score=128.13  Aligned_cols=276  Identities=16%  Similarity=0.092  Sum_probs=216.4

Q ss_pred             CHHHHHHHHhcCCCC--Ch-hHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCC-CcccccchhHHhhccCchHHHHHHH
Q 005268          281 IINSACAVFEGLPVK--DV-ISWNTLITGYAQNGLASEAIEVFQMMEECNEINP-NQGTYVSILPAYSHVGALRQGIKIH  356 (705)
Q Consensus       281 ~~~~A~~~f~~~~~~--~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p-~~~t~~~ll~a~~~~~~~~~a~~~~  356 (705)
                      +..+|...|..++..  |+ .....+..+|...+++++|.++|+...+...... +..+|++++-.+-+.-    +...+
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 NCREALNLFEKLPSHHYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEV----ALSYL  409 (638)
T ss_pred             HHHHHHHHHHhhHHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhH----HHHHH
Confidence            467899999886643  33 3345567889999999999999999987222222 4556777766543321    22222


Q ss_pred             H-HHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCc---chHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC
Q 005268          357 A-RVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSS---VPWNAIISCHGIHGQGDKALNFFRQMLDEGVRP  432 (705)
Q Consensus       357 ~-~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  432 (705)
                      . .+++. -+..+.+|.++.++|.-+++.+.|++.|++..+-|.   .+|+-+..-+.....+|.|...|+..+.  +.|
T Consensus       410 aq~Li~~-~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~--~~~  486 (638)
T KOG1126|consen  410 AQDLIDT-DPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPRFAYAYTLLGHESIATEEFDKAMKSFRKALG--VDP  486 (638)
T ss_pred             HHHHHhh-CCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCccchhhhhcCChhhhhHHHHhHHHHHHhhhc--CCc
Confidence            2 22222 355788999999999999999999999999885554   5577777778889999999999999987  667


Q ss_pred             CH-HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHH
Q 005268          433 DH-ITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGAL  508 (705)
Q Consensus       433 ~~-~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l  508 (705)
                      .. -.|..+...|.+.++++.|.-.|+.+.   .+.| +.....++...+-+.|+.|+|+++++++ ..+| |+..--.-
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            66 478888899999999999999999876   5777 4567778888999999999999999998 3333 33333345


Q ss_pred             HHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhCC
Q 005268          509 LGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDRG  566 (705)
Q Consensus       509 l~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  566 (705)
                      +..+...+++++|.+.+|++.++-|++...|.+++.+|-+.|+.+.|..-|.-|.+..
T Consensus       564 ~~il~~~~~~~eal~~LEeLk~~vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~ld  621 (638)
T KOG1126|consen  564 ASILFSLGRYVEALQELEELKELVPQESSVFALLGKIYKRLGNTDLALLHFSWALDLD  621 (638)
T ss_pred             HHHHHhhcchHHHHHHHHHHHHhCcchHHHHHHHHHHHHHHccchHHHHhhHHHhcCC
Confidence            5667778999999999999999999999999999999999999999999888877653

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.41  E-value=1.1e-10  Score=121.98  Aligned_cols=224  Identities=13%  Similarity=0.025  Sum_probs=145.4

Q ss_pred             HHHHHhcCCHHHHHHHHhcCC---CCChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccccchhHHhhccCch
Q 005268          273 VDMYAKLGIINSACAVFEGLP---VKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGAL  349 (705)
Q Consensus       273 i~~y~~~g~~~~A~~~f~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~  349 (705)
                      ...+...|+++.|...++.+.   +.+......+...|.+.|++++|.+++..+.+ .+..++. .              
T Consensus       160 a~l~l~~g~~~~Al~~l~~~~~~~P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k-~~~~~~~-~--------------  223 (398)
T PRK10747        160 VRIQLARNENHAARHGVDKLLEVAPRHPEVLRLAEQAYIRTGAWSSLLDILPSMAK-AHVGDEE-H--------------  223 (398)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHH-cCCCCHH-H--------------
Confidence            556667777777777766654   33556677777777777888888888877776 3222110 0              


Q ss_pred             HHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCcchHHHHHHHHHhcCChHHHHHHHHHHH
Q 005268          350 RQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVP---RSSSVPWNAIISCHGIHGQGDKALNFFRQML  426 (705)
Q Consensus       350 ~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  426 (705)
                        ..++-           ...+..++....+..+.+...++++.++   +.++.....+...+...|+.++|.+++++..
T Consensus       224 --~~~l~-----------~~a~~~l~~~~~~~~~~~~l~~~w~~lp~~~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l  290 (398)
T PRK10747        224 --RAMLE-----------QQAWIGLMDQAMADQGSEGLKRWWKNQSRKTRHQVALQVAMAEHLIECDDHDTAQQIILDGL  290 (398)
T ss_pred             --HHHHH-----------HHHHHHHHHHHHHhcCHHHHHHHHHhCCHHHhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence              00000           0012222322333344555666666665   3455567777778888888888888888887


Q ss_pred             HcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCCCHHH
Q 005268          427 DEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRPDASI  504 (705)
Q Consensus       427 ~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~~~~  504 (705)
                      +  ..|+....  ++.+....++.+++.+..+...+.   .| |...+.++..++.+.|++++|.+.|+++ ...|+...
T Consensus       291 ~--~~~~~~l~--~l~~~l~~~~~~~al~~~e~~lk~---~P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~~~~  363 (398)
T PRK10747        291 K--RQYDERLV--LLIPRLKTNNPEQLEKVLRQQIKQ---HGDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQRPDAYD  363 (398)
T ss_pred             h--cCCCHHHH--HHHhhccCCChHHHHHHHHHHHhh---CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCHHH
Confidence            7  34444211  223334557888888888877754   34 4456777888888888888888888877 56788888


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHhccC
Q 005268          505 WGALLGACRIHGNMELGAVASDRLFEVD  532 (705)
Q Consensus       505 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~  532 (705)
                      +..|...+...|+.++|.+.+++.+.+.
T Consensus       364 ~~~La~~~~~~g~~~~A~~~~~~~l~~~  391 (398)
T PRK10747        364 YAWLADALDRLHKPEEAAAMRRDGLMLT  391 (398)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhhh
Confidence            8888888888888888888888887653

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

Probab=99.41  E-value=5.3e-09  Score=102.82  Aligned_cols=383  Identities=12%  Similarity=0.078  Sum_probs=267.0

Q ss_pred             CCCCChhhHHhHHHHhhcCCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHccCCHHHHHHHHhccCCCCeehHH-HHH
Q 005268          124 GVSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGMMRHALRVFDQMMERDVVSWN-SII  202 (705)
Q Consensus       124 g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~~~~~~~~-~li  202 (705)
                      +..-|.+-+-.......+.|....|...+...+..    -+..|.+-+...--.-+.+.+..+-...+..+...-. -+.
T Consensus       159 ~~~~D~fllYL~Gvv~k~~~~~s~A~~sfv~~v~~----~P~~W~AWleL~~lit~~e~~~~l~~~l~~~~h~M~~~F~~  234 (559)
T KOG1155|consen  159 GGEKDEFLLYLYGVVLKELGLLSLAIDSFVEVVNR----YPWFWSAWLELSELITDIEILSILVVGLPSDMHWMKKFFLK  234 (559)
T ss_pred             cccchhHHHHHHHHHHHhhchHHHHHHHHHHHHhc----CCcchHHHHHHHHhhchHHHHHHHHhcCcccchHHHHHHHH
Confidence            33445555444445556778888888888776654    2334444444444445566665555455443221111 234


Q ss_pred             HHHHcCCChhhHHHHHHHHHHCCCCCChhhHHHHHHHHHccCChhhHHHHHHHHHHhcCCC-chhHHHHHHHHHHHhcCC
Q 005268          203 AAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFM-EDVIIGNAVVDMYAKLGI  281 (705)
Q Consensus       203 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~-~~~~~~~~li~~y~~~g~  281 (705)
                      .+|-...+.+++++-.......|.+-+...-+....+.....+++.|..+|+.+.+...+. .|..+|+.++-.-..+.+
T Consensus       235 ~a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~sk  314 (559)
T KOG1155|consen  235 KAYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSK  314 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHH
Confidence            5666666888888888888888877666666666666778899999999999999986332 356677666533222222


Q ss_pred             HH-HHHHHHhcCCCCChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCc-ccccchhHHhhccCchHHHHHHHHHH
Q 005268          282 IN-SACAVFEGLPVKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQ-GTYVSILPAYSHVGALRQGIKIHARV  359 (705)
Q Consensus       282 ~~-~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~-~t~~~ll~a~~~~~~~~~a~~~~~~~  359 (705)
                      +. -|..+++ +..--+.|...+..-|.-.++.++|...|++..+   +.|.. ..|+.+..-|....+...|.+-+..+
T Consensus       315 Ls~LA~~v~~-idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALk---LNp~~~~aWTLmGHEyvEmKNt~AAi~sYRrA  390 (559)
T KOG1155|consen  315 LSYLAQNVSN-IDKYRPETCCIIANYYSLRSEHEKAVMYFKRALK---LNPKYLSAWTLMGHEYVEMKNTHAAIESYRRA  390 (559)
T ss_pred             HHHHHHHHHH-hccCCccceeeehhHHHHHHhHHHHHHHHHHHHh---cCcchhHHHHHhhHHHHHhcccHHHHHHHHHH
Confidence            21 2333332 2222345566667778888999999999999988   77754 45667777889999999999999999


Q ss_pred             HHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHH
Q 005268          360 IKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVP---RSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHIT  436 (705)
Q Consensus       360 ~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t  436 (705)
                      ++.. +.|-..|-.|.++|.-.+...-|+-.|++..   +.|...|.+|..+|.+.++.++|+..|.+....| ..+...
T Consensus       391 vdi~-p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~-dte~~~  468 (559)
T KOG1155|consen  391 VDIN-PRDYRAWYGLGQAYEIMKMHFYALYYFQKALELKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLG-DTEGSA  468 (559)
T ss_pred             HhcC-chhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcc-ccchHH
Confidence            9874 5688899999999999999999999999875   6788889999999999999999999999999876 446788


Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHhHHhh---C-CcC-CcchHHHHHHHHHhcCCHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 005268          437 FVSLLTACSHSGLVSEGQRYFHMMQEEF---G-IKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNMPVRPDASIWGALLGA  511 (705)
Q Consensus       437 ~~~ll~a~~~~g~~~~a~~~~~~m~~~~---~-~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~  511 (705)
                      +..|...+-+.++.++|.++|....+..   | +.| ......-|..-+-+.+++++|........             .
T Consensus       469 l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~~-------------~  535 (559)
T KOG1155|consen  469 LVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYYATLVL-------------K  535 (559)
T ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHHHHHHh-------------c
Confidence            9999999999999999999998877642   2 222 12223335566778888888876554431             0


Q ss_pred             HHhcCChhHHHHHHHHHhcc
Q 005268          512 CRIHGNMELGAVASDRLFEV  531 (705)
Q Consensus       512 ~~~~g~~~~a~~~~~~~~~~  531 (705)
                      .  ....++|..+++++...
T Consensus       536 ~--~~e~eeak~LlReir~~  553 (559)
T KOG1155|consen  536 G--ETECEEAKALLREIRKI  553 (559)
T ss_pred             C--CchHHHHHHHHHHHHHh
Confidence            0  22346677777666553

>TIGR00540 hemY_coli hemY protein

Probab=99.40  E-value=2.6e-10  Score=119.96  Aligned_cols=283  Identities=13%  Similarity=0.035  Sum_probs=141.9

Q ss_pred             HcCCChhhHHHHHHHHHHCCCCCChh-hHHHHHHHHHccCChhhHHHHHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHH
Q 005268          206 EQSNDPITAHGFFTTMQQAGIQPDLL-TLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINS  284 (705)
Q Consensus       206 ~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~  284 (705)
                      ...|+++.|.+.+.+..+.  .|++. .+.....+....|+.+.+.+.+....+.. ..+...+.......+...|+++.
T Consensus        95 ~~~g~~~~A~~~l~~~~~~--~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~-p~~~l~~~~~~a~l~l~~~~~~~  171 (409)
T TIGR00540        95 LAEGDYAKAEKLIAKNADH--AAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELA-GNDNILVEIARTRILLAQNELHA  171 (409)
T ss_pred             HhCCCHHHHHHHHHHHhhc--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CcCchHHHHHHHHHHHHCCCHHH
Confidence            3468888888888776553  34332 22333444555566666666666655442 11112233334555555555555


Q ss_pred             HHHHHhcCC---CCChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccccchhHHhhccCchHHHHHHHHHHHH
Q 005268          285 ACAVFEGLP---VKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIK  361 (705)
Q Consensus       285 A~~~f~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~  361 (705)
                      |...++.+.   +.+...+..+...+.+.|++++|.+++....+                                    
T Consensus       172 Al~~l~~l~~~~P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k------------------------------------  215 (409)
T TIGR00540       172 ARHGVDKLLEMAPRHKEVLKLAEEAYIRSGAWQALDDIIDNMAK------------------------------------  215 (409)
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHH------------------------------------
Confidence            555555443   22344455555555555555555555555554                                    


Q ss_pred             hCCCCchhH-------HHHHHHHHHhcCCHHHHHHHHhhCCC---CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCC
Q 005268          362 NCLCFDVFV-------ATCLVDMYGKCGRIDDAMSLFYQVPR---SSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVR  431 (705)
Q Consensus       362 ~g~~~~~~~-------~~~li~~y~k~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~  431 (705)
                      .+..+....       +..+++.-......+.....++..+.   .+...+..+...+...|+.++|.+++++..+.  .
T Consensus       216 ~~~~~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~--~  293 (409)
T TIGR00540       216 AGLFDDEEFADLEQKAEIGLLDEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKK--L  293 (409)
T ss_pred             cCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhh--C
Confidence            322111111       11111111112223444445555552   35666777777788888888888888888774  4


Q ss_pred             CCHHHH--HH-HHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHh--C-CCCCCHHHH
Q 005268          432 PDHITF--VS-LLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQN--M-PVRPDASIW  505 (705)
Q Consensus       432 p~~~t~--~~-ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~--~-~~~p~~~~~  505 (705)
                      ||....  .. ........++.+.+.+.++...+...-.|+.....++...+.+.|++++|.+.|+.  . ...||...+
T Consensus       294 pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~  373 (409)
T TIGR00540       294 GDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKNVDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDL  373 (409)
T ss_pred             CCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHhCCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHH
Confidence            444321  11 11122334555666666655554311111113344555555566666666666552  2 344555555


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHh
Q 005268          506 GALLGACRIHGNMELGAVASDRLF  529 (705)
Q Consensus       506 ~~ll~~~~~~g~~~~a~~~~~~~~  529 (705)
                      ..+...+.+.|+.++|.+++++.+
T Consensus       374 ~~La~ll~~~g~~~~A~~~~~~~l  397 (409)
T TIGR00540       374 AMAADAFDQAGDKAEAAAMRQDSL  397 (409)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHH
Confidence            555555556666666655555543

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.

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.39  E-value=1.2e-10  Score=121.78  Aligned_cols=285  Identities=10%  Similarity=-0.038  Sum_probs=190.1

Q ss_pred             CCChhHHHHHHHHHHHCCCCCChhhHHhHHHHhhcCCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHccCCHHHHHHH
Q 005268          107 SGNAVEALDILDEMRLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGMMRHALRV  186 (705)
Q Consensus       107 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~  186 (705)
                      .|++++|.+.+....+..-.| ...|.....+..+.|+++.|.+.+..+.+....+...........+...|+.+.|...
T Consensus        97 eGd~~~A~k~l~~~~~~~~~p-~l~~llaA~aA~~~g~~~~A~~~l~~A~~~~~~~~~~~~l~~a~l~l~~g~~~~Al~~  175 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHAEQP-VVNYLLAAEAAQQRGDEARANQHLERAAELADNDQLPVEITRVRIQLARNENHAARHG  175 (398)
T ss_pred             CCCHHHHHHHHHHHHhcccch-HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHCCCHHHHHHH
Confidence            688888888877765532111 2223333444468888888988888887753332223333446788888999999998


Q ss_pred             HhccCCC---CeehHHHHHHHHHcCCChhhHHHHHHHHHHCCCCCChhhHHHHHHHHHccCChhhHHHHHHHHHHhcCCC
Q 005268          187 FDQMMER---DVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFM  263 (705)
Q Consensus       187 f~~m~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~  263 (705)
                      ++.+.+.   +......+...|.+.|++++|.+++..+.+.+..++. .+..+-                          
T Consensus       176 l~~~~~~~P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~-~~~~l~--------------------------  228 (398)
T PRK10747        176 VDKLLEVAPRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEE-HRAMLE--------------------------  228 (398)
T ss_pred             HHHHHhcCCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHH-HHHHHH--------------------------
Confidence            8887652   4556777888889999999999999998877544221 111000                          


Q ss_pred             chhHHHHHHHHHHHhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccccchh
Q 005268          264 EDVIIGNAVVDMYAKLGIINSACAVFEGLPV---KDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSIL  340 (705)
Q Consensus       264 ~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll  340 (705)
                        ..++..++....+..+.+...++++.++.   .++.....+...+...|+.++|.+++.+..+   ..||...  .++
T Consensus       229 --~~a~~~l~~~~~~~~~~~~l~~~w~~lp~~~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~---~~~~~~l--~~l  301 (398)
T PRK10747        229 --QQAWIGLMDQAMADQGSEGLKRWWKNQSRKTRHQVALQVAMAEHLIECDDHDTAQQIILDGLK---RQYDERL--VLL  301 (398)
T ss_pred             --HHHHHHHHHHHHHhcCHHHHHHHHHhCCHHHhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh---cCCCHHH--HHH
Confidence              01112222223333445555666666552   3666777778888888888888888877765   3344311  123


Q ss_pred             HHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCC--CCCcchHHHHHHHHHhcCChHHH
Q 005268          341 PAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVP--RSSSVPWNAIISCHGIHGQGDKA  418 (705)
Q Consensus       341 ~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A  418 (705)
                      .+....++.+.+.+..+...+. .+.|.....++...+.+.|++++|.+.|+...  .|+...+..+...+.+.|+.++|
T Consensus       302 ~~~l~~~~~~~al~~~e~~lk~-~P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~~~~~~~La~~~~~~g~~~~A  380 (398)
T PRK10747        302 IPRLKTNNPEQLEKVLRQQIKQ-HGDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQRPDAYDYAWLADALDRLHKPEEA  380 (398)
T ss_pred             HhhccCCChHHHHHHHHHHHhh-CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCHHHH
Confidence            3333457788888888777765 34566778888888889999999999998876  56666677888888899999999


Q ss_pred             HHHHHHHHH
Q 005268          419 LNFFRQMLD  427 (705)
Q Consensus       419 ~~~~~~m~~  427 (705)
                      .+++++-..
T Consensus       381 ~~~~~~~l~  389 (398)
T PRK10747        381 AAMRRDGLM  389 (398)
T ss_pred             HHHHHHHHh
Confidence            999887765

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

Probab=99.39  E-value=1.5e-12  Score=130.04  Aligned_cols=214  Identities=14%  Similarity=0.127  Sum_probs=85.6

Q ss_pred             cCChhhHHHHHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCC--CCChhHHHHHHHHHHHcCChhHHHHHH
Q 005268          243 LNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLP--VKDVISWNTLITGYAQNGLASEAIEVF  320 (705)
Q Consensus       243 ~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~  320 (705)
                      .++.+.+...++.+...+  +.++..+..++.. ...+++++|.+++...-  .++...+..++..+.+.++++++.+++
T Consensus        57 ~~~~~~A~~ay~~l~~~~--~~~~~~~~~l~~l-~~~~~~~~A~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~l  133 (280)
T PF13429_consen   57 LGDYDEAIEAYEKLLASD--KANPQDYERLIQL-LQDGDPEEALKLAEKAYERDGDPRYLLSALQLYYRLGDYDEAEELL  133 (280)
T ss_dssp             ----------------------------------------------------------------H-HHHTT-HHHHHHHH
T ss_pred             cccccccccccccccccc--ccccccccccccc-cccccccccccccccccccccccchhhHHHHHHHHHhHHHHHHHHH
Confidence            444444444444444433  2244445555555 56677777776665542  235556666777777777777777777


Q ss_pred             HhhhhcCCCCCCcccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCC---CC
Q 005268          321 QMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVP---RS  397 (705)
Q Consensus       321 ~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~---~~  397 (705)
                      +.........++...|......+.+.|+.++|...++.+++.. +.|..+.+.++..+...|+.+++.+++....   +.
T Consensus       134 ~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~  212 (280)
T PF13429_consen  134 EKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKALELD-PDDPDARNALAWLLIDMGDYDEAREALKRLLKAAPD  212 (280)
T ss_dssp             HHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH--TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HT
T ss_pred             HHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcC
Confidence            7766522233455555566666677777777777777777653 2346666777777777777777665555443   44


Q ss_pred             CcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhH
Q 005268          398 SSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQ  461 (705)
Q Consensus       398 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~  461 (705)
                      |...|..+..+|...|++++|+..|++..... +.|..+...+..++...|+.++|.++.....
T Consensus       213 ~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~-p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~  275 (280)
T PF13429_consen  213 DPDLWDALAAAYLQLGRYEEALEYLEKALKLN-PDDPLWLLAYADALEQAGRKDEALRLRRQAL  275 (280)
T ss_dssp             SCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHT----------------
T ss_pred             HHHHHHHHHHHhcccccccccccccccccccc-ccccccccccccccccccccccccccccccc
Confidence            55667777777777777777777777777632 3345566666677777777777777665543

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

Probab=99.38  E-value=2.8e-09  Score=107.42  Aligned_cols=263  Identities=10%  Similarity=0.020  Sum_probs=206.2

Q ss_pred             ChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHH
Q 005268          296 DVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLV  375 (705)
Q Consensus       296 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li  375 (705)
                      ++...-.-..-+...+++.+..++++...+.  .++....+..-|..+...|+-..-..+-..+++. .+....+|-++.
T Consensus       243 ~~dll~~~ad~~y~~c~f~~c~kit~~lle~--dpfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~-yP~~a~sW~aVg  319 (611)
T KOG1173|consen  243 NLDLLAEKADRLYYGCRFKECLKITEELLEK--DPFHLPCLPLHIACLYELGKSNKLFLLSHKLVDL-YPSKALSWFAVG  319 (611)
T ss_pred             cHHHHHHHHHHHHHcChHHHHHHHhHHHHhh--CCCCcchHHHHHHHHHHhcccchHHHHHHHHHHh-CCCCCcchhhHH
Confidence            3344444556677889999999999998872  2234444444555667777766666665666665 566788899999


Q ss_pred             HHHHhcCCHHHHHHHHhhCCCCCc---chHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHH
Q 005268          376 DMYGKCGRIDDAMSLFYQVPRSSS---VPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSE  452 (705)
Q Consensus       376 ~~y~k~g~~~~A~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~  452 (705)
                      -.|.-.|+..+|++.|.+...-|.   ..|-.....|+-.|..++|+..+...-+. ++-....+..+.--|.+.+..+-
T Consensus       320 ~YYl~i~k~seARry~SKat~lD~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl-~~G~hlP~LYlgmey~~t~n~kL  398 (611)
T KOG1173|consen  320 CYYLMIGKYSEARRYFSKATTLDPTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARL-MPGCHLPSLYLGMEYMRTNNLKL  398 (611)
T ss_pred             HHHHHhcCcHHHHHHHHHHhhcCccccHHHHHHhHHhhhcchHHHHHHHHHHHHHh-ccCCcchHHHHHHHHHHhccHHH
Confidence            999999999999999998774433   34999999999999999999999888773 22223334445556888999999


Q ss_pred             HHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhCC--------CCC-CHHHHHHHHHHHHhcCChhHHH
Q 005268          453 GQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNMP--------VRP-DASIWGALLGACRIHGNMELGA  522 (705)
Q Consensus       453 a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~--------~~p-~~~~~~~ll~~~~~~g~~~~a~  522 (705)
                      |.++|.+..   ++.| |+..++-+.-+.-..+.+.+|...|+...        ..+ -..+|+.|..+|++.+.+++|+
T Consensus       399 Ae~Ff~~A~---ai~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI  475 (611)
T KOG1173|consen  399 AEKFFKQAL---AIAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAI  475 (611)
T ss_pred             HHHHHHHHH---hcCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHH
Confidence            999998776   6777 56777777777778899999999987762        111 2456889999999999999999


Q ss_pred             HHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhC
Q 005268          523 VASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       523 ~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      ..+++++.+.|.++.+|..++-+|...|+++.|...+.+....
T Consensus       476 ~~~q~aL~l~~k~~~~~asig~iy~llgnld~Aid~fhKaL~l  518 (611)
T KOG1173|consen  476 DYYQKALLLSPKDASTHASIGYIYHLLGNLDKAIDHFHKALAL  518 (611)
T ss_pred             HHHHHHHHcCCCchhHHHHHHHHHHHhcChHHHHHHHHHHHhc
Confidence            9999999999999999999999999999999999999886643

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

Probab=99.36  E-value=2.2e-10  Score=111.55  Aligned_cols=428  Identities=12%  Similarity=0.089  Sum_probs=279.0

Q ss_pred             hHHhHH---HHhhcCCChHHHHHHHHHHHHhCCCCchhHH-HHHHHHHHccCCHHHHHHHHhccCC--CC------eehH
Q 005268          131 TVASIL---PVCARSDNILSGLLIHLYIVKHGLEFNLFVS-NNLINMYAKFGMMRHALRVFDQMME--RD------VVSW  198 (705)
Q Consensus       131 t~~~ll---~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~-~~Li~~y~~~g~~~~A~~~f~~m~~--~~------~~~~  198 (705)
                      ||+.|.   .-|.......+|...++.+++...-|+.-.. -.+-+.|.+...+.+|++.++....  |+      +...
T Consensus       200 tfsvl~nlaqqy~~ndm~~ealntyeiivknkmf~nag~lkmnigni~~kkr~fskaikfyrmaldqvpsink~~rikil  279 (840)
T KOG2003|consen  200 TFSVLFNLAQQYEANDMTAEALNTYEIIVKNKMFPNAGILKMNIGNIHFKKREFSKAIKFYRMALDQVPSINKDMRIKIL  279 (840)
T ss_pred             hHHHHHHHHHHhhhhHHHHHHhhhhhhhhcccccCCCceeeeeecceeeehhhHHHHHHHHHHHHhhccccchhhHHHHH
Confidence            555444   3455566678888999988888766665432 2345678888899999998865433  22      1234


Q ss_pred             HHHHHHHHcCCChhhHHHHHHHHHHCCCCCChhhHHHHHHHHHccCChhhHHHHHHHHHHhcCC-----------CchhH
Q 005268          199 NSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWF-----------MEDVI  267 (705)
Q Consensus       199 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~-----------~~~~~  267 (705)
                      |.+--.+.+.|+++.|+..|+...+.  .|+..+-..++-.+...|+-+..++.|..++...+.           .|+..
T Consensus       280 ~nigvtfiq~gqy~dainsfdh~m~~--~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~~~  357 (840)
T KOG2003|consen  280 NNIGVTFIQAGQYDDAINSFDHCMEE--APNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPDDN  357 (840)
T ss_pred             hhcCeeEEecccchhhHhhHHHHHHh--CccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcchH
Confidence            45555688999999999999988764  588777666666777788999999888888764311           12222


Q ss_pred             HHHHHH-----HHHHhcC--CHHHHH----HHHhcCCCCChh---HHH------------------HHHHHHHHcCChhH
Q 005268          268 IGNAVV-----DMYAKLG--IINSAC----AVFEGLPVKDVI---SWN------------------TLITGYAQNGLASE  315 (705)
Q Consensus       268 ~~~~li-----~~y~~~g--~~~~A~----~~f~~~~~~~~~---~~~------------------~li~~~~~~g~~~~  315 (705)
                      ..|.-+     .-..+..  +-++++    ++..-+..+|-.   -|.                  .-..-|.++|+++.
T Consensus       358 ll~eai~nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~la~dlei~ka~~~lk~~d~~~  437 (840)
T KOG2003|consen  358 LLNEAIKNDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLKASQHAELAIDLEINKAGELLKNGDIEG  437 (840)
T ss_pred             HHHHHHhhHHHHHHHHhhhhhHHHHHHHHHHHhccccccchhcccHHHHHHHHHhhhhhhhhhhhhhHHHHHHhccCHHH
Confidence            222211     1111111  112221    222222222210   011                  01234788999999


Q ss_pred             HHHHHHhhhhcCCCCCCccccc--chhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhh
Q 005268          316 AIEVFQMMEECNEINPNQGTYV--SILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQ  393 (705)
Q Consensus       316 A~~~~~~m~~~~~~~p~~~t~~--~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~  393 (705)
                      |+++++-..+ ..-+.-+..-+  +++.....-.++..|.++-+.++... .-+....+.-.+.-...|++++|.+.+++
T Consensus       438 aieilkv~~~-kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~d-ryn~~a~~nkgn~~f~ngd~dka~~~yke  515 (840)
T KOG2003|consen  438 AIEILKVFEK-KDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNID-RYNAAALTNKGNIAFANGDLDKAAEFYKE  515 (840)
T ss_pred             HHHHHHHHHh-ccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc-ccCHHHhhcCCceeeecCcHHHHHHHHHH
Confidence            9999988876 32222222222  22222223345666666666554432 11222222122223347999999999999


Q ss_pred             CCCCCcchHHHHH---HHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCc
Q 005268          394 VPRSSSVPWNAII---SCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHL  470 (705)
Q Consensus       394 ~~~~~~~~~~~li---~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~  470 (705)
                      ....|...-.+|.   -.+...|+.++|++.|-++..- +..+......+.+.|....+..+|++++-....  -++.|+
T Consensus       516 al~ndasc~ealfniglt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~~~q~~s--lip~dp  592 (840)
T KOG2003|consen  516 ALNNDASCTEALFNIGLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIELLMQANS--LIPNDP  592 (840)
T ss_pred             HHcCchHHHHHHHHhcccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhcc--cCCCCH
Confidence            9988776644433   3467789999999999988763 344566777888899999999999999866542  344478


Q ss_pred             chHHHHHHHHHhcCCHHHHHHHHHh-CC-CCCCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhh
Q 005268          471 KHYGCMVDLFGRAGHLGMAHNFIQN-MP-VRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYAN  548 (705)
Q Consensus       471 ~~~~~li~~~~~~g~~~~A~~~~~~-~~-~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  548 (705)
                      .+.+-|.++|-+.|+-.+|.+..-. .. ++-+..+..-|..-|....-++.++..|+++--+.|+.......++..+.+
T Consensus       593 ~ilskl~dlydqegdksqafq~~ydsyryfp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp~~~kwqlmiasc~rr  672 (840)
T KOG2003|consen  593 AILSKLADLYDQEGDKSQAFQCHYDSYRYFPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQPNQSKWQLMIASCFRR  672 (840)
T ss_pred             HHHHHHHHHhhcccchhhhhhhhhhcccccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCccHHHHHHHHHHHHHh
Confidence            8999999999999999999887543 33 333555555566666677778999999999999999766655667777888


Q ss_pred             cCCcchHHHHHHHHHhC
Q 005268          549 VGKWEGVDEVRSLARDR  565 (705)
Q Consensus       549 ~g~~~~a~~~~~~m~~~  565 (705)
                      .|++..|..+++....+
T Consensus       673 sgnyqka~d~yk~~hrk  689 (840)
T KOG2003|consen  673 SGNYQKAFDLYKDIHRK  689 (840)
T ss_pred             cccHHHHHHHHHHHHHh
Confidence            99999999999887654

>TIGR00540 hemY_coli hemY protein

Probab=99.33  E-value=5e-10  Score=117.78  Aligned_cols=295  Identities=11%  Similarity=0.028  Sum_probs=199.8

Q ss_pred             HHHHHHH--HhCCChhHHHHHHHHHHHCCCCCChhh-HHhHHHHhhcCCChHHHHHHHHHHHHhCCCCchhHHHHHHHHH
Q 005268           98 NAMISGY--CQSGNAVEALDILDEMRLEGVSMDPIT-VASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMY  174 (705)
Q Consensus        98 ~~li~~~--~~~g~~~~A~~~~~~m~~~g~~p~~~t-~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y  174 (705)
                      ..+..+.  ...|+++.|.+.+.+..+.  .|+... +-....+....|+.+.|.+.+..+.+....+...+.-.....+
T Consensus        86 ~~~~~glla~~~g~~~~A~~~l~~~~~~--~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~  163 (409)
T TIGR00540        86 KQTEEALLKLAEGDYAKAEKLIAKNADH--AAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRIL  163 (409)
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHhhc--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHH
Confidence            3344444  4578999999999887664  455433 3444556677899999999999887765444444555567888


Q ss_pred             HccCCHHHHHHHHhccCC--C-CeehHHHHHHHHHcCCChhhHHHHHHHHHHCCCCCChhhHHHHHHHHHccCChhhHHH
Q 005268          175 AKFGMMRHALRVFDQMME--R-DVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQLNDCRNSRS  251 (705)
Q Consensus       175 ~~~g~~~~A~~~f~~m~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~  251 (705)
                      ...|+++.|...++.+.+  | +...+..+...|.+.|++++|.+.+..+.+.++.+.. .+..+-.             
T Consensus       164 l~~~~~~~Al~~l~~l~~~~P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~-~~~~l~~-------------  229 (409)
T TIGR00540       164 LAQNELHAARHGVDKLLEMAPRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDE-EFADLEQ-------------  229 (409)
T ss_pred             HHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHH-HHHHHHH-------------
Confidence            889999999999988865  3 5556778888899999999999999999887643222 1111000             


Q ss_pred             HHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCC
Q 005268          252 VHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPV---KDVISWNTLITGYAQNGLASEAIEVFQMMEECNE  328 (705)
Q Consensus       252 i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~  328 (705)
                                     ..+..++..-......+...+.++..+.   ++...+..+...+...|+.++|.+++++..+   
T Consensus       230 ---------------~a~~~~l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~---  291 (409)
T TIGR00540       230 ---------------KAEIGLLDEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLK---  291 (409)
T ss_pred             ---------------HHHHHHHHHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHh---
Confidence                           0111111111122234445555555553   3677788888888888888888888888877   


Q ss_pred             CCCCccccc-chhHHh--hccCchHHHHHHHHHHHHhCCCCch--hHHHHHHHHHHhcCCHHHHHHHHhh--CC--CCCc
Q 005268          329 INPNQGTYV-SILPAY--SHVGALRQGIKIHARVIKNCLCFDV--FVATCLVDMYGKCGRIDDAMSLFYQ--VP--RSSS  399 (705)
Q Consensus       329 ~~p~~~t~~-~ll~a~--~~~~~~~~a~~~~~~~~~~g~~~~~--~~~~~li~~y~k~g~~~~A~~~~~~--~~--~~~~  399 (705)
                      ..||..... .++..+  ...++.+.+.+.++...+.. +.|.  ....++...+.+.|++++|.+.|+.  ..  .|+.
T Consensus       292 ~~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~-p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~  370 (409)
T TIGR00540       292 KLGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKNV-DDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDA  370 (409)
T ss_pred             hCCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCH
Confidence            556554311 122222  33467777888887777652 3344  6677888899999999999999993  42  5777


Q ss_pred             chHHHHHHHHHhcCChHHHHHHHHHHHH
Q 005268          400 VPWNAIISCHGIHGQGDKALNFFRQMLD  427 (705)
Q Consensus       400 ~~~~~li~~~~~~g~~~~A~~~~~~m~~  427 (705)
                      ..+..+...+.+.|+.++|.+++++...
T Consensus       371 ~~~~~La~ll~~~g~~~~A~~~~~~~l~  398 (409)
T TIGR00540       371 NDLAMAADAFDQAGDKAEAAAMRQDSLG  398 (409)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            7788899999999999999999988654

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=99.28  E-value=4.6e-10  Score=108.89  Aligned_cols=198  Identities=13%  Similarity=0.058  Sum_probs=160.9

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 005268          367 DVFVATCLVDMYGKCGRIDDAMSLFYQVP---RSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTA  443 (705)
Q Consensus       367 ~~~~~~~li~~y~k~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a  443 (705)
                      ....+..+...|.+.|++++|...|++..   +.+...+..+...|...|++++|.+.+++..+.. +.+...+..+...
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            34566777888889999999999988765   3345568888889999999999999999998853 3345677777888


Q ss_pred             HhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHH
Q 005268          444 CSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELG  521 (705)
Q Consensus       444 ~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a  521 (705)
                      +...|++++|.+.++...+..........+..+...+.+.|++++|...+++. ...| +...|..+...+...|++++|
T Consensus       109 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A  188 (234)
T TIGR02521       109 LCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQRPESLLELAELYYLRGQYKDA  188 (234)
T ss_pred             HHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCChHHHHHHHHHHHHcCCHHHH
Confidence            99999999999999988764222223456777888999999999999999887 3334 466788899999999999999


Q ss_pred             HHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhC
Q 005268          522 AVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       522 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      ...++++++..|+++..+..++.++...|++++|..+.+.+...
T Consensus       189 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  232 (234)
T TIGR02521       189 RAYLERYQQTYNQTAESLWLGIRIARALGDVAAAQRYGAQLQKL  232 (234)
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhh
Confidence            99999999988888888888999999999999999988877543

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.

>PF13041 PPR_2: PPR repeat family

Probab=99.28  E-value=7.9e-12  Score=87.33  Aligned_cols=50  Identities=32%  Similarity=0.594  Sum_probs=47.8

Q ss_pred             CCcchHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHhHHHHhhc
Q 005268           92 RDSGSWNAMISGYCQSGNAVEALDILDEMRLEGVSMDPITVASILPVCAR  141 (705)
Q Consensus        92 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~  141 (705)
                      ||+++||++|.+|++.|++++|+++|++|.+.|++||..||+.++++|++
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            78999999999999999999999999999999999999999999999874

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.27  E-value=1.8e-09  Score=112.32  Aligned_cols=171  Identities=13%  Similarity=0.179  Sum_probs=129.1

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-H-HHHHHHHHHHh
Q 005268          368 VFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPD-H-ITFVSLLTACS  445 (705)
Q Consensus       368 ~~~~~~li~~y~k~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~-~t~~~ll~a~~  445 (705)
                      ..+++.|..+|.+.|++++|...+                        +.|++++++  ..|..+. . .-++.+...|.
T Consensus       283 a~~l~nLa~ly~~~GKf~EA~~~~------------------------e~Al~I~~~--~~~~~~~~v~~~l~~~~~~~~  336 (508)
T KOG1840|consen  283 AATLNNLAVLYYKQGKFAEAEEYC------------------------ERALEIYEK--LLGASHPEVAAQLSELAAILQ  336 (508)
T ss_pred             HHHHHHHHHHHhccCChHHHHHHH------------------------HHHHHHHHH--hhccChHHHHHHHHHHHHHHH
Confidence            345667777899999999998875                        567777777  2223332 2 24666677788


Q ss_pred             ccCcHHHHHHHHHHhHHhhC--CcCC----cchHHHHHHHHHhcCCHHHHHHHHHhCC---------CCCC-HHHHHHHH
Q 005268          446 HSGLVSEGQRYFHMMQEEFG--IKPH----LKHYGCMVDLFGRAGHLGMAHNFIQNMP---------VRPD-ASIWGALL  509 (705)
Q Consensus       446 ~~g~~~~a~~~~~~m~~~~~--~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~~~---------~~p~-~~~~~~ll  509 (705)
                      ..+.+++|..+++...+.+.  +.++    ..+++.|...|-..|+++||.++++++-         ..+. ...++.|.
T Consensus       337 ~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la  416 (508)
T KOG1840|consen  337 SMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLA  416 (508)
T ss_pred             HhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHH
Confidence            89999999998887766544  2222    3578999999999999999999998771         1222 45677889


Q ss_pred             HHHHhcCChhHHHHHHHHHhcc----CCCC---cchhhhhhhhhhhcCCcchHHHHHHHHHh
Q 005268          510 GACRIHGNMELGAVASDRLFEV----DSEN---VGYYVLMSNIYANVGKWEGVDEVRSLARD  564 (705)
Q Consensus       510 ~~~~~~g~~~~a~~~~~~~~~~----~p~~---~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  564 (705)
                      .+|.+.++.++|.++|++...+    .|+.   ..+|..|+.+|...|++++|.++.+....
T Consensus       417 ~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~~  478 (508)
T KOG1840|consen  417 EAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVLN  478 (508)
T ss_pred             HHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence            9999999999999999887653    4544   45577899999999999999999888763

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

Probab=99.27  E-value=4.3e-09  Score=98.85  Aligned_cols=286  Identities=14%  Similarity=0.136  Sum_probs=176.8

Q ss_pred             CCChhhHHHHHHHHHHCCCCCC-hhhHHHHHHHHHccCChhhHHHHHHHHHHhcCCCch--hHHHHHHHHHHHhcCCHHH
Q 005268          208 SNDPITAHGFFTTMQQAGIQPD-LLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMED--VIIGNAVVDMYAKLGIINS  284 (705)
Q Consensus       208 ~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~--~~~~~~li~~y~~~g~~~~  284 (705)
                      +.++++|.++|-+|.+.  .|. ..+-.++-+.+.+.|..+.|..+|..+.++..++.+  ......|..-|...|-+|.
T Consensus        48 s~Q~dKAvdlF~e~l~~--d~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DR  125 (389)
T COG2956          48 SNQPDKAVDLFLEMLQE--DPETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDR  125 (389)
T ss_pred             hcCcchHHHHHHHHHhc--CchhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhH
Confidence            46778888888888763  222 223445667777888888888888887776433333  3455678888999999999


Q ss_pred             HHHHHhcCCCCC---hhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccccchhHHhhccCchHHHHHHHHHHHH
Q 005268          285 ACAVFEGLPVKD---VISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIK  361 (705)
Q Consensus       285 A~~~f~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~  361 (705)
                      |+.+|..+.+.+   ..+...|+..|-...+|++|++.-++..+ .+-++..+    -|                     
T Consensus       126 AE~~f~~L~de~efa~~AlqqLl~IYQ~treW~KAId~A~~L~k-~~~q~~~~----eI---------------------  179 (389)
T COG2956         126 AEDIFNQLVDEGEFAEGALQQLLNIYQATREWEKAIDVAERLVK-LGGQTYRV----EI---------------------  179 (389)
T ss_pred             HHHHHHHHhcchhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHH-cCCccchh----HH---------------------
Confidence            999999887643   34566788899999999999999888877 33222211    11                     


Q ss_pred             hCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCcch---HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHH
Q 005268          362 NCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVP---WNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFV  438 (705)
Q Consensus       362 ~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~~~~~~~---~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~  438 (705)
                            ...|.-|...+....+++.|..++.+..+.|..+   --.+...+...|++++|++.++...+.+..--+.+..
T Consensus       180 ------AqfyCELAq~~~~~~~~d~A~~~l~kAlqa~~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~  253 (389)
T COG2956         180 ------AQFYCELAQQALASSDVDRARELLKKALQADKKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLE  253 (389)
T ss_pred             ------HHHHHHHHHHHhhhhhHHHHHHHHHHHHhhCccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHH
Confidence                  1122233344444455666666666555333222   2233455666777777777777777753222234566


Q ss_pred             HHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHH-HhCCCCCCHHHHHHHHHHHHhc--
Q 005268          439 SLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFI-QNMPVRPDASIWGALLGACRIH--  515 (705)
Q Consensus       439 ~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~-~~~~~~p~~~~~~~ll~~~~~~--  515 (705)
                      .|..+|.+.|+.+++..++..+.+.   .+....-..|.+......-.+.|...+ +...-+|+...+.-|+..-...  
T Consensus       254 ~L~~~Y~~lg~~~~~~~fL~~~~~~---~~g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r~Pt~~gf~rl~~~~l~dae  330 (389)
T COG2956         254 MLYECYAQLGKPAEGLNFLRRAMET---NTGADAELMLADLIELQEGIDAAQAYLTRQLRRKPTMRGFHRLMDYHLADAE  330 (389)
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHc---cCCccHHHHHHHHHHHhhChHHHHHHHHHHHhhCCcHHHHHHHHHhhhcccc
Confidence            6777788888888888777777643   444444455555544444445554443 4455678877777777654433  


Q ss_pred             -CChhHHHHHHHHHhc
Q 005268          516 -GNMELGAVASDRLFE  530 (705)
Q Consensus       516 -g~~~~a~~~~~~~~~  530 (705)
                       |...+....++.++.
T Consensus       331 eg~~k~sL~~lr~mvg  346 (389)
T COG2956         331 EGRAKESLDLLRDMVG  346 (389)
T ss_pred             ccchhhhHHHHHHHHH
Confidence             233444445555543

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.26  E-value=3.3e-08  Score=95.88  Aligned_cols=304  Identities=8%  Similarity=-0.009  Sum_probs=219.9

Q ss_pred             CCChhhHHHHHHHHHc--cCChhhHHHHHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHH-
Q 005268          227 QPDLLTLVSLTSIVAQ--LNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDVISWNTL-  303 (705)
Q Consensus       227 ~p~~~t~~~ll~a~~~--~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~l-  303 (705)
                      .|...+....+.+++.  .++-..+.+.+-.+.+...++.|+....++.+.|...|+.++|...|++...-|+.+...| 
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            4444455555555543  3444455555555655555889999999999999999999999999998775555443333 


Q ss_pred             --HHHHHHcCChhHHHHHHHhhhhcCCCCCCcccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhc
Q 005268          304 --ITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKC  381 (705)
Q Consensus       304 --i~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~  381 (705)
                        ...+.+.|+.+....+...+.. . .+-....|..-+.......+++.|..+-+..++.. +.+...+-.-...+...
T Consensus       271 ~Ya~LL~~eg~~e~~~~L~~~Lf~-~-~~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~-~r~~~alilKG~lL~~~  347 (564)
T KOG1174|consen  271 LYAVLLGQEGGCEQDSALMDYLFA-K-VKYTASHWFVHAQLLYDEKKFERALNFVEKCIDSE-PRNHEALILKGRLLIAL  347 (564)
T ss_pred             HHHHHHHhccCHhhHHHHHHHHHh-h-hhcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccC-cccchHHHhccHHHHhc
Confidence              3345677888888888777765 1 11222333333344456678888888888777653 22344444444667778


Q ss_pred             CCHHHHHHHHhhCC---CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHH-HHHh-ccCcHHHHHHH
Q 005268          382 GRIDDAMSLFYQVP---RSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLL-TACS-HSGLVSEGQRY  456 (705)
Q Consensus       382 g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll-~a~~-~~g~~~~a~~~  456 (705)
                      |+.++|.-.|+...   +.+..+|..|+.+|...|...+|..+-+..... ++.+..+...+. ..|. ....-++|..+
T Consensus       348 ~R~~~A~IaFR~Aq~Lap~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf  426 (564)
T KOG1174|consen  348 ERHTQAVIAFRTAQMLAPYRLEIYRGLFHSYLAQKRFKEANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKF  426 (564)
T ss_pred             cchHHHHHHHHHHHhcchhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHH
Confidence            99999999998765   467888999999999999999999988877764 444556665552 3333 33345788888


Q ss_pred             HHHhHHhhCCcCCc-chHHHHHHHHHhcCCHHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCC
Q 005268          457 FHMMQEEFGIKPHL-KHYGCMVDLFGRAGHLGMAHNFIQNM-PVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSE  534 (705)
Q Consensus       457 ~~~m~~~~~~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~  534 (705)
                      ++.-.   .+.|+- ...+.+..++.+.|+.++++.++++. ...||.+.-+.|....+..+.+++|...|..++.++|+
T Consensus       427 ~ek~L---~~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~dP~  503 (564)
T KOG1174|consen  427 AEKSL---KINPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLIIFPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQDPK  503 (564)
T ss_pred             HHhhh---ccCCccHHHHHHHHHHHHhhCccchHHHHHHHHHhhccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCcc
Confidence            87655   456753 45667788899999999999999887 56789999999999999999999999999999999998


Q ss_pred             Ccc
Q 005268          535 NVG  537 (705)
Q Consensus       535 ~~~  537 (705)
                      |..
T Consensus       504 ~~~  506 (564)
T KOG1174|consen  504 SKR  506 (564)
T ss_pred             chH
Confidence            743

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

Probab=99.25  E-value=3.5e-09  Score=99.47  Aligned_cols=216  Identities=15%  Similarity=0.145  Sum_probs=154.4

Q ss_pred             CCChhHHHHHHHHHHHCCCCCChhhHHhHHHHhhcCCChHHHHHHHHHHHHhCCCC---chhHHHHHHHHHHccCCHHHH
Q 005268          107 SGNAVEALDILDEMRLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLEF---NLFVSNNLINMYAKFGMMRHA  183 (705)
Q Consensus       107 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~---~~~~~~~Li~~y~~~g~~~~A  183 (705)
                      +.+.++|.++|-+|.+.. +-+..+-.+|.+.+.+.|..+.|..+|..++++.--+   -..+.-.|..-|...|-+|.|
T Consensus        48 s~Q~dKAvdlF~e~l~~d-~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRA  126 (389)
T COG2956          48 SNQPDKAVDLFLEMLQED-PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRA  126 (389)
T ss_pred             hcCcchHHHHHHHHHhcC-chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHH
Confidence            468899999999998742 2234456677888899999999999999988753111   123345567778899999999


Q ss_pred             HHHHhccCCCCee---hHHHHHHHHHcCCChhhHHHHHHHHHHCCCCCChhh----HHHHHHHHHccCChhhHHHHHHHH
Q 005268          184 LRVFDQMMERDVV---SWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLT----LVSLTSIVAQLNDCRNSRSVHGFI  256 (705)
Q Consensus       184 ~~~f~~m~~~~~~---~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t----~~~ll~a~~~~~~~~~a~~i~~~~  256 (705)
                      +.+|..+.+....   ....|+..|-+..+|++|++.-+++...+-++..+-    |.-+........+.+.|...+...
T Consensus       127 E~~f~~L~de~efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kA  206 (389)
T COG2956         127 EDIFNQLVDEGEFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKKA  206 (389)
T ss_pred             HHHHHHHhcchhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHH
Confidence            9999998774433   456689999999999999999999988776655442    333444445556677777777777


Q ss_pred             HHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCCCCCh----hHHHHHHHHHHHcCChhHHHHHHHhhhh
Q 005268          257 MRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDV----ISWNTLITGYAQNGLASEAIEVFQMMEE  325 (705)
Q Consensus       257 ~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~----~~~~~li~~~~~~g~~~~A~~~~~~m~~  325 (705)
                      .+..  +..+...-.+.+.+...|+++.|.+.++.+.+.|.    .+...|..+|.+.|+.++....+.++.+
T Consensus       207 lqa~--~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~  277 (389)
T COG2956         207 LQAD--KKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAME  277 (389)
T ss_pred             HhhC--ccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            6664  55555666666777777777777777777665554    2355566677777777777777776665

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

Probab=99.25  E-value=1.2e-08  Score=102.92  Aligned_cols=276  Identities=13%  Similarity=0.103  Sum_probs=213.8

Q ss_pred             CCchhHHHHHHHHHHHhcCCHHHHHHHHhcCCCCC---hhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCC-Cccccc
Q 005268          262 FMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKD---VISWNTLITGYAQNGLASEAIEVFQMMEECNEINP-NQGTYV  337 (705)
Q Consensus       262 ~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p-~~~t~~  337 (705)
                      ...++.+.....+-+-..+++.+..++++.+.+.|   ...+..-|..+...|+..+-..+=.++.+   .-| ...+|-
T Consensus       240 l~~~~dll~~~ad~~y~~c~f~~c~kit~~lle~dpfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~---~yP~~a~sW~  316 (611)
T KOG1173|consen  240 LAENLDLLAEKADRLYYGCRFKECLKITEELLEKDPFHLPCLPLHIACLYELGKSNKLFLLSHKLVD---LYPSKALSWF  316 (611)
T ss_pred             hhhcHHHHHHHHHHHHHcChHHHHHHHhHHHHhhCCCCcchHHHHHHHHHHhcccchHHHHHHHHHH---hCCCCCcchh
Confidence            45566777777888888899999999998877554   45566667888889998888888888887   556 567888


Q ss_pred             chhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCcchHHHHHHHHHhcCC
Q 005268          338 SILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVP---RSSSVPWNAIISCHGIHGQ  414 (705)
Q Consensus       338 ~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~  414 (705)
                      ++.--|...|+.++|++.+....... +.-...|-.+...|+-.|.-+.|...+....   +..--++--+..-|.+.+.
T Consensus       317 aVg~YYl~i~k~seARry~SKat~lD-~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~~G~hlP~LYlgmey~~t~n  395 (611)
T KOG1173|consen  317 AVGCYYLMIGKYSEARRYFSKATTLD-PTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARLMPGCHLPSLYLGMEYMRTNN  395 (611)
T ss_pred             hHHHHHHHhcCcHHHHHHHHHHhhcC-ccccHHHHHHhHHhhhcchHHHHHHHHHHHHHhccCCcchHHHHHHHHHHhcc
Confidence            88888888899999999998876542 1224567778888988999999988776543   3333445555667888899


Q ss_pred             hHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHhHHhh-CCcC----CcchHHHHHHHHHhcCCHHH
Q 005268          415 GDKALNFFRQMLDEGVRPDH-ITFVSLLTACSHSGLVSEGQRYFHMMQEEF-GIKP----HLKHYGCMVDLFGRAGHLGM  488 (705)
Q Consensus       415 ~~~A~~~~~~m~~~g~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~-~~~p----~~~~~~~li~~~~~~g~~~~  488 (705)
                      .+-|.+.|.+...  +.|+. ...+-+.-...+.+.+.+|..+|+.....- .+.+    ...+++.|..+|.+++++++
T Consensus       396 ~kLAe~Ff~~A~a--i~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~e  473 (611)
T KOG1173|consen  396 LKLAEKFFKQALA--IAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEE  473 (611)
T ss_pred             HHHHHHHHHHHHh--cCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHH
Confidence            9999999999887  66754 566666666667889999999998876321 1111    23468889999999999999


Q ss_pred             HHHHHHhC-C-CCCCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhh
Q 005268          489 AHNFIQNM-P-VRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMS  543 (705)
Q Consensus       489 A~~~~~~~-~-~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~  543 (705)
                      |+..+++. . .+.|..++.++.-.|...|+++.|...|.+++.+.|+|..+-..|.
T Consensus       474 AI~~~q~aL~l~~k~~~~~asig~iy~llgnld~Aid~fhKaL~l~p~n~~~~~lL~  530 (611)
T KOG1173|consen  474 AIDYYQKALLLSPKDASTHASIGYIYHLLGNLDKAIDHFHKALALKPDNIFISELLK  530 (611)
T ss_pred             HHHHHHHHHHcCCCchhHHHHHHHHHHHhcChHHHHHHHHHHHhcCCccHHHHHHHH
Confidence            99999987 2 3447889999999999999999999999999999999866555554

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

Probab=99.24  E-value=1.5e-08  Score=98.42  Aligned_cols=300  Identities=14%  Similarity=0.044  Sum_probs=205.4

Q ss_pred             HHHHHHHHh--CCChhHHHHHHHHHHHCCCCCChhhHHhHHHHhhcCCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHH
Q 005268           98 NAMISGYCQ--SGNAVEALDILDEMRLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYA  175 (705)
Q Consensus        98 ~~li~~~~~--~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~  175 (705)
                      ..+..+..+  .|++..|.++..+-.+.+-.| ...|.....+.-..|+.+.+-+++.++.+....++..+.-+......
T Consensus        86 ~~~~egl~~l~eG~~~qAEkl~~rnae~~e~p-~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll  164 (400)
T COG3071          86 KALNEGLLKLFEGDFQQAEKLLRRNAEHGEQP-VLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLL  164 (400)
T ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHhhhcCcch-HHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHH
Confidence            334445443  689999999998877765333 34566666777788999999999999988766778888888889999


Q ss_pred             ccCCHHHHHHHHhccCC---CCeehHHHHHHHHHcCCChhhHHHHHHHHHHCCCCCChhhHHHHHHHHHccCChhhHHHH
Q 005268          176 KFGMMRHALRVFDQMME---RDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQLNDCRNSRSV  252 (705)
Q Consensus       176 ~~g~~~~A~~~f~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i  252 (705)
                      ..|+.+.|+.-.++..+   +++.........|.+.|++.+...++.+|.+.|+--|+..-                   
T Consensus       165 ~~~d~~aA~~~v~~ll~~~pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~-------------------  225 (400)
T COG3071         165 NRRDYPAARENVDQLLEMTPRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAA-------------------  225 (400)
T ss_pred             hCCCchhHHHHHHHHHHhCcCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHH-------------------
Confidence            99999999887776644   57778888999999999999999999999998865443211                   


Q ss_pred             HHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCC
Q 005268          253 HGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPV---KDVISWNTLITGYAQNGLASEAIEVFQMMEECNEI  329 (705)
Q Consensus       253 ~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~  329 (705)
                                .....+++.+++-....+..+.-...++..+.   .++..-.+++.-+.+.|+.++|.++..+..+ .+.
T Consensus       226 ----------~le~~a~~glL~q~~~~~~~~gL~~~W~~~pr~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk-~~~  294 (400)
T COG3071         226 ----------RLEQQAWEGLLQQARDDNGSEGLKTWWKNQPRKLRNDPELVVAYAERLIRLGDHDEAQEIIEDALK-RQW  294 (400)
T ss_pred             ----------HHHHHHHHHHHHHHhccccchHHHHHHHhccHHhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHH-hcc
Confidence                      11122334444444444444444455565552   2455566677777888888888888877777 555


Q ss_pred             CCCcccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCC--CCCcchHHHHHH
Q 005268          330 NPNQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVP--RSSSVPWNAIIS  407 (705)
Q Consensus       330 ~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~--~~~~~~~~~li~  407 (705)
                      .|+-    ..+-.+.+.++.+.-.+..+...+. .+.++..+.+|...|.+.+.+.+|...|+...  +++...|+.+..
T Consensus       295 D~~L----~~~~~~l~~~d~~~l~k~~e~~l~~-h~~~p~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~s~~~~~~la~  369 (400)
T COG3071         295 DPRL----CRLIPRLRPGDPEPLIKAAEKWLKQ-HPEDPLLLSTLGRLALKNKLWGKASEALEAALKLRPSASDYAELAD  369 (400)
T ss_pred             ChhH----HHHHhhcCCCCchHHHHHHHHHHHh-CCCChhHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCChhhHHHHHH
Confidence            5551    1222345556666666666655554 23345677777788888888888877777554  556666777777


Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCCCC
Q 005268          408 CHGIHGQGDKALNFFRQMLDEGVRPD  433 (705)
Q Consensus       408 ~~~~~g~~~~A~~~~~~m~~~g~~p~  433 (705)
                      +|.+.|++.+|.+.+++.+..-.+|+
T Consensus       370 ~~~~~g~~~~A~~~r~e~L~~~~~~~  395 (400)
T COG3071         370 ALDQLGEPEEAEQVRREALLLTRQPN  395 (400)
T ss_pred             HHHHcCChHHHHHHHHHHHHHhcCCC
Confidence            77777777777777776664433443

>PF13041 PPR_2: PPR repeat family

Probab=99.22  E-value=2.8e-11  Score=84.55  Aligned_cols=50  Identities=28%  Similarity=0.512  Sum_probs=46.5

Q ss_pred             CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc
Q 005268          397 SSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSH  446 (705)
Q Consensus       397 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~  446 (705)
                      ||+++||++|.+|++.|++++|.++|++|.+.|++||..||+.++++|++
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            68889999999999999999999999999999999999999999999874

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

Probab=99.21  E-value=2.2e-08  Score=97.25  Aligned_cols=286  Identities=12%  Similarity=0.062  Sum_probs=185.2

Q ss_pred             CCChhhHHHHHHHHHHCCCCCChhhHHHHHHHHHccCChhhHHHHHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHH
Q 005268          208 SNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACA  287 (705)
Q Consensus       208 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~  287 (705)
                      .|++.+|.++..+-.+.+-.| ...|..-..+....|+.+.+......+.+.. -.++..+.-+........|+++.|..
T Consensus        97 eG~~~qAEkl~~rnae~~e~p-~l~~l~aA~AA~qrgd~~~an~yL~eaae~~-~~~~l~v~ltrarlll~~~d~~aA~~  174 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQP-VLAYLLAAEAAQQRGDEDRANRYLAEAAELA-GDDTLAVELTRARLLLNRRDYPAARE  174 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcch-HHHHHHHHHHHHhcccHHHHHHHHHHHhccC-CCchHHHHHHHHHHHHhCCCchhHHH
Confidence            466777777666655554333 2234445556666677777777777766653 35666677777777888888888877


Q ss_pred             HHhc---CCCCChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccccchhHHhhccCchHHHHHHHHHHHHhCC
Q 005268          288 VFEG---LPVKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNCL  364 (705)
Q Consensus       288 ~f~~---~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~  364 (705)
                      -.++   |...++.........|.+.|++.+...++..|.+ .++--|+.                 +.++         
T Consensus       175 ~v~~ll~~~pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~k-a~~l~~~e-----------------~~~l---------  227 (400)
T COG3071         175 NVDQLLEMTPRHPEVLRLALRAYIRLGAWQALLAILPKLRK-AGLLSDEE-----------------AARL---------  227 (400)
T ss_pred             HHHHHHHhCcCChHHHHHHHHHHHHhccHHHHHHHHHHHHH-ccCCChHH-----------------HHHH---------
Confidence            6654   3456778888888999999999999999999988 55433321                 1111         


Q ss_pred             CCchhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 005268          365 CFDVFVATCLVDMYGKCGRIDDAMSLFYQVP---RSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLL  441 (705)
Q Consensus       365 ~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll  441 (705)
                        ...+++.+++-....+..+.-...++..+   +.++..-.+++.-+.+.|+.++|.++.++..+.+..|+-.    .+
T Consensus       228 --e~~a~~glL~q~~~~~~~~gL~~~W~~~pr~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L~----~~  301 (400)
T COG3071         228 --EQQAWEGLLQQARDDNGSEGLKTWWKNQPRKLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRLC----RL  301 (400)
T ss_pred             --HHHHHHHHHHHHhccccchHHHHHHHhccHHhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhHH----HH
Confidence              11233444443333334444444555555   3445555666667777788888888888888777777622    22


Q ss_pred             HHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCChhH
Q 005268          442 TACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRPDASIWGALLGACRIHGNMEL  520 (705)
Q Consensus       442 ~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~ll~~~~~~g~~~~  520 (705)
                      -.+.+.++.+.-++..+.-.+.++..|  ..+.+|...|.+.+.+.+|.+.|+.. +..|+...|+-+..++.+.|+.++
T Consensus       302 ~~~l~~~d~~~l~k~~e~~l~~h~~~p--~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~s~~~~~~la~~~~~~g~~~~  379 (400)
T COG3071         302 IPRLRPGDPEPLIKAAEKWLKQHPEDP--LLLSTLGRLALKNKLWGKASEALEAALKLRPSASDYAELADALDQLGEPEE  379 (400)
T ss_pred             HhhcCCCCchHHHHHHHHHHHhCCCCh--hHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCChhhHHHHHHHHHHcCChHH
Confidence            245666666666666666655545455  46777777777777777777777755 566777777777777777777777


Q ss_pred             HHHHHHHHhc
Q 005268          521 GAVASDRLFE  530 (705)
Q Consensus       521 a~~~~~~~~~  530 (705)
                      |.+..++.+.
T Consensus       380 A~~~r~e~L~  389 (400)
T COG3071         380 AEQVRREALL  389 (400)
T ss_pred             HHHHHHHHHH
Confidence            7777776653

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

Probab=99.19  E-value=7.1e-09  Score=109.55  Aligned_cols=253  Identities=10%  Similarity=0.040  Sum_probs=155.1

Q ss_pred             HHHHHHHHCCCCCChhhHHhHHHHhhcCCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHccCCHHHHHHHHhccCCCC
Q 005268          115 DILDEMRLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGMMRHALRVFDQMMERD  194 (705)
Q Consensus       115 ~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~~~  194 (705)
                      .++-.|...|+.||.+||..++..|+..|+.+.|- +|..|.-...+.+..+++.++......++.+.+.       +|.
T Consensus        11 nfla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-------ep~   82 (1088)
T KOG4318|consen   11 NFLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-------EPL   82 (1088)
T ss_pred             hHHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC-------CCc
Confidence            45667777888888888888888888888888777 8888777777777778888888877777776665       566


Q ss_pred             eehHHHHHHHHHcCCChhhHHHHHHH-HH-------HCCCCCChhhHHHHHHHH--------------HccCChhhHHHH
Q 005268          195 VVSWNSIIAAYEQSNDPITAHGFFTT-MQ-------QAGIQPDLLTLVSLTSIV--------------AQLNDCRNSRSV  252 (705)
Q Consensus       195 ~~~~~~li~~~~~~g~~~~A~~~~~~-m~-------~~g~~p~~~t~~~ll~a~--------------~~~~~~~~a~~i  252 (705)
                      ..+|+.|..+|.+.|+... ++..++ |.       ..|+..-...|-..+.+|              ...|-++.+.++
T Consensus        83 aDtyt~Ll~ayr~hGDli~-fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllkl  161 (1088)
T KOG4318|consen   83 ADTYTNLLKAYRIHGDLIL-FEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLKL  161 (1088)
T ss_pred             hhHHHHHHHHHHhccchHH-HHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHHH
Confidence            7788888888888887654 222222 21       122221111221111211              111222222222


Q ss_pred             HHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCC-CCChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCC
Q 005268          253 HGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLP-VKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINP  331 (705)
Q Consensus       253 ~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p  331 (705)
                      ...+....+..|..+   -|=.+-.-...+++-........ .++..++..++..-..+|+.+.|..++.+|.+ .|+..
T Consensus       162 l~~~Pvsa~~~p~~v---fLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke-~gfpi  237 (1088)
T KOG4318|consen  162 LAKVPVSAWNAPFQV---FLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKE-KGFPI  237 (1088)
T ss_pred             HhhCCcccccchHHH---HHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHH-cCCCc
Confidence            222111111111111   01111111222333333333333 36778888888888888888889999989888 88887


Q ss_pred             CcccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCC
Q 005268          332 NQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGR  383 (705)
Q Consensus       332 ~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~  383 (705)
                      +..-|-.++-+   .++......+..-|...|+.|+..|+.-.+-...+.|.
T Consensus       238 r~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~  286 (1088)
T KOG4318|consen  238 RAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQ  286 (1088)
T ss_pred             ccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchh
Confidence            87777777655   67777778888888888888888888777766666544

>PRK12370 invasion protein regulator; Provisional

Probab=99.17  E-value=2.2e-09  Score=117.42  Aligned_cols=260  Identities=11%  Similarity=0.011  Sum_probs=184.1

Q ss_pred             ChhHHHHHHHHHHH-----cCChhHHHHHHHhhhhcCCCCCCcc-cccchhHHhh---------ccCchHHHHHHHHHHH
Q 005268          296 DVISWNTLITGYAQ-----NGLASEAIEVFQMMEECNEINPNQG-TYVSILPAYS---------HVGALRQGIKIHARVI  360 (705)
Q Consensus       296 ~~~~~~~li~~~~~-----~g~~~~A~~~~~~m~~~~~~~p~~~-t~~~ll~a~~---------~~~~~~~a~~~~~~~~  360 (705)
                      +...|...+.+-..     .+..++|+.+|++..+   ..|+.. .+..+..++.         ..+++++|...+++++
T Consensus       255 ~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~---ldP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al  331 (553)
T PRK12370        255 SIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVN---MSPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKAT  331 (553)
T ss_pred             ChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHh---cCCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHH
Confidence            44455555554321     1345788999998887   677653 3333333222         2345789999999988


Q ss_pred             HhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCCC---CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH-H
Q 005268          361 KNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPR---SSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHI-T  436 (705)
Q Consensus       361 ~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t  436 (705)
                      +.. +.+...+..+..++...|++++|...|++..+   .+...|..+...+...|++++|+..+++.++  +.|+.. .
T Consensus       332 ~ld-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~--l~P~~~~~  408 (553)
T PRK12370        332 ELD-HNNPQALGLLGLINTIHSEYIVGSLLFKQANLLSPISADIKYYYGWNLFMAGQLEEALQTINECLK--LDPTRAAA  408 (553)
T ss_pred             hcC-CCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--cCCCChhh
Confidence            864 44677888888899999999999999998763   3345688899999999999999999999999  566643 3


Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHH
Q 005268          437 FVSLLTACSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRPD-ASIWGALLGACR  513 (705)
Q Consensus       437 ~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~  513 (705)
                      +..++..+...|++++|...+++..+.  ..| +...+..+...|...|++++|...++++ +..|+ ...++.+...+.
T Consensus       409 ~~~~~~~~~~~g~~eeA~~~~~~~l~~--~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~~~~~~~~l~~~~~  486 (553)
T PRK12370        409 GITKLWITYYHTGIDDAIRLGDELRSQ--HLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEITGLIAVNLLYAEYC  486 (553)
T ss_pred             HHHHHHHHHhccCHHHHHHHHHHHHHh--ccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccchhHHHHHHHHHHHh
Confidence            334444566789999999999887753  234 3445777888999999999999999887 34455 345566666677


Q ss_pred             hcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhCC
Q 005268          514 IHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDRG  566 (705)
Q Consensus       514 ~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  566 (705)
                      ..|  +.|...++++++..-..+.....+..+|+-.|+-+.+..+ +++.+.+
T Consensus       487 ~~g--~~a~~~l~~ll~~~~~~~~~~~~~~~~~~~~g~~~~~~~~-~~~~~~~  536 (553)
T PRK12370        487 QNS--ERALPTIREFLESEQRIDNNPGLLPLVLVAHGEAIAEKMW-NKFKNED  536 (553)
T ss_pred             ccH--HHHHHHHHHHHHHhhHhhcCchHHHHHHHHHhhhHHHHHH-HHhhccc
Confidence            777  4788878877764322222233366778888888888777 6666543

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.16  E-value=1.3e-07  Score=89.94  Aligned_cols=432  Identities=14%  Similarity=0.120  Sum_probs=234.8

Q ss_pred             HHHHhCCChhHHHHHHHHHHHCCCCCChhhHHhHHHHhhcCCChHHHHHHHHHHHHhCCCCchhHHHHH-HHHHHccCCH
Q 005268          102 SGYCQSGNAVEALDILDEMRLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNL-INMYAKFGMM  180 (705)
Q Consensus       102 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~L-i~~y~~~g~~  180 (705)
                      ..+.+.|++++|+..|.-+.+.. .|+...+..+.-...-.|.+.+|+++-..      .|+....+.| .+.--+.++-
T Consensus        65 ~C~fhLgdY~~Al~~Y~~~~~~~-~~~~el~vnLAcc~FyLg~Y~eA~~~~~k------a~k~pL~~RLlfhlahklndE  137 (557)
T KOG3785|consen   65 HCYFHLGDYEEALNVYTFLMNKD-DAPAELGVNLACCKFYLGQYIEAKSIAEK------APKTPLCIRLLFHLAHKLNDE  137 (557)
T ss_pred             HHHHhhccHHHHHHHHHHHhccC-CCCcccchhHHHHHHHHHHHHHHHHHHhh------CCCChHHHHHHHHHHHHhCcH
Confidence            34556677777777776665533 33444443343333445566666655443      2333333333 3444455555


Q ss_pred             HHHHHHHhccCCCCeehHHHHHHHHHcCCChhhHHHHHHHHHHCCCCCChhhHHHHHHH-HHccCChhhHHHHHHHHHHh
Q 005268          181 RHALRVFDQMMERDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSI-VAQLNDCRNSRSVHGFIMRR  259 (705)
Q Consensus       181 ~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a-~~~~~~~~~a~~i~~~~~~~  259 (705)
                      ++-..+-..+.... .---+|.+..-..-.+++|++++++....  .|+-...+.-+.. +.+..-++.+.+++.-..+.
T Consensus       138 k~~~~fh~~LqD~~-EdqLSLAsvhYmR~HYQeAIdvYkrvL~d--n~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q  214 (557)
T KOG3785|consen  138 KRILTFHSSLQDTL-EDQLSLASVHYMRMHYQEAIDVYKRVLQD--NPEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQ  214 (557)
T ss_pred             HHHHHHHHHHhhhH-HHHHhHHHHHHHHHHHHHHHHHHHHHHhc--ChhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHh
Confidence            55444444443211 11112222222233456777777766554  2333344443333 34555555566666555554


Q ss_pred             cCCCchhHHHHHHHHHHHhc--CCHHHH--HHHHhcCCCCChhHHHHHHHHHHHc-----CChhHHHHHHHhhhhcCCCC
Q 005268          260 GWFMEDVIIGNAVVDMYAKL--GIINSA--CAVFEGLPVKDVISWNTLITGYAQN-----GLASEAIEVFQMMEECNEIN  330 (705)
Q Consensus       260 g~~~~~~~~~~~li~~y~~~--g~~~~A--~~~f~~~~~~~~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~~~~~  330 (705)
                        ++.++...|.......+.  |+..++  .++-+...+.    | -.+.-.++.     ...+.|++++-.+.+   +-
T Consensus       215 --~pdStiA~NLkacn~fRl~ngr~ae~E~k~ladN~~~~----~-~f~~~l~rHNLVvFrngEgALqVLP~L~~---~I  284 (557)
T KOG3785|consen  215 --FPDSTIAKNLKACNLFRLINGRTAEDEKKELADNIDQE----Y-PFIEYLCRHNLVVFRNGEGALQVLPSLMK---HI  284 (557)
T ss_pred             --CCCcHHHHHHHHHHHhhhhccchhHHHHHHHHhccccc----c-hhHHHHHHcCeEEEeCCccHHHhchHHHh---hC
Confidence              455555555554444332  332222  1222222111    1 112222222     344667777666554   33


Q ss_pred             CCcccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHH-----HHHHhcCCHHHHHHHHhhCC----CCCcch
Q 005268          331 PNQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLV-----DMYGKCGRIDDAMSLFYQVP----RSSSVP  401 (705)
Q Consensus       331 p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li-----~~y~k~g~~~~A~~~~~~~~----~~~~~~  401 (705)
                      |...  ..++--+.+.+++.+|..+...+.-  ..|..+....++     +-......+.-|.+.|+-.-    +-|.++
T Consensus       285 PEAR--lNL~iYyL~q~dVqeA~~L~Kdl~P--ttP~EyilKgvv~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIp  360 (557)
T KOG3785|consen  285 PEAR--LNLIIYYLNQNDVQEAISLCKDLDP--TTPYEYILKGVVFAALGQETGSREHLKIAQQFFQLVGESALECDTIP  360 (557)
T ss_pred             hHhh--hhheeeecccccHHHHHHHHhhcCC--CChHHHHHHHHHHHHhhhhcCcHHHHHHHHHHHHHhccccccccccc
Confidence            4321  2233345677777777666544211  112222222222     22222334666777776554    233333


Q ss_pred             -HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCc-CCcchHH-HHHH
Q 005268          402 -WNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIK-PHLKHYG-CMVD  478 (705)
Q Consensus       402 -~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~-p~~~~~~-~li~  478 (705)
                       -.+|.+.+.-..++++++-.+.....-- ..|..--..+..|.+..|.+.+|.++|-.+.   |.+ .+..+|. .|..
T Consensus       361 GRQsmAs~fFL~~qFddVl~YlnSi~sYF-~NdD~Fn~N~AQAk~atgny~eaEelf~~is---~~~ikn~~~Y~s~LAr  436 (557)
T KOG3785|consen  361 GRQSMASYFFLSFQFDDVLTYLNSIESYF-TNDDDFNLNLAQAKLATGNYVEAEELFIRIS---GPEIKNKILYKSMLAR  436 (557)
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHHh-cCcchhhhHHHHHHHHhcChHHHHHHHhhhc---ChhhhhhHHHHHHHHH
Confidence             7778888888888999999988888753 3333333456789999999999999997664   333 3445554 4567


Q ss_pred             HHHhcCCHHHHHHHHHhCCCCCCHHHHHHH-HHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHH
Q 005268          479 LFGRAGHLGMAHNFIQNMPVRPDASIWGAL-LGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDE  557 (705)
Q Consensus       479 ~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l-l~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~  557 (705)
                      .|.++++.+-|.+++-++..+.+..+.-.+ .+-|.+.+.+--|-++|..+..++| +|..|.         |+-....-
T Consensus       437 Cyi~nkkP~lAW~~~lk~~t~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lDP-~pEnWe---------GKRGACaG  506 (557)
T KOG3785|consen  437 CYIRNKKPQLAWDMMLKTNTPSERFSLLQLIANDCYKANEFYYAAKAFDELEILDP-TPENWE---------GKRGACAG  506 (557)
T ss_pred             HHHhcCCchHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccCC-CccccC---------CccchHHH
Confidence            899999999999999988654455554444 4679999999999999999999998 455443         33333445


Q ss_pred             HHHHHHhCCCccCC
Q 005268          558 VRSLARDRGLKKTP  571 (705)
Q Consensus       558 ~~~~m~~~~~~~~~  571 (705)
                      +|..+....-++.|
T Consensus       507 ~f~~l~~~~~~~~p  520 (557)
T KOG3785|consen  507 LFRQLANHKTDPIP  520 (557)
T ss_pred             HHHHHHcCCCCCCc
Confidence            66665554443433

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

Probab=99.13  E-value=1.3e-07  Score=93.96  Aligned_cols=407  Identities=9%  Similarity=0.005  Sum_probs=256.2

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHHCCCCCC-hhhHHhHHHHhhcCCChHHHHHHHHHHHHhCCCCc-hhHHHHHHHHH
Q 005268           97 WNAMISGYCQSGNAVEALDILDEMRLEGVSMD-PITVASILPVCARSDNILSGLLIHLYIVKHGLEFN-LFVSNNLINMY  174 (705)
Q Consensus        97 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~-~~~~~~Li~~y  174 (705)
                      +-..-.-|.++|.+++|++.|.+.++.  .|| ++-|...-.+|...|+++...+.-...++..  |+ +..+..-..++
T Consensus       118 lK~~GN~~f~~kkY~eAIkyY~~AI~l--~p~epiFYsNraAcY~~lgd~~~Vied~TkALEl~--P~Y~KAl~RRA~A~  193 (606)
T KOG0547|consen  118 LKTKGNKFFRNKKYDEAIKYYTQAIEL--CPDEPIFYSNRAACYESLGDWEKVIEDCTKALELN--PDYVKALLRRASAH  193 (606)
T ss_pred             HHhhhhhhhhcccHHHHHHHHHHHHhc--CCCCchhhhhHHHHHHHHhhHHHHHHHHHHHhhcC--cHHHHHHHHHHHHH
Confidence            445566788889999999999988874  677 6667777777788899888888777776643  33 44566666778


Q ss_pred             HccCCHHHHHH------HHhccCCCCeehHHHHHHHHHcCCChhhHHHHHHHHHH---CCCCCChhhHHHHHHHHHccCC
Q 005268          175 AKFGMMRHALR------VFDQMMERDVVSWNSIIAAYEQSNDPITAHGFFTTMQQ---AGIQPDLLTLVSLTSIVAQLND  245 (705)
Q Consensus       175 ~~~g~~~~A~~------~f~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~---~g~~p~~~t~~~ll~a~~~~~~  245 (705)
                      -..|++++|+.      +++......   -..++.-..+    ..|....++-..   ..+.|+.....+.+..+...-.
T Consensus       194 E~lg~~~eal~D~tv~ci~~~F~n~s---~~~~~eR~Lk----k~a~~ka~e~~k~nr~p~lPS~~fi~syf~sF~~~~~  266 (606)
T KOG0547|consen  194 EQLGKFDEALFDVTVLCILEGFQNAS---IEPMAERVLK----KQAMKKAKEKLKENRPPVLPSATFIASYFGSFHADPK  266 (606)
T ss_pred             HhhccHHHHHHhhhHHHHhhhcccch---hHHHHHHHHH----HHHHHHHHHhhcccCCCCCCcHHHHHHHHhhcccccc
Confidence            88888887753      222222111   1112211111    122222222222   1234554444444443321100


Q ss_pred             hhhHHHHHHHHHHhcCCCchhHHHHHHHHHHHhc-CCHHHHHHHHhc-------CCCCC---------hhHHHHHHHHHH
Q 005268          246 CRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKL-GIINSACAVFEG-------LPVKD---------VISWNTLITGYA  308 (705)
Q Consensus       246 ~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~-g~~~~A~~~f~~-------~~~~~---------~~~~~~li~~~~  308 (705)
                      .        .....+ ...|...-..+=..|... ..++.|...+.+       ....+         ..+.+.....+.
T Consensus       267 ~--------~~~~~~-~ksDa~l~~~l~~l~~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~le~~A~al~~~gtF~f  337 (606)
T KOG0547|consen  267 P--------LFDNKS-DKSDAALAEALEALEKGLEEGYLKAYDKATEECLGSESSLSVNEIDAELEYMAEALLLRGTFHF  337 (606)
T ss_pred             c--------cccCCC-ccchhhHHHHHHHHHhhCchhHHHHHHHHHHHhhhhhhhccccccchhHHHHHHHHHHhhhhhh
Confidence            0        000000 011111112222222211 123333333221       11111         122222233355


Q ss_pred             HcCChhHHHHHHHhhhhcCCCCCCccc-ccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHH
Q 005268          309 QNGLASEAIEVFQMMEECNEINPNQGT-YVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDA  387 (705)
Q Consensus       309 ~~g~~~~A~~~~~~m~~~~~~~p~~~t-~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A  387 (705)
                      -.|+.-.|...|+....   +.|.... |.-+..+|....+.++..+.|..+.+.. +-++.+|---.+++.-.+++++|
T Consensus       338 L~g~~~~a~~d~~~~I~---l~~~~~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ld-p~n~dvYyHRgQm~flL~q~e~A  413 (606)
T KOG0547|consen  338 LKGDSLGAQEDFDAAIK---LDPAFNSLYIKRAAAYADENQSEKMWKDFNKAEDLD-PENPDVYYHRGQMRFLLQQYEEA  413 (606)
T ss_pred             hcCCchhhhhhHHHHHh---cCcccchHHHHHHHHHhhhhccHHHHHHHHHHHhcC-CCCCchhHhHHHHHHHHHHHHHH
Confidence            67889999999999987   5554333 7777778899999999999999998865 33556666667777778999999


Q ss_pred             HHHHhhCC---CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhh
Q 005268          388 MSLFYQVP---RSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEF  464 (705)
Q Consensus       388 ~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~  464 (705)
                      ..-|++..   +.+..+|-.+..+.-+.++++++...|++..+. ++--+..|+.....+...++++.|.+.|+...+  
T Consensus       414 ~aDF~Kai~L~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~--  490 (606)
T KOG0547|consen  414 IADFQKAISLDPENAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIE--  490 (606)
T ss_pred             HHHHHHHhhcChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHh--
Confidence            99999877   445556777777777888999999999999986 444456888889999999999999999998874  


Q ss_pred             CCcCCc---------chHHHHHHHHHhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCChhHHHHHHHHHhccC
Q 005268          465 GIKPHL---------KHYGCMVDLFGRAGHLGMAHNFIQNM-PVRPD-ASIWGALLGACRIHGNMELGAVASDRLFEVD  532 (705)
Q Consensus       465 ~~~p~~---------~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  532 (705)
                       +.|+.         .+--.++-. .-.+++.+|..++++. .+.|. ...+-+|...-.+.|+.++|+++|++...+-
T Consensus       491 -LE~~~~~~~v~~~plV~Ka~l~~-qwk~d~~~a~~Ll~KA~e~Dpkce~A~~tlaq~~lQ~~~i~eAielFEksa~lA  567 (606)
T KOG0547|consen  491 -LEPREHLIIVNAAPLVHKALLVL-QWKEDINQAENLLRKAIELDPKCEQAYETLAQFELQRGKIDEAIELFEKSAQLA  567 (606)
T ss_pred             -hccccccccccchhhhhhhHhhh-chhhhHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Confidence             35541         111122211 2338999999999988 56665 5688999999999999999999999987654

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.12  E-value=3.6e-07  Score=95.87  Aligned_cols=451  Identities=12%  Similarity=0.080  Sum_probs=267.4

Q ss_pred             CCChhHHHHHHHHHHHCCCCCChhhHHhHHHHhh---cCCChH-------------------HHHHHH----HHHHHhCC
Q 005268          107 SGNAVEALDILDEMRLEGVSMDPITVASILPVCA---RSDNIL-------------------SGLLIH----LYIVKHGL  160 (705)
Q Consensus       107 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~---~~~~~~-------------------~a~~~~----~~~~~~g~  160 (705)
                      .+..++++.-+......+...+..++..+...+.   ..++.+                   ++....    .++....+
T Consensus       240 ~~~~~~~i~s~~~~l~~~w~~~~l~ka~l~~~~~~f~~~~~~Ee~~Lllli~es~i~Re~~~d~ilslm~~~~k~r~~~~  319 (799)
T KOG4162|consen  240 LSGPKEAIKSYRRALLRSWSLDPLTKARLYKGFALFLPKSGQEEVILLLLIEESLIPRENIEDAILSLMLLLRKLRLKKF  319 (799)
T ss_pred             CCCchHHHHhhhHHhhcccccchhHHHHHhhcccccCCCCcHHHHHHHHHHHhhccccccHHHHHHHHHHHHHHHHHhhh
Confidence            4555666666666665555555555555443321   223333                   332221    12222235


Q ss_pred             CCchhHHHHHHHHHHccCCHHHHHHHHhccCC---CCeehHHHHHHHHHcCCChhhHHHHHHHHHHCCCCCChhhHH-HH
Q 005268          161 EFNLFVSNNLINMYAKFGMMRHALRVFDQMME---RDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLV-SL  236 (705)
Q Consensus       161 ~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~-~l  236 (705)
                      .-|..+|..|.-+..++|+++.+.+.|++...   .....|+.+...|...|.-..|..+++.-....-.|+..+-. ..
T Consensus       320 qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~~Lma  399 (799)
T KOG4162|consen  320 QNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSFGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISVLLMA  399 (799)
T ss_pred             cchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchHHHHH
Confidence            56888899999999999999999999988754   345579999999999999999999998875544345444333 33


Q ss_pred             HHHHH-ccCChhhHHHHHHHHHHhcCC---CchhHHHHHHHHHHHhc-----------CCHHHHHHHHhcCC---CCChh
Q 005268          237 TSIVA-QLNDCRNSRSVHGFIMRRGWF---MEDVIIGNAVVDMYAKL-----------GIINSACAVFEGLP---VKDVI  298 (705)
Q Consensus       237 l~a~~-~~~~~~~a~~i~~~~~~~g~~---~~~~~~~~~li~~y~~~-----------g~~~~A~~~f~~~~---~~~~~  298 (705)
                      -..|. +.+..+++..+-..++.....   ......+-.+.-+|...           ....++...+++..   ..|..
T Consensus       400 sklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d~~dp~  479 (799)
T KOG4162|consen  400 SKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFDPTDPL  479 (799)
T ss_pred             HHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcCCCCch
Confidence            33343 456666666666666552101   11233334444444321           11233444444432   22332


Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccccchhHHhhccCchHHHHHHHHHHHHh-CCCCchhHHHHHHHH
Q 005268          299 SWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKN-CLCFDVFVATCLVDM  377 (705)
Q Consensus       299 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~-g~~~~~~~~~~li~~  377 (705)
                      +---+.--|+..++.+.|++..++..+ .+-.-+...|..+.-.++..+++..|..+.+..... |.  |-.....-+..
T Consensus       480 ~if~lalq~A~~R~l~sAl~~~~eaL~-l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~~~--N~~l~~~~~~i  556 (799)
T KOG4162|consen  480 VIFYLALQYAEQRQLTSALDYAREALA-LNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGD--NHVLMDGKIHI  556 (799)
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHH-hcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhh--hhhhchhhhhh
Confidence            222333446667788888888888777 333335555666666667777888888877766543 21  11111111111


Q ss_pred             HHhcCCHHHHHHHHhh--------------------------CC-----CCCcch-HHHHHHHHHhcCChHHHHHHHHHH
Q 005268          378 YGKCGRIDDAMSLFYQ--------------------------VP-----RSSSVP-WNAIISCHGIHGQGDKALNFFRQM  425 (705)
Q Consensus       378 y~k~g~~~~A~~~~~~--------------------------~~-----~~~~~~-~~~li~~~~~~g~~~~A~~~~~~m  425 (705)
                      -...++.++|......                          +.     ..|..+ +..+. +... -+.+.+..-.. |
T Consensus       557 ~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls-~l~a-~~~~~~~se~~-L  633 (799)
T KOG4162|consen  557 ELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLS-SLVA-SQLKSAGSELK-L  633 (799)
T ss_pred             hhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHH-HHHH-hhhhhcccccc-c
Confidence            1123344433332211                          11     011111 11111 1111 00000000000 1


Q ss_pred             HHcCCCC--CH------HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC
Q 005268          426 LDEGVRP--DH------ITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM  496 (705)
Q Consensus       426 ~~~g~~p--~~------~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~  496 (705)
                      ...-+.|  +.      ..|......+...+..++|...+.+..   ++.| ....|.-....+...|.++||.+.|...
T Consensus       634 p~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~---~~~~l~~~~~~~~G~~~~~~~~~~EA~~af~~A  710 (799)
T KOG4162|consen  634 PSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEAS---KIDPLSASVYYLRGLLLEVKGQLEEAKEAFLVA  710 (799)
T ss_pred             CcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHH---hcchhhHHHHHHhhHHHHHHHhhHHHHHHHHHH
Confidence            1111222  21      134455567788888899987777665   4445 4456777778889999999999988776


Q ss_pred             -CCCCC-HHHHHHHHHHHHhcCChhHHHH--HHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhCC
Q 005268          497 -PVRPD-ASIWGALLGACRIHGNMELGAV--ASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDRG  566 (705)
Q Consensus       497 -~~~p~-~~~~~~ll~~~~~~g~~~~a~~--~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  566 (705)
                       .+.|+ +.+..++...+...|+...|..  ++..+++++|.++.+|..|+.++.+.|+.+.|...|....+..
T Consensus       711 l~ldP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qLe  784 (799)
T KOG4162|consen  711 LALDPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVFKKLGDSKQAAECFQAALQLE  784 (799)
T ss_pred             HhcCCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHccchHHHHHHHHHHHhhc
Confidence             57776 5588899999999999888888  9999999999999999999999999999999999999887653

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

Probab=99.12  E-value=1.4e-05  Score=82.48  Aligned_cols=454  Identities=13%  Similarity=0.114  Sum_probs=201.0

Q ss_pred             HHHHHHHcCCChhHHHHHhccCCC-----CCcchHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHhHHHHhhcC
Q 005268           68 SLLHMYCRFGLANVARKLFDDMPV-----RDSGSWNAMISGYCQSGNAVEALDILDEMRLEGVSMDPITVASILPVCARS  142 (705)
Q Consensus        68 ~ll~~y~~~g~~~~A~~~f~~~~~-----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~  142 (705)
                      .-+....+.|++..-++.|++...     .....|...+.-.-..|-++-++.+|++.++-  .|  ..-.--+.-++..
T Consensus       107 ~Ylq~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~--~P--~~~eeyie~L~~~  182 (835)
T KOG2047|consen  107 DYLQFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKV--AP--EAREEYIEYLAKS  182 (835)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhc--CH--HHHHHHHHHHHhc
Confidence            333444455555555555554321     12234555555555556666666666665542  22  2233334444555


Q ss_pred             CChHHHHHHHHHHHHhC------CCCchhHHHHHHHHHHccCCHH---HHHHHHhccCCC--Ce--ehHHHHHHHHHcCC
Q 005268          143 DNILSGLLIHLYIVKHG------LEFNLFVSNNLINMYAKFGMMR---HALRVFDQMMER--DV--VSWNSIIAAYEQSN  209 (705)
Q Consensus       143 ~~~~~a~~~~~~~~~~g------~~~~~~~~~~Li~~y~~~g~~~---~A~~~f~~m~~~--~~--~~~~~li~~~~~~g  209 (705)
                      +++++|.+.+..++...      -+.+...|.-|-+..++.-+.-   ....+++.+..+  |.  ..|++|..-|.+.|
T Consensus       183 d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~rftDq~g~Lw~SLAdYYIr~g  262 (835)
T KOG2047|consen  183 DRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRRFTDQLGFLWCSLADYYIRSG  262 (835)
T ss_pred             cchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhcccCcHHHHHHHHHHHHHHHHhh
Confidence            66666665555544221      1223344444444444432211   222333333331  22  35677777777777


Q ss_pred             ChhhHHHHHHHHHHCCCCCChhhHHHHHHHHHccCChhhHHHHHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHH
Q 005268          210 DPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVF  289 (705)
Q Consensus       210 ~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f  289 (705)
                      .+++|.++|++-.+.  .....-|+.+.++|+.......+..+- .....++.+.+..             +++-...-|
T Consensus       263 ~~ekarDvyeeai~~--v~tvrDFt~ifd~Ya~FEE~~~~~~me-~a~~~~~n~ed~~-------------dl~~~~a~~  326 (835)
T KOG2047|consen  263 LFEKARDVYEEAIQT--VMTVRDFTQIFDAYAQFEESCVAAKME-LADEESGNEEDDV-------------DLELHMARF  326 (835)
T ss_pred             hhHHHHHHHHHHHHh--heehhhHHHHHHHHHHHHHHHHHHHHh-hhhhcccChhhhh-------------hHHHHHHHH
Confidence            777777777665543  222333444455444332211111111 0000110111111             112222222


Q ss_pred             hcCC---------------CCChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcc------cccchhHHhhccCc
Q 005268          290 EGLP---------------VKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQG------TYVSILPAYSHVGA  348 (705)
Q Consensus       290 ~~~~---------------~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~------t~~~ll~a~~~~~~  348 (705)
                      +.+.               ..++..|..-...  ..|+..+-...|.+..+  .+.|-..      .|..+.+.|-..|+
T Consensus       327 e~lm~rr~~~lNsVlLRQn~~nV~eW~kRV~l--~e~~~~~~i~tyteAv~--~vdP~ka~Gs~~~Lw~~faklYe~~~~  402 (835)
T KOG2047|consen  327 ESLMNRRPLLLNSVLLRQNPHNVEEWHKRVKL--YEGNAAEQINTYTEAVK--TVDPKKAVGSPGTLWVEFAKLYENNGD  402 (835)
T ss_pred             HHHHhccchHHHHHHHhcCCccHHHHHhhhhh--hcCChHHHHHHHHHHHH--ccCcccCCCChhhHHHHHHHHHHhcCc
Confidence            2221               2244455444332  34566666777776664  2444322      13334444555555


Q ss_pred             hHHHHHHHHHHHHhCCCCc---hhHHHHHHHHHHhcCCHHHHHHHHhhCC--CCCcchHHHHHHHHHhcCChHHHHHHHH
Q 005268          349 LRQGIKIHARVIKNCLCFD---VFVATCLVDMYGKCGRIDDAMSLFYQVP--RSSSVPWNAIISCHGIHGQGDKALNFFR  423 (705)
Q Consensus       349 ~~~a~~~~~~~~~~g~~~~---~~~~~~li~~y~k~g~~~~A~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~  423 (705)
                      ++.|+.+|+...+..++.-   ..+|....++=.+..+++.|.++.+...  +.+..      ..+...+.+-++.    
T Consensus       403 l~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~------~~~yd~~~pvQ~r----  472 (835)
T KOG2047|consen  403 LDDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPE------LEYYDNSEPVQAR----  472 (835)
T ss_pred             HHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchh------hhhhcCCCcHHHH----
Confidence            6666666555555432211   2334444444444555555555554433  11100      0111111110000    


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhC-C-CC-C
Q 005268          424 QMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNM-P-VR-P  500 (705)
Q Consensus       424 ~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~-~~-p  500 (705)
                            +.-+...|...+..-...|-++....+++.+..-.-..|..  .-...-.+-...-++++.+.+++- + ++ |
T Consensus       473 ------lhrSlkiWs~y~DleEs~gtfestk~vYdriidLriaTPqi--i~NyAmfLEeh~yfeesFk~YErgI~LFk~p  544 (835)
T KOG2047|consen  473 ------LHRSLKIWSMYADLEESLGTFESTKAVYDRIIDLRIATPQI--IINYAMFLEEHKYFEESFKAYERGISLFKWP  544 (835)
T ss_pred             ------HHHhHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhcCCHHH--HHHHHHHHHhhHHHHHHHHHHHcCCccCCCc
Confidence                  00011223333333444556666666666666442223321  112222334455677777777665 2 22 4


Q ss_pred             CH-HHHHHHHHHHHh---cCChhHHHHHHHHHhccCCCCc--chhhhhhhhhhhcCCcchHHHHHHHHH
Q 005268          501 DA-SIWGALLGACRI---HGNMELGAVASDRLFEVDSENV--GYYVLMSNIYANVGKWEGVDEVRSLAR  563 (705)
Q Consensus       501 ~~-~~~~~ll~~~~~---~g~~~~a~~~~~~~~~~~p~~~--~~~~~l~~~~~~~g~~~~a~~~~~~m~  563 (705)
                      ++ .+|++.+.-+.+   ...++.|..+|+++++..|...  +.|...+..=-+-|.-..|.++++.+.
T Consensus       545 ~v~diW~tYLtkfi~rygg~klEraRdLFEqaL~~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat  613 (835)
T KOG2047|consen  545 NVYDIWNTYLTKFIKRYGGTKLERARDLFEQALDGCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERAT  613 (835)
T ss_pred             cHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            43 367776654432   1256777777777777666321  122333333333455556666665543

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

Probab=99.10  E-value=2.3e-06  Score=88.00  Aligned_cols=492  Identities=11%  Similarity=0.115  Sum_probs=286.9

Q ss_pred             HHHHHHHHHh-CCCCCHHHHHHHHHHHHcCCChhHHHHHhccCCCCCcchHHHHHHHHHhCCChhHHHHHHHHHHHCC--
Q 005268           48 KKIHCSVLKL-GFEWDVFVAASLLHMYCRFGLANVARKLFDDMPVRDSGSWNAMISGYCQSGNAVEALDILDEMRLEG--  124 (705)
Q Consensus        48 ~~~~~~~~~~-g~~~~~~~~~~ll~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g--  124 (705)
                      +..|+..+.. .+.-...+|...+......|-++.+.+++++-..-++.+-+--|..+++.+++++|-+.+.......  
T Consensus       122 R~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~~P~~~eeyie~L~~~d~~~eaa~~la~vln~d~f  201 (835)
T KOG2047|consen  122 RRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKVAPEAREEYIEYLAKSDRLDEAAQRLATVLNQDEF  201 (835)
T ss_pred             HHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhccchHHHHHHHHHhcCchhh
Confidence            3444444432 3333445777778888888888899999998777666678888999999999999999998876421  


Q ss_pred             ----CCCChhhHHhHHHHhhcCCChHHHHHHHHHHHHhCCC--Cc--hhHHHHHHHHHHccCCHHHHHHHHhccCCC--C
Q 005268          125 ----VSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLE--FN--LFVSNNLINMYAKFGMMRHALRVFDQMMER--D  194 (705)
Q Consensus       125 ----~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~--~~--~~~~~~Li~~y~~~g~~~~A~~~f~~m~~~--~  194 (705)
                          -+.+...|..+-...++..+.-...++ +.+++.|+.  +|  -..|++|.+.|.+.|.+++|..+|++-...  .
T Consensus       202 ~sk~gkSn~qlw~elcdlis~~p~~~~slnv-daiiR~gi~rftDq~g~Lw~SLAdYYIr~g~~ekarDvyeeai~~v~t  280 (835)
T KOG2047|consen  202 VSKKGKSNHQLWLELCDLISQNPDKVQSLNV-DAIIRGGIRRFTDQLGFLWCSLADYYIRSGLFEKARDVYEEAIQTVMT  280 (835)
T ss_pred             hhhcccchhhHHHHHHHHHHhCcchhcccCH-HHHHHhhcccCcHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhee
Confidence                233455566666666665554443333 223344432  23  467999999999999999999999876542  1


Q ss_pred             eehHHHHHHHHHc----------------CCC------hhhHHHHHHHHHHCCC--------CCC---hhhHHHHHHHHH
Q 005268          195 VVSWNSIIAAYEQ----------------SND------PITAHGFFTTMQQAGI--------QPD---LLTLVSLTSIVA  241 (705)
Q Consensus       195 ~~~~~~li~~~~~----------------~g~------~~~A~~~~~~m~~~g~--------~p~---~~t~~~ll~a~~  241 (705)
                      +.-++.+-+.|++                .|+      ++-.+.-|+.+.+.+.        ..|   ..+|..-.  -.
T Consensus       281 vrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~rr~~~lNsVlLRQn~~nV~eW~kRV--~l  358 (835)
T KOG2047|consen  281 VRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFESLMNRRPLLLNSVLLRQNPHNVEEWHKRV--KL  358 (835)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhccchHHHHHHHhcCCccHHHHHhhh--hh
Confidence            2122222222221                121      2233344444433321        011   11221111  11


Q ss_pred             ccCChhhHHHHHHHHHHhcCCCc------hhHHHHHHHHHHHhcCCHHHHHHHHhcCCCCCh-------hHHHHHHHHHH
Q 005268          242 QLNDCRNSRSVHGFIMRRGWFME------DVIIGNAVVDMYAKLGIINSACAVFEGLPVKDV-------ISWNTLITGYA  308 (705)
Q Consensus       242 ~~~~~~~a~~i~~~~~~~g~~~~------~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~-------~~~~~li~~~~  308 (705)
                      ..++..+....+..+++.-  .|      -...|..+.+.|-..|+++.|+.+|++...-+-       .+|..-...-.
T Consensus       359 ~e~~~~~~i~tyteAv~~v--dP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~V~y~~v~dLa~vw~~waemEl  436 (835)
T KOG2047|consen  359 YEGNAAEQINTYTEAVKTV--DPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKATKVPYKTVEDLAEVWCAWAEMEL  436 (835)
T ss_pred             hcCChHHHHHHHHHHHHcc--CcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHH
Confidence            2344555666677776652  22      235788899999999999999999998764432       34555555666


Q ss_pred             HcCChhHHHHHHHhhhhcCCCCCCcccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHH
Q 005268          309 QNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAM  388 (705)
Q Consensus       309 ~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~  388 (705)
                      +..+++.|+++.+....    .|....    +. +...+..-++ .+         ..+..+|..+++.--..|-++...
T Consensus       437 rh~~~~~Al~lm~~A~~----vP~~~~----~~-~yd~~~pvQ~-rl---------hrSlkiWs~y~DleEs~gtfestk  497 (835)
T KOG2047|consen  437 RHENFEAALKLMRRATH----VPTNPE----LE-YYDNSEPVQA-RL---------HRSLKIWSMYADLEESLGTFESTK  497 (835)
T ss_pred             hhhhHHHHHHHHHhhhc----CCCchh----hh-hhcCCCcHHH-HH---------HHhHHHHHHHHHHHHHhccHHHHH
Confidence            77788888888777654    333211    11 1111111111 11         123456666667666777777777


Q ss_pred             HHHhhCCCCCcchHHHHH---HHHHhcCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHh---ccCcHHHHHHHHHHhH
Q 005268          389 SLFYQVPRSSSVPWNAII---SCHGIHGQGDKALNFFRQMLDEGVRPDHI-TFVSLLTACS---HSGLVSEGQRYFHMMQ  461 (705)
Q Consensus       389 ~~~~~~~~~~~~~~~~li---~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~---~~g~~~~a~~~~~~m~  461 (705)
                      .+++++.+--+.|=..++   .-+-.+.-++++.++|++-+..--.|+.. .|+..|.-+.   ..-.++.|+.+|++..
T Consensus       498 ~vYdriidLriaTPqii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEraRdLFEqaL  577 (835)
T KOG2047|consen  498 AVYDRIIDLRIATPQIIINYAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLERARDLFEQAL  577 (835)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHH
Confidence            777777643333311111   12234555677777777766654445543 4555444332   2336788888888777


Q ss_pred             HhhCCcCCcc--hHHHHHHHHHhcCCHHHHHHHHHhCC--CCCC--HHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCC
Q 005268          462 EEFGIKPHLK--HYGCMVDLFGRAGHLGMAHNFIQNMP--VRPD--ASIWGALLGACRIHGNMELGAVASDRLFEVDSEN  535 (705)
Q Consensus       462 ~~~~~~p~~~--~~~~li~~~~~~g~~~~A~~~~~~~~--~~p~--~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  535 (705)
                      +  |.+|...  .|-.....=-+-|.-..|+++++++.  .++.  ...||..|.--...=-+.....+|+++++.-|++
T Consensus       578 ~--~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat~~v~~a~~l~myni~I~kaae~yGv~~TR~iYekaIe~Lp~~  655 (835)
T KOG2047|consen  578 D--GCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERATSAVKEAQRLDMYNIYIKKAAEIYGVPRTREIYEKAIESLPDS  655 (835)
T ss_pred             h--cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhCCcccHHHHHHHHHhCChH
Confidence            5  5555321  12111222234577777888888773  2332  3356666643332222445677888888877754


Q ss_pred             cch--hhhhhhhhhhcCCcchHHHHHHHHHhC
Q 005268          536 VGY--YVLMSNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       536 ~~~--~~~l~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      -.-  ..-.+++=.+.|..+.|+.++..-.+.
T Consensus       656 ~~r~mclrFAdlEtklGEidRARaIya~~sq~  687 (835)
T KOG2047|consen  656 KAREMCLRFADLETKLGEIDRARAIYAHGSQI  687 (835)
T ss_pred             HHHHHHHHHHHHhhhhhhHHHHHHHHHhhhhc
Confidence            322  234567778888888888888765543

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.08  E-value=6.4e-07  Score=91.25  Aligned_cols=433  Identities=13%  Similarity=0.115  Sum_probs=241.4

Q ss_pred             HHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHhHHHHhhcCCChHHHHHHHHHHHHhCCCCchhHHHHH--HHHH--Hc
Q 005268          101 ISGYCQSGNAVEALDILDEMRLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNL--INMY--AK  176 (705)
Q Consensus       101 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~L--i~~y--~~  176 (705)
                      ++-+.++|++++|.+...+....+ +-|...+..-+-+..+.+.+++|..+...   .+   -..+++..  =.+|  .+
T Consensus        19 ln~~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk---~~---~~~~~~~~~fEKAYc~Yr   91 (652)
T KOG2376|consen   19 LNRHGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKK---NG---ALLVINSFFFEKAYCEYR   91 (652)
T ss_pred             HHHhccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHh---cc---hhhhcchhhHHHHHHHHH
Confidence            344556677777777777776543 33444555556666667777776633321   11   11111211  2333  36


Q ss_pred             cCCHHHHHHHHhccCCCCeehHHHHHHHHHcCCChhhHHHHHHHHHHCCCCCChh-hHHHHHHHHHccCChhhHHHHHHH
Q 005268          177 FGMMRHALRVFDQMMERDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLL-TLVSLTSIVAQLNDCRNSRSVHGF  255 (705)
Q Consensus       177 ~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~~~~~~a~~i~~~  255 (705)
                      .++.++|...++.....|..+...-...+-+.|++++|+++|+.+.+.+.+--.. .-..++.+-...    .+.    .
T Consensus        92 lnk~Dealk~~~~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l----~~~----~  163 (652)
T KOG2376|consen   92 LNKLDEALKTLKGLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAAL----QVQ----L  163 (652)
T ss_pred             cccHHHHHHHHhcccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhh----hHH----H
Confidence            6788888888875544444455555566777888888888888886654432211 111222211111    000    0


Q ss_pred             HHHhcCCCc-hhHHHHHHHHHHHhcCCHHHHHHHHhcC--------CCCC-----hh-----HHHHHHHHHHHcCChhHH
Q 005268          256 IMRRGWFME-DVIIGNAVVDMYAKLGIINSACAVFEGL--------PVKD-----VI-----SWNTLITGYAQNGLASEA  316 (705)
Q Consensus       256 ~~~~g~~~~-~~~~~~~li~~y~~~g~~~~A~~~f~~~--------~~~~-----~~-----~~~~li~~~~~~g~~~~A  316 (705)
                      +......+. +-..+-...-.+...|++.+|+++++..        ...|     ..     .---|.-.+...|+.++|
T Consensus       164 ~q~v~~v~e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea  243 (652)
T KOG2376|consen  164 LQSVPEVPEDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEA  243 (652)
T ss_pred             HHhccCCCcchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHH
Confidence            111110111 1222223344566778888888887765        1111     11     112234456778999999


Q ss_pred             HHHHHhhhhcCCCCCCcccccch---hHHhhccCchHH--HHHHHH-----------HHHHhCCCCchhHHHHHHHHHHh
Q 005268          317 IEVFQMMEECNEINPNQGTYVSI---LPAYSHVGALRQ--GIKIHA-----------RVIKNCLCFDVFVATCLVDMYGK  380 (705)
Q Consensus       317 ~~~~~~m~~~~~~~p~~~t~~~l---l~a~~~~~~~~~--a~~~~~-----------~~~~~g~~~~~~~~~~li~~y~k  380 (705)
                      ..++....+ . -.+|.......   |.+...-.++..  ....++           ..+.....-...--+.++.+|. 
T Consensus       244 ~~iy~~~i~-~-~~~D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~t-  320 (652)
T KOG2376|consen  244 SSIYVDIIK-R-NPADEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLALFT-  320 (652)
T ss_pred             HHHHHHHHH-h-cCCCchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHh-
Confidence            999988876 2 23344221111   112221111111  111111           1111111112223355666664 


Q ss_pred             cCCHHHHHHHHhhCCCCC-cchHHHHHHHHH--hcCChHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHhccCcHHHHHH
Q 005268          381 CGRIDDAMSLFYQVPRSS-SVPWNAIISCHG--IHGQGDKALNFFRQMLDEGVRPDH--ITFVSLLTACSHSGLVSEGQR  455 (705)
Q Consensus       381 ~g~~~~A~~~~~~~~~~~-~~~~~~li~~~~--~~g~~~~A~~~~~~m~~~g~~p~~--~t~~~ll~a~~~~g~~~~a~~  455 (705)
                       +..+.+.++-...+... ...+.+++....  +...+.+|.+++...-+.  .|..  +.....+......|+++.|.+
T Consensus       321 -nk~~q~r~~~a~lp~~~p~~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~--~p~~s~~v~L~~aQl~is~gn~~~A~~  397 (652)
T KOG2376|consen  321 -NKMDQVRELSASLPGMSPESLFPILLQEATKVREKKHKKAIELLLQFADG--HPEKSKVVLLLRAQLKISQGNPEVALE  397 (652)
T ss_pred             -hhHHHHHHHHHhCCccCchHHHHHHHHHHHHHHHHHHhhhHHHHHHHhcc--CCchhHHHHHHHHHHHHhcCCHHHHHH
Confidence             56677778777777443 233455544432  233577888888887774  4544  344445556788999999999


Q ss_pred             HHH--------HhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhC--------CCCCC-HHHHHHHHHHHHhcCCh
Q 005268          456 YFH--------MMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNM--------PVRPD-ASIWGALLGACRIHGNM  518 (705)
Q Consensus       456 ~~~--------~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~--------~~~p~-~~~~~~ll~~~~~~g~~  518 (705)
                      ++.        .+.+. +..  +.+..+++.+|.+.++-+-|.+++.+.        .-.+. ..+|.-+...-.++|+.
T Consensus       398 il~~~~~~~~ss~~~~-~~~--P~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~  474 (652)
T KOG2376|consen  398 ILSLFLESWKSSILEA-KHL--PGTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNE  474 (652)
T ss_pred             HHHHHhhhhhhhhhhh-ccC--hhHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCch
Confidence            998        44432 333  447778889999988877676666554        11222 22344444455678999


Q ss_pred             hHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHH
Q 005268          519 ELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEV  558 (705)
Q Consensus       519 ~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~  558 (705)
                      ++|...++++++.+|++......+..+|+... .+.|..+
T Consensus       475 ~ea~s~leel~k~n~~d~~~l~~lV~a~~~~d-~eka~~l  513 (652)
T KOG2376|consen  475 EEASSLLEELVKFNPNDTDLLVQLVTAYARLD-PEKAESL  513 (652)
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHhcC-HHHHHHH
Confidence            99999999999999999999999988887653 4455444

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.06  E-value=3.2e-06  Score=89.04  Aligned_cols=435  Identities=12%  Similarity=0.141  Sum_probs=234.3

Q ss_pred             hCCCCCHHHHHHHHHHHHcCCChhHHHHHhccCCC---CCcchHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChh-hH
Q 005268           57 LGFEWDVFVAASLLHMYCRFGLANVARKLFDDMPV---RDSGSWNAMISGYCQSGNAVEALDILDEMRLEGVSMDPI-TV  132 (705)
Q Consensus        57 ~g~~~~~~~~~~ll~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~  132 (705)
                      ..+..|..+|..|.-+..++|+++.+-+.|++...   .....|+.+-..|...|....|+.+++.-....-.|+.. .+
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            34567888999999999999999999999987653   344569999999999999999999988766433234333 34


Q ss_pred             HhHHHHhh-cCCChHHHHHHHHHHHHhC--CC--CchhHHHHHHHHHHccC-----------CHHHHHHHHhccCCC---
Q 005268          133 ASILPVCA-RSDNILSGLLIHLYIVKHG--LE--FNLFVSNNLINMYAKFG-----------MMRHALRVFDQMMER---  193 (705)
Q Consensus       133 ~~ll~~~~-~~~~~~~a~~~~~~~~~~g--~~--~~~~~~~~Li~~y~~~g-----------~~~~A~~~f~~m~~~---  193 (705)
                      -..-+.|. +.+..+++..+-..++...  ..  .....+-.+.-+|...-           ...++.+.+++..+.   
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            44444453 4566777777766666521  11  11222333333332210           112333444443221   


Q ss_pred             CeehHHHHHHHHHcCCChhhHHHHHHHHHHCCCCCChhhHHHHHHHHHccCChhhHHHHHHHHHHhcCCCchhHHHHHHH
Q 005268          194 DVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVV  273 (705)
Q Consensus       194 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li  273 (705)
                      |...--.+.--|+..++.+.|++..++..+.+-.-+...|..+.-.+...+++..|..+.+.....  ++.|......-+
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 DPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEE--FGDNHVLMDGKI  554 (799)
T ss_pred             CchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHH--hhhhhhhchhhh
Confidence            111111222234445555555555555555444444444444444445555555555554444332  122211111111


Q ss_pred             HHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccccchhHHhhccCchHHHH
Q 005268          274 DMYAKLGIINSACAVFEGLPVKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGI  353 (705)
Q Consensus       274 ~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~  353 (705)
                      ..-...++.++|......+.    ..|... .+..+.++-...+++...+.-..+ .|                      
T Consensus       555 ~i~~~~~~~e~~l~t~~~~L----~~we~~-~~~q~~~~~g~~~~lk~~l~la~~-q~----------------------  606 (799)
T KOG4162|consen  555 HIELTFNDREEALDTCIHKL----ALWEAE-YGVQQTLDEGKLLRLKAGLHLALS-QP----------------------  606 (799)
T ss_pred             hhhhhcccHHHHHHHHHHHH----HHHHhh-hhHhhhhhhhhhhhhhcccccCcc-cc----------------------
Confidence            11122233333322221110    000000 000111111112222222111000 00                      


Q ss_pred             HHHHHHHHhCCCCchhHHHHHHHHHH---hcCCHHHHHHHHhhCCCCCc------chHHHHHHHHHhcCChHHHHHHHHH
Q 005268          354 KIHARVIKNCLCFDVFVATCLVDMYG---KCGRIDDAMSLFYQVPRSSS------VPWNAIISCHGIHGQGDKALNFFRQ  424 (705)
Q Consensus       354 ~~~~~~~~~g~~~~~~~~~~li~~y~---k~g~~~~A~~~~~~~~~~~~------~~~~~li~~~~~~g~~~~A~~~~~~  424 (705)
                                 ...+.++..+.....   +.-..+.....+...+.++.      ..|......+...++.++|...+.+
T Consensus       607 -----------~~a~s~sr~ls~l~a~~~~~~~se~~Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~E  675 (799)
T KOG4162|consen  607 -----------TDAISTSRYLSSLVASQLKSAGSELKLPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLE  675 (799)
T ss_pred             -----------cccchhhHHHHHHHHhhhhhcccccccCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHH
Confidence                       001111111111111   11111111111111222221      1266677788888899999888888


Q ss_pred             HHHcCCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCC-cchHHHHHHHHHhcCCHHHHHH--HHHhC-CCC
Q 005268          425 MLDEGVRPDH-ITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPH-LKHYGCMVDLFGRAGHLGMAHN--FIQNM-PVR  499 (705)
Q Consensus       425 m~~~g~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~--~~~~~-~~~  499 (705)
                      ...  +.|-. ..|......+...|.+++|.+.|....   -+.|+ +...+++..++.+.|+..-|..  ++..+ .+.
T Consensus       676 a~~--~~~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al---~ldP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~d  750 (799)
T KOG4162|consen  676 ASK--IDPLSASVYYLRGLLLEVKGQLEEAKEAFLVAL---ALDPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLD  750 (799)
T ss_pred             HHh--cchhhHHHHHHhhHHHHHHHhhHHHHHHHHHHH---hcCCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhC
Confidence            777  44543 455555567778899999999888765   56774 5678888999999997666655  77766 555


Q ss_pred             C-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcc
Q 005268          500 P-DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVG  537 (705)
Q Consensus       500 p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~  537 (705)
                      | +...|-.|.....+.|+.+.|-..|.-+.++++.+|.
T Consensus       751 p~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qLe~S~PV  789 (799)
T KOG4162|consen  751 PLNHEAWYYLGEVFKKLGDSKQAAECFQAALQLEESNPV  789 (799)
T ss_pred             CCCHHHHHHHHHHHHHccchHHHHHHHHHHHhhccCCCc
Confidence            6 5789999999999999999999999999999987764

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.05  E-value=1.1e-08  Score=102.40  Aligned_cols=211  Identities=14%  Similarity=0.085  Sum_probs=138.9

Q ss_pred             CchHHHHHHHHHHHHhC-CCC--chhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCcchHHHHHHHHHhcCChHHHHH
Q 005268          347 GALRQGIKIHARVIKNC-LCF--DVFVATCLVDMYGKCGRIDDAMSLFYQVP---RSSSVPWNAIISCHGIHGQGDKALN  420 (705)
Q Consensus       347 ~~~~~a~~~~~~~~~~g-~~~--~~~~~~~li~~y~k~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~  420 (705)
                      +..+.+..-+.+++... ..|  ....+..+...|.+.|+.++|...|++..   +.+...|+.+...+...|++++|++
T Consensus        40 ~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~~~~~g~~~~A~~  119 (296)
T PRK11189         40 LQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRPDMADAYNYLGIYLTQAGNFDAAYE  119 (296)
T ss_pred             hHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            34455555555555431 122  23456667777888888888888888765   3445568888888888888888888


Q ss_pred             HHHHHHHcCCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhC-C-
Q 005268          421 FFRQMLDEGVRPDH-ITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNM-P-  497 (705)
Q Consensus       421 ~~~~m~~~g~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~-  497 (705)
                      .|++.++  +.|+. .++..+..++...|++++|.+.|+...+.   .|+..........+...++.++|.+.+++. . 
T Consensus       120 ~~~~Al~--l~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~---~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~  194 (296)
T PRK11189        120 AFDSVLE--LDPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQD---DPNDPYRALWLYLAESKLDPKQAKENLKQRYEK  194 (296)
T ss_pred             HHHHHHH--hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHccCCHHHHHHHHHHHHhh
Confidence            8888887  56664 56777777788888888888888887643   554322222223345567888888888654 2 


Q ss_pred             CCCCHHHHHHHHHHHHhcCChhHHHHHHHHHh-------ccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhCC
Q 005268          498 VRPDASIWGALLGACRIHGNMELGAVASDRLF-------EVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDRG  566 (705)
Q Consensus       498 ~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~-------~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  566 (705)
                      ..|+.  |.. .......|+..++ ..++.+.       ++.|+.+.+|..++.+|...|++++|...+++..+.+
T Consensus       195 ~~~~~--~~~-~~~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~  266 (296)
T PRK11189        195 LDKEQ--WGW-NIVEFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANN  266 (296)
T ss_pred             CCccc--cHH-HHHHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            22332  321 2223345555443 2333333       3455666788888999999999999999988887664

>PRK12370 invasion protein regulator; Provisional

Probab=99.04  E-value=1.5e-08  Score=110.81  Aligned_cols=211  Identities=11%  Similarity=-0.010  Sum_probs=163.1

Q ss_pred             CchHHHHHHHHHHHHhCCCCchhHHHHHHHHHH---------hcCCHHHHHHHHhhCC---CCCcchHHHHHHHHHhcCC
Q 005268          347 GALRQGIKIHARVIKNCLCFDVFVATCLVDMYG---------KCGRIDDAMSLFYQVP---RSSSVPWNAIISCHGIHGQ  414 (705)
Q Consensus       347 ~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~---------k~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~  414 (705)
                      +++++|...++++++.. +.+...+..+..+|.         ..+++++|...+++..   +.+...|..+...+...|+
T Consensus       275 ~~~~~A~~~~~~Al~ld-P~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ldP~~~~a~~~lg~~~~~~g~  353 (553)
T PRK12370        275 YSLQQALKLLTQCVNMS-PNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELDHNNPQALGLLGLINTIHSE  353 (553)
T ss_pred             HHHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHccC
Confidence            45688999999998763 224555666655544         2345889999999877   3455668888889999999


Q ss_pred             hHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcc-hHHHHHHHHHhcCCHHHHHHH
Q 005268          415 GDKALNFFRQMLDEGVRPDH-ITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLK-HYGCMVDLFGRAGHLGMAHNF  492 (705)
Q Consensus       415 ~~~A~~~~~~m~~~g~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~-~~~~li~~~~~~g~~~~A~~~  492 (705)
                      +++|+..|++.++  +.|+. ..+..+..++...|++++|...++...+   +.|+.. .+..+...+...|++++|...
T Consensus       354 ~~~A~~~~~~Al~--l~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~---l~P~~~~~~~~~~~~~~~~g~~eeA~~~  428 (553)
T PRK12370        354 YIVGSLLFKQANL--LSPISADIKYYYGWNLFMAGQLEEALQTINECLK---LDPTRAAAGITKLWITYYHTGIDDAIRL  428 (553)
T ss_pred             HHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh---cCCCChhhHHHHHHHHHhccCHHHHHHH
Confidence            9999999999999  56764 5777788899999999999999999875   466532 333445557778999999999


Q ss_pred             HHhCC--CCCC-HHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhC
Q 005268          493 IQNMP--VRPD-ASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       493 ~~~~~--~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      +++..  ..|+ ...+..+...+...|+.++|...++++....|++......++..|...|  ++|...++.+.+.
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            98872  2354 4557778888889999999999999998888888777888888888888  4788877776653

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=99.03  E-value=1.2e-08  Score=91.64  Aligned_cols=161  Identities=11%  Similarity=0.054  Sum_probs=140.9

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHH
Q 005268          402 WNAIISCHGIHGQGDKALNFFRQMLDEGVRPDH-ITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDL  479 (705)
Q Consensus       402 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~  479 (705)
                      ...|..+|.+.|+...|..-+++.++  ..|+. .++..+...|.+.|..+.|.+.|+...   .+.| +-.+.|....-
T Consensus        38 rlqLal~YL~~gd~~~A~~nlekAL~--~DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAl---sl~p~~GdVLNNYG~F  112 (250)
T COG3063          38 RLQLALGYLQQGDYAQAKKNLEKALE--HDPSYYLAHLVRAHYYQKLGENDLADESYRKAL---SLAPNNGDVLNNYGAF  112 (250)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHH--hCcccHHHHHHHHHHHHHcCChhhHHHHHHHHH---hcCCCccchhhhhhHH
Confidence            44577789999999999999999999  57776 588888899999999999999999887   4566 45788889999


Q ss_pred             HHhcCCHHHHHHHHHhCCCCCC----HHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchH
Q 005268          480 FGRAGHLGMAHNFIQNMPVRPD----ASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGV  555 (705)
Q Consensus       480 ~~~~g~~~~A~~~~~~~~~~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a  555 (705)
                      ++..|++++|...|++.-..|+    ..+|..+.....+.|+.+.|+..+++.++++|+++.....++......|++-.|
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            9999999999999998844443    558888888888999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhCCC
Q 005268          556 DEVRSLARDRGL  567 (705)
Q Consensus       556 ~~~~~~m~~~~~  567 (705)
                      ..+++....++.
T Consensus       193 r~~~~~~~~~~~  204 (250)
T COG3063         193 RLYLERYQQRGG  204 (250)
T ss_pred             HHHHHHHHhccc
Confidence            999998877654

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.03  E-value=3.7e-08  Score=95.36  Aligned_cols=197  Identities=15%  Similarity=0.170  Sum_probs=107.7

Q ss_pred             hhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCC-cccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHH
Q 005268          297 VISWNTLITGYAQNGLASEAIEVFQMMEECNEINPN-QGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLV  375 (705)
Q Consensus       297 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~-~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li  375 (705)
                      ...+..+...+...|++++|.+.|++..+   ..|+ ...+..+...+...|+++.|...+....+.. +.+..      
T Consensus        31 ~~~~~~la~~~~~~~~~~~A~~~~~~~l~---~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~------  100 (234)
T TIGR02521        31 AKIRVQLALGYLEQGDLEVAKENLDKALE---HDPDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGD------  100 (234)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHH---hCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHH------
Confidence            45677777788888888888888887766   3343 2333344444444555555555555444432 11223      


Q ss_pred             HHHHhcCCHHHHHHHHhhCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCcHHHHH
Q 005268          376 DMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPD-HITFVSLLTACSHSGLVSEGQ  454 (705)
Q Consensus       376 ~~y~k~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~  454 (705)
                                               .+..+...+...|++++|.+.|++.......|. ...+..+..++...|++++|.
T Consensus       101 -------------------------~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  155 (234)
T TIGR02521       101 -------------------------VLNNYGTFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAE  155 (234)
T ss_pred             -------------------------HHHHHHHHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHH
Confidence                                     344444555555555555555555554321121 233444455556666666666


Q ss_pred             HHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC-CC-CCCHHHHHHHHHHHHhcCChhHHHHHHHHHhcc
Q 005268          455 RYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM-PV-RPDASIWGALLGACRIHGNMELGAVASDRLFEV  531 (705)
Q Consensus       455 ~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  531 (705)
                      +.+....+.   .| +...+..+...+...|++++|...+++. .. +++...+..+...+...|+.+.|....+.+...
T Consensus       156 ~~~~~~~~~---~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  232 (234)
T TIGR02521       156 KYLTRALQI---DPQRPESLLELAELYYLRGQYKDARAYLERYQQTYNQTAESLWLGIRIARALGDVAAAQRYGAQLQKL  232 (234)
T ss_pred             HHHHHHHHh---CcCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhh
Confidence            666655532   22 2345555666666666666666666554 11 223445555556666667777666666655544

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.

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.02  E-value=8.8e-09  Score=96.69  Aligned_cols=230  Identities=15%  Similarity=0.176  Sum_probs=157.7

Q ss_pred             HHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHh
Q 005268          301 NTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGK  380 (705)
Q Consensus       301 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k  380 (705)
                      +-|..+|.+.|.+.+|.+.|+.-.+   ..|-..||..+-.+|.+...+..|..++.+-++. ++-|+....-....+-.
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~---q~~~~dTfllLskvY~ridQP~~AL~~~~~gld~-fP~~VT~l~g~ARi~ea  302 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLT---QFPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS-FPFDVTYLLGQARIHEA  302 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhh---cCCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc-CCchhhhhhhhHHHHHH
Confidence            4566677777777777777776655   4455556666667777777777777776666554 34444444555666666


Q ss_pred             cCCHHHHHHHHhhCCC---CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHH
Q 005268          381 CGRIDDAMSLFYQVPR---SSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYF  457 (705)
Q Consensus       381 ~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~  457 (705)
                      .++.++|.++++...+   .++.+...+..+|.-.++++-|+..|+++++.|+. ++..|+.+.-+|.-.+.+|-++.-|
T Consensus       303 m~~~~~a~~lYk~vlk~~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L~sf  381 (478)
T KOG1129|consen  303 MEQQEDALQLYKLVLKLHPINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVLPSF  381 (478)
T ss_pred             HHhHHHHHHHHHHHHhcCCccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhHHHH
Confidence            7777777777776653   34444555667777788888888888888888753 5667777777788888888777777


Q ss_pred             HHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcc
Q 005268          458 HMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVG  537 (705)
Q Consensus       458 ~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~  537 (705)
                      ++.... .-.|+                              .-..+|-.|.......||+..|.+.|+-.+.-+|++..
T Consensus       382 ~RAlst-at~~~------------------------------~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~h~e  430 (478)
T KOG1129|consen  382 QRALST-ATQPG------------------------------QAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQHGE  430 (478)
T ss_pred             HHHHhh-ccCcc------------------------------hhhhhhhccceeEEeccchHHHHHHHHHHhccCcchHH
Confidence            665532 11121                              11345666666666777888888888888888888888


Q ss_pred             hhhhhhhhhhhcCCcchHHHHHHHHHhCC
Q 005268          538 YYVLMSNIYANVGKWEGVDEVRSLARDRG  566 (705)
Q Consensus       538 ~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  566 (705)
                      +++.|+-+-.+.|+.++|+.++.......
T Consensus       431 alnNLavL~~r~G~i~~Arsll~~A~s~~  459 (478)
T KOG1129|consen  431 ALNNLAVLAARSGDILGARSLLNAAKSVM  459 (478)
T ss_pred             HHHhHHHHHhhcCchHHHHHHHHHhhhhC
Confidence            88888877788888888888887776543

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.01  E-value=1.2e-06  Score=93.91  Aligned_cols=468  Identities=14%  Similarity=0.180  Sum_probs=272.4

Q ss_pred             HHHHHHHHHcCCChhHHHHHhccCCC--CCcchHHHH-----HHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHhHHHH
Q 005268           66 AASLLHMYCRFGLANVARKLFDDMPV--RDSGSWNAM-----ISGYCQSGNAVEALDILDEMRLEGVSMDPITVASILPV  138 (705)
Q Consensus        66 ~~~ll~~y~~~g~~~~A~~~f~~~~~--~~~~~~~~l-----i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~  138 (705)
                      +..+.+.+.|.|-...|++.|..+..  +.++ .+.+     +-.|.-.-.++.+++.++.|...+++.|..+...+..-
T Consensus       609 ra~IAqLCEKAGL~qraLehytDl~DIKR~vV-hth~L~pEwLv~yFg~lsve~s~eclkaml~~NirqNlQi~VQvatk  687 (1666)
T KOG0985|consen  609 RAEIAQLCEKAGLLQRALEHYTDLYDIKRVVV-HTHLLNPEWLVNYFGSLSVEDSLECLKAMLSANIRQNLQIVVQVATK  687 (1666)
T ss_pred             HHHHHHHHHhcchHHHHHHhcccHHHHHHHHH-HhccCCHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhhhHHHHHHHHH
Confidence            55667788889999999988887752  2111 1111     23455556788999999999988888887776666665


Q ss_pred             hhcCCChHHHHHHHHHHHHh-----------CCCCchhHHHHHHHHHHccCCHHHHHHHHhccCC---------------
Q 005268          139 CARSDNILSGLLIHLYIVKH-----------GLEFNLFVSNNLINMYAKFGMMRHALRVFDQMME---------------  192 (705)
Q Consensus       139 ~~~~~~~~~a~~~~~~~~~~-----------g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~---------------  192 (705)
                      |...=..+.-.++|+.....           ++..|+.+.-..|.+-++.|++.+.+++-++-.-               
T Consensus       688 y~eqlg~~~li~lFE~fks~eGL~yfLgSivn~seDpevh~KYIqAA~kt~QikEvERicresn~YdpErvKNfLkeAkL  767 (1666)
T KOG0985|consen  688 YHEQLGAQALIELFESFKSYEGLYYFLGSIVNFSEDPEVHFKYIQAACKTGQIKEVERICRESNCYDPERVKNFLKEAKL  767 (1666)
T ss_pred             HHHHhCHHHHHHHHHhhccchhHHHHHHHHhccccCchHHHHHHHHHHhhccHHHHHHHHhccccCCHHHHHHHHHhccc
Confidence            55444444444555443321           2456777778889999999999999888765411               


Q ss_pred             ----C------------CeehH------HHHHHHHHcCCChhhHHHHHHHHHHCCCCCC-----------hhhHHHHHHH
Q 005268          193 ----R------------DVVSW------NSIIAAYEQSNDPITAHGFFTTMQQAGIQPD-----------LLTLVSLTSI  239 (705)
Q Consensus       193 ----~------------~~~~~------~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-----------~~t~~~ll~a  239 (705)
                          |            |.+.|      .-.|..|++.=++.+.-.+.-.+.......+           .+....+..-
T Consensus       768 ~DqlPLiiVCDRf~fVhdlvlYLyrnn~~kyIE~yVQkvNps~~p~VvG~LLD~dC~E~~ik~Li~~v~gq~~~deLv~E  847 (1666)
T KOG0985|consen  768 TDQLPLIIVCDRFDFVHDLVLYLYRNNLQKYIEIYVQKVNPSRTPQVVGALLDVDCSEDFIKNLILSVRGQFPVDELVEE  847 (1666)
T ss_pred             cccCceEEEecccccHHHHHHHHHHhhHHHHHHHHHhhcCCcccchhhhhhhcCCCcHHHHHHHHHHHhccCChHHHHHH
Confidence                1            11111      1134555554444333333322222111100           0111122233


Q ss_pred             HHccCChhhHHHHHHHHHHhcCCCchhHHHHHHHHHHHhcCC--------------------------------------
Q 005268          240 VAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGI--------------------------------------  281 (705)
Q Consensus       240 ~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~--------------------------------------  281 (705)
                      +.+.+++..-...++..+..|  ..|+.++|+|...|....+                                      
T Consensus       848 vEkRNRLklLlp~LE~~i~eG--~~d~a~hnAlaKIyIDSNNnPE~fLkeN~yYDs~vVGkYCEKRDP~lA~vaYerGqc  925 (1666)
T KOG0985|consen  848 VEKRNRLKLLLPWLESLIQEG--SQDPATHNALAKIYIDSNNNPERFLKENPYYDSKVVGKYCEKRDPHLACVAYERGQC  925 (1666)
T ss_pred             HHhhhhHHHHHHHHHHHHhcc--CcchHHHhhhhheeecCCCChHHhcccCCcchhhHHhhhhcccCCceEEEeecccCC
Confidence            344445555555555556665  4566677777666654332                                      


Q ss_pred             --------------------------HHHHHHHHhcC----------------C-CCChhHHHHHHHHHHHcCChhHHHH
Q 005268          282 --------------------------INSACAVFEGL----------------P-VKDVISWNTLITGYAQNGLASEAIE  318 (705)
Q Consensus       282 --------------------------~~~A~~~f~~~----------------~-~~~~~~~~~li~~~~~~g~~~~A~~  318 (705)
                                                .+--.+++.+-                + ..|+..-+.-..++...+-+.+-++
T Consensus       926 D~elI~vcNeNSlfK~~aRYlv~R~D~~LW~~VL~e~n~~rRqLiDqVv~tal~E~~dPe~vS~tVkAfMtadLp~eLIE 1005 (1666)
T KOG0985|consen  926 DLELINVCNENSLFKSQARYLVERSDPDLWAKVLNEENPYRRQLIDQVVQTALPETQDPEEVSVTVKAFMTADLPNELIE 1005 (1666)
T ss_pred             cHHHHHhcCchhHHHHHHHHHHhccChHHHHHHHhccChHHHHHHHHHHHhcCCccCChHHHHHHHHHHHhcCCcHHHHH
Confidence                                      11111111000                0 1133333444566666777777777


Q ss_pred             HHHhhhhcCCCCCCcccccchhHHhhccCchHHHHHHHHHHHHh-----------------------CCCCchhHHHHHH
Q 005268          319 VFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKN-----------------------CLCFDVFVATCLV  375 (705)
Q Consensus       319 ~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~-----------------------g~~~~~~~~~~li  375 (705)
                      +++++.-....-.....+-.++-.-+-..+.....++.+++-..                       .+..+....+.|+
T Consensus      1006 LLEKIvL~~S~Fse~~nLQnLLiLtAikad~trVm~YI~rLdnyDa~~ia~iai~~~LyEEAF~ifkkf~~n~~A~~VLi 1085 (1666)
T KOG0985|consen 1006 LLEKIVLDNSVFSENRNLQNLLILTAIKADRTRVMEYINRLDNYDAPDIAEIAIENQLYEEAFAIFKKFDMNVSAIQVLI 1085 (1666)
T ss_pred             HHHHHhcCCcccccchhhhhhHHHHHhhcChHHHHHHHHHhccCCchhHHHHHhhhhHHHHHHHHHHHhcccHHHHHHHH
Confidence            77776531111111111111111111111112222222111111                       1122222223333


Q ss_pred             HHHHhcCCHHHHHHHHhhCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHH
Q 005268          376 DMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQR  455 (705)
Q Consensus       376 ~~y~k~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~  455 (705)
                      +   ..+.++.|.+.-++..+  ...|..+..+-.+.|...+|++-|-+.      -|+..|..++.++++.|.+++-.+
T Consensus      1086 e---~i~~ldRA~efAe~~n~--p~vWsqlakAQL~~~~v~dAieSyika------dDps~y~eVi~~a~~~~~~edLv~ 1154 (1666)
T KOG0985|consen 1086 E---NIGSLDRAYEFAERCNE--PAVWSQLAKAQLQGGLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVK 1154 (1666)
T ss_pred             H---HhhhHHHHHHHHHhhCC--hHHHHHHHHHHHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHH
Confidence            2   12344444444444333  334999999999999999999877433      356789999999999999999999


Q ss_pred             HHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCC
Q 005268          456 YFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSEN  535 (705)
Q Consensus       456 ~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  535 (705)
                      ++...+++ .-+|.  .=+.|+-+|++.+++.|-++++.    -||..-.....+-|...|.++.|.-+|.        +
T Consensus      1155 yL~MaRkk-~~E~~--id~eLi~AyAkt~rl~elE~fi~----gpN~A~i~~vGdrcf~~~~y~aAkl~y~--------~ 1219 (1666)
T KOG0985|consen 1155 YLLMARKK-VREPY--IDSELIFAYAKTNRLTELEEFIA----GPNVANIQQVGDRCFEEKMYEAAKLLYS--------N 1219 (1666)
T ss_pred             HHHHHHHh-hcCcc--chHHHHHHHHHhchHHHHHHHhc----CCCchhHHHHhHHHhhhhhhHHHHHHHH--------H
Confidence            99777655 55665  44679999999999999998884    4788888889999999999999988887        4


Q ss_pred             cchhhhhhhhhhhcCCcchHHHHHHHH
Q 005268          536 VGYYVLMSNIYANVGKWEGVDEVRSLA  562 (705)
Q Consensus       536 ~~~~~~l~~~~~~~g~~~~a~~~~~~m  562 (705)
                      .+.|..|+..+...|.+..|...-+++
T Consensus      1220 vSN~a~La~TLV~LgeyQ~AVD~aRKA 1246 (1666)
T KOG0985|consen 1220 VSNFAKLASTLVYLGEYQGAVDAARKA 1246 (1666)
T ss_pred             hhhHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            466777888888888887776544443

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=98.97  E-value=2.1e-06  Score=83.70  Aligned_cols=387  Identities=10%  Similarity=0.008  Sum_probs=227.0

Q ss_pred             chhHHHHHHHHHHccCCHHHHHHHHhccCCCCeehHHHHH-HHHHcCC-ChhhHHHHHHHHHHCCCCCChhhHHHHHHHH
Q 005268          163 NLFVSNNLINMYAKFGMMRHALRVFDQMMERDVVSWNSII-AAYEQSN-DPITAHGFFTTMQQAGIQPDLLTLVSLTSIV  240 (705)
Q Consensus       163 ~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~~~~~~~~~li-~~~~~~g-~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~  240 (705)
                      +...-...+..|-..++-++|.....+.+..-...-+.|+ .-+-+.| +-.++.--+++......    ..+ ..|.+.
T Consensus        96 ~~e~~r~~aecy~~~~n~~~Ai~~l~~~p~t~r~p~inlMla~l~~~g~r~~~~vl~ykevvrecp----~aL-~~i~~l  170 (564)
T KOG1174|consen   96 DAEQRRRAAECYRQIGNTDMAIETLLQVPPTLRSPRINLMLARLQHHGSRHKEAVLAYKEVIRECP----MAL-QVIEAL  170 (564)
T ss_pred             cHHHHHHHHHHHHHHccchHHHHHHhcCCccccchhHHHHHHHHHhccccccHHHHhhhHHHHhcc----hHH-HHHHHH
Confidence            4455566788888889999999999888775444444444 3333333 32233333344333211    000 011111


Q ss_pred             HccCChhhHHHHHHHHHHhcCCCchhHHHHHHHHHHHhc--CCHHHHHHHHhcC-----CCCChhHHHHHHHHHHHcCCh
Q 005268          241 AQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKL--GIINSACAVFEGL-----PVKDVISWNTLITGYAQNGLA  313 (705)
Q Consensus       241 ~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~--g~~~~A~~~f~~~-----~~~~~~~~~~li~~~~~~g~~  313 (705)
                      .+.+ +.....--..+-+.. .++.......-+.+|+.+  ++-..|...|-.+     ...|+.....+...+...|+.
T Consensus       171 l~l~-v~g~e~~S~~m~~~~-~~~~~dwls~wika~Aq~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn  248 (564)
T KOG1174|consen  171 LELG-VNGNEINSLVMHAAT-VPDHFDWLSKWIKALAQMFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDY  248 (564)
T ss_pred             HHHh-hcchhhhhhhhhhee-cCCCccHHHHHHHHHHHHHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCc
Confidence            1110 000011111111111 333333334445555443  4444444333222     234777788888888888999


Q ss_pred             hHHHHHHHhhhhcCCCCCCcccccch-hHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHh
Q 005268          314 SEAIEVFQMMEECNEINPNQGTYVSI-LPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFY  392 (705)
Q Consensus       314 ~~A~~~~~~m~~~~~~~p~~~t~~~l-l~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~  392 (705)
                      ++|+..|++.+.   +.|+..+-.-+ .-.+...|+++....+...+.... +.....|-.-........+++.|+.+-+
T Consensus       249 ~~a~~~Fe~~~~---~dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~~~~l~~~K~~~rAL~~~e  324 (564)
T KOG1174|consen  249 FQAEDIFSSTLC---ANPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWFVHAQLLYDEKKFERALNFVE  324 (564)
T ss_pred             hHHHHHHHHHhh---CChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhhhhhhhhhhhhhHHHHHHHHH
Confidence            999888888876   66654432111 112345677777777666665432 1111112222223334567888888877


Q ss_pred             hCCCCCcch---HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcC
Q 005268          393 QVPRSSSVP---WNAIISCHGIHGQGDKALNFFRQMLDEGVRPDH-ITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKP  468 (705)
Q Consensus       393 ~~~~~~~~~---~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p  468 (705)
                      +..+.+...   +-.-...+.+.|++++|.-.|+..+.  +.|.. ..|..|+.+|...|...+|.-.-+...+.  +..
T Consensus       325 K~I~~~~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~--Lap~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~--~~~  400 (564)
T KOG1174|consen  325 KCIDSEPRNHEALILKGRLLIALERHTQAVIAFRTAQM--LAPYRLEIYRGLFHSYLAQKRFKEANALANWTIRL--FQN  400 (564)
T ss_pred             HHhccCcccchHHHhccHHHHhccchHHHHHHHHHHHh--cchhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHH--hhc
Confidence            766544444   33334567778888888888888887  56644 68888888888888888888766655432  233


Q ss_pred             CcchHHHHH-HHHHhc-CCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhh
Q 005268          469 HLKHYGCMV-DLFGRA-GHLGMAHNFIQNM-PVRPD-ASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSN  544 (705)
Q Consensus       469 ~~~~~~~li-~~~~~~-g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~  544 (705)
                      +..+.+-+. ..+.-. .--++|..++++. .++|+ ....+.+...|...|..+.++.++++.+...|+ ...++.|++
T Consensus       401 sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~~~D-~~LH~~Lgd  479 (564)
T KOG1174|consen  401 SARSLTLFGTLVLFPDPRMREKAKKFAEKSLKINPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLIIFPD-VNLHNHLGD  479 (564)
T ss_pred             chhhhhhhcceeeccCchhHHHHHHHHHhhhccCCccHHHHHHHHHHHHhhCccchHHHHHHHHHhhccc-cHHHHHHHH
Confidence            333443332 222222 2345688888776 57777 446677777888888888899999988888884 467888888


Q ss_pred             hhhhcCCcchHHHHHHHHHhC
Q 005268          545 IYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       545 ~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      .+.....+.+|...|..+...
T Consensus       480 ~~~A~Ne~Q~am~~y~~ALr~  500 (564)
T KOG1174|consen  480 IMRAQNEPQKAMEYYYKALRQ  500 (564)
T ss_pred             HHHHhhhHHHHHHHHHHHHhc
Confidence            888888888888888876654

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.96  E-value=4.9e-06  Score=79.48  Aligned_cols=442  Identities=12%  Similarity=0.049  Sum_probs=260.3

Q ss_pred             HHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHhHHHHhhcCCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHccCCH
Q 005268          101 ISGYCQSGNAVEALDILDEMRLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGMM  180 (705)
Q Consensus       101 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~  180 (705)
                      +.-+..+.++..|+.+++--...+-.-...+-.-+...+...|++++|...+..+... -.++..++-.|...+.-.|.+
T Consensus        29 Ledfls~rDytGAislLefk~~~~~EEE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~-~~~~~el~vnLAcc~FyLg~Y  107 (557)
T KOG3785|consen   29 LEDFLSNRDYTGAISLLEFKLNLDREEEDSLQLWIAHCYFHLGDYEEALNVYTFLMNK-DDAPAELGVNLACCKFYLGQY  107 (557)
T ss_pred             HHHHHhcccchhHHHHHHHhhccchhhhHHHHHHHHHHHHhhccHHHHHHHHHHHhcc-CCCCcccchhHHHHHHHHHHH
Confidence            4556677888899988877654332222222223334456899999999999988774 466777777788777788999


Q ss_pred             HHHHHHHhccCCCCeehHHHHHHHHHcCCChhhHHHHHHHHHHCCCCCChhhHHHHHHHHHccCChhhHHHHHHHHHHhc
Q 005268          181 RHALRVFDQMMERDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQLNDCRNSRSVHGFIMRRG  260 (705)
Q Consensus       181 ~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g  260 (705)
                      .+|..+-...++ ++..-..|...-.+.++-++-+.+-..+...     ...-.++.+.......+++|..++..+...+
T Consensus       108 ~eA~~~~~ka~k-~pL~~RLlfhlahklndEk~~~~fh~~LqD~-----~EdqLSLAsvhYmR~HYQeAIdvYkrvL~dn  181 (557)
T KOG3785|consen  108 IEAKSIAEKAPK-TPLCIRLLFHLAHKLNDEKRILTFHSSLQDT-----LEDQLSLASVHYMRMHYQEAIDVYKRVLQDN  181 (557)
T ss_pred             HHHHHHHhhCCC-ChHHHHHHHHHHHHhCcHHHHHHHHHHHhhh-----HHHHHhHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            999988776654 2222333444555667766666665555432     1122234444444556788888888877654


Q ss_pred             CCCchhHHHH-HHHHHHHhcCCHHHHHHHHhcCC---CCChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccc
Q 005268          261 WFMEDVIIGN-AVVDMYAKLGIINSACAVFEGLP---VKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTY  336 (705)
Q Consensus       261 ~~~~~~~~~~-~li~~y~~~g~~~~A~~~f~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~  336 (705)
                         |+-...| -+.-.|.|..-++-+.++++--.   ..++++-|.......+.=....|..-.+++.. .+-.    .|
T Consensus       182 ---~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q~pdStiA~NLkacn~fRl~ngr~ae~E~k~lad-N~~~----~~  253 (557)
T KOG3785|consen  182 ---PEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQFPDSTIAKNLKACNLFRLINGRTAEDEKKELAD-NIDQ----EY  253 (557)
T ss_pred             ---hhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHhCCCcHHHHHHHHHHHhhhhccchhHHHHHHHHh-cccc----cc
Confidence               2322222 23445677777777766654322   23455555555444443233333333333332 1110    01


Q ss_pred             cchhHHhh----ccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCcchHHHHHHHHHhc
Q 005268          337 VSILPAYS----HVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIH  412 (705)
Q Consensus       337 ~~ll~a~~----~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~  412 (705)
                      .-.-..|.    --..-+.|.+++--+.+.  -|.  .--.|+-.|.+.+++++|..+.....+..+.-|-.-.-.++..
T Consensus       254 ~f~~~l~rHNLVvFrngEgALqVLP~L~~~--IPE--ARlNL~iYyL~q~dVqeA~~L~Kdl~PttP~EyilKgvv~aal  329 (557)
T KOG3785|consen  254 PFIEYLCRHNLVVFRNGEGALQVLPSLMKH--IPE--ARLNLIIYYLNQNDVQEAISLCKDLDPTTPYEYILKGVVFAAL  329 (557)
T ss_pred             hhHHHHHHcCeEEEeCCccHHHhchHHHhh--ChH--hhhhheeeecccccHHHHHHHHhhcCCCChHHHHHHHHHHHHh
Confidence            11111111    112335566665554443  222  2234566789999999999999888755544443333334444


Q ss_pred             CC-------hHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcC
Q 005268          413 GQ-------GDKALNFFRQMLDEGVRPDHI-TFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAG  484 (705)
Q Consensus       413 g~-------~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g  484 (705)
                      |+       ..-|.+.|+-.-+++..-|.+ --.++.+++.-...+++.+-+++++..- =..-|... -.+..++...|
T Consensus       330 GQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~sY-F~NdD~Fn-~N~AQAk~atg  407 (557)
T KOG3785|consen  330 GQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIESY-FTNDDDFN-LNLAQAKLATG  407 (557)
T ss_pred             hhhcCcHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHH-hcCcchhh-hHHHHHHHHhc
Confidence            44       233444554444444444432 2234444555566789999999888642 23333333 35788999999


Q ss_pred             CHHHHHHHHHhCC--CCCCHHHHHHHHHHH-HhcCChhHHHHHHHHHhccC-CCC-cchhhhhhhhhhhcCCcchHHHHH
Q 005268          485 HLGMAHNFIQNMP--VRPDASIWGALLGAC-RIHGNMELGAVASDRLFEVD-SEN-VGYYVLMSNIYANVGKWEGVDEVR  559 (705)
Q Consensus       485 ~~~~A~~~~~~~~--~~p~~~~~~~ll~~~-~~~g~~~~a~~~~~~~~~~~-p~~-~~~~~~l~~~~~~~g~~~~a~~~~  559 (705)
                      ++.+|+++|-+..  .-.|..+|.+++.-| .+.+..+.|..++   ++.+ |.+ -+....+++-|.+++.+--|.+.|
T Consensus       408 ny~eaEelf~~is~~~ikn~~~Y~s~LArCyi~nkkP~lAW~~~---lk~~t~~e~fsLLqlIAn~CYk~~eFyyaaKAF  484 (557)
T KOG3785|consen  408 NYVEAEELFIRISGPEIKNKILYKSMLARCYIRNKKPQLAWDMM---LKTNTPSERFSLLQLIANDCYKANEFYYAAKAF  484 (557)
T ss_pred             ChHHHHHHHhhhcChhhhhhHHHHHHHHHHHHhcCCchHHHHHH---HhcCCchhHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            9999999997773  113677887777655 5667777776654   4443 322 233456789999999999999999


Q ss_pred             HHHHhCC
Q 005268          560 SLARDRG  566 (705)
Q Consensus       560 ~~m~~~~  566 (705)
                      +.+....
T Consensus       485 d~lE~lD  491 (557)
T KOG3785|consen  485 DELEILD  491 (557)
T ss_pred             hHHHccC
Confidence            9887654

>PRK11189 lipoprotein NlpI; Provisional

Probab=98.95  E-value=1.5e-07  Score=94.23  Aligned_cols=217  Identities=9%  Similarity=-0.022  Sum_probs=142.8

Q ss_pred             CChhHHHHHHHhhhhcCCCCCCc--ccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHH
Q 005268          311 GLASEAIEVFQMMEECNEINPNQ--GTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAM  388 (705)
Q Consensus       311 g~~~~A~~~~~~m~~~~~~~p~~--~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~  388 (705)
                      +..+.++.-+.++.......|+.  ..|......+...|+.+.|...+..+++.. +.+...++.+...|...|++++|.
T Consensus        40 ~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~~~~A~  118 (296)
T PRK11189         40 LQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGNFDAAY  118 (296)
T ss_pred             hHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCCHHHHH
Confidence            34455555555555312233321  234444555666677777777777766653 345678888888999999999999


Q ss_pred             HHHhhCCC---CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhC
Q 005268          389 SLFYQVPR---SSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFG  465 (705)
Q Consensus       389 ~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~  465 (705)
                      ..|++..+   .+...|..+...+...|++++|++.|++..+  ..|+..........+...++.++|...|.....  .
T Consensus       119 ~~~~~Al~l~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~--~~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~--~  194 (296)
T PRK11189        119 EAFDSVLELDPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQ--DDPNDPYRALWLYLAESKLDPKQAKENLKQRYE--K  194 (296)
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHccCCHHHHHHHHHHHHh--h
Confidence            99988753   3445688888889999999999999999998  466654222222234557789999999976553  2


Q ss_pred             CcCCcchHHHHHHHHHhcCCHH--HHHHHHHhC-CC----CC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCC
Q 005268          466 IKPHLKHYGCMVDLFGRAGHLG--MAHNFIQNM-PV----RP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSEN  535 (705)
Q Consensus       466 ~~p~~~~~~~li~~~~~~g~~~--~A~~~~~~~-~~----~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  535 (705)
                      ..|+...+ .++..+  .|++.  ++.+.+.+. ..    .| ....|..+...+.+.|++++|+..|+++++.+|.+
T Consensus       195 ~~~~~~~~-~~~~~~--lg~~~~~~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~~~  269 (296)
T PRK11189        195 LDKEQWGW-NIVEFY--LGKISEETLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNVYN  269 (296)
T ss_pred             CCccccHH-HHHHHH--ccCCCHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCch
Confidence            34443322 333333  44443  333333322 11    12 24579999999999999999999999999999754

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.94  E-value=1.9e-08  Score=94.46  Aligned_cols=190  Identities=10%  Similarity=0.093  Sum_probs=156.7

Q ss_pred             HHHHHHHHhcCCHHHHHHHHhhCC--CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHH-HHHHHhccC
Q 005268          372 TCLVDMYGKCGRIDDAMSLFYQVP--RSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVS-LLTACSHSG  448 (705)
Q Consensus       372 ~~li~~y~k~g~~~~A~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~-ll~a~~~~g  448 (705)
                      +.+..+|.+.|.+.+|...|+.-.  .+-+.+|-.|-..|.+..++..|+.+|.+-++  ..|-.+||.. ....+...+
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q~~~~dTfllLskvY~ridQP~~AL~~~~~gld--~fP~~VT~l~g~ARi~eam~  304 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQFPHPDTFLLLSKVYQRIDQPERALLVIGEGLD--SFPFDVTYLLGQARIHEAME  304 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhcCCchhHHHHHHHHHHHhccHHHHHHHHhhhhh--cCCchhhhhhhhHHHHHHHH
Confidence            557778888899999998888765  56677888888999999999999999999988  5777777654 456788889


Q ss_pred             cHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhC---CCCCCHHHHHHHHHHHHhcCChhHHHHHH
Q 005268          449 LVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNM---PVRPDASIWGALLGACRIHGNMELGAVAS  525 (705)
Q Consensus       449 ~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~---~~~p~~~~~~~ll~~~~~~g~~~~a~~~~  525 (705)
                      ..++|.++++...+.  -..+++...|+...|.-.|+.+-|+.+++++   +. -++..|+.+.-.|.-.++++.++..|
T Consensus       305 ~~~~a~~lYk~vlk~--~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~-~speLf~NigLCC~yaqQ~D~~L~sf  381 (478)
T KOG1129|consen  305 QQEDALQLYKLVLKL--HPINVEAIACIAVGYFYDNNPEMALRYYRRILQMGA-QSPELFCNIGLCCLYAQQIDLVLPSF  381 (478)
T ss_pred             hHHHHHHHHHHHHhc--CCccceeeeeeeeccccCCChHHHHHHHHHHHHhcC-CChHHHhhHHHHHHhhcchhhhHHHH
Confidence            999999999988754  2336778888888899999999999999876   33 36778899999999999999999999


Q ss_pred             HHHhccC--CC-CcchhhhhhhhhhhcCCcchHHHHHHHHHhCC
Q 005268          526 DRLFEVD--SE-NVGYYVLMSNIYANVGKWEGVDEVRSLARDRG  566 (705)
Q Consensus       526 ~~~~~~~--p~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  566 (705)
                      ++++..-  |+ .+..|..|+.+....|++.-|.+.|+.....+
T Consensus       382 ~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d  425 (478)
T KOG1129|consen  382 QRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSD  425 (478)
T ss_pred             HHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccC
Confidence            9998753  33 35668889999999999999999998877654

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=98.90  E-value=3.8e-07  Score=95.22  Aligned_cols=200  Identities=15%  Similarity=0.185  Sum_probs=113.3

Q ss_pred             HHHHHHHcCChhHHHHHHHhhhhc-----CCCCC-CcccccchhHHhhccCchHHHHHHHHHHHHhCC----CCchhHHH
Q 005268          303 LITGYAQNGLASEAIEVFQMMEEC-----NEINP-NQGTYVSILPAYSHVGALRQGIKIHARVIKNCL----CFDVFVAT  372 (705)
Q Consensus       303 li~~~~~~g~~~~A~~~~~~m~~~-----~~~~p-~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~----~~~~~~~~  372 (705)
                      +...|...+++++|..+|+++...     ....| -..++..|..+|.+.|++++|...++.+.+.--    .....+-.
T Consensus       247 ~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~  326 (508)
T KOG1840|consen  247 LALVYRSLGKYDEAVNLYEEALTIREEVFGEDHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAA  326 (508)
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHH
Confidence            444555566666666666655430     01112 123444555556667777776666665543200    00111100


Q ss_pred             HHHHHHHhcCCHHHHHHHHhhCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHc---CCCCCH----HHHHHHHHHHh
Q 005268          373 CLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQMLDE---GVRPDH----ITFVSLLTACS  445 (705)
Q Consensus       373 ~li~~y~k~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~---g~~p~~----~t~~~ll~a~~  445 (705)
                      .                            .+.++..+...+++++|..++++..+.   -+.++.    -+++.+...|.
T Consensus       327 ~----------------------------l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~  378 (508)
T KOG1840|consen  327 Q----------------------------LSELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAELYL  378 (508)
T ss_pred             H----------------------------HHHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHH
Confidence            0                            223333444444455555444443321   122222    36777777777


Q ss_pred             ccCcHHHHHHHHHHhHHhh----C-CcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC--------CCCCC-HHHHHHHHH
Q 005268          446 HSGLVSEGQRYFHMMQEEF----G-IKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM--------PVRPD-ASIWGALLG  510 (705)
Q Consensus       446 ~~g~~~~a~~~~~~m~~~~----~-~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~--------~~~p~-~~~~~~ll~  510 (705)
                      +.|++++|.++|+++.+..    + ..+ ....++.|...|.+.++.++|..+|.+.        +..|+ ..+|..|..
T Consensus       379 ~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~  458 (508)
T KOG1840|consen  379 KMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNLAA  458 (508)
T ss_pred             HhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHHHHHH
Confidence            7888888877777766542    1 111 1345667777788888887777777655        23455 458899999


Q ss_pred             HHHhcCChhHHHHHHHHHhc
Q 005268          511 ACRIHGNMELGAVASDRLFE  530 (705)
Q Consensus       511 ~~~~~g~~~~a~~~~~~~~~  530 (705)
                      .|...|+++.|+++.+.+..
T Consensus       459 ~Y~~~g~~e~a~~~~~~~~~  478 (508)
T KOG1840|consen  459 LYRAQGNYEAAEELEEKVLN  478 (508)
T ss_pred             HHHHcccHHHHHHHHHHHHH
Confidence            99999999999999888764

>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=98.88  E-value=5.2e-06  Score=87.99  Aligned_cols=251  Identities=16%  Similarity=0.144  Sum_probs=143.3

Q ss_pred             HHHHHHHHHcCChhHHHHHHHhhhhcCCCCCC-cccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHH
Q 005268          301 NTLITGYAQNGLASEAIEVFQMMEECNEINPN-QGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYG  379 (705)
Q Consensus       301 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~-~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~  379 (705)
                      .-+...|-..|++++|++..++..+   ..|+ ...|..-...+-+.|++.+|.+..+.+.... .-|.++-+..+..+.
T Consensus       198 ~~lAqhyd~~g~~~~Al~~Id~aI~---htPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD-~~DRyiNsK~aKy~L  273 (517)
T PF12569_consen  198 YFLAQHYDYLGDYEKALEYIDKAIE---HTPTLVELYMTKARILKHAGDLKEAAEAMDEARELD-LADRYINSKCAKYLL  273 (517)
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHh---cCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCC-hhhHHHHHHHHHHHH
Confidence            4456667778888888888887776   5565 3345556667778888888888888777654 346667777778888


Q ss_pred             hcCCHHHHHHHHhhCCCCCcch----------H--HHHHHHHHhcCChHHHHHHHHHHHHc--CCCCC------------
Q 005268          380 KCGRIDDAMSLFYQVPRSSSVP----------W--NAIISCHGIHGQGDKALNFFRQMLDE--GVRPD------------  433 (705)
Q Consensus       380 k~g~~~~A~~~~~~~~~~~~~~----------~--~~li~~~~~~g~~~~A~~~~~~m~~~--g~~p~------------  433 (705)
                      ++|++++|.+++....+.+..+          |  .....+|.+.|++..|+.-|....+.  .+.-|            
T Consensus       274 Ra~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v~k~f~~~~~DQfDFH~Yc~RK~  353 (517)
T PF12569_consen  274 RAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFHAVLKHFDDFEEDQFDFHSYCLRKM  353 (517)
T ss_pred             HCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhcccccHHHHHHhhc
Confidence            8899999988888777655322          3  33466788888888888777666542  11222            


Q ss_pred             -HHHHHHHHHHHhccCc-------HHHHHHHHHHhHHhhCCcCCcch-----------HHHHHHHH---HhcCCHHHHHH
Q 005268          434 -HITFVSLLTACSHSGL-------VSEGQRYFHMMQEEFGIKPHLKH-----------YGCMVDLF---GRAGHLGMAHN  491 (705)
Q Consensus       434 -~~t~~~ll~a~~~~g~-------~~~a~~~~~~m~~~~~~~p~~~~-----------~~~li~~~---~~~g~~~~A~~  491 (705)
                       ..+|..++...-+...       ...|.+++-.+............           -..+-.--   .+...-+++..
T Consensus       354 t~r~Y~~~L~~ed~l~~~~~y~raa~~ai~iYl~l~d~~~~~~~~~~~~~~~~~~~~e~Kk~~kK~kK~~~k~~~~~~~~  433 (517)
T PF12569_consen  354 TLRAYVDMLRWEDKLRSHPFYRRAAKGAIRIYLELHDKPEAKQGEEQEADNENMSAAERKKAKKKAKKAAKKAKKEEAEK  433 (517)
T ss_pred             cHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHhcCcccccccccccccccCChHHHHHHHHHHHHHHHHHhHHHHHH
Confidence             2233333332221111       12333333333221000000000           00000000   01111111111


Q ss_pred             HHH-----------hC----C--CCCCHHHHHHHHHHHHhcC-ChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcc
Q 005268          492 FIQ-----------NM----P--VRPDASIWGALLGACRIHG-NMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWE  553 (705)
Q Consensus       492 ~~~-----------~~----~--~~p~~~~~~~ll~~~~~~g-~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~  553 (705)
                      .-.           +.    +  ..||+.     ..-+.... =+++|.++++-+.+..|++..++..--.+|.+.|++-
T Consensus       434 ~~~~~~~~~~~~~~~~~~~~~~~~D~Dp~-----GekL~~t~dPLe~A~kfl~pL~~~a~~~~et~~laFeVy~Rk~K~L  508 (517)
T PF12569_consen  434 AAKKEPKKQQNKSKKKEKVEPKKKDDDPL-----GEKLLKTEDPLEEAMKFLKPLLELAPDNIETHLLAFEVYLRKGKYL  508 (517)
T ss_pred             HHhhhhhhhhccccccccccCCcCCCCcc-----HHHHhcCCcHHHHHHHHHHHHHHhCccchhhHHHHhHHHHhcCcHH
Confidence            100           00    1  112221     11122333 4588999999999999999999999999999999998


Q ss_pred             hHHHHHH
Q 005268          554 GVDEVRS  560 (705)
Q Consensus       554 ~a~~~~~  560 (705)
                      -|.+.+.
T Consensus       509 LaLqaL~  515 (517)
T PF12569_consen  509 LALQALK  515 (517)
T ss_pred             HHHHHHH
Confidence            8876654

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 [], [].

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=98.87  E-value=5.2e-05  Score=78.63  Aligned_cols=435  Identities=13%  Similarity=0.106  Sum_probs=246.8

Q ss_pred             HHHHHHHHHHhCCCCCHHHHHHHHHHHHcCCChhHHHHHhccCCC---CCcchHHHHHHHHHhCCChhHHHHHHHHHHHC
Q 005268           47 GKKIHCSVLKLGFEWDVFVAASLLHMYCRFGLANVARKLFDDMPV---RDSGSWNAMISGYCQSGNAVEALDILDEMRLE  123 (705)
Q Consensus        47 ~~~~~~~~~~~g~~~~~~~~~~ll~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  123 (705)
                      +.++...+++ +++....+.....-.+...|+.++|......-..   ++.++|..+.-.+-...++++|++.|......
T Consensus        26 gLK~~~~iL~-k~~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d~~S~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~~  104 (700)
T KOG1156|consen   26 GLKLIKQILK-KFPEHGESLAMKGLTLNCLGKKEEAYELVRLGLRNDLKSHVCWHVLGLLQRSDKKYDEAIKCYRNALKI  104 (700)
T ss_pred             HHHHHHHHHH-hCCccchhHHhccchhhcccchHHHHHHHHHHhccCcccchhHHHHHHHHhhhhhHHHHHHHHHHHHhc
Confidence            5555555555 3333334444333345567888888888776554   45567888887777888899999999888764


Q ss_pred             CCCCChh-hHHhHHHHhhcCCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHccCCHHHHHHHHhccCCCCeehHHHHH
Q 005268          124 GVSMDPI-TVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGMMRHALRVFDQMMERDVVSWNSII  202 (705)
Q Consensus       124 g~~p~~~-t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~~~~~~~~~li  202 (705)
                        .||.. .+.-+--.=++.++++..........+.                                .......|...+
T Consensus       105 --~~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql--------------------------------~~~~ra~w~~~A  150 (700)
T KOG1156|consen  105 --EKDNLQILRDLSLLQIQMRDYEGYLETRNQLLQL--------------------------------RPSQRASWIGFA  150 (700)
T ss_pred             --CCCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHh--------------------------------hhhhHHHHHHHH
Confidence              34432 2222111112222222222222211111                                112345677777


Q ss_pred             HHHHcCCChhhHHHHHHHHHHCC-CCCChhhHHHHHH------HHHccCChhhHHHHHHHHHHhcCCCchhHHHHHHHHH
Q 005268          203 AAYEQSNDPITAHGFFTTMQQAG-IQPDLLTLVSLTS------IVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDM  275 (705)
Q Consensus       203 ~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~t~~~ll~------a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~  275 (705)
                      .++.-.|+...|..++++..+.. -.|+...|.....      .....|.++.+.+........  +.......-.-.+.
T Consensus       151 vs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~--i~Dkla~~e~ka~l  228 (700)
T KOG1156|consen  151 VAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQ--IVDKLAFEETKADL  228 (700)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhH--HHHHHHHhhhHHHH
Confidence            77777777777777777765543 2455555443322      233455555555544433322  23334445566778


Q ss_pred             HHhcCCHHHHHHHHhcCCCC--ChhHHHHH-HHHHHHcCChhHHH-HHHHhhhhcCCCCCCcc-cccchhHHhhccCchH
Q 005268          276 YAKLGIINSACAVFEGLPVK--DVISWNTL-ITGYAQNGLASEAI-EVFQMMEECNEINPNQG-TYVSILPAYSHVGALR  350 (705)
Q Consensus       276 y~~~g~~~~A~~~f~~~~~~--~~~~~~~l-i~~~~~~g~~~~A~-~~~~~m~~~~~~~p~~~-t~~~ll~a~~~~~~~~  350 (705)
                      +.+.+++++|..++..+..+  |...|... ..++.+-.+.-+++ .+|....+   ..|... ....-++......-.+
T Consensus       229 ~~kl~~lEeA~~~y~~Ll~rnPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~---~y~r~e~p~Rlplsvl~~eel~~  305 (700)
T KOG1156|consen  229 LMKLGQLEEAVKVYRRLLERNPDNLDYYEGLEKALGKIKDMLEALKALYAILSE---KYPRHECPRRLPLSVLNGEELKE  305 (700)
T ss_pred             HHHHhhHHhHHHHHHHHHhhCchhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhh---cCcccccchhccHHHhCcchhHH
Confidence            89999999999999987644  44444443 44443344444455 66666544   222111 1111122222233344


Q ss_pred             HHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHH---H-HHHHHhhCC--------------CCCcchHHH--HHHHHH
Q 005268          351 QGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRID---D-AMSLFYQVP--------------RSSSVPWNA--IISCHG  410 (705)
Q Consensus       351 ~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~---~-A~~~~~~~~--------------~~~~~~~~~--li~~~~  410 (705)
                      ....++...++.|+++   ++..+...|-.-...+   + +..+...+.              .|....|..  ++..|-
T Consensus       306 ~vdkyL~~~l~Kg~p~---vf~dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt~y~laqh~D  382 (700)
T KOG1156|consen  306 IVDKYLRPLLSKGVPS---VFKDLRSLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTLYFLAQHYD  382 (700)
T ss_pred             HHHHHHHHHhhcCCCc---hhhhhHHHHhchhHhHHHHHHHHHHHhhcccccCCCcccccccCCchHHHHHHHHHHHHHH
Confidence            4555666677777654   3344444443211111   1 111222221              122222544  677788


Q ss_pred             hcCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHH
Q 005268          411 IHGQGDKALNFFRQMLDEGVRPDHI-TFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMA  489 (705)
Q Consensus       411 ~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A  489 (705)
                      ..|+++.|+.+++..+.  -.|+.+ -|..=...+.+.|++++|..++++..+-  -.||...-+--+.-..|+.+.++|
T Consensus       383 ~~g~~~~A~~yId~AId--HTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~el--D~aDR~INsKcAKYmLrAn~i~eA  458 (700)
T KOG1156|consen  383 KLGDYEVALEYIDLAID--HTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQEL--DTADRAINSKCAKYMLRANEIEEA  458 (700)
T ss_pred             HcccHHHHHHHHHHHhc--cCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhc--cchhHHHHHHHHHHHHHccccHHH
Confidence            89999999999999998  577765 5555567899999999999999988642  345555544566677899999999


Q ss_pred             HHHHHhCCCCC-C--------HHHHHHH--HHHHHhcCChhHHHHHHHHH
Q 005268          490 HNFIQNMPVRP-D--------ASIWGAL--LGACRIHGNMELGAVASDRL  528 (705)
Q Consensus       490 ~~~~~~~~~~p-~--------~~~~~~l--l~~~~~~g~~~~a~~~~~~~  528 (705)
                      .++.....-.- +        .-.|-.+  ..+|.+.|++.+|.+-+..+
T Consensus       459 ~~~~skFTr~~~~~~~~L~~mqcmWf~~E~g~ay~r~~k~g~ALKkfh~i  508 (700)
T KOG1156|consen  459 EEVLSKFTREGFGAVNNLAEMQCMWFQLEDGEAYLRQNKLGLALKKFHEI  508 (700)
T ss_pred             HHHHHHhhhcccchhhhHHHhhhHHHhHhhhHHHHHHHHHHHHHHHHhhH
Confidence            98876663111 1        1234333  24677888887777665544

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.85  E-value=7e-06  Score=88.64  Aligned_cols=510  Identities=13%  Similarity=0.022  Sum_probs=263.2

Q ss_pred             HHHHHHHHHHhCCCCC-HHHHHHHHHHHHcCCChhHHHHHhccCCC---CCcchHHHHHHHHHhCCChhHHHHHHHHHHH
Q 005268           47 GKKIHCSVLKLGFEWD-VFVAASLLHMYCRFGLANVARKLFDDMPV---RDSGSWNAMISGYCQSGNAVEALDILDEMRL  122 (705)
Q Consensus        47 ~~~~~~~~~~~g~~~~-~~~~~~ll~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  122 (705)
                      +..++..+....+.++ ...|..|...|+..-+...|.+.|+..-+   .|..+|-.....|++..+++.|..+.-.--+
T Consensus       475 ~~al~ali~alrld~~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLDatdaeaaaa~adtyae~~~we~a~~I~l~~~q  554 (1238)
T KOG1127|consen  475 ALALHALIRALRLDVSLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELDATDAEAAAASADTYAEESTWEEAFEICLRAAQ  554 (1238)
T ss_pred             HHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCchhhhhHHHHHHHhhccccHHHHHHHHHHHhh
Confidence            4555555555554444 45788899999888889999999987653   5677899999999999999999998433322


Q ss_pred             CC-CCCChhhHHhHHHHhhcCCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHccCCHHHHHHHHhccCCCCeehHHH-
Q 005268          123 EG-VSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGMMRHALRVFDQMMERDVVSWNS-  200 (705)
Q Consensus       123 ~g-~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~~~~~~~~~-  200 (705)
                      .. ...-...|....-.+...++...+..-++...+..+ -|...|..|..+|.++|++..|.++|++...-++.+|-. 
T Consensus       555 ka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~dP-kD~n~W~gLGeAY~~sGry~~AlKvF~kAs~LrP~s~y~~  633 (1238)
T KOG1127|consen  555 KAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTDP-KDYNLWLGLGEAYPESGRYSHALKVFTKASLLRPLSKYGR  633 (1238)
T ss_pred             hchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCCc-hhHHHHHHHHHHHHhcCceehHHHhhhhhHhcCcHhHHHH
Confidence            11 001112233344445677888888888888887653 378889999999999999999999998776544333222 


Q ss_pred             --HHHHHHcCCChhhHHHHHHHHHHC------CCCCChhhHHHHHHHHHccCCh-------hhHHHHHHHHHHhcCCCch
Q 005268          201 --IIAAYEQSNDPITAHGFFTTMQQA------GIQPDLLTLVSLTSIVAQLNDC-------RNSRSVHGFIMRRGWFMED  265 (705)
Q Consensus       201 --li~~~~~~g~~~~A~~~~~~m~~~------g~~p~~~t~~~ll~a~~~~~~~-------~~a~~i~~~~~~~g~~~~~  265 (705)
                        ....-+..|.+.+|+..+......      +...-..++..+...+...|-.       +.+.+.+.-..... ...+
T Consensus       634 fk~A~~ecd~GkYkeald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~~~l~h~-~~~~  712 (1238)
T KOG1127|consen  634 FKEAVMECDNGKYKEALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIESFIVSLIHS-LQSD  712 (1238)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHh-hhhh
Confidence              122234456667766666554321      1111111222111111111111       11111111111111 0111


Q ss_pred             hH--------------------------------------------------------------HHHHHHHHHHh----c
Q 005268          266 VI--------------------------------------------------------------IGNAVVDMYAK----L  279 (705)
Q Consensus       266 ~~--------------------------------------------------------------~~~~li~~y~~----~  279 (705)
                      ..                                                              .|..|+.-|.+    +
T Consensus       713 ~~~Wi~asdac~~f~q~e~~~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~hlsl~~~~~~WyNLGinylr~f~~l  792 (1238)
T KOG1127|consen  713 RLQWIVASDACYIFSQEEPSIVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIAHLSLAIHMYPWYNLGINYLRYFLLL  792 (1238)
T ss_pred             HHHHHHHhHHHHHHHHhcccchHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhHHHHHhhccchHHHHhHHHHHHHHHc
Confidence            11                                                              11111111111    0


Q ss_pred             C----CHHHHHHHHhcC---CCCChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCC-CcccccchhHHhhccCchHH
Q 005268          280 G----IINSACAVFEGL---PVKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINP-NQGTYVSILPAYSHVGALRQ  351 (705)
Q Consensus       280 g----~~~~A~~~f~~~---~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p-~~~t~~~ll~a~~~~~~~~~  351 (705)
                      |    +...|...+...   ...+...||.|.-. ...|.+.-|..-|-+-..   ..| ...+|..+.-.|....+++.
T Consensus       793 ~et~~~~~~Ai~c~KkaV~L~ann~~~WnaLGVl-sg~gnva~aQHCfIks~~---sep~~~~~W~NlgvL~l~n~d~E~  868 (1238)
T KOG1127|consen  793 GETMKDACTAIRCCKKAVSLCANNEGLWNALGVL-SGIGNVACAQHCFIKSRF---SEPTCHCQWLNLGVLVLENQDFEH  868 (1238)
T ss_pred             CCcchhHHHHHHHHHHHHHHhhccHHHHHHHHHh-hccchhhhhhhhhhhhhh---ccccchhheeccceeEEecccHHH
Confidence            0    111222222211   12233344443332 222333333333333222   222 33444444444555556666


Q ss_pred             HHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCC--------CCCcchHHHHHHHHHhcCChHHHHHHHH
Q 005268          352 GIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVP--------RSSSVPWNAIISCHGIHGQGDKALNFFR  423 (705)
Q Consensus       352 a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~--------~~~~~~~~~li~~~~~~g~~~~A~~~~~  423 (705)
                      |...+....... +.+...+-.........|+.-++..+|..-.        -++..-|-.-..-..++|+.++-+..-+
T Consensus       869 A~~af~~~qSLd-P~nl~~WlG~Ali~eavG~ii~~~~lfaHs~el~~~~gka~~f~Yw~c~te~h~~Ng~~e~~I~t~~  947 (1238)
T KOG1127|consen  869 AEPAFSSVQSLD-PLNLVQWLGEALIPEAVGRIIERLILFAHSDELCSKEGKAKKFQYWLCATEIHLQNGNIEESINTAR  947 (1238)
T ss_pred             hhHHHHhhhhcC-chhhHHHHHHHHhHHHHHHHHHHHHHHHhhHHhhccccccchhhHHHHHHHHHHhccchHHHHHHhh
Confidence            666665554432 2223333222222334555555555554311        1222224333344455565554443333


Q ss_pred             HHHH---------cCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHH----HHHHHhcCCHHHHH
Q 005268          424 QMLD---------EGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCM----VDLFGRAGHLGMAH  490 (705)
Q Consensus       424 ~m~~---------~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~l----i~~~~~~g~~~~A~  490 (705)
                      +.-.         .|.+.+.+.|........+.+.+..+.+...+...-...+-+...|+..    ...+...|.++.|.
T Consensus       948 ki~sAs~al~~yf~~~p~~~fAy~~~gstlEhL~ey~~a~ela~RliglLe~k~d~sqynvak~~~gRL~lslgefe~A~ 1027 (1238)
T KOG1127|consen  948 KISSASLALSYYFLGHPQLCFAYAANGSTLEHLEEYRAALELATRLIGLLELKLDESQYNVAKPDAGRLELSLGEFESAK 1027 (1238)
T ss_pred             hhhhhHHHHHHHHhcCcchhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhcchhhHh
Confidence            3221         1233334667777777777777777777666554322223344455533    34455567777777


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhh---hhhhhhhhcCCcchHHHHHHHHHh
Q 005268          491 NFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYV---LMSNIYANVGKWEGVDEVRSLARD  564 (705)
Q Consensus       491 ~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~---~l~~~~~~~g~~~~a~~~~~~m~~  564 (705)
                      .-+...+..-|..+-.+-+.. .-.++++++.+.|++++.+--++....+   .++.....++.-+.|....-+...
T Consensus      1028 ~a~~~~~~evdEdi~gt~l~l-Ffkndf~~sl~~fe~aLsis~se~d~vvLl~kva~~~g~~~~k~~A~~lLfe~~~ 1103 (1238)
T KOG1127|consen 1028 KASWKEWMEVDEDIRGTDLTL-FFKNDFFSSLEFFEQALSISNSESDKVVLLCKVAVCMGLARQKNDAQFLLFEVKS 1103 (1238)
T ss_pred             hhhcccchhHHHHHhhhhHHH-HHHhHHHHHHHHHHHHhhhcccccchhhhhHHHHHHHhhcccchHHHHHHHHHHH
Confidence            666555444444444444444 4467899999999999987644433222   344444556667777765555443

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.83  E-value=1.5e-07  Score=95.73  Aligned_cols=219  Identities=15%  Similarity=0.105  Sum_probs=171.1

Q ss_pred             hccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCCC---CCcchHHHHHHHHHhcCChHHHHH
Q 005268          344 SHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPR---SSSVPWNAIISCHGIHGQGDKALN  420 (705)
Q Consensus       344 ~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~  420 (705)
                      .+.|++..|.-.|+.+++.. +-+...|.-|...-+..++-..|+..+++..+   .|....-+|.-.|...|.-.+|+.
T Consensus       296 m~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~NleaLmaLAVSytNeg~q~~Al~  374 (579)
T KOG1125|consen  296 MKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELDPTNLEALMALAVSYTNEGLQNQALK  374 (579)
T ss_pred             HhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhHHHHHH
Confidence            56678888888888888764 44677787787777778887888888877663   445556777778888999999999


Q ss_pred             HHHHHHHcCCCCCHHHHHH--------HHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHH
Q 005268          421 FFRQMLDEGVRPDHITFVS--------LLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNF  492 (705)
Q Consensus       421 ~~~~m~~~g~~p~~~t~~~--------ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~  492 (705)
                      .|+.-+...  |...-...        .-........+....++|-.+....+..+|+.++.+|.-+|--.|.+++|.+.
T Consensus       375 ~L~~Wi~~~--p~y~~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiDc  452 (579)
T KOG1125|consen  375 MLDKWIRNK--PKYVHLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVDC  452 (579)
T ss_pred             HHHHHHHhC--ccchhccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHHH
Confidence            998887632  21110000        00122333445666777777776667678888999999999999999999999


Q ss_pred             HHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhC
Q 005268          493 IQNM-PVRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       493 ~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      |+.+ ..+| |..+||-|...++...+.++|+.+|.+++++.|.-......|+-.|...|.++||.+.+-.+...
T Consensus       453 f~~AL~v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~m  527 (579)
T KOG1125|consen  453 FEAALQVKPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYVRVRYNLGISCMNLGAYKEAVKHLLEALSM  527 (579)
T ss_pred             HHHHHhcCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHHh
Confidence            9988 5666 57799999999999999999999999999999999888999999999999999999988777654

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.82  E-value=0.0001  Score=79.80  Aligned_cols=222  Identities=13%  Similarity=0.134  Sum_probs=143.7

Q ss_pred             hhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHH
Q 005268          297 VISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVD  376 (705)
Q Consensus       297 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~  376 (705)
                      ...|+.+..+-.+.|...+|++-|-+..       |+..|.-++..+.+.|.+++-..++..+.+..-+|.  +-+.||-
T Consensus      1104 p~vWsqlakAQL~~~~v~dAieSyikad-------Dps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~--id~eLi~ 1174 (1666)
T KOG0985|consen 1104 PAVWSQLAKAQLQGGLVKDAIESYIKAD-------DPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPY--IDSELIF 1174 (1666)
T ss_pred             hHHHHHHHHHHHhcCchHHHHHHHHhcC-------CcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCcc--chHHHHH
Confidence            3568888888888888888888775542       556788888899999999988888888877765554  3457888


Q ss_pred             HHHhcCCHHHHHHHHhhCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHH
Q 005268          377 MYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRY  456 (705)
Q Consensus       377 ~y~k~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~  456 (705)
                      +|+|.+++.+-++.+   ..+|..-...+..-|...|.++.|.-+|...         .-|..|...+...|.++.|...
T Consensus      1175 AyAkt~rl~elE~fi---~gpN~A~i~~vGdrcf~~~~y~aAkl~y~~v---------SN~a~La~TLV~LgeyQ~AVD~ 1242 (1666)
T KOG0985|consen 1175 AYAKTNRLTELEEFI---AGPNVANIQQVGDRCFEEKMYEAAKLLYSNV---------SNFAKLASTLVYLGEYQGAVDA 1242 (1666)
T ss_pred             HHHHhchHHHHHHHh---cCCCchhHHHHhHHHhhhhhhHHHHHHHHHh---------hhHHHHHHHHHHHHHHHHHHHH
Confidence            888888887766654   3455555566666677777777776665433         3356666666667776666554


Q ss_pred             HHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCc
Q 005268          457 FHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENV  536 (705)
Q Consensus       457 ~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  536 (705)
                      -+..       .+..+|.-+..++...+.+.-|.-  ..+.+--.+.-..-|+.-|...|-+++-+.+++..+.++--..
T Consensus      1243 aRKA-------ns~ktWK~VcfaCvd~~EFrlAQi--CGL~iivhadeLeeli~~Yq~rGyFeElIsl~Ea~LGLERAHM 1313 (1666)
T KOG0985|consen 1243 ARKA-------NSTKTWKEVCFACVDKEEFRLAQI--CGLNIIVHADELEELIEYYQDRGYFEELISLLEAGLGLERAHM 1313 (1666)
T ss_pred             hhhc-------cchhHHHHHHHHHhchhhhhHHHh--cCceEEEehHhHHHHHHHHHhcCcHHHHHHHHHhhhchhHHHH
Confidence            3222       233455555555554444332211  1111111233345666777777777877777777777776666


Q ss_pred             chhhhhhhhhhh
Q 005268          537 GYYVLMSNIYAN  548 (705)
Q Consensus       537 ~~~~~l~~~~~~  548 (705)
                      +.|.-|+-+|++
T Consensus      1314 gmfTELaiLYsk 1325 (1666)
T KOG0985|consen 1314 GMFTELAILYSK 1325 (1666)
T ss_pred             HHHHHHHHHHHh
Confidence            666666666654

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.81  E-value=4.3e-06  Score=86.95  Aligned_cols=280  Identities=18%  Similarity=0.149  Sum_probs=151.9

Q ss_pred             HHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHhHHHHhhcCCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHccCC
Q 005268          100 MISGYCQSGNAVEALDILDEMRLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGM  179 (705)
Q Consensus       100 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~  179 (705)
                      .|..|....+|++|+.+-+.   .|.+.-...-.+-+.++...|+-+.|-++-         .+.--.-+-|..|.+.|.
T Consensus       563 aigmy~~lhkwde~i~lae~---~~~p~~eklk~sy~q~l~dt~qd~ka~elk---------~sdgd~laaiqlyika~~  630 (1636)
T KOG3616|consen  563 AIGMYQELHKWDEAIALAEA---KGHPALEKLKRSYLQALMDTGQDEKAAELK---------ESDGDGLAAIQLYIKAGK  630 (1636)
T ss_pred             HHHHHHHHHhHHHHHHHHHh---cCChHHHHHHHHHHHHHHhcCchhhhhhhc---------cccCccHHHHHHHHHcCC
Confidence            34445555555555555332   122211222233444455555544443332         111122456788999998


Q ss_pred             HHHHHHHHhc--cCCCCeehHHHHHHHHHcCCChhhHHHHHHHHHHCCCCCChhhHHHHHHHHHccCChhhHHHHHHHHH
Q 005268          180 MRHALRVFDQ--MMERDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQLNDCRNSRSVHGFIM  257 (705)
Q Consensus       180 ~~~A~~~f~~--m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~  257 (705)
                      ...|.+.-..  ....|......+..++.+..-+++|-++|+++..         +...+..+.+-..+..|.++-+.. 
T Consensus       631 p~~a~~~a~n~~~l~~de~il~~ia~alik~elydkagdlfeki~d---------~dkale~fkkgdaf~kaielarfa-  700 (1636)
T KOG3616|consen  631 PAKAARAALNDEELLADEEILEHIAAALIKGELYDKAGDLFEKIHD---------FDKALECFKKGDAFGKAIELARFA-  700 (1636)
T ss_pred             chHHHHhhcCHHHhhccHHHHHHHHHHHHhhHHHHhhhhHHHHhhC---------HHHHHHHHHcccHHHHHHHHHHhh-
Confidence            8877765422  2223544555555666666666667667666532         122233333333344444443332 


Q ss_pred             HhcCCCchhHH-HHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccc
Q 005268          258 RRGWFMEDVII-GNAVVDMYAKLGIINSACAVFEGLPVKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTY  336 (705)
Q Consensus       258 ~~g~~~~~~~~-~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~  336 (705)
                          +|..++. -.+..+-+...|+++.|..-|-+..     ..-..|.+-....+|.+|+.+++.++.   .+.-+.-|
T Consensus       701 ----fp~evv~lee~wg~hl~~~~q~daainhfiea~-----~~~kaieaai~akew~kai~ildniqd---qk~~s~yy  768 (1636)
T KOG3616|consen  701 ----FPEEVVKLEEAWGDHLEQIGQLDAAINHFIEAN-----CLIKAIEAAIGAKEWKKAISILDNIQD---QKTASGYY  768 (1636)
T ss_pred             ----CcHHHhhHHHHHhHHHHHHHhHHHHHHHHHHhh-----hHHHHHHHHhhhhhhhhhHhHHHHhhh---hccccccc
Confidence                3333322 2334445556677777776664321     112234455667788888888887766   22334446


Q ss_pred             cchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCc--chHHHHHHHHHhcCC
Q 005268          337 VSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSS--VPWNAIISCHGIHGQ  414 (705)
Q Consensus       337 ~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~~~~~--~~~~~li~~~~~~g~  414 (705)
                      ..+...|++.|+++.|.++|.+.         ..++-.|+||.+.|++++|.++-.+...|..  ++|-+-..-+-.+|+
T Consensus       769 ~~iadhyan~~dfe~ae~lf~e~---------~~~~dai~my~k~~kw~da~kla~e~~~~e~t~~~yiakaedldehgk  839 (1636)
T KOG3616|consen  769 GEIADHYANKGDFEIAEELFTEA---------DLFKDAIDMYGKAGKWEDAFKLAEECHGPEATISLYIAKAEDLDEHGK  839 (1636)
T ss_pred             hHHHHHhccchhHHHHHHHHHhc---------chhHHHHHHHhccccHHHHHHHHHHhcCchhHHHHHHHhHHhHHhhcc
Confidence            66777788888888888877643         2345567888888888888887776654432  335555555555666


Q ss_pred             hHHHHHHH
Q 005268          415 GDKALNFF  422 (705)
Q Consensus       415 ~~~A~~~~  422 (705)
                      +.+|.++|
T Consensus       840 f~eaeqly  847 (1636)
T KOG3616|consen  840 FAEAEQLY  847 (1636)
T ss_pred             hhhhhhee
Confidence            66555554

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.80  E-value=0.00011  Score=86.62  Aligned_cols=364  Identities=10%  Similarity=0.036  Sum_probs=158.5

Q ss_pred             HHHHHccCCHHHHHHHHhccCCCCeeh--HHHHHHHHHcCCChhhHHHHHHHHHHCCCCCChhhHHHHHHHHHccCChhh
Q 005268          171 INMYAKFGMMRHALRVFDQMMERDVVS--WNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQLNDCRN  248 (705)
Q Consensus       171 i~~y~~~g~~~~A~~~f~~m~~~~~~~--~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~  248 (705)
                      ...|...|++.+|..........+...  ...........|+.+.+...+..+.......+..........+...++.+.
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            344566677777766665554432211  111122344566777666666655221111122222223333445566666


Q ss_pred             HHHHHHHHHHhcCC-----Cc--hhHHHHHHHHHHHhcCCHHHHHHHHhcCC----CCCh----hHHHHHHHHHHHcCCh
Q 005268          249 SRSVHGFIMRRGWF-----ME--DVIIGNAVVDMYAKLGIINSACAVFEGLP----VKDV----ISWNTLITGYAQNGLA  313 (705)
Q Consensus       249 a~~i~~~~~~~g~~-----~~--~~~~~~~li~~y~~~g~~~~A~~~f~~~~----~~~~----~~~~~li~~~~~~g~~  313 (705)
                      +......+...-.-     ++  .......+...+...|++++|...+++..    ..+.    ..++.+...+...|++
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            66666655432100     00  11111222334445566666665555422    1111    1233344444555666


Q ss_pred             hHHHHHHHhhhhcCCCCCCcccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhh
Q 005268          314 SEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQ  393 (705)
Q Consensus       314 ~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~  393 (705)
                      ++|...+.+... ..-....                              ..........+...+...|++++|...+++
T Consensus       508 ~~A~~~~~~al~-~~~~~g~------------------------------~~~~~~~~~~la~~~~~~G~~~~A~~~~~~  556 (903)
T PRK04841        508 ARALAMMQQTEQ-MARQHDV------------------------------YHYALWSLLQQSEILFAQGFLQAAYETQEK  556 (903)
T ss_pred             HHHHHHHHHHHH-HHhhhcc------------------------------hHHHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            666655555443 1000000                              000111223333344444555544444433


Q ss_pred             CCC-------CC----cchHHHHHHHHHhcCChHHHHHHHHHHHHc--CCCCC--HHHHHHHHHHHhccCcHHHHHHHHH
Q 005268          394 VPR-------SS----SVPWNAIISCHGIHGQGDKALNFFRQMLDE--GVRPD--HITFVSLLTACSHSGLVSEGQRYFH  458 (705)
Q Consensus       394 ~~~-------~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--g~~p~--~~t~~~ll~a~~~~g~~~~a~~~~~  458 (705)
                      ...       .+    ...+..+...+...|++++|...+++....  ...|.  ...+..+.......|+.++|.+.+.
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            220       00    011222333344456666665555554432  01111  1223333344555666666666665


Q ss_pred             HhHHhhCCcCCcchH-----HHHHHHHHhcCCHHHHHHHHHhCCCC--CCH----HHHHHHHHHHHhcCChhHHHHHHHH
Q 005268          459 MMQEEFGIKPHLKHY-----GCMVDLFGRAGHLGMAHNFIQNMPVR--PDA----SIWGALLGACRIHGNMELGAVASDR  527 (705)
Q Consensus       459 ~m~~~~~~~p~~~~~-----~~li~~~~~~g~~~~A~~~~~~~~~~--p~~----~~~~~ll~~~~~~g~~~~a~~~~~~  527 (705)
                      .......-......+     ......+...|+.+.|...+......  ...    ..+..+..++...|+.++|...+++
T Consensus       637 ~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~  716 (903)
T PRK04841        637 RLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLGQFDEAEIILEE  716 (903)
T ss_pred             HHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            553321110000000     01123334466666666666554211  011    1133445556666677777776666


Q ss_pred             HhccCC------CCcchhhhhhhhhhhcCCcchHHHHHHHHHhC
Q 005268          528 LFEVDS------ENVGYYVLMSNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       528 ~~~~~p------~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      +++...      ....++..++.+|...|+.++|...+.++.+.
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            655321      11223455666667777777777776666654

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.80  E-value=5.8e-06  Score=78.69  Aligned_cols=310  Identities=15%  Similarity=0.175  Sum_probs=175.1

Q ss_pred             HHHHHHHHHccCCHHHHHHHHhccCCCCeehHHHHH---HHHHcCCChhhHHHHHHHHHHCCCCCChhhHHHHHHHHHcc
Q 005268          167 SNNLINMYAKFGMMRHALRVFDQMMERDVVSWNSII---AAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQL  243 (705)
Q Consensus       167 ~~~Li~~y~~~g~~~~A~~~f~~m~~~~~~~~~~li---~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~  243 (705)
                      .--|-..+...|++.+|+.-|....+-|+..|.++-   ..|...|+...|+.=|.+..+  ++||-..-          
T Consensus        41 hlElGk~lla~~Q~sDALt~yHaAve~dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVle--lKpDF~~A----------  108 (504)
T KOG0624|consen   41 HLELGKELLARGQLSDALTHYHAAVEGDPNNYQAIFRRATVYLAMGKSKAALQDLSRVLE--LKPDFMAA----------  108 (504)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhcCCccchhhHHHHHh--cCccHHHH----------
Confidence            334556666778889999999888888888777764   567788888888887777766  35552211          


Q ss_pred             CChhhHHHHHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHHcCChhHHHHHHHhh
Q 005268          244 NDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDVISWNTLITGYAQNGLASEAIEVFQMM  323 (705)
Q Consensus       244 ~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  323 (705)
                                  -++             -...+.|.|.++.|..-|+.+...+.. -+....++.+.-..++-..+.   
T Consensus       109 ------------RiQ-------------Rg~vllK~Gele~A~~DF~~vl~~~~s-~~~~~eaqskl~~~~e~~~l~---  159 (504)
T KOG0624|consen  109 ------------RIQ-------------RGVVLLKQGELEQAEADFDQVLQHEPS-NGLVLEAQSKLALIQEHWVLV---  159 (504)
T ss_pred             ------------HHH-------------hchhhhhcccHHHHHHHHHHHHhcCCC-cchhHHHHHHHHhHHHHHHHH---
Confidence                        011             112355667777777776665533220 001111111111111111111   


Q ss_pred             hhcCCCCCCcccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCcc
Q 005268          324 EECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVP---RSSSV  400 (705)
Q Consensus       324 ~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~---~~~~~  400 (705)
                                    ..+..+...|+...++.....+++. .+-|...+..-..+|...|++..|+.-++...   ..+..
T Consensus       160 --------------~ql~s~~~~GD~~~ai~~i~~llEi-~~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs~DnTe  224 (504)
T KOG0624|consen  160 --------------QQLKSASGSGDCQNAIEMITHLLEI-QPWDASLRQARAKCYIAEGEPKKAIHDLKQASKLSQDNTE  224 (504)
T ss_pred             --------------HHHHHHhcCCchhhHHHHHHHHHhc-CcchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhccccchH
Confidence                          1222234456666666666666654 23466666666777777777777766555443   44445


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHH-HH---HH---H------HHHhccCcHHHHHHHHHHhHHhhCCc
Q 005268          401 PWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHIT-FV---SL---L------TACSHSGLVSEGQRYFHMMQEEFGIK  467 (705)
Q Consensus       401 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t-~~---~l---l------~a~~~~g~~~~a~~~~~~m~~~~~~~  467 (705)
                      ...-+-..+...|+.+.++...++-++  +.||... |.   .|   .      ......++|.++.+-.+...+.   .
T Consensus       225 ~~ykis~L~Y~vgd~~~sL~~iRECLK--ldpdHK~Cf~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~---e  299 (504)
T KOG0624|consen  225 GHYKISQLLYTVGDAENSLKEIRECLK--LDPDHKLCFPFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKN---E  299 (504)
T ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHHc--cCcchhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhc---C
Confidence            555566666777888888877777777  6677531 11   11   0      1122344555555555444432   3


Q ss_pred             CC-----cchHHHHHHHHHhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcc
Q 005268          468 PH-----LKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRPD-ASIWGALLGACRIHGNMELGAVASDRLFEVDSENVG  537 (705)
Q Consensus       468 p~-----~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~  537 (705)
                      |.     ...+..+-..+...|++-+|++...+. .+.|| +.++.--..+|....+++.|+.-|+++.+.+|+|..
T Consensus       300 p~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~~d~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e~n~sn~~  376 (504)
T KOG0624|consen  300 PEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLDIDPDDVQVLCDRAEAYLGDEMYDDAIHDYEKALELNESNTR  376 (504)
T ss_pred             CcccceeeeeeheeeecccccCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCcccHH
Confidence            33     122333445556667777777666554 34554 455555556666667777777777777777776643

>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=98.80  E-value=4.7e-06  Score=88.32  Aligned_cols=280  Identities=13%  Similarity=0.164  Sum_probs=169.4

Q ss_pred             HHHHcCCChhhHHHHHHHHHHCCCCCChhhHHHHHHHHHccCChhhHHHHHHHHHHhcCCCchhHHHHHHHHHHHhcCCH
Q 005268          203 AAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGII  282 (705)
Q Consensus       203 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~  282 (705)
                      ..+...|++++|++.+.+-...  .                                   .....+.......|.+.|+.
T Consensus        12 ~il~e~g~~~~AL~~L~~~~~~--I-----------------------------------~Dk~~~~E~rA~ll~kLg~~   54 (517)
T PF12569_consen   12 SILEEAGDYEEALEHLEKNEKQ--I-----------------------------------LDKLAVLEKRAELLLKLGRK   54 (517)
T ss_pred             HHHHHCCCHHHHHHHHHhhhhh--C-----------------------------------CCHHHHHHHHHHHHHHcCCH
Confidence            4456778888888888664332  2                                   23333344444455555555


Q ss_pred             HHHHHHHhcCCCC---ChhHHHHHHHHHHHc-----CChhHHHHHHHhhhhcCCCCCCcccccchhHHhhccCch-HHHH
Q 005268          283 NSACAVFEGLPVK---DVISWNTLITGYAQN-----GLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGAL-RQGI  353 (705)
Q Consensus       283 ~~A~~~f~~~~~~---~~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~-~~a~  353 (705)
                      ++|..++..+...   |..-|..+..+....     ...+...++|+++..   .-|.......+.-.+.....+ ..+.
T Consensus        55 ~eA~~~y~~Li~rNPdn~~Yy~~L~~~~g~~~~~~~~~~~~~~~~y~~l~~---~yp~s~~~~rl~L~~~~g~~F~~~~~  131 (517)
T PF12569_consen   55 EEAEKIYRELIDRNPDNYDYYRGLEEALGLQLQLSDEDVEKLLELYDELAE---KYPRSDAPRRLPLDFLEGDEFKERLD  131 (517)
T ss_pred             HHHHHHHHHHHHHCCCcHHHHHHHHHHHhhhcccccccHHHHHHHHHHHHH---hCccccchhHhhcccCCHHHHHHHHH
Confidence            5555555544422   222233333333111     245566677777765   335433332222122221122 3445


Q ss_pred             HHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCC------------------CCCcchH--HHHHHHHHhcC
Q 005268          354 KIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVP------------------RSSSVPW--NAIISCHGIHG  413 (705)
Q Consensus       354 ~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~------------------~~~~~~~--~~li~~~~~~g  413 (705)
                      .+....++.|+++   +++.|-..|......+-..+++....                  .|....|  .-+...|...|
T Consensus       132 ~yl~~~l~KgvPs---lF~~lk~Ly~d~~K~~~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g  208 (517)
T PF12569_consen  132 EYLRPQLRKGVPS---LFSNLKPLYKDPEKAAIIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLG  208 (517)
T ss_pred             HHHHHHHhcCCch---HHHHHHHHHcChhHHHHHHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhC
Confidence            5566667777654   55666666665544444444444321                  1111224  55677788899


Q ss_pred             ChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHH
Q 005268          414 QGDKALNFFRQMLDEGVRPDHI-TFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHN  491 (705)
Q Consensus       414 ~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~  491 (705)
                      ++++|+++.++.++  ..|+.+ .|..-...+-+.|++++|.+..+....   +.+ |...-+-.+..+.|+|++++|.+
T Consensus       209 ~~~~Al~~Id~aI~--htPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~---LD~~DRyiNsK~aKy~LRa~~~e~A~~  283 (517)
T PF12569_consen  209 DYEKALEYIDKAIE--HTPTLVELYMTKARILKHAGDLKEAAEAMDEARE---LDLADRYINSKCAKYLLRAGRIEEAEK  283 (517)
T ss_pred             CHHHHHHHHHHHHh--cCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHh---CChhhHHHHHHHHHHHHHCCCHHHHHH
Confidence            99999999999999  578754 677778889999999999999988763   444 55666667788899999999999


Q ss_pred             HHHhCCC---CC--C----HHHH--HHHHHHHHhcCChhHHHHHHHHHhc
Q 005268          492 FIQNMPV---RP--D----ASIW--GALLGACRIHGNMELGAVASDRLFE  530 (705)
Q Consensus       492 ~~~~~~~---~p--~----~~~~--~~ll~~~~~~g~~~~a~~~~~~~~~  530 (705)
                      .+.....   .|  |    ...|  .-...+|.+.|++..|++.|..+.+
T Consensus       284 ~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v~k  333 (517)
T PF12569_consen  284 TASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFHAVLK  333 (517)
T ss_pred             HHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            8876631   12  1    1234  3345688899999999988877654

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 [], [].

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=98.79  E-value=1.1e-05  Score=83.37  Aligned_cols=384  Identities=14%  Similarity=0.136  Sum_probs=185.1

Q ss_pred             cCCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHccCCHHHHHHHHhccCC---CCeehHHHHHHHHHcCCChhhHHHH
Q 005268          141 RSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGMMRHALRVFDQMME---RDVVSWNSIIAAYEQSNDPITAHGF  217 (705)
Q Consensus       141 ~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~  217 (705)
                      ..+++..+....+.+++. .+....+.....-.+...|+-++|......-..   ++.+.|..+.-.+....++++|++.
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            345566666666666652 222333332222233455777777777665544   3567788888777788888999998


Q ss_pred             HHHHHHCCCCCChhhHHHHHHHHHccCChhhHHHHHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhcC---CC
Q 005268          218 FTTMQQAGIQPDLLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGL---PV  294 (705)
Q Consensus       218 ~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~---~~  294 (705)
                      |+.....  .||..                                   .++.-|.-.-++.|+++.....-...   ..
T Consensus        98 y~nAl~~--~~dN~-----------------------------------qilrDlslLQ~QmRd~~~~~~tr~~LLql~~  140 (700)
T KOG1156|consen   98 YRNALKI--EKDNL-----------------------------------QILRDLSLLQIQMRDYEGYLETRNQLLQLRP  140 (700)
T ss_pred             HHHHHhc--CCCcH-----------------------------------HHHHHHHHHHHHHHhhhhHHHHHHHHHHhhh
Confidence            8887764  33322                                   22222222222222222222221111   12


Q ss_pred             CChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccccchhH------HhhccCchHHHHHHHHHHHHhCCCCch
Q 005268          295 KDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILP------AYSHVGALRQGIKIHARVIKNCLCFDV  368 (705)
Q Consensus       295 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~------a~~~~~~~~~a~~~~~~~~~~g~~~~~  368 (705)
                      .....|..++.++.-.|+...|..++++..+...-.|+...+.....      .....|.++.+.+.+...... +....
T Consensus       141 ~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~-i~Dkl  219 (700)
T KOG1156|consen  141 SQRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQ-IVDKL  219 (700)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhH-HHHHH
Confidence            23345555555555566666666665555542212233333322111      122334444444443332221 11112


Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhhCCCCCcc--hHHH-HHHHHHhcC--------------------------------
Q 005268          369 FVATCLVDMYGKCGRIDDAMSLFYQVPRSSSV--PWNA-IISCHGIHG--------------------------------  413 (705)
Q Consensus       369 ~~~~~li~~y~k~g~~~~A~~~~~~~~~~~~~--~~~~-li~~~~~~g--------------------------------  413 (705)
                      ..--.-.+.+.+.+++++|..++..+..+++.  -|+. +..++.+-.                                
T Consensus       220 a~~e~ka~l~~kl~~lEeA~~~y~~Ll~rnPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y~r~e~p~Rlplsvl~  299 (700)
T KOG1156|consen  220 AFEETKADLLMKLGQLEEAVKVYRRLLERNPDNLDYYEGLEKALGKIKDMLEALKALYAILSEKYPRHECPRRLPLSVLN  299 (700)
T ss_pred             HHhhhHHHHHHHHhhHHhHHHHHHHHHhhCchhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcCcccccchhccHHHhC
Confidence            22233344555556666666666555432222  2222 222221111                                


Q ss_pred             ---ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhh-CC------------cCCc--chHHH
Q 005268          414 ---QGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEF-GI------------KPHL--KHYGC  475 (705)
Q Consensus       414 ---~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~-~~------------~p~~--~~~~~  475 (705)
                         ..+..-.++..+++.|++|--..+.++   +-.-...+--.++.-.+.... |-            +|..  .++-.
T Consensus       300 ~eel~~~vdkyL~~~l~Kg~p~vf~dl~SL---yk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt~y~  376 (700)
T KOG1156|consen  300 GEELKEIVDKYLRPLLSKGVPSVFKDLRSL---YKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTLYF  376 (700)
T ss_pred             cchhHHHHHHHHHHHhhcCCCchhhhhHHH---HhchhHhHHHHHHHHHHHhhcccccCCCcccccccCCchHHHHHHHH
Confidence               122233344455555554433333222   222221111111111111100 00            2222  23445


Q ss_pred             HHHHHHhcCCHHHHHHHHHhC-CCCCCHH-HHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcc
Q 005268          476 MVDLFGRAGHLGMAHNFIQNM-PVRPDAS-IWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWE  553 (705)
Q Consensus       476 li~~~~~~g~~~~A~~~~~~~-~~~p~~~-~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~  553 (705)
                      ++..+-+.|+++.|...++.+ ...|+.+ .|-.-...+...|++++|...++++.+++-.|-.....-++-..++.+.+
T Consensus       377 laqh~D~~g~~~~A~~yId~AIdHTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD~aDR~INsKcAKYmLrAn~i~  456 (700)
T KOG1156|consen  377 LAQHYDKLGDYEVALEYIDLAIDHTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELDTADRAINSKCAKYMLRANEIE  456 (700)
T ss_pred             HHHHHHHcccHHHHHHHHHHHhccCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhccchhHHHHHHHHHHHHHccccH
Confidence            666777778888888877766 3345533 34444566777778888888888877777544333334555556677778


Q ss_pred             hHHHHHHHHHhCC
Q 005268          554 GVDEVRSLARDRG  566 (705)
Q Consensus       554 ~a~~~~~~m~~~~  566 (705)
                      +|.++..+..+.|
T Consensus       457 eA~~~~skFTr~~  469 (700)
T KOG1156|consen  457 EAEEVLSKFTREG  469 (700)
T ss_pred             HHHHHHHHhhhcc
Confidence            8877777766555

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.74  E-value=0.00032  Score=72.20  Aligned_cols=46  Identities=17%  Similarity=0.158  Sum_probs=25.9

Q ss_pred             HhcCCHHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCChhHHHHHHHH
Q 005268          481 GRAGHLGMAHNFIQNM-P-VRPDASIWGALLGACRIHGNMELGAVASDR  527 (705)
Q Consensus       481 ~~~g~~~~A~~~~~~~-~-~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~  527 (705)
                      .|.|+-++|..+++++ . .++|..+...++.+|++. |.+.|+.+-++
T Consensus       469 lr~G~~~ea~s~leel~k~n~~d~~~l~~lV~a~~~~-d~eka~~l~k~  516 (652)
T KOG2376|consen  469 LRHGNEEEASSLLEELVKFNPNDTDLLVQLVTAYARL-DPEKAESLSKK  516 (652)
T ss_pred             HhcCchHHHHHHHHHHHHhCCchHHHHHHHHHHHHhc-CHHHHHHHhhc
Confidence            4556666666666666 2 234555666666666554 35555555444

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.72  E-value=7e-05  Score=78.25  Aligned_cols=259  Identities=14%  Similarity=0.174  Sum_probs=158.2

Q ss_pred             HHhcCCHHHHHHHHhcCCCCChhH--HHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccccchhHHhhccCchHHHH
Q 005268          276 YAKLGIINSACAVFEGLPVKDVIS--WNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGI  353 (705)
Q Consensus       276 y~~~g~~~~A~~~f~~~~~~~~~~--~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~  353 (705)
                      -.....+.+|+.+++.+..+++.+  |..+...|+..|+++.|.++|.+.-.          ++-.|..|.+.|+++.|.
T Consensus       742 ai~akew~kai~ildniqdqk~~s~yy~~iadhyan~~dfe~ae~lf~e~~~----------~~dai~my~k~~kw~da~  811 (1636)
T KOG3616|consen  742 AIGAKEWKKAISILDNIQDQKTASGYYGEIADHYANKGDFEIAEELFTEADL----------FKDAIDMYGKAGKWEDAF  811 (1636)
T ss_pred             HhhhhhhhhhHhHHHHhhhhccccccchHHHHHhccchhHHHHHHHHHhcch----------hHHHHHHHhccccHHHHH
Confidence            344556666666766666554432  55666667777777777777755432          334566677777777666


Q ss_pred             HHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC
Q 005268          354 KIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPD  433 (705)
Q Consensus       354 ~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  433 (705)
                      ++-.+.  .|....+..|-+-..-+-+.|++.+|++++-.+..|+.     -|..|-++|..++.+++.++-     .|+
T Consensus       812 kla~e~--~~~e~t~~~yiakaedldehgkf~eaeqlyiti~~p~~-----aiqmydk~~~~ddmirlv~k~-----h~d  879 (1636)
T KOG3616|consen  812 KLAEEC--HGPEATISLYIAKAEDLDEHGKFAEAEQLYITIGEPDK-----AIQMYDKHGLDDDMIRLVEKH-----HGD  879 (1636)
T ss_pred             HHHHHh--cCchhHHHHHHHhHHhHHhhcchhhhhheeEEccCchH-----HHHHHHhhCcchHHHHHHHHh-----Chh
Confidence            554433  23344555666666666778888888888877777664     366777888888877776653     333


Q ss_pred             H--HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhCCCC----CCHHHHHH
Q 005268          434 H--ITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNMPVR----PDASIWGA  507 (705)
Q Consensus       434 ~--~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~----p~~~~~~~  507 (705)
                      .  .|...+..-+...|++..|..-|-+..          -|.+-+++|-..+.+++|.++-+.-.-.    .-...|.-
T Consensus       880 ~l~dt~~~f~~e~e~~g~lkaae~~flea~----------d~kaavnmyk~s~lw~dayriaktegg~n~~k~v~flwak  949 (1636)
T KOG3616|consen  880 HLHDTHKHFAKELEAEGDLKAAEEHFLEAG----------DFKAAVNMYKASELWEDAYRIAKTEGGANAEKHVAFLWAK  949 (1636)
T ss_pred             hhhHHHHHHHHHHHhccChhHHHHHHHhhh----------hHHHHHHHhhhhhhHHHHHHHHhccccccHHHHHHHHHHH
Confidence            2  466666677777888888877664432          3556677888888888888777654211    11223322


Q ss_pred             HH------HHHHhcCChhHHHHHHH------HHhc-----cCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhCC
Q 005268          508 LL------GACRIHGNMELGAVASD------RLFE-----VDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDRG  566 (705)
Q Consensus       508 ll------~~~~~~g~~~~a~~~~~------~~~~-----~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  566 (705)
                      -+      ..+-++|-++.|+...-      -+++     ..-.-+..+..++--+-..|++++|.+-+-..++.+
T Consensus       950 siggdaavkllnk~gll~~~id~a~d~~afd~afdlari~~k~k~~~vhlk~a~~ledegk~edaskhyveaikln 1025 (1636)
T KOG3616|consen  950 SIGGDAAVKLLNKHGLLEAAIDFAADNCAFDFAFDLARIAAKDKMGEVHLKLAMFLEDEGKFEDASKHYVEAIKLN 1025 (1636)
T ss_pred             hhCcHHHHHHHHhhhhHHHHhhhhhcccchhhHHHHHHHhhhccCccchhHHhhhhhhccchhhhhHhhHHHhhcc
Confidence            22      23345555555544322      1111     112234566677777788899999987777666553

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=98.66  E-value=5.7e-06  Score=74.84  Aligned_cols=166  Identities=14%  Similarity=0.098  Sum_probs=93.3

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHH
Q 005268          368 VFVATCLVDMYGKCGRIDDAMSLFYQVP---RSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPD-HITFVSLLTA  443 (705)
Q Consensus       368 ~~~~~~li~~y~k~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a  443 (705)
                      ..++..+...|.+.|..+.|.+.|++..   +.+-...|....-+|.+|++++|...|++....-.-|. ..||..+.-+
T Consensus        69 ~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~~GdVLNNYG~FLC~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~C  148 (250)
T COG3063          69 YLAHLVRAHYYQKLGENDLADESYRKALSLAPNNGDVLNNYGAFLCAQGRPEEAMQQFERALADPAYGEPSDTLENLGLC  148 (250)
T ss_pred             HHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCCccchhhhhhHHHHhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHH
Confidence            3344555555555555555555555443   23333345555555666666666666666665322222 2356666555


Q ss_pred             HhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC--CCCCCHHHHHHHHHHHHhcCChhH
Q 005268          444 CSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM--PVRPDASIWGALLGACRIHGNMEL  520 (705)
Q Consensus       444 ~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~ll~~~~~~g~~~~  520 (705)
                      ..+.|+.+.|.++|++..+.   .| .....-.|.......|++.+|..+++..  ...++..+.-..|..-...||.+.
T Consensus       149 al~~gq~~~A~~~l~raL~~---dp~~~~~~l~~a~~~~~~~~y~~Ar~~~~~~~~~~~~~A~sL~L~iriak~~gd~~~  225 (250)
T COG3063         149 ALKAGQFDQAEEYLKRALEL---DPQFPPALLELARLHYKAGDYAPARLYLERYQQRGGAQAESLLLGIRIAKRLGDRAA  225 (250)
T ss_pred             HhhcCCchhHHHHHHHHHHh---CcCCChHHHHHHHHHHhcccchHHHHHHHHHHhcccccHHHHHHHHHHHHHhccHHH
Confidence            56666666666666665532   33 2345555666666667777776666655  223555555555556666677666


Q ss_pred             HHHHHHHHhccCCCCc
Q 005268          521 GAVASDRLFEVDSENV  536 (705)
Q Consensus       521 a~~~~~~~~~~~p~~~  536 (705)
                      +-+.-.++...-|...
T Consensus       226 a~~Y~~qL~r~fP~s~  241 (250)
T COG3063         226 AQRYQAQLQRLFPYSE  241 (250)
T ss_pred             HHHHHHHHHHhCCCcH
Confidence            6666666666666443

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=98.64  E-value=1.2e-05  Score=83.63  Aligned_cols=257  Identities=12%  Similarity=-0.025  Sum_probs=141.3

Q ss_pred             HHHHHcCChhHHHHHHHhhhhcCCCCCCcc-cccchhHHhhc----cCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHH
Q 005268          305 TGYAQNGLASEAIEVFQMMEECNEINPNQG-TYVSILPAYSH----VGALRQGIKIHARVIKNCLCFDVFVATCLVDMYG  379 (705)
Q Consensus       305 ~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~-t~~~ll~a~~~----~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~  379 (705)
                      ..+...|++++|.+.+++..+   ..|+.. .+.. ...+..    .+....+.+.+... ....+........+...+.
T Consensus        51 ~~~~~~g~~~~A~~~~~~~l~---~~P~~~~a~~~-~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~~~~~~a~~~~  125 (355)
T cd05804          51 LSAWIAGDLPKALALLEQLLD---DYPRDLLALKL-HLGAFGLGDFSGMRDHVARVLPLW-APENPDYWYLLGMLAFGLE  125 (355)
T ss_pred             HHHHHcCCHHHHHHHHHHHHH---HCCCcHHHHHH-hHHHHHhcccccCchhHHHHHhcc-CcCCCCcHHHHHHHHHHHH
Confidence            345566777777777777766   345332 2221 111222    23333343333331 1111222334445556777


Q ss_pred             hcCCHHHHHHHHhhCC---CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCC-CCCH--HHHHHHHHHHhccCcHHHH
Q 005268          380 KCGRIDDAMSLFYQVP---RSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGV-RPDH--ITFVSLLTACSHSGLVSEG  453 (705)
Q Consensus       380 k~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~--~t~~~ll~a~~~~g~~~~a  453 (705)
                      ..|++++|...+++..   +.+...+..+...|...|++++|+..+++...... .|+.  ..+..+...+...|++++|
T Consensus       126 ~~G~~~~A~~~~~~al~~~p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A  205 (355)
T cd05804         126 EAGQYDRAEEAARRALELNPDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAA  205 (355)
T ss_pred             HcCCHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHH
Confidence            7888888888887765   33444567777778888888888888887776421 1222  2344566677788888888


Q ss_pred             HHHHHHhHHhhCCcCCcchH-H--HHHHHHHhcCCHHHHHHH---HHhC-CCCCC---HHHHHHHHHHHHhcCChhHHHH
Q 005268          454 QRYFHMMQEEFGIKPHLKHY-G--CMVDLFGRAGHLGMAHNF---IQNM-PVRPD---ASIWGALLGACRIHGNMELGAV  523 (705)
Q Consensus       454 ~~~~~~m~~~~~~~p~~~~~-~--~li~~~~~~g~~~~A~~~---~~~~-~~~p~---~~~~~~ll~~~~~~g~~~~a~~  523 (705)
                      ..+++.........+..... +  .+...+...|..+.+.+.   .... +..|+   .........++...|+.+.|..
T Consensus       206 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~  285 (355)
T cd05804         206 LAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDK  285 (355)
T ss_pred             HHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHH
Confidence            88887764321111111111 1  223333344432222222   1111 11011   1222345566778888888888


Q ss_pred             HHHHHhccC-C--------CCcchhhhhhhhhhhcCCcchHHHHHHHHHhCC
Q 005268          524 ASDRLFEVD-S--------ENVGYYVLMSNIYANVGKWEGVDEVRSLARDRG  566 (705)
Q Consensus       524 ~~~~~~~~~-p--------~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  566 (705)
                      .++.+.... +        .........+.++...|++++|.+.+......+
T Consensus       286 ~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~~L~~al~~a  337 (355)
T cd05804         286 LLAALKGRASSADDNKQPARDVGLPLAEALYAFAEGNYATALELLGPVRDDL  337 (355)
T ss_pred             HHHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence            888765422 1        123444567788899999999999998887653

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.

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.64  E-value=1.7e-05  Score=80.37  Aligned_cols=214  Identities=12%  Similarity=0.109  Sum_probs=130.8

Q ss_pred             chhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCcch---HH-------HHHH
Q 005268          338 SILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVP---WN-------AIIS  407 (705)
Q Consensus       338 ~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~~~~~~~---~~-------~li~  407 (705)
                      .+.++..+..+++.+.+-+...+...  .++.-++....+|...|...+....-+...+.+-..   |+       .+..
T Consensus       229 ~lgnaaykkk~f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre~rad~klIak~~~r~g~  306 (539)
T KOG0548|consen  229 ELGNAAYKKKDFETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRELRADYKLIAKALARLGN  306 (539)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHHHHHHHHHHHHHHHHhhh
Confidence            34445555566666777666666654  455556666677777777666665554443322222   22       2334


Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcc-hHHHHHHHHHhcCCH
Q 005268          408 CHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLK-HYGCMVDLFGRAGHL  486 (705)
Q Consensus       408 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~-~~~~li~~~~~~g~~  486 (705)
                      +|.+.++++.|+..|.+.+.....|+..+         +....+++........   -+.|... -.-.=..-+.+.|++
T Consensus       307 a~~k~~~~~~ai~~~~kaLte~Rt~~~ls---------~lk~~Ek~~k~~e~~a---~~~pe~A~e~r~kGne~Fk~gdy  374 (539)
T KOG0548|consen  307 AYTKREDYEGAIKYYQKALTEHRTPDLLS---------KLKEAEKALKEAERKA---YINPEKAEEEREKGNEAFKKGDY  374 (539)
T ss_pred             hhhhHHhHHHHHHHHHHHhhhhcCHHHHH---------HHHHHHHHHHHHHHHH---hhChhHHHHHHHHHHHHHhccCH
Confidence            56666777888888877766544444321         1222233333322221   2233221 011114556677888


Q ss_pred             HHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHh
Q 005268          487 GMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARD  564 (705)
Q Consensus       487 ~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  564 (705)
                      .+|...+.++ ...| |...|..-..+|.+.|++..|+.-.+..++++|+....|..=+-++....+|++|.+.+.+..+
T Consensus       375 ~~Av~~YteAIkr~P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p~~~kgy~RKg~al~~mk~ydkAleay~eale  454 (539)
T KOG0548|consen  375 PEAVKHYTEAIKRDPEDARLYSNRAACYLKLGEYPEALKDAKKCIELDPNFIKAYLRKGAALRAMKEYDKALEAYQEALE  454 (539)
T ss_pred             HHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            8888888776 3334 4667777777888888888888888888888888888887777777778888888888877665


Q ss_pred             C
Q 005268          565 R  565 (705)
Q Consensus       565 ~  565 (705)
                      .
T Consensus       455 ~  455 (539)
T KOG0548|consen  455 L  455 (539)
T ss_pred             c
Confidence            5

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.62  E-value=0.00062  Score=72.46  Aligned_cols=28  Identities=4%  Similarity=0.065  Sum_probs=24.9

Q ss_pred             hhhhhhhhhhhcCCcchHHHHHHHHHhC
Q 005268          538 YYVLMSNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       538 ~~~~l~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      .|..|+..|....+|..|-+.++.|..+
T Consensus      1332 ~~a~lie~~v~~k~y~~AyRal~el~~k 1359 (1416)
T KOG3617|consen 1332 LFALLIEDHVSRKNYKPAYRALTELQKK 1359 (1416)
T ss_pred             HHHHHHHHHHhhhhccHHHHHHHHHhhc
Confidence            4677899999999999999999999876

>PF12854 PPR_1: PPR repeat

Probab=98.60  E-value=5.2e-08  Score=60.94  Aligned_cols=34  Identities=38%  Similarity=0.590  Sum_probs=28.3

Q ss_pred             hCCCCCHHHHHHHHHHHHcCCChhHHHHHhccCC
Q 005268           57 LGFEWDVFVAASLLHMYCRFGLANVARKLFDDMP   90 (705)
Q Consensus        57 ~g~~~~~~~~~~ll~~y~~~g~~~~A~~~f~~~~   90 (705)
                      .|+.||..+||.||++|++.|++++|.++|++|+
T Consensus         1 ~G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~   34 (34)
T PF12854_consen    1 RGCEPDVVTYNTLIDGYCKAGRVDEAFELFDEMK   34 (34)
T ss_pred             CCCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence            3678888888888888888888888888888874

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.60  E-value=3.1e-05  Score=72.41  Aligned_cols=403  Identities=11%  Similarity=0.048  Sum_probs=199.9

Q ss_pred             hHHHHhhcCCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHccCCHHHHHHHHhccCC--CCeehHHH-HHHHHHcCCC
Q 005268          134 SILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGMMRHALRVFDQMME--RDVVSWNS-IIAAYEQSND  210 (705)
Q Consensus       134 ~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~--~~~~~~~~-li~~~~~~g~  210 (705)
                      +++..+.+..++..+.+++..-.+..+ .+....+.|..+|-+..++..|-..++++..  |...-|.. -...+-+.+.
T Consensus        15 aviy~lI~d~ry~DaI~~l~s~~Er~p-~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~P~~~qYrlY~AQSLY~A~i   93 (459)
T KOG4340|consen   15 AVVYRLIRDARYADAIQLLGSELERSP-RSRAGLSLLGYCYYRLQEFALAAECYEQLGQLHPELEQYRLYQAQSLYKACI   93 (459)
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHHhcCc-cchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHHHHHHHHHhcc
Confidence            333333344444444444444333321 1333344445555555555555555555533  21111211 1234445566


Q ss_pred             hhhHHHHHHHHHHCCCCCChhhHHHHHHH--HHccCChhhHHHHHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHH
Q 005268          211 PITAHGFFTTMQQAGIQPDLLTLVSLTSI--VAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAV  288 (705)
Q Consensus       211 ~~~A~~~~~~m~~~g~~p~~~t~~~ll~a--~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~  288 (705)
                      +.+|+.+...|...   |+...-..-+.+  ..+.+++..++.+.++...    +.+..+.+...-...+.|+++.|.+-
T Consensus        94 ~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~----en~Ad~~in~gCllykegqyEaAvqk  166 (459)
T KOG4340|consen   94 YADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPS----ENEADGQINLGCLLYKEGQYEAAVQK  166 (459)
T ss_pred             cHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccC----CCccchhccchheeeccccHHHHHHH
Confidence            66666666666432   111111111111  1234445555554444321    12333444444455567777777777


Q ss_pred             HhcCCCC----ChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCccc----ccchhHHhhccCchHHHHHHHHHHH
Q 005268          289 FEGLPVK----DVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGT----YVSILPAYSHVGALRQGIKIHARVI  360 (705)
Q Consensus       289 f~~~~~~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t----~~~ll~a~~~~~~~~~a~~~~~~~~  360 (705)
                      |+...+-    ....||..+..| +.|+++.|++...++.+ .|++-.+..    -+-.+++    ..+.....++...+
T Consensus       167 FqaAlqvsGyqpllAYniALaHy-~~~qyasALk~iSEIie-RG~r~HPElgIGm~tegiDv----rsvgNt~~lh~Sal  240 (459)
T KOG4340|consen  167 FQAALQVSGYQPLLAYNLALAHY-SSRQYASALKHISEIIE-RGIRQHPELGIGMTTEGIDV----RSVGNTLVLHQSAL  240 (459)
T ss_pred             HHHHHhhcCCCchhHHHHHHHHH-hhhhHHHHHHHHHHHHH-hhhhcCCccCccceeccCch----hcccchHHHHHHHH
Confidence            7655432    345565544433 55677777777777776 665432211    1111110    00111111111111


Q ss_pred             HhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCCC-----CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-H
Q 005268          361 KNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPR-----SSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPD-H  434 (705)
Q Consensus       361 ~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~~-----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~  434 (705)
                             +..+|.-...+.+.|+.+.|.+.+-.|++     -|+++...+.-. -..+++.+..+-+.-+++.  .|- .
T Consensus       241 -------~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~-n~~~~p~~g~~KLqFLL~~--nPfP~  310 (459)
T KOG4340|consen  241 -------VEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALM-NMDARPTEGFEKLQFLLQQ--NPFPP  310 (459)
T ss_pred             -------HHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHh-cccCCccccHHHHHHHHhc--CCCCh
Confidence                   12334444456788999999999999984     466775544322 2246666777767777764  443 4


Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCc-CCcchHHHHHHHHH-hcCCHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 005268          435 ITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIK-PHLKHYGCMVDLFG-RAGHLGMAHNFIQNMPVRPDASIWGALLGAC  512 (705)
Q Consensus       435 ~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~-p~~~~~~~li~~~~-~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~  512 (705)
                      .||..++-.|++..-++-|-.++.+-... ... .+...|+ |++++. -.-..++|++-++.+...-....-..-+..-
T Consensus       311 ETFANlLllyCKNeyf~lAADvLAEn~~l-Tyk~L~~Yly~-LLdaLIt~qT~pEea~KKL~~La~~l~~kLRklAi~vQ  388 (459)
T KOG4340|consen  311 ETFANLLLLYCKNEYFDLAADVLAENAHL-TYKFLTPYLYD-LLDALITCQTAPEEAFKKLDGLAGMLTEKLRKLAIQVQ  388 (459)
T ss_pred             HHHHHHHHHHhhhHHHhHHHHHHhhCcch-hHHHhhHHHHH-HHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            69999999999999999988887532111 000 1222333 334443 3346666766555442000000001111111


Q ss_pred             -HhcCCh----hHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhC
Q 005268          513 -RIHGNM----ELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       513 -~~~g~~----~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                       .++.+-    ..+.+-+++.+++--   .....-++.|.+..++.-+.+.|..-.+.
T Consensus       389 e~r~~~dd~a~R~ai~~Yd~~LE~YL---PVlMa~AkiyW~~~Dy~~vEk~Fr~Svef  443 (459)
T KOG4340|consen  389 EARHNRDDEAIRKAVNEYDETLEKYL---PVLMAQAKIYWNLEDYPMVEKIFRKSVEF  443 (459)
T ss_pred             HHHhcccHHHHHHHHHHHHHHHHHHH---HHHHHHHHhhccccccHHHHHHHHHHHhh
Confidence             122222    233444455555431   23456778899999999999999876654

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.59  E-value=1.5e-05  Score=80.85  Aligned_cols=438  Identities=12%  Similarity=0.027  Sum_probs=230.1

Q ss_pred             HHHHcCCChhHHHHHhccCC---CCCcchHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCh-hhHHhHHHHhhcCCChH
Q 005268           71 HMYCRFGLANVARKLFDDMP---VRDSGSWNAMISGYCQSGNAVEALDILDEMRLEGVSMDP-ITVASILPVCARSDNIL  146 (705)
Q Consensus        71 ~~y~~~g~~~~A~~~f~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~~~~~~~~~~  146 (705)
                      ++....|+++.|...|-+..   ++|-+.|.--..+|+..|++++|++--.+-++  +.|+. --|+-...+....|+++
T Consensus        10 naa~s~~d~~~ai~~~t~ai~l~p~nhvlySnrsaa~a~~~~~~~al~da~k~~~--l~p~w~kgy~r~Gaa~~~lg~~~   87 (539)
T KOG0548|consen   10 NAAFSSGDFETAIRLFTEAIMLSPTNHVLYSNRSAAYASLGSYEKALKDATKTRR--LNPDWAKGYSRKGAALFGLGDYE   87 (539)
T ss_pred             HhhcccccHHHHHHHHHHHHccCCCccchhcchHHHHHHHhhHHHHHHHHHHHHh--cCCchhhHHHHhHHHHHhcccHH
Confidence            44567899999999997654   56778888888999999999999887776665  46763 46888888888899999


Q ss_pred             HHHHHHHHHHHhCCCCchhHHHHHHHHHHccCCHHHH-HHHHhccCCCCeehHHHHH-----HHHHcCCChhhHHHHHHH
Q 005268          147 SGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGMMRHA-LRVFDQMMERDVVSWNSII-----AAYEQSNDPITAHGFFTT  220 (705)
Q Consensus       147 ~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A-~~~f~~m~~~~~~~~~~li-----~~~~~~g~~~~A~~~~~~  220 (705)
                      +|...|..-++.. +.+...++.|.+++    ..+.+ .+.|     .++..|..+.     +.+.....+..-++.++.
T Consensus        88 eA~~ay~~GL~~d-~~n~~L~~gl~~a~----~~~~~~~~~~-----~~p~~~~~l~~~p~t~~~~~~~~~~~~l~~~~~  157 (539)
T KOG0548|consen   88 EAILAYSEGLEKD-PSNKQLKTGLAQAY----LEDYAADQLF-----TKPYFHEKLANLPLTNYSLSDPAYVKILEIIQK  157 (539)
T ss_pred             HHHHHHHHHhhcC-CchHHHHHhHHHhh----hHHHHhhhhc-----cCcHHHHHhhcChhhhhhhccHHHHHHHHHhhc
Confidence            9999998877764 33666778888877    11111 1111     1122222111     111111111111111111


Q ss_pred             HHHC-CCCCChhhHHHHHHHHHccCChhhHHHHHHHHH--HhcCCCchhHHHHHHHHHHHhcCC-HHHHHHHHhcCCCCC
Q 005268          221 MQQA-GIQPDLLTLVSLTSIVAQLNDCRNSRSVHGFIM--RRGWFMEDVIIGNAVVDMYAKLGI-INSACAVFEGLPVKD  296 (705)
Q Consensus       221 m~~~-g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~--~~g~~~~~~~~~~~li~~y~~~g~-~~~A~~~f~~~~~~~  296 (705)
                      -... +...+   ...++.+.......+.....-....  ..+ ..|..    -........++ .++.+..      .-
T Consensus       158 ~p~~l~~~l~---d~r~m~a~~~l~~~~~~~~~~~~~~~~~~~-~~p~~----~~~~~~~~~~d~~ee~~~k------~~  223 (539)
T KOG0548|consen  158 NPTSLKLYLN---DPRLMKADGQLKGVDELLFYASGIEILASM-AEPCK----QEHNGFPIIEDNTEERRVK------EK  223 (539)
T ss_pred             CcHhhhcccc---cHHHHHHHHHHhcCccccccccccccCCCC-CCccc----ccCCCCCccchhHHHHHHH------Hh
Confidence            0000 00000   0001111111100000000000000  000 00000    00000000000 0000000      00


Q ss_pred             hhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccc-cchhHHhhccCchHHHHHHHHHHHHhCCCC------chh
Q 005268          297 VISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTY-VSILPAYSHVGALRQGIKIHARVIKNCLCF------DVF  369 (705)
Q Consensus       297 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~-~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~------~~~  369 (705)
                      ..-...+....-+..+++.|++-+....+   +. ...+| +....++...|........-...++.|...      =..
T Consensus       224 a~~ek~lgnaaykkk~f~~a~q~y~~a~e---l~-~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre~rad~klIak  299 (539)
T KOG0548|consen  224 AHKEKELGNAAYKKKDFETAIQHYAKALE---LA-TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRELRADYKLIAK  299 (539)
T ss_pred             hhHHHHHHHHHHHhhhHHHHHHHHHHHHh---Hh-hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHHHHHHHHHHHH
Confidence            01122334444444555555555555544   22 22222 233334445555444444444443333211      011


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhhCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHhccC
Q 005268          370 VATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHI-TFVSLLTACSHSG  448 (705)
Q Consensus       370 ~~~~li~~y~k~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g  448 (705)
                      ....+..+|.+.++.+.|...|.+.......     -....+....++++...+...-  +.|... -...=.+.+.+.|
T Consensus       300 ~~~r~g~a~~k~~~~~~ai~~~~kaLte~Rt-----~~~ls~lk~~Ek~~k~~e~~a~--~~pe~A~e~r~kGne~Fk~g  372 (539)
T KOG0548|consen  300 ALARLGNAYTKREDYEGAIKYYQKALTEHRT-----PDLLSKLKEAEKALKEAERKAY--INPEKAEEEREKGNEAFKKG  372 (539)
T ss_pred             HHHHhhhhhhhHHhHHHHHHHHHHHhhhhcC-----HHHHHHHHHHHHHHHHHHHHHh--hChhHHHHHHHHHHHHHhcc
Confidence            1222445778888899999988875522111     1112233445666666655554  455542 2223356778899


Q ss_pred             cHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCChhHHHHHH
Q 005268          449 LVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRPD-ASIWGALLGACRIHGNMELGAVAS  525 (705)
Q Consensus       449 ~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~  525 (705)
                      ++..|...+.++++.   .| |...|+...-.|.+.|.+.+|+.-.+.. ...|+ ...|.-=..++....+++.|...|
T Consensus       373 dy~~Av~~YteAIkr---~P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p~~~kgy~RKg~al~~mk~ydkAleay  449 (539)
T KOG0548|consen  373 DYPEAVKHYTEAIKR---DPEDARLYSNRAACYLKLGEYPEALKDAKKCIELDPNFIKAYLRKGAALRAMKEYDKALEAY  449 (539)
T ss_pred             CHHHHHHHHHHHHhc---CCchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999998864   35 6678999999999999999998876655 34554 334444455566667899999999


Q ss_pred             HHHhccCCCCcchhhhhhhhhhh
Q 005268          526 DRLFEVDSENVGYYVLMSNIYAN  548 (705)
Q Consensus       526 ~~~~~~~p~~~~~~~~l~~~~~~  548 (705)
                      ++.++.+|++..+...+...+..
T Consensus       450 ~eale~dp~~~e~~~~~~rc~~a  472 (539)
T KOG0548|consen  450 QEALELDPSNAEAIDGYRRCVEA  472 (539)
T ss_pred             HHHHhcCchhHHHHHHHHHHHHH
Confidence            99999999887776666665544

>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=98.59  E-value=1.5e-06  Score=85.62  Aligned_cols=151  Identities=14%  Similarity=0.100  Sum_probs=70.6

Q ss_pred             HHHHHHhcCCHHHHHHHHhhCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHh----ccCc
Q 005268          374 LVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACS----HSGL  449 (705)
Q Consensus       374 li~~y~k~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~----~~g~  449 (705)
                      ...+|...|++++|++++...  .+.......+..|.+.++++.|.+.++.|.+  +..|.. ...+..++.    ..+.
T Consensus       108 ~A~i~~~~~~~~~AL~~l~~~--~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~--~~eD~~-l~qLa~awv~l~~g~e~  182 (290)
T PF04733_consen  108 AATILFHEGDYEEALKLLHKG--GSLELLALAVQILLKMNRPDLAEKELKNMQQ--IDEDSI-LTQLAEAWVNLATGGEK  182 (290)
T ss_dssp             HHHHHCCCCHHHHHHCCCTTT--TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHC--CSCCHH-HHHHHHHHHHHHHTTTC
T ss_pred             HHHHHHHcCCHHHHHHHHHcc--CcccHHHHHHHHHHHcCCHHHHHHHHHHHHh--cCCcHH-HHHHHHHHHHHHhCchh
Confidence            334555667777776666554  3333344455666666666666666666665  333332 222222221    1123


Q ss_pred             HHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHh
Q 005268          450 VSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLF  529 (705)
Q Consensus       450 ~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~  529 (705)
                      +.+|..+|+++.+.  ..                                +++.+.+.+..+....|++++|+..+++++
T Consensus       183 ~~~A~y~f~El~~~--~~--------------------------------~t~~~lng~A~~~l~~~~~~eAe~~L~~al  228 (290)
T PF04733_consen  183 YQDAFYIFEELSDK--FG--------------------------------STPKLLNGLAVCHLQLGHYEEAEELLEEAL  228 (290)
T ss_dssp             CCHHHHHHHHHHCC--S----------------------------------SHHHHHHHHHHHHHCT-HHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHhc--cC--------------------------------CCHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            45555555554332  22                                334444444444455555555555555555


Q ss_pred             ccCCCCcchhhhhhhhhhhcCCc-chHHHHHHHHH
Q 005268          530 EVDSENVGYYVLMSNIYANVGKW-EGVDEVRSLAR  563 (705)
Q Consensus       530 ~~~p~~~~~~~~l~~~~~~~g~~-~~a~~~~~~m~  563 (705)
                      +.+|+++.+...++-+....|+. +.+.+++.+++
T Consensus       229 ~~~~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~  263 (290)
T PF04733_consen  229 EKDPNDPDTLANLIVCSLHLGKPTEAAERYLSQLK  263 (290)
T ss_dssp             CC-CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHCH
T ss_pred             HhccCCHHHHHHHHHHHHHhCCChhHHHHHHHHHH
Confidence            55555554444444444444544 23334444443

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.

>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=98.57  E-value=5.1e-06  Score=81.96  Aligned_cols=156  Identities=11%  Similarity=0.090  Sum_probs=86.2

Q ss_pred             hhHHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccccchhHHhh
Q 005268          265 DVIIGNAVVDMYAKLGIINSACAVFEGLPVKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYS  344 (705)
Q Consensus       265 ~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~  344 (705)
                      +..+......+|...|++++|.+++...  .+.......+..|.+.++++.|.+.++.|.+   ...| .+...+..++.
T Consensus       101 ~~~~~~~~A~i~~~~~~~~~AL~~l~~~--~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~---~~eD-~~l~qLa~awv  174 (290)
T PF04733_consen  101 NEIVQLLAATILFHEGDYEEALKLLHKG--GSLELLALAVQILLKMNRPDLAEKELKNMQQ---IDED-SILTQLAEAWV  174 (290)
T ss_dssp             HHHHHHHHHHHHCCCCHHHHHHCCCTTT--TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHC---CSCC-HHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHcc--CcccHHHHHHHHHHHcCCHHHHHHHHHHHHh---cCCc-HHHHHHHHHHH
Confidence            3334444445677788999998888765  5566677788899999999999999999987   3333 33333333332


Q ss_pred             c----cCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCCCC---CcchHHHHHHHHHhcCCh-H
Q 005268          345 H----VGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRS---SSVPWNAIISCHGIHGQG-D  416 (705)
Q Consensus       345 ~----~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~-~  416 (705)
                      .    ...+..|..+|+++.+. +.+++.+.|.+..++...|++++|.+++.+....   +..+...+|......|+. +
T Consensus       175 ~l~~g~e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~~~d~LaNliv~~~~~gk~~~  253 (290)
T PF04733_consen  175 NLATGGEKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPNDPDTLANLIVCSLHLGKPTE  253 (290)
T ss_dssp             HHHHTTTCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CCHHHHHHHHHHHHHHTT-TCH
T ss_pred             HHHhCchhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHhCCChh
Confidence            2    22455666666664432 3445555555555555555555555555544322   222233334444444444 3


Q ss_pred             HHHHHHHHHHH
Q 005268          417 KALNFFRQMLD  427 (705)
Q Consensus       417 ~A~~~~~~m~~  427 (705)
                      .+.+.+.++..
T Consensus       254 ~~~~~l~qL~~  264 (290)
T PF04733_consen  254 AAERYLSQLKQ  264 (290)
T ss_dssp             HHHHHHHHCHH
T ss_pred             HHHHHHHHHHH
Confidence            34444444444

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.

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=98.54  E-value=0.00014  Score=75.46  Aligned_cols=91  Identities=16%  Similarity=0.162  Sum_probs=42.8

Q ss_pred             HHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCc-ccccchhHHhhccCchHHHHHHHHHHHHhCC-CCch--hHHHHHHH
Q 005268          301 NTLITGYAQNGLASEAIEVFQMMEECNEINPNQ-GTYVSILPAYSHVGALRQGIKIHARVIKNCL-CFDV--FVATCLVD  376 (705)
Q Consensus       301 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~-~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~-~~~~--~~~~~li~  376 (705)
                      ..+...+...|++++|.+.+++..+   ..|+. ..+..+...+...|++++|...+....+... .++.  ..+..+..
T Consensus       118 ~~~a~~~~~~G~~~~A~~~~~~al~---~~p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~  194 (355)
T cd05804         118 GMLAFGLEEAGQYDRAEEAARRALE---LNPDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLAL  194 (355)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHh---hCCCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHH
Confidence            3344456666667777776666665   44432 2233334444445555555555544443211 1111  12223444


Q ss_pred             HHHhcCCHHHHHHHHhhC
Q 005268          377 MYGKCGRIDDAMSLFYQV  394 (705)
Q Consensus       377 ~y~k~g~~~~A~~~~~~~  394 (705)
                      .+...|++++|..+|++.
T Consensus       195 ~~~~~G~~~~A~~~~~~~  212 (355)
T cd05804         195 FYLERGDYEAALAIYDTH  212 (355)
T ss_pred             HHHHCCCHHHHHHHHHHH
Confidence            444455555555554443

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.

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.51  E-value=1.6e-06  Score=76.21  Aligned_cols=120  Identities=13%  Similarity=0.096  Sum_probs=89.4

Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC-C
Q 005268          420 NFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM-P  497 (705)
Q Consensus       420 ~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~  497 (705)
                      .+|++.++  +.|+.  +.....++...|++++|...|+....   +.| +...|..+..++.+.|++++|...|++. .
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            45666666  45654  44456677788888888888887763   344 5567777888888888888888888777 3


Q ss_pred             CCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhh
Q 005268          498 VRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIY  546 (705)
Q Consensus       498 ~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  546 (705)
                      ..| +...|..+..++...|+.++|+..+++++++.|+++..+...+++.
T Consensus        87 l~p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~~p~~~~~~~~~~~~~  136 (144)
T PRK15359         87 LDASHPEPVYQTGVCLKMMGEPGLAREAFQTAIKMSYADASWSEIRQNAQ  136 (144)
T ss_pred             cCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHH
Confidence            344 5677888888888888888888888888888888888877766554

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.49  E-value=0.00047  Score=81.41  Aligned_cols=259  Identities=12%  Similarity=0.012  Sum_probs=133.2

Q ss_pred             HHHcCCChhhHHHHHHHHHHCCCCCCh----hhHHHHHHHHHccCChhhHHHHHHHHHHh----cCCCchhHHHHHHHHH
Q 005268          204 AYEQSNDPITAHGFFTTMQQAGIQPDL----LTLVSLTSIVAQLNDCRNSRSVHGFIMRR----GWFMEDVIIGNAVVDM  275 (705)
Q Consensus       204 ~~~~~g~~~~A~~~~~~m~~~g~~p~~----~t~~~ll~a~~~~~~~~~a~~i~~~~~~~----g~~~~~~~~~~~li~~  275 (705)
                      .+...|++++|...+++....-...+.    .....+...+...|+++.+...+......    |...........+...
T Consensus       461 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~  540 (903)
T PRK04841        461 VAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEI  540 (903)
T ss_pred             HHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHH
Confidence            344566666666666665442111111    12223333445566666666666555432    1011112344455566


Q ss_pred             HHhcCCHHHHHHHHhcCCC-------C----ChhHHHHHHHHHHHcCChhHHHHHHHhhhhcC-CCCCC--cccccchhH
Q 005268          276 YAKLGIINSACAVFEGLPV-------K----DVISWNTLITGYAQNGLASEAIEVFQMMEECN-EINPN--QGTYVSILP  341 (705)
Q Consensus       276 y~~~g~~~~A~~~f~~~~~-------~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~-~~~p~--~~t~~~ll~  341 (705)
                      +...|+++.|...+++...       +    ....+..+...+...|++++|...+.+..... ...|.  ...+..+..
T Consensus       541 ~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~  620 (903)
T PRK04841        541 LFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAK  620 (903)
T ss_pred             HHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHH
Confidence            6677777777766554321       0    11223344455566678888777777664410 01111  112222334


Q ss_pred             HhhccCchHHHHHHHHHHHHhCCCCc-hh-----HHHHHHHHHHhcCCHHHHHHHHhhCCCCCcc-h------HHHHHHH
Q 005268          342 AYSHVGALRQGIKIHARVIKNCLCFD-VF-----VATCLVDMYGKCGRIDDAMSLFYQVPRSSSV-P------WNAIISC  408 (705)
Q Consensus       342 a~~~~~~~~~a~~~~~~~~~~g~~~~-~~-----~~~~li~~y~k~g~~~~A~~~~~~~~~~~~~-~------~~~li~~  408 (705)
                      .....|+.+.|...+..+........ ..     .....+..+...|+.+.|...+.....+... .      +..+..+
T Consensus       621 ~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~  700 (903)
T PRK04841        621 ISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARA  700 (903)
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHH
Confidence            45566777777777666644211000 00     0011223445577888888877665532211 1      2345566


Q ss_pred             HHhcCChHHHHHHHHHHHHc----CCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHhHH
Q 005268          409 HGIHGQGDKALNFFRQMLDE----GVRPDH-ITFVSLLTACSHSGLVSEGQRYFHMMQE  462 (705)
Q Consensus       409 ~~~~g~~~~A~~~~~~m~~~----g~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~m~~  462 (705)
                      +...|++++|...+++....    |..++. .+...+..++...|+.++|...+.+..+
T Consensus       701 ~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~  759 (903)
T PRK04841        701 QILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEALK  759 (903)
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            77778888888887777653    222222 2444555567777777777777777664

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.49  E-value=5.3e-06  Score=80.46  Aligned_cols=179  Identities=9%  Similarity=-0.015  Sum_probs=117.8

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhhCCCCC---c---chHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH----H
Q 005268          367 DVFVATCLVDMYGKCGRIDDAMSLFYQVPRSS---S---VPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHI----T  436 (705)
Q Consensus       367 ~~~~~~~li~~y~k~g~~~~A~~~~~~~~~~~---~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~----t  436 (705)
                      ....+..+...|.+.|++++|...|+++...+   .   ..|..+..+|...|++++|+..++++.+.  .|+..    +
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            44556667777778888888888887765322   1   24566777788888888888888888773  44322    3


Q ss_pred             HHHHHHHHhcc--------CcHHHHHHHHHHhHHhhCCcCCcc-hHHHHHHHHHhcCCHHHHHHHHHhCCCCCCHHHHHH
Q 005268          437 FVSLLTACSHS--------GLVSEGQRYFHMMQEEFGIKPHLK-HYGCMVDLFGRAGHLGMAHNFIQNMPVRPDASIWGA  507 (705)
Q Consensus       437 ~~~ll~a~~~~--------g~~~~a~~~~~~m~~~~~~~p~~~-~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~  507 (705)
                      +..+..++...        |+.++|.+.|+.+.+.   .|+.. .+..+...    +......           ......
T Consensus       110 ~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~---~p~~~~~~~a~~~~----~~~~~~~-----------~~~~~~  171 (235)
T TIGR03302       110 YYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR---YPNSEYAPDAKKRM----DYLRNRL-----------AGKELY  171 (235)
T ss_pred             HHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH---CCCChhHHHHHHHH----HHHHHHH-----------HHHHHH
Confidence            44444455443        6677778777777654   44322 22111111    0011100           001124


Q ss_pred             HHHHHHhcCChhHHHHHHHHHhccCCCC---cchhhhhhhhhhhcCCcchHHHHHHHHHhC
Q 005268          508 LLGACRIHGNMELGAVASDRLFEVDSEN---VGYYVLMSNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       508 ll~~~~~~g~~~~a~~~~~~~~~~~p~~---~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      +...+...|++++|...++++++..|++   +..+..++.+|...|++++|...++.+..+
T Consensus       172 ~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       172 VARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            5667889999999999999999987765   467889999999999999999998887654

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).

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.49  E-value=0.00011  Score=78.00  Aligned_cols=401  Identities=15%  Similarity=0.138  Sum_probs=221.0

Q ss_pred             CCHHHHHHHHH--HHHcCCChhHHHHHhccCCCCCcchHHHHHHHHHhCCChhHHHHHHHHHHHC-C--------CCCCh
Q 005268           61 WDVFVAASLLH--MYCRFGLANVARKLFDDMPVRDSGSWNAMISGYCQSGNAVEALDILDEMRLE-G--------VSMDP  129 (705)
Q Consensus        61 ~~~~~~~~ll~--~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-g--------~~p~~  129 (705)
                      -|..+-.++++  .|.--|+.+.|.+-.+-+.  +-..|..|.+.+.+..+.+-|.-.+-.|... |        -.|+ 
T Consensus       724 Cd~~TRkaml~FSfyvtiG~MD~AfksI~~Ik--S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~-  800 (1416)
T KOG3617|consen  724 CDESTRKAMLDFSFYVTIGSMDAAFKSIQFIK--SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE-  800 (1416)
T ss_pred             cCHHHHHhhhceeEEEEeccHHHHHHHHHHHh--hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc-
Confidence            36667677765  5667899999887766654  3456999999999998888887777666431 1        1222 


Q ss_pred             hhHHhHHHHhhcCCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHccCCHHHHHHHHhccCCC-CeehHHHHHHHHHcC
Q 005268          130 ITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGMMRHALRVFDQMMER-DVVSWNSIIAAYEQS  208 (705)
Q Consensus       130 ~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~~-~~~~~~~li~~~~~~  208 (705)
                      .+=.-+.......|.+++|+.++.+..+..         .|=..|-..|.+++|.++-+.-..- =..||..-...+-..
T Consensus       801 e~eakvAvLAieLgMlEeA~~lYr~ckR~D---------LlNKlyQs~g~w~eA~eiAE~~DRiHLr~Tyy~yA~~Lear  871 (1416)
T KOG3617|consen  801 EDEAKVAVLAIELGMLEEALILYRQCKRYD---------LLNKLYQSQGMWSEAFEIAETKDRIHLRNTYYNYAKYLEAR  871 (1416)
T ss_pred             chhhHHHHHHHHHhhHHHHHHHHHHHHHHH---------HHHHHHHhcccHHHHHHHHhhccceehhhhHHHHHHHHHhh
Confidence            222222223357788999999999887643         3446677889999998886543221 112555555566667


Q ss_pred             CChhhHHHHHHHHH----------HCC---------CCCChhhHHHHHHHHHccCChhhHHHHHHHHHHhcCCCchhHHH
Q 005268          209 NDPITAHGFFTTMQ----------QAG---------IQPDLLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIG  269 (705)
Q Consensus       209 g~~~~A~~~~~~m~----------~~g---------~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~  269 (705)
                      ++.+.|++.|++-.          ...         -.-|...|.....-+.+.|+.+.|..+|..+...          
T Consensus       872 ~Di~~AleyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D~----------  941 (1416)
T KOG3617|consen  872 RDIEAALEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKDY----------  941 (1416)
T ss_pred             ccHHHHHHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhhh----------
Confidence            88888888876531          110         0112222233333333444444444444433221          


Q ss_pred             HHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccccchhHHhhccC--
Q 005268          270 NAVVDMYAKLGIINSACAVFEGLPVKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVG--  347 (705)
Q Consensus       270 ~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~--  347 (705)
                      -+++...+-.|+.++|.++-++  ..|..+.-.+...|-..|++.+|...|.+.+.          |...|+.|-..+  
T Consensus       942 fs~VrI~C~qGk~~kAa~iA~e--sgd~AAcYhlaR~YEn~g~v~~Av~FfTrAqa----------fsnAIRlcKEnd~~ 1009 (1416)
T KOG3617|consen  942 FSMVRIKCIQGKTDKAARIAEE--SGDKAACYHLARMYENDGDVVKAVKFFTRAQA----------FSNAIRLCKENDMK 1009 (1416)
T ss_pred             hhheeeEeeccCchHHHHHHHh--cccHHHHHHHHHHhhhhHHHHHHHHHHHHHHH----------HHHHHHHHHhcCHH
Confidence            2333334444555555555443  23445555666777777777777777776653          233333332221  


Q ss_pred             -------------chHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCC--------------CCCcc
Q 005268          348 -------------ALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVP--------------RSSSV  400 (705)
Q Consensus       348 -------------~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~--------------~~~~~  400 (705)
                                   +.-.|-++|++   .|.     -....+..|-|.|.+.+|+++--+-.              ..|+.
T Consensus      1010 d~L~nlal~s~~~d~v~aArYyEe---~g~-----~~~~AVmLYHkAGm~~kALelAF~tqQf~aL~lIa~DLd~~sDp~ 1081 (1416)
T KOG3617|consen 1010 DRLANLALMSGGSDLVSAARYYEE---LGG-----YAHKAVMLYHKAGMIGKALELAFRTQQFSALDLIAKDLDAGSDPK 1081 (1416)
T ss_pred             HHHHHHHhhcCchhHHHHHHHHHH---cch-----hhhHHHHHHHhhcchHHHHHHHHhhcccHHHHHHHHhcCCCCCHH
Confidence                         12222222222   111     11223456778888887776532211              22333


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCC----cchHHHH
Q 005268          401 PWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPH----LKHYGCM  476 (705)
Q Consensus       401 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~----~~~~~~l  476 (705)
                      ..+--..-|+.+.++++|..++-..++         |...+..|...+ +.-..++-+.|.-...-.|+    ......+
T Consensus      1082 ll~RcadFF~~~~qyekAV~lL~~ar~---------~~~AlqlC~~~n-v~vtee~aE~mTp~Kd~~~~e~~R~~vLeqv 1151 (1416)
T KOG3617|consen 1082 LLRRCADFFENNQQYEKAVNLLCLARE---------FSGALQLCKNRN-VRVTEEFAELMTPTKDDMPNEQERKQVLEQV 1151 (1416)
T ss_pred             HHHHHHHHHHhHHHHHHHHHHHHHHHH---------HHHHHHHHhcCC-CchhHHHHHhcCcCcCCCccHHHHHHHHHHH
Confidence            355555666777788888887776655         444555554433 22222332333211111222    2456667


Q ss_pred             HHHHHhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChh
Q 005268          477 VDLFGRAGHLGMAHNFIQNMPVRPDASIWGALLGACRIHGNME  519 (705)
Q Consensus       477 i~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~  519 (705)
                      .+.+.++|.+..|-+-|.+++.+  .    .-+.++.+.||.+
T Consensus      1152 ae~c~qQG~Yh~AtKKfTQAGdK--l----~AMraLLKSGdt~ 1188 (1416)
T KOG3617|consen 1152 AELCLQQGAYHAATKKFTQAGDK--L----SAMRALLKSGDTQ 1188 (1416)
T ss_pred             HHHHHhccchHHHHHHHhhhhhH--H----HHHHHHHhcCCcc
Confidence            78888888888888877776522  1    2234455666644

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.48  E-value=7.6e-06  Score=91.30  Aligned_cols=200  Identities=13%  Similarity=0.128  Sum_probs=168.0

Q ss_pred             CCchhHHHHHHHHHHhcCCHHHHHHHHhhCCCC--------CcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHH
Q 005268          365 CFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRS--------SSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHIT  436 (705)
Q Consensus       365 ~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~~~--------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t  436 (705)
                      +.+...|-..|......+++++|++++++..+.        -...|.++++.-...|.-+...++|+++.+.  .-....
T Consensus      1455 PNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqy--cd~~~V 1532 (1710)
T KOG1070|consen 1455 PNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQY--CDAYTV 1532 (1710)
T ss_pred             CCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHh--cchHHH
Confidence            445667788888888999999999999887621        2344999998888889888999999999983  333457


Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCC---CHHHHHHHHHHH
Q 005268          437 FVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP---DASIWGALLGAC  512 (705)
Q Consensus       437 ~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p---~~~~~~~ll~~~  512 (705)
                      |..|+..|.+.+..++|.++++.|.++++  .....|...++.+.+..+-+.|..+++++ ..-|   ......-.+..-
T Consensus      1533 ~~~L~~iy~k~ek~~~A~ell~~m~KKF~--q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLE 1610 (1710)
T KOG1070|consen 1533 HLKLLGIYEKSEKNDEADELLRLMLKKFG--QTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLE 1610 (1710)
T ss_pred             HHHHHHHHHHhhcchhHHHHHHHHHHHhc--chhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHH
Confidence            88999999999999999999999999877  56678999999999999999999999876 2223   344556666777


Q ss_pred             HhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhCCCc
Q 005268          513 RIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDRGLK  568 (705)
Q Consensus       513 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  568 (705)
                      .++|+.+.+..+|+.++.-.|.....|..++++-.+.|..+.++.+|+.....++.
T Consensus      1611 Fk~GDaeRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~ 1666 (1710)
T KOG1070|consen 1611 FKYGDAERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLS 1666 (1710)
T ss_pred             hhcCCchhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCC
Confidence            89999999999999999999999999999999999999999999999999988764

>PF12854 PPR_1: PPR repeat

Probab=98.48  E-value=2e-07  Score=58.29  Aligned_cols=33  Identities=36%  Similarity=0.574  Sum_probs=26.2

Q ss_pred             CCCCchhHHHHHHHHHHccCCHHHHHHHHhccC
Q 005268          159 GLEFNLFVSNNLINMYAKFGMMRHALRVFDQMM  191 (705)
Q Consensus       159 g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~  191 (705)
                      |+.||..+||+||++|++.|++++|.++|++|+
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            677888888888888888888888888887774

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.46  E-value=5.6e-06  Score=86.76  Aligned_cols=219  Identities=17%  Similarity=0.157  Sum_probs=127.5

Q ss_pred             CchhHHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccccchhHH
Q 005268          263 MEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPA  342 (705)
Q Consensus       263 ~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a  342 (705)
                      +|--.....+...+.++|-...|..+|+++     ..|.-.|.+|+..|+..+|..+..+-.+   -             
T Consensus       395 pp~Wq~q~~laell~slGitksAl~I~Erl-----emw~~vi~CY~~lg~~~kaeei~~q~le---k-------------  453 (777)
T KOG1128|consen  395 PPIWQLQRLLAELLLSLGITKSALVIFERL-----EMWDPVILCYLLLGQHGKAEEINRQELE---K-------------  453 (777)
T ss_pred             CCcchHHHHHHHHHHHcchHHHHHHHHHhH-----HHHHHHHHHHHHhcccchHHHHHHHHhc---C-------------
Confidence            334444455666666666666666666653     3556666666666666666655554443   2             


Q ss_pred             hhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCcchHHHHHHHHHhcCChHHHHHHH
Q 005268          343 YSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFF  422 (705)
Q Consensus       343 ~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~  422 (705)
                                            +||...|..+.|.....--+++|.++++....+-...|+-+   ...+++++++.+.|
T Consensus       454 ----------------------~~d~~lyc~LGDv~~d~s~yEkawElsn~~sarA~r~~~~~---~~~~~~fs~~~~hl  508 (777)
T KOG1128|consen  454 ----------------------DPDPRLYCLLGDVLHDPSLYEKAWELSNYISARAQRSLALL---ILSNKDFSEADKHL  508 (777)
T ss_pred             ----------------------CCcchhHHHhhhhccChHHHHHHHHHhhhhhHHHHHhhccc---cccchhHHHHHHHH
Confidence                                  34455555555554444445566666554432211111111   12357778888888


Q ss_pred             HHHHHcCCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCC-cchHHHHHHHHHhcCCHHHHHHHHHhC-CC-
Q 005268          423 RQMLDEGVRPDH-ITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPH-LKHYGCMVDLFGRAGHLGMAHNFIQNM-PV-  498 (705)
Q Consensus       423 ~~m~~~g~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~-~~-  498 (705)
                      +.-.+  +.|-. .||-.+..+..+.++++.+.+.|....   ...|+ ...||.+-.+|.+.|+..+|...+++. +. 
T Consensus       509 e~sl~--~nplq~~~wf~~G~~ALqlek~q~av~aF~rcv---tL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn  583 (777)
T KOG1128|consen  509 ERSLE--INPLQLGTWFGLGCAALQLEKEQAAVKAFHRCV---TLEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN  583 (777)
T ss_pred             HHHhh--cCccchhHHHhccHHHHHHhhhHHHHHHHHHHh---hcCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC
Confidence            77766  44443 477777777777777888877777665   34553 456666666666666666666666655 21 


Q ss_pred             CCCHHHHHHHHHHHHhcCChhHHHHHHHHHhccC
Q 005268          499 RPDASIWGALLGACRIHGNMELGAVASDRLFEVD  532 (705)
Q Consensus       499 ~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  532 (705)
                      .-+..+|...+-....-|.+++|++++.++..+.
T Consensus       584 ~~~w~iWENymlvsvdvge~eda~~A~~rll~~~  617 (777)
T KOG1128|consen  584 YQHWQIWENYMLVSVDVGEFEDAIKAYHRLLDLR  617 (777)
T ss_pred             CCCCeeeechhhhhhhcccHHHHHHHHHHHHHhh
Confidence            1234456666666666677777777777666543

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.45  E-value=2.2e-06  Score=73.92  Aligned_cols=120  Identities=8%  Similarity=-0.019  Sum_probs=101.0

Q ss_pred             CcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhh
Q 005268          469 HLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIY  546 (705)
Q Consensus       469 ~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  546 (705)
                      +.+..-.+...+...|++++|..+|+-. .+.| +..-|-.|...|...|++++|+..|.++..++|++|.++..++..|
T Consensus        34 ~l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~ddp~~~~~ag~c~  113 (157)
T PRK15363         34 PLNTLYRYAMQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKIDAPQAPWAAAECY  113 (157)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHH
Confidence            3445566777788999999999999887 3455 5778999999999999999999999999999999999999999999


Q ss_pred             hhcCCcchHHHHHHHHHhCCCccCCceeEEEECCEEEEEEeCCCCCCCcHHHHHHHHHHHHHHHh
Q 005268          547 ANVGKWEGVDEVRSLARDRGLKKTPGWSSIEVNNKVDIFYTGNRTHPKYEKIYDELRNLTAKMKS  611 (705)
Q Consensus       547 ~~~g~~~~a~~~~~~m~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~m~~  611 (705)
                      ...|+.++|++-|+..+...                       ..+|+..++..+++...+.+.+
T Consensus       114 L~lG~~~~A~~aF~~Ai~~~-----------------------~~~~~~~~l~~~A~~~L~~l~~  155 (157)
T PRK15363        114 LACDNVCYAIKALKAVVRIC-----------------------GEVSEHQILRQRAEKMLQQLSD  155 (157)
T ss_pred             HHcCCHHHHHHHHHHHHHHh-----------------------ccChhHHHHHHHHHHHHHHhhc
Confidence            99999999999999887652                       1367777777777777766643

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.44  E-value=6.8e-06  Score=76.45  Aligned_cols=118  Identities=10%  Similarity=0.057  Sum_probs=89.3

Q ss_pred             cCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHH-HhcCC--hhHH
Q 005268          447 SGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGAC-RIHGN--MELG  521 (705)
Q Consensus       447 ~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~-~~~g~--~~~a  521 (705)
                      .++.+++...++...+.  -+.+...|..+...|...|++++|...+++. ...| +...+..+..++ ...|+  .++|
T Consensus        52 ~~~~~~~i~~l~~~L~~--~P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P~~~~~~~~lA~aL~~~~g~~~~~~A  129 (198)
T PRK10370         52 QQTPEAQLQALQDKIRA--NPQNSEQWALLGEYYLWRNDYDNALLAYRQALQLRGENAELYAALATVLYYQAGQHMTPQT  129 (198)
T ss_pred             chhHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCCCcHHH
Confidence            55556666666665542  2335667888888888888888888888777 3445 466777777763 56666  4889


Q ss_pred             HHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhCC
Q 005268          522 AVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDRG  566 (705)
Q Consensus       522 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  566 (705)
                      ..+++++++.+|+++.++..++..+...|++++|...++++.+..
T Consensus       130 ~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l~  174 (198)
T PRK10370        130 REMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQKVLDLN  174 (198)
T ss_pred             HHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            999999999999998899999999999999999999998887763

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.44  E-value=0.00046  Score=75.16  Aligned_cols=498  Identities=12%  Similarity=0.052  Sum_probs=262.8

Q ss_pred             HHHHHHHHHHhCCCCCHHHHHHHHHHHHcCCChhHHHHHhccCC------------------------------------
Q 005268           47 GKKIHCSVLKLGFEWDVFVAASLLHMYCRFGLANVARKLFDDMP------------------------------------   90 (705)
Q Consensus        47 ~~~~~~~~~~~g~~~~~~~~~~ll~~y~~~g~~~~A~~~f~~~~------------------------------------   90 (705)
                      |++.|....+.. ..+...+....+.|++..+++.|..+.-...                                    
T Consensus       511 A~kCf~KAFeLD-atdaeaaaa~adtyae~~~we~a~~I~l~~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsAL  589 (1238)
T KOG1127|consen  511 AKKCFDKAFELD-ATDAEAAAASADTYAEESTWEEAFEICLRAAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSAL  589 (1238)
T ss_pred             HHHHHHHHhcCC-chhhhhHHHHHHHhhccccHHHHHHHHHHHhhhchHHHHHhhhhhccccccCccchhhHHHHHHHHh
Confidence            444444443332 3456667777788888777777766632111                                    


Q ss_pred             ---CCCcchHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHhHHH--HhhcCCChHHHHHHHHHHHHhCCCCchh
Q 005268           91 ---VRDSGSWNAMISGYCQSGNAVEALDILDEMRLEGVSMDPITVASILP--VCARSDNILSGLLIHLYIVKHGLEFNLF  165 (705)
Q Consensus        91 ---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~--~~~~~~~~~~a~~~~~~~~~~g~~~~~~  165 (705)
                         +.|..+|..+..+|.+.|++..|+++|.+...  ++|+.. |...-.  .-+..|.+.++...++.++..- ..-..
T Consensus       590 R~dPkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~--LrP~s~-y~~fk~A~~ecd~GkYkeald~l~~ii~~~-s~e~~  665 (1238)
T KOG1127|consen  590 RTDPKDYNLWLGLGEAYPESGRYSHALKVFTKASL--LRPLSK-YGRFKEAVMECDNGKYKEALDALGLIIYAF-SLERT  665 (1238)
T ss_pred             cCCchhHHHHHHHHHHHHhcCceehHHHhhhhhHh--cCcHhH-HHHHHHHHHHHHhhhHHHHHHHHHHHHHHH-HHHHH
Confidence               12666788899999999999999999988765  345432 222222  2245677888887777766531 11111


Q ss_pred             HHHHHHHHHHc-------cCCHHHHHHHHhccCC-----------CCeehHHHHHHHH---HcCC--Chh-hHHHH-HHH
Q 005268          166 VSNNLINMYAK-------FGMMRHALRVFDQMME-----------RDVVSWNSIIAAY---EQSN--DPI-TAHGF-FTT  220 (705)
Q Consensus       166 ~~~~Li~~y~~-------~g~~~~A~~~f~~m~~-----------~~~~~~~~li~~~---~~~g--~~~-~A~~~-~~~  220 (705)
                      ..+.|...+.+       .|-..+|...|+.-.+           .|...|-.+-.++   .+..  -+. -.+.+ +.+
T Consensus       666 ~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~~~l~h~~~~~~~~Wi~asdac~~f~q~e~~~vn~h~l~il~~q  745 (1238)
T KOG1127|consen  666 GQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIESFIVSLIHSLQSDRLQWIVASDACYIFSQEEPSIVNMHYLIILSKQ  745 (1238)
T ss_pred             hhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHhhhhhHHHHHHHhHHHHHHHHhcccchHHHHHHHHHHH
Confidence            22223322222       2333333333332211           1222333222211   1111  000 00111 111


Q ss_pred             HHHCCCCC--------------------ChhhHHHHHHHHHc----cCC----hhhHHHHHHHHHHhcCCCchhHHHHHH
Q 005268          221 MQQAGIQP--------------------DLLTLVSLTSIVAQ----LND----CRNSRSVHGFIMRRGWFMEDVIIGNAV  272 (705)
Q Consensus       221 m~~~g~~p--------------------~~~t~~~ll~a~~~----~~~----~~~a~~i~~~~~~~g~~~~~~~~~~~l  272 (705)
                      ....+..|                    +..+|..+...+.+    .+.    ...|...+...++..  ..+...||+|
T Consensus       746 ~e~~~~l~~~d~l~Lg~~c~~~hlsl~~~~~~WyNLGinylr~f~~l~et~~~~~~Ai~c~KkaV~L~--ann~~~WnaL  823 (1238)
T KOG1127|consen  746 LEKTGALKKNDLLFLGYECGIAHLSLAIHMYPWYNLGINYLRYFLLLGETMKDACTAIRCCKKAVSLC--ANNEGLWNAL  823 (1238)
T ss_pred             HHhcccCcchhHHHHHHHHhhHHHHHhhccchHHHHhHHHHHHHHHcCCcchhHHHHHHHHHHHHHHh--hccHHHHHHH
Confidence            22222222                    22233322222211    111    122333333344432  4455666666


Q ss_pred             HHHHHhcCCHHHHHHHHhcCC---CCChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCC-CcccccchhHHhhccCc
Q 005268          273 VDMYAKLGIINSACAVFEGLP---VKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINP-NQGTYVSILPAYSHVGA  348 (705)
Q Consensus       273 i~~y~~~g~~~~A~~~f~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p-~~~t~~~ll~a~~~~~~  348 (705)
                      .-. ...|.+.-|...|-.-.   +.+..+|..+...+.++.+++.|...|...+.   +.| |...|..........|+
T Consensus       824 GVl-sg~gnva~aQHCfIks~~sep~~~~~W~NlgvL~l~n~d~E~A~~af~~~qS---LdP~nl~~WlG~Ali~eavG~  899 (1238)
T KOG1127|consen  824 GVL-SGIGNVACAQHCFIKSRFSEPTCHCQWLNLGVLVLENQDFEHAEPAFSSVQS---LDPLNLVQWLGEALIPEAVGR  899 (1238)
T ss_pred             HHh-hccchhhhhhhhhhhhhhccccchhheeccceeEEecccHHHhhHHHHhhhh---cCchhhHHHHHHHHhHHHHHH
Confidence            554 55677777777775432   45778899999999999999999999999877   777 55556554444456677


Q ss_pred             hHHHHHHHHH--HHH--hCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCC-------------CCCcchHHHHHHHHHh
Q 005268          349 LRQGIKIHAR--VIK--NCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVP-------------RSSSVPWNAIISCHGI  411 (705)
Q Consensus       349 ~~~a~~~~~~--~~~--~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~-------------~~~~~~~~~li~~~~~  411 (705)
                      .-+...++..  ...  .|--++...+-+-.......|+.++-...-+.+.             +.+...|.......-.
T Consensus       900 ii~~~~lfaHs~el~~~~gka~~f~Yw~c~te~h~~Ng~~e~~I~t~~ki~sAs~al~~yf~~~p~~~fAy~~~gstlEh  979 (1238)
T KOG1127|consen  900 IIERLILFAHSDELCSKEGKAKKFQYWLCATEIHLQNGNIEESINTARKISSASLALSYYFLGHPQLCFAYAANGSTLEH  979 (1238)
T ss_pred             HHHHHHHHHhhHHhhccccccchhhHHHHHHHHHHhccchHHHHHHhhhhhhhHHHHHHHHhcCcchhHHHHHHHhHHHH
Confidence            6667666655  222  2333444444333334455666665554444443             2334447777777777


Q ss_pred             cCChHHHHHHHHHHHHc-CCCCCHHHHHHH----HHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHH--HhcC
Q 005268          412 HGQGDKALNFFRQMLDE-GVRPDHITFVSL----LTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLF--GRAG  484 (705)
Q Consensus       412 ~g~~~~A~~~~~~m~~~-g~~p~~~t~~~l----l~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~--~~~g  484 (705)
                      .+.+++|.++..+.+.- ..+-+..+|+.+    ...+...|.++.|..-+       +..|-.+-=-.+.-.+  .-.|
T Consensus       980 L~ey~~a~ela~RliglLe~k~d~sqynvak~~~gRL~lslgefe~A~~a~-------~~~~~evdEdi~gt~l~lFfkn 1052 (1238)
T KOG1127|consen  980 LEEYRAALELATRLIGLLELKLDESQYNVAKPDAGRLELSLGEFESAKKAS-------WKEWMEVDEDIRGTDLTLFFKN 1052 (1238)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhcchhhHhhhh-------cccchhHHHHHhhhhHHHHHHh
Confidence            88888888887776531 123344455532    22344455555554433       3333211111111111  3367


Q ss_pred             CHHHHHHHHHhCC----CCCCH-HHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHH
Q 005268          485 HLGMAHNFIQNMP----VRPDA-SIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVR  559 (705)
Q Consensus       485 ~~~~A~~~~~~~~----~~p~~-~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~  559 (705)
                      +++++.+.|+++-    .+.|. +....++......+.-+.|...+-+...+.|.+......|.-++.-..+-.....+.
T Consensus      1053 df~~sl~~fe~aLsis~se~d~vvLl~kva~~~g~~~~k~~A~~lLfe~~~ls~~~~~sll~L~A~~ild~da~~ssail 1132 (1238)
T KOG1127|consen 1053 DFFSSLEFFEQALSISNSESDKVVLLCKVAVCMGLARQKNDAQFLLFEVKSLSKVQASSLLPLPAVYILDADAHGSSAIL 1132 (1238)
T ss_pred             HHHHHHHHHHHHhhhcccccchhhhhHHHHHHHhhcccchHHHHHHHHHHHhCccchhhHHHHHHHHHHhhhhhhhHHHH
Confidence            8888888888872    23343 344555555566777778888777777777767666666665554443333333333


Q ss_pred             HHH
Q 005268          560 SLA  562 (705)
Q Consensus       560 ~~m  562 (705)
                      ++.
T Consensus      1133 eel 1135 (1238)
T KOG1127|consen 1133 EEL 1135 (1238)
T ss_pred             HHH
Confidence            333

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.43  E-value=0.0032  Score=64.34  Aligned_cols=421  Identities=13%  Similarity=0.165  Sum_probs=224.7

Q ss_pred             CCCHHHHHHHHHHHHcCCChhHHHHHhccCCC--C-CcchHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHhHH
Q 005268           60 EWDVFVAASLLHMYCRFGLANVARKLFDDMPV--R-DSGSWNAMISGYCQSGNAVEALDILDEMRLEGVSMDPITVASIL  136 (705)
Q Consensus        60 ~~~~~~~~~ll~~y~~~g~~~~A~~~f~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll  136 (705)
                      +.|+.+|+.||.-+... .+++++..++++..  | ....|..-|..-....+++....+|.+.+..-.  +...|..-|
T Consensus        17 P~di~sw~~lire~qt~-~~~~~R~~YEq~~~~FP~s~r~W~~yi~~El~skdfe~VEkLF~RCLvkvL--nlDLW~lYl   93 (656)
T KOG1914|consen   17 PYDIDSWSQLIREAQTQ-PIDKVRETYEQLVNVFPSSPRAWKLYIERELASKDFESVEKLFSRCLVKVL--NLDLWKLYL   93 (656)
T ss_pred             CccHHHHHHHHHHHccC-CHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHh--hHhHHHHHH
Confidence            56889999999877665 99999999999873  3 456799999999999999999999999886533  344444444


Q ss_pred             HHhhc-CCChHH----HHHHHHHH-HHhCCCCch-hHHHHHHHH---------HHccCCHHHHHHHHhccCC-C--Cee-
Q 005268          137 PVCAR-SDNILS----GLLIHLYI-VKHGLEFNL-FVSNNLINM---------YAKFGMMRHALRVFDQMME-R--DVV-  196 (705)
Q Consensus       137 ~~~~~-~~~~~~----a~~~~~~~-~~~g~~~~~-~~~~~Li~~---------y~~~g~~~~A~~~f~~m~~-~--~~~-  196 (705)
                      .-..+ .+....    -.+.|+.. .+.|+++-. ..|+..+..         |....+++..++++.++.. |  |.. 
T Consensus        94 ~YVR~~~~~~~~~r~~m~qAy~f~l~kig~di~s~siW~eYi~FL~~vea~gk~ee~QRI~~vRriYqral~tPm~nlEk  173 (656)
T KOG1914|consen   94 SYVRETKGKLFGYREKMVQAYDFALEKIGMDIKSYSIWDEYINFLEGVEAVGKYEENQRITAVRRIYQRALVTPMHNLEK  173 (656)
T ss_pred             HHHHHHccCcchHHHHHHHHHHHHHHHhccCcccchhHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHhcCccccHHH
Confidence            43322 222222    22334433 345654433 335555543         3344467778888887754 2  111 


Q ss_pred             hHH------HHHHH-----H--HcCCChhhHHHHHHHHHH--CCCCCChhh---------------HHHHHHHHHccCCh
Q 005268          197 SWN------SIIAA-----Y--EQSNDPITAHGFFTTMQQ--AGIQPDLLT---------------LVSLTSIVAQLNDC  246 (705)
Q Consensus       197 ~~~------~li~~-----~--~~~g~~~~A~~~~~~m~~--~g~~p~~~t---------------~~~ll~a~~~~~~~  246 (705)
                      .|+      .=|+.     +  -+...+..|..+++++..  .|+.-+..+               |..+|. +.+.+.+
T Consensus       174 LW~DY~~fE~~IN~~tarK~i~e~s~~Ym~AR~~~qel~~lt~GL~r~~~~vp~~~T~~e~~qv~~W~n~I~-wEksNpL  252 (656)
T KOG1914|consen  174 LWKDYEAFEQEINIITARKFIGERSPEYMNARRVYQELQNLTRGLNRNAPAVPPKGTKDEIQQVELWKNWIK-WEKSNPL  252 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCChHHHHHHHHHHHHHH-HHhcCCc
Confidence            222      11111     1  123345667777777643  343322222               111111 1111111


Q ss_pred             h-h--------HHHHHHHHHH-hcCCCchhHHH-----HHHHHHHHhcCCH-------HHHHHHHhcCCCC----ChhHH
Q 005268          247 R-N--------SRSVHGFIMR-RGWFMEDVIIG-----NAVVDMYAKLGII-------NSACAVFEGLPVK----DVISW  300 (705)
Q Consensus       247 ~-~--------a~~i~~~~~~-~g~~~~~~~~~-----~~li~~y~~~g~~-------~~A~~~f~~~~~~----~~~~~  300 (705)
                      . +        ..-+|++.+. .+ +.|++..-     ...-+.+...|+.       +++..+++.....    +...|
T Consensus       253 ~t~~~~~~~~Rv~yayeQ~ll~l~-~~peiWy~~s~yl~~~s~l~~~~~d~~~a~~~t~e~~~~yEr~I~~l~~~~~~Ly  331 (656)
T KOG1914|consen  253 RTLDGTMLTRRVMYAYEQCLLYLG-YHPEIWYDYSMYLIEISDLLTEKGDVPDAKSLTDEAASIYERAIEGLLKENKLLY  331 (656)
T ss_pred             ccccccHHHHHHHHHHHHHHHHHh-cCHHHHHHHHHHHHHhhHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            1 0        0011111111 11 22222111     0111223333333       2333333332211    12222


Q ss_pred             HHHHHHHH---HcCChhHHHHHHHhhhhcCCCCCCcccccchhHHhhccCchHHHHHHHHHHHHhCCCC-chhHHHHHHH
Q 005268          301 NTLITGYA---QNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCF-DVFVATCLVD  376 (705)
Q Consensus       301 ~~li~~~~---~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~-~~~~~~~li~  376 (705)
                      ..+..---   .....+.....+++......+.|+ .+|...++...+..-++.|+.+|.++.+.+..+ +++++++++.
T Consensus       332 ~~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~t-Lv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mE  410 (656)
T KOG1914|consen  332 FALADYEESRYDDNKEKKVHEIYNKLLKIEDIDLT-LVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALME  410 (656)
T ss_pred             HHHHhhHHHhcccchhhhhHHHHHHHHhhhccCCc-eehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHH
Confidence            22211100   011244455555555542233333 345566676677777788888888887776665 7778888887


Q ss_pred             HHHhcCCHHHHHHHHhhCCC--CCc-chHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHhccCcHH
Q 005268          377 MYGKCGRIDDAMSLFYQVPR--SSS-VPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDH--ITFVSLLTACSHSGLVS  451 (705)
Q Consensus       377 ~y~k~g~~~~A~~~~~~~~~--~~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~t~~~ll~a~~~~g~~~  451 (705)
                      .|+ .++.+-|.++|+--.+  .|. .--+..+.-+...|+-..|..+|++.+..++.|+.  ..|..+|.-=+.-|++.
T Consensus       411 y~c-skD~~~AfrIFeLGLkkf~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~  489 (656)
T KOG1914|consen  411 YYC-SKDKETAFRIFELGLKKFGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLN  489 (656)
T ss_pred             HHh-cCChhHHHHHHHHHHHhcCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHH
Confidence            776 4677777777775441  222 22344555566667777777777777777666664  36777777777777777


Q ss_pred             HHHHHHHHhHHhhC--CcCCcchHHHHHHHHHhcCCHH
Q 005268          452 EGQRYFHMMQEEFG--IKPHLKHYGCMVDLFGRAGHLG  487 (705)
Q Consensus       452 ~a~~~~~~m~~~~~--~~p~~~~~~~li~~~~~~g~~~  487 (705)
                      .+.++-+++...+.  ..|...+-..+++.|+-.+...
T Consensus       490 si~~lekR~~~af~~~qe~~~~~~~~~v~RY~~~d~~~  527 (656)
T KOG1914|consen  490 SILKLEKRRFTAFPADQEYEGNETALFVDRYGILDLYP  527 (656)
T ss_pred             HHHHHHHHHHHhcchhhcCCCChHHHHHHHHhhccccc
Confidence            77777666655443  3333344445555555554443

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.42  E-value=2e-05  Score=80.59  Aligned_cols=212  Identities=13%  Similarity=0.144  Sum_probs=160.9

Q ss_pred             HccCChhhHHHHHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCC---CCChhHHHHHHHHHHHcCChhHHH
Q 005268          241 AQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLP---VKDVISWNTLITGYAQNGLASEAI  317 (705)
Q Consensus       241 ~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~---~~~~~~~~~li~~~~~~g~~~~A~  317 (705)
                      .+.|++..|.-.++..++..  |.+...|.-|.......++-..|+..+++..   ..|....-.|...|...|.-.+|+
T Consensus       296 m~nG~L~~A~LafEAAVkqd--P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~NleaLmaLAVSytNeg~q~~Al  373 (579)
T KOG1125|consen  296 MKNGDLSEAALAFEAAVKQD--PQHAEAWQKLGITQAENENEQNAISALRRCLELDPTNLEALMALAVSYTNEGLQNQAL  373 (579)
T ss_pred             HhcCCchHHHHHHHHHHhhC--hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhHHHHH
Confidence            45677888888888888875  7888899999888888888888888777654   447778888888999999999999


Q ss_pred             HHHHhhhhcCCCCCCc----------ccccchhHHhhccCchHHHHHHHHHH-HHhCCCCchhHHHHHHHHHHhcCCHHH
Q 005268          318 EVFQMMEECNEINPNQ----------GTYVSILPAYSHVGALRQGIKIHARV-IKNCLCFDVFVATCLVDMYGKCGRIDD  386 (705)
Q Consensus       318 ~~~~~m~~~~~~~p~~----------~t~~~ll~a~~~~~~~~~a~~~~~~~-~~~g~~~~~~~~~~li~~y~k~g~~~~  386 (705)
                      +.|+.-.. .  .|-.          .+-..  ........+....++|-.+ ...+..+|..+...|.-.|--.|++++
T Consensus       374 ~~L~~Wi~-~--~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdr  448 (579)
T KOG1125|consen  374 KMLDKWIR-N--KPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDR  448 (579)
T ss_pred             HHHHHHHH-h--CccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHH
Confidence            99988755 1  1111          10000  1222333444555555555 445555788888889888999999999


Q ss_pred             HHHHHhhCC---CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHhccCcHHHHHHHHHHhH
Q 005268          387 AMSLFYQVP---RSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHI-TFVSLLTACSHSGLVSEGQRYFHMMQ  461 (705)
Q Consensus       387 A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~m~  461 (705)
                      |...|+...   +.|...||-|...++...+.++|+..|++.++  ++|+.+ ....|.-+|...|.+++|.+.|-...
T Consensus       449 aiDcf~~AL~v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALq--LqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL  525 (579)
T KOG1125|consen  449 AVDCFEAALQVKPNDYLLWNRLGATLANGNRSEEAISAYNRALQ--LQPGYVRVRYNLGISCMNLGAYKEAVKHLLEAL  525 (579)
T ss_pred             HHHHHHHHHhcCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHh--cCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHH
Confidence            999999876   45677799999999999999999999999999  899975 44455568999999999998876554

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.41  E-value=4.3e-06  Score=73.51  Aligned_cols=99  Identities=11%  Similarity=-0.059  Sum_probs=88.6

Q ss_pred             CcCCcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhh
Q 005268          466 IKPHLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMS  543 (705)
Q Consensus       466 ~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~  543 (705)
                      +.|+  .+..+...+...|++++|...|+.. ...| +...|..+..++...|++++|...|+++++++|+++.++..++
T Consensus        22 ~~p~--~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~~~~a~~~lg   99 (144)
T PRK15359         22 VDPE--TVYASGYASWQEGDYSRAVIDFSWLVMAQPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDASHPEPVYQTG   99 (144)
T ss_pred             cCHH--HHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHH
Confidence            3555  4666788999999999999999987 3445 6789999999999999999999999999999999999999999


Q ss_pred             hhhhhcCCcchHHHHHHHHHhCC
Q 005268          544 NIYANVGKWEGVDEVRSLARDRG  566 (705)
Q Consensus       544 ~~~~~~g~~~~a~~~~~~m~~~~  566 (705)
                      .++...|++++|...++...+..
T Consensus       100 ~~l~~~g~~~eAi~~~~~Al~~~  122 (144)
T PRK15359        100 VCLKMMGEPGLAREAFQTAIKMS  122 (144)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC
Confidence            99999999999999999988764

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.37  E-value=3.8e-05  Score=71.83  Aligned_cols=177  Identities=16%  Similarity=0.156  Sum_probs=108.9

Q ss_pred             cCCHHHHHHHHhhCC-CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHhccCcHHHHHHHHH
Q 005268          381 CGRIDDAMSLFYQVP-RSSSVPWNAIISCHGIHGQGDKALNFFRQMLDE-GVRPDHITFVSLLTACSHSGLVSEGQRYFH  458 (705)
Q Consensus       381 ~g~~~~A~~~~~~~~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~  458 (705)
                      .+++..+..+.++.+ +.+..+.+.......+.|++++|++-|+...+- |..| ...|+..+ +..+.|+++.|+++..
T Consensus       125 e~Dl~g~rsLveQlp~en~Ad~~in~gCllykegqyEaAvqkFqaAlqvsGyqp-llAYniAL-aHy~~~qyasALk~iS  202 (459)
T KOG4340|consen  125 EGDLPGSRSLVEQLPSENEADGQINLGCLLYKEGQYEAAVQKFQAALQVSGYQP-LLAYNLAL-AHYSSRQYASALKHIS  202 (459)
T ss_pred             cccCcchHHHHHhccCCCccchhccchheeeccccHHHHHHHHHHHHhhcCCCc-hhHHHHHH-HHHhhhhHHHHHHHHH
Confidence            455555566666655 344444444444455566666666666666553 3332 33444443 3344556666666666


Q ss_pred             HhHHhhCCcCC---------------------cchHHHHH-------HHHHhcCCHHHHHHHHHhCC----CCCCHHHHH
Q 005268          459 MMQEEFGIKPH---------------------LKHYGCMV-------DLFGRAGHLGMAHNFIQNMP----VRPDASIWG  506 (705)
Q Consensus       459 ~m~~~~~~~p~---------------------~~~~~~li-------~~~~~~g~~~~A~~~~~~~~----~~p~~~~~~  506 (705)
                      ++.++ |++..                     ..+-+.++       ..+.+.|+++.|.+.+..||    .+.|++|..
T Consensus       203 EIieR-G~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLH  281 (459)
T KOG4340|consen  203 EIIER-GIRQHPELGIGMTTEGIDVRSVGNTLVLHQSALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLH  281 (459)
T ss_pred             HHHHh-hhhcCCccCccceeccCchhcccchHHHHHHHHHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhh
Confidence            65544 43211                     11223333       34568899999999999995    335777766


Q ss_pred             HHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHH
Q 005268          507 ALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSL  561 (705)
Q Consensus       507 ~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  561 (705)
                      .+.-. -..+++.++.+-++-+++++|-.+.++..+.-+|++..-++-|..++-+
T Consensus       282 N~Al~-n~~~~p~~g~~KLqFLL~~nPfP~ETFANlLllyCKNeyf~lAADvLAE  335 (459)
T KOG4340|consen  282 NQALM-NMDARPTEGFEKLQFLLQQNPFPPETFANLLLLYCKNEYFDLAADVLAE  335 (459)
T ss_pred             HHHHh-cccCCccccHHHHHHHHhcCCCChHHHHHHHHHHhhhHHHhHHHHHHhh
Confidence            55322 2355677777778888889987788898888899998888888777643

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.30  E-value=1.5e-05  Score=83.59  Aligned_cols=188  Identities=17%  Similarity=0.168  Sum_probs=119.0

Q ss_pred             CCCchhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 005268          364 LCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTA  443 (705)
Q Consensus       364 ~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a  443 (705)
                      ++|--..-..+.+.+.++|-...|..+|++..     .|.-.|.+|...|+..+|..+..+-.+  -+||+.-|..+...
T Consensus       394 lpp~Wq~q~~laell~slGitksAl~I~Erle-----mw~~vi~CY~~lg~~~kaeei~~q~le--k~~d~~lyc~LGDv  466 (777)
T KOG1128|consen  394 LPPIWQLQRLLAELLLSLGITKSALVIFERLE-----MWDPVILCYLLLGQHGKAEEINRQELE--KDPDPRLYCLLGDV  466 (777)
T ss_pred             CCCcchHHHHHHHHHHHcchHHHHHHHHHhHH-----HHHHHHHHHHHhcccchHHHHHHHHhc--CCCcchhHHHhhhh
Confidence            45555566677788888888888888887753     567778888888888888888888777  47888888888887


Q ss_pred             HhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHH
Q 005268          444 CSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELG  521 (705)
Q Consensus       444 ~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a  521 (705)
                      .-....+++|+++++....+        .-..+.....+.++++++.+.++.. .++| -..+|-.+..+..+.++++.|
T Consensus       467 ~~d~s~yEkawElsn~~sar--------A~r~~~~~~~~~~~fs~~~~hle~sl~~nplq~~~wf~~G~~ALqlek~q~a  538 (777)
T KOG1128|consen  467 LHDPSLYEKAWELSNYISAR--------AQRSLALLILSNKDFSEADKHLERSLEINPLQLGTWFGLGCAALQLEKEQAA  538 (777)
T ss_pred             ccChHHHHHHHHHhhhhhHH--------HHHhhccccccchhHHHHHHHHHHHhhcCccchhHHHhccHHHHHHhhhHHH
Confidence            77777778888877654332        0011111222345555555555433 3333 234555555555555566666


Q ss_pred             HHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhCC
Q 005268          522 AVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDRG  566 (705)
Q Consensus       522 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  566 (705)
                      .+.|.....++|++...++.++-+|.+.|+-.+|...++++.+.+
T Consensus       539 v~aF~rcvtL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn  583 (777)
T KOG1128|consen  539 VKAFHRCVTLEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN  583 (777)
T ss_pred             HHHHHHHhhcCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC
Confidence            666666666666666666666666666666666655555555443

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.30  E-value=3.3e-05  Score=74.91  Aligned_cols=180  Identities=13%  Similarity=0.038  Sum_probs=125.5

Q ss_pred             cccccchhHHhhccCchHHHHHHHHHHHHhCCC-C-chhHHHHHHHHHHhcCCHHHHHHHHhhCCCC---Ccc---hHHH
Q 005268          333 QGTYVSILPAYSHVGALRQGIKIHARVIKNCLC-F-DVFVATCLVDMYGKCGRIDDAMSLFYQVPRS---SSV---PWNA  404 (705)
Q Consensus       333 ~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~-~-~~~~~~~li~~y~k~g~~~~A~~~~~~~~~~---~~~---~~~~  404 (705)
                      ...+......+...|+++.|...++.+++.... | ....+..+...|.+.|++++|...|+++.+.   +..   .|..
T Consensus        33 ~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~  112 (235)
T TIGR03302        33 AEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAYYL  112 (235)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHHHH
Confidence            344566677788999999999999999876421 1 1246677889999999999999999988632   222   3555


Q ss_pred             HHHHHHhc--------CChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHH
Q 005268          405 IISCHGIH--------GQGDKALNFFRQMLDEGVRPDHI-TFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGC  475 (705)
Q Consensus       405 li~~~~~~--------g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~  475 (705)
                      +..++.+.        |++++|++.|+++...  .|+.. ....+.....    ...      .. .        .....
T Consensus       113 ~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~~~~----~~~------~~-~--------~~~~~  171 (235)
T TIGR03302       113 RGLSNYNQIDRVDRDQTAAREAFEAFQELIRR--YPNSEYAPDAKKRMDY----LRN------RL-A--------GKELY  171 (235)
T ss_pred             HHHHHHHhcccccCCHHHHHHHHHHHHHHHHH--CCCChhHHHHHHHHHH----HHH------HH-H--------HHHHH
Confidence            56666654        7889999999999984  56653 2222211100    000      00 0        01235


Q ss_pred             HHHHHHhcCCHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCC
Q 005268          476 MVDLFGRAGHLGMAHNFIQNM----PVRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDS  533 (705)
Q Consensus       476 li~~~~~~g~~~~A~~~~~~~----~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p  533 (705)
                      +.+.|.+.|++++|...+++.    |..| ....|..+..++...|++++|...++.+....|
T Consensus       172 ~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~~  234 (235)
T TIGR03302       172 VARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANYP  234 (235)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            667889999999999988876    2223 356888999999999999999998888776555

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).

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.29  E-value=5.2e-05  Score=70.56  Aligned_cols=154  Identities=7%  Similarity=0.098  Sum_probs=116.0

Q ss_pred             HHHHHhcCCHHHHHHHHhhCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHH
Q 005268          375 VDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQ  454 (705)
Q Consensus       375 i~~y~k~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~  454 (705)
                      +-.|.+.|+++......+.+..+. .       .|...++.++++..+++.++.. +.|...|..+...|...|++++|.
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~~~-~-------~~~~~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A~   93 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLADPL-H-------QFASQQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNAL   93 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhCcc-c-------cccCchhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHH
Confidence            456888888877655543332211 0       1123566788888888888843 445568888888999999999999


Q ss_pred             HHHHHhHHhhCCcC-CcchHHHHHHH-HHhcCC--HHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHH
Q 005268          455 RYFHMMQEEFGIKP-HLKHYGCMVDL-FGRAGH--LGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVASDRL  528 (705)
Q Consensus       455 ~~~~~m~~~~~~~p-~~~~~~~li~~-~~~~g~--~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~  528 (705)
                      ..|+...+   +.| +...+..+..+ +.+.|+  .++|.+++++. ...| +..++..+...+...|++++|+..++++
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            99998874   455 56778888886 467787  59999999988 4455 5678889999999999999999999999


Q ss_pred             hccCCCCcchhh
Q 005268          529 FEVDSENVGYYV  540 (705)
Q Consensus       529 ~~~~p~~~~~~~  540 (705)
                      +++.|.+..-+.
T Consensus       171 L~l~~~~~~r~~  182 (198)
T PRK10370        171 LDLNSPRVNRTQ  182 (198)
T ss_pred             HhhCCCCccHHH
Confidence            999987765543

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.26  E-value=4.5e-05  Score=84.13  Aligned_cols=139  Identities=9%  Similarity=0.087  Sum_probs=113.7

Q ss_pred             CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCC-cchHH
Q 005268          397 SSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHI-TFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPH-LKHYG  474 (705)
Q Consensus       397 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~  474 (705)
                      .+...+-.|.....+.|.+++|+.+++...+  +.|+.. ....+..++.+.+++++|....++...   ..|+ .....
T Consensus        84 ~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~--~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~---~~p~~~~~~~  158 (694)
T PRK15179         84 HTELFQVLVARALEAAHRSDEGLAVWRGIHQ--RFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFS---GGSSSAREIL  158 (694)
T ss_pred             ccHHHHHHHHHHHHHcCCcHHHHHHHHHHHh--hCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhh---cCCCCHHHHH
Confidence            3456677788888899999999999999999  788875 677778889999999999999888874   3664 46777


Q ss_pred             HHHHHHHhcCCHHHHHHHHHhCC-CCCC-HHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhh
Q 005268          475 CMVDLFGRAGHLGMAHNFIQNMP-VRPD-ASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYV  540 (705)
Q Consensus       475 ~li~~~~~~g~~~~A~~~~~~~~-~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~  540 (705)
                      .+..++.+.|++++|..+|++.- ..|+ ..+|-++..++...|+.++|...|+++++...+-...|.
T Consensus       159 ~~a~~l~~~g~~~~A~~~y~~~~~~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~~~~~~~~~  226 (694)
T PRK15179        159 LEAKSWDEIGQSEQADACFERLSRQHPEFENGYVGWAQSLTRRGALWRARDVLQAGLDAIGDGARKLT  226 (694)
T ss_pred             HHHHHHHHhcchHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhCcchHHHH
Confidence            88888999999999999999883 3444 778899999999999999999999999987755444444

>PLN02789 farnesyltranstransferase

Probab=98.25  E-value=0.00014  Score=72.86  Aligned_cols=169  Identities=14%  Similarity=0.143  Sum_probs=111.1

Q ss_pred             HHHhcC-CHHHHHHHHhhCC---CCCcchHHHHHHHHHhcCCh--HHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCc
Q 005268          377 MYGKCG-RIDDAMSLFYQVP---RSSSVPWNAIISCHGIHGQG--DKALNFFRQMLDEGVRPD-HITFVSLLTACSHSGL  449 (705)
Q Consensus       377 ~y~k~g-~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~--~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~  449 (705)
                      ++.+.| ++++++..++++.   .++...|+.....+.+.|+.  ++++.+++++++  ..|. ..+|.....++.+.|+
T Consensus        80 iL~~L~~~l~eeL~~~~~~i~~npknyqaW~~R~~~l~~l~~~~~~~el~~~~kal~--~dpkNy~AW~~R~w~l~~l~~  157 (320)
T PLN02789         80 CLEALDADLEEELDFAEDVAEDNPKNYQIWHHRRWLAEKLGPDAANKELEFTRKILS--LDAKNYHAWSHRQWVLRTLGG  157 (320)
T ss_pred             HHHHcchhHHHHHHHHHHHHHHCCcchHHhHHHHHHHHHcCchhhHHHHHHHHHHHH--hCcccHHHHHHHHHHHHHhhh
Confidence            333444 4566666666554   33444466554445555543  567778878877  3443 4577777777777888


Q ss_pred             HHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhc---CCH----HHHHHHHHhC-CCCC-CHHHHHHHHHHHHhc----C
Q 005268          450 VSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRA---GHL----GMAHNFIQNM-PVRP-DASIWGALLGACRIH----G  516 (705)
Q Consensus       450 ~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~---g~~----~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~----g  516 (705)
                      ++++++.++.+.+. . .-+...|+....++.+.   |.+    ++++++..++ ...| |...|+.+...+...    +
T Consensus       158 ~~eeL~~~~~~I~~-d-~~N~sAW~~R~~vl~~~~~l~~~~~~~e~el~y~~~aI~~~P~N~SaW~Yl~~ll~~~~~~l~  235 (320)
T PLN02789        158 WEDELEYCHQLLEE-D-VRNNSAWNQRYFVITRSPLLGGLEAMRDSELKYTIDAILANPRNESPWRYLRGLFKDDKEALV  235 (320)
T ss_pred             HHHHHHHHHHHHHH-C-CCchhHHHHHHHHHHhccccccccccHHHHHHHHHHHHHhCCCCcCHHHHHHHHHhcCCcccc
Confidence            88888888887754 1 22445566655555444   222    4566666443 4455 577899998888874    3


Q ss_pred             ChhHHHHHHHHHhccCCCCcchhhhhhhhhhhc
Q 005268          517 NMELGAVASDRLFEVDSENVGYYVLMSNIYANV  549 (705)
Q Consensus       517 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~  549 (705)
                      +..+|...+.+++..+|+++.+...|+++|+..
T Consensus       236 ~~~~~~~~~~~~~~~~~~s~~al~~l~d~~~~~  268 (320)
T PLN02789        236 SDPEVSSVCLEVLSKDSNHVFALSDLLDLLCEG  268 (320)
T ss_pred             cchhHHHHHHHhhcccCCcHHHHHHHHHHHHhh
Confidence            456788889999999999988899999999864

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.24  E-value=3.5e-05  Score=71.42  Aligned_cols=135  Identities=14%  Similarity=0.083  Sum_probs=99.0

Q ss_pred             CCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhC--CCCCCHHHHHH
Q 005268          430 VRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNM--PVRPDASIWGA  507 (705)
Q Consensus       430 ~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~  507 (705)
                      ..|+......+-.++...|+-+....+......  ....+.......+....+.|++.+|...+++.  +-+||...|+.
T Consensus        62 ~~p~d~~i~~~a~a~~~~G~a~~~l~~~~~~~~--~~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~p~d~~~~~~  139 (257)
T COG5010          62 RNPEDLSIAKLATALYLRGDADSSLAVLQKSAI--AYPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLAPTDWEAWNL  139 (257)
T ss_pred             cCcchHHHHHHHHHHHhcccccchHHHHhhhhc--cCcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccCCCChhhhhH
Confidence            345433335555667777777777776655432  22234445556778888888888888888887  34567788888


Q ss_pred             HHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhCC
Q 005268          508 LLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDRG  566 (705)
Q Consensus       508 ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  566 (705)
                      +.-+|-+.|++++|...|.+++++.|+++..+..|+-.|.-.|+++.|..++......+
T Consensus       140 lgaaldq~Gr~~~Ar~ay~qAl~L~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~  198 (257)
T COG5010         140 LGAALDQLGRFDEARRAYRQALELAPNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSP  198 (257)
T ss_pred             HHHHHHHccChhHHHHHHHHHHHhccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCC
Confidence            88888888888888888888888888888888888888888888888888887776553

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.22  E-value=0.00021  Score=72.21  Aligned_cols=147  Identities=16%  Similarity=0.129  Sum_probs=117.5

Q ss_pred             CcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHH-HHHHhccCcHHHHHHHHHHhHHhhCCcCC-cchHHH
Q 005268          398 SSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSL-LTACSHSGLVSEGQRYFHMMQEEFGIKPH-LKHYGC  475 (705)
Q Consensus       398 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~l-l~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~  475 (705)
                      ....+....-.+...|++++|+..++.++.  -.||...|..+ ...+...++.++|.+.++.+..   ..|+ ....-.
T Consensus       305 ~~aa~YG~A~~~~~~~~~d~A~~~l~~L~~--~~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~---l~P~~~~l~~~  379 (484)
T COG4783         305 GLAAQYGRALQTYLAGQYDEALKLLQPLIA--AQPDNPYYLELAGDILLEANKAKEAIERLKKALA---LDPNSPLLQLN  379 (484)
T ss_pred             chHHHHHHHHHHHHhcccchHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHh---cCCCccHHHHH
Confidence            333455555566778999999999999988  46776666555 4578999999999999999884   4676 456677


Q ss_pred             HHHHHHhcCCHHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcc
Q 005268          476 MVDLFGRAGHLGMAHNFIQNMP--VRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWE  553 (705)
Q Consensus       476 li~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~  553 (705)
                      +.++|.+.|++.+|+.+++...  .+-|+..|..|..+|...|+..++....                 +..|+-.|+|+
T Consensus       380 ~a~all~~g~~~eai~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~~A~-----------------AE~~~~~G~~~  442 (484)
T COG4783         380 LAQALLKGGKPQEAIRILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALLAR-----------------AEGYALAGRLE  442 (484)
T ss_pred             HHHHHHhcCChHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCchHHHHHHH-----------------HHHHHhCCCHH
Confidence            8899999999999999998873  3446889999999999999988777654                 44677889999


Q ss_pred             hHHHHHHHHHhCC
Q 005268          554 GVDEVRSLARDRG  566 (705)
Q Consensus       554 ~a~~~~~~m~~~~  566 (705)
                      +|........++.
T Consensus       443 ~A~~~l~~A~~~~  455 (484)
T COG4783         443 QAIIFLMRASQQV  455 (484)
T ss_pred             HHHHHHHHHHHhc
Confidence            9999999888764

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.18  E-value=0.0003  Score=79.16  Aligned_cols=216  Identities=15%  Similarity=0.132  Sum_probs=159.9

Q ss_pred             hHHHHHHHHHccCChhhHHHHHHHHHHhcCC---CchhHHHHHHHHHHHhcCCHHHHHHHHhcCCCC--ChhHHHHHHHH
Q 005268          232 TLVSLTSIVAQLNDCRNSRSVHGFIMRRGWF---MEDVIIGNAVVDMYAKLGIINSACAVFEGLPVK--DVISWNTLITG  306 (705)
Q Consensus       232 t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~---~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~--~~~~~~~li~~  306 (705)
                      .|..-+.-....++.+.|+.+.+++.+.-.+   ..-..+|.+++++-..-|.-+...++|++..+-  ....|..|...
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            4555555566666677777766666554212   123467888888888888888888888877643  34568888888


Q ss_pred             HHHcCChhHHHHHHHhhhhcCCCCCCcccccchhHHhhccCchHHHHHHHHHHHHhCCC-CchhHHHHHHHHHHhcCCHH
Q 005268          307 YAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNCLC-FDVFVATCLVDMYGKCGRID  385 (705)
Q Consensus       307 ~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~-~~~~~~~~li~~y~k~g~~~  385 (705)
                      |.+.+.+++|.++|+.|.+..+  -....|...+..+.+..+-+.|..++.++++.-.. -.+......+++-.++|+.+
T Consensus      1540 y~k~ek~~~A~ell~~m~KKF~--q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLEFk~GDae 1617 (1710)
T KOG1070|consen 1540 YEKSEKNDEADELLRLMLKKFG--QTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLEFKYGDAE 1617 (1710)
T ss_pred             HHHhhcchhHHHHHHHHHHHhc--chhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHhhcCCch
Confidence            9999999999999999987333  45556777888888888888899999888875221 24556677778888999999


Q ss_pred             HHHHHHhhCC---CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHhccCc
Q 005268          386 DAMSLFYQVP---RSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDH--ITFVSLLTACSHSGL  449 (705)
Q Consensus       386 ~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~t~~~ll~a~~~~g~  449 (705)
                      .++.+|+...   ++-...|+..|..-.++|+.+.+..+|++.+..++.|-.  +.|...|..=...|+
T Consensus      1618 RGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gd 1686 (1710)
T KOG1070|consen 1618 RGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGD 1686 (1710)
T ss_pred             hhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCc
Confidence            9999999877   344566999999999999999999999999999888865  355555543333344

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.16  E-value=3.4e-06  Score=53.64  Aligned_cols=35  Identities=34%  Similarity=0.681  Sum_probs=32.4

Q ss_pred             chHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCCh
Q 005268           95 GSWNAMISGYCQSGNAVEALDILDEMRLEGVSMDP  129 (705)
Q Consensus        95 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  129 (705)
                      ++||++|.+|++.|++++|.++|++|.+.|+.||.
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            47999999999999999999999999999999974

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.

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.15  E-value=0.00011  Score=68.29  Aligned_cols=152  Identities=14%  Similarity=0.082  Sum_probs=91.3

Q ss_pred             HHHHHHHHhcCCHHHHHHHHhhCC---CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccC
Q 005268          372 TCLVDMYGKCGRIDDAMSLFYQVP---RSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSG  448 (705)
Q Consensus       372 ~~li~~y~k~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g  448 (705)
                      ..+-..|...|+-+.+..+.....   ..|....+..+....+.|++.+|+..|++.... -+||..+++.+.-+|.+.|
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l-~p~d~~~~~~lgaaldq~G  148 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIAYPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARL-APTDWEAWNLLGAALDQLG  148 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhccCcccHHHHHHHHHHHHHhcchHHHHHHHHHHhcc-CCCChhhhhHHHHHHHHcc
Confidence            444455555666666666655543   233333455666667777777777777777663 2445566666666777777


Q ss_pred             cHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhCCCC-C-CHHHHHHHHHHHHhcCChhHHHHHH
Q 005268          449 LVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNMPVR-P-DASIWGALLGACRIHGNMELGAVAS  525 (705)
Q Consensus       449 ~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-p-~~~~~~~ll~~~~~~g~~~~a~~~~  525 (705)
                      +.++|..-|.+..+-   .| ++..++.|.-.|.-.|+++.|..++...... + |..+-..|.-.....|++++|+.+.
T Consensus       149 r~~~Ar~ay~qAl~L---~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~ad~~v~~NLAl~~~~~g~~~~A~~i~  225 (257)
T COG5010         149 RFDEARRAYRQALEL---APNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAADSRVRQNLALVVGLQGDFREAEDIA  225 (257)
T ss_pred             ChhHHHHHHHHHHHh---ccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCCchHHHHHHHHHHhhcCChHHHHhhc
Confidence            777777766666543   33 3345666666666667777776666655222 2 4555566666666666666666655


Q ss_pred             HH
Q 005268          526 DR  527 (705)
Q Consensus       526 ~~  527 (705)
                      .+
T Consensus       226 ~~  227 (257)
T COG5010         226 VQ  227 (257)
T ss_pred             cc
Confidence            44

>PLN02789 farnesyltranstransferase

Probab=98.14  E-value=0.0001  Score=73.81  Aligned_cols=182  Identities=10%  Similarity=0.107  Sum_probs=132.6

Q ss_pred             HHhcCCHHHHHHHHhhCC---CCCcchHHHHHHHHHhcC-ChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCc--H
Q 005268          378 YGKCGRIDDAMSLFYQVP---RSSSVPWNAIISCHGIHG-QGDKALNFFRQMLDEGVRPD-HITFVSLLTACSHSGL--V  450 (705)
Q Consensus       378 y~k~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g-~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~--~  450 (705)
                      +.+.+..++|+.+.+++.   +.+...|+.....+...| ++++++..++++.+.  .|+ ..+|..-...+.+.|.  .
T Consensus        47 l~~~e~serAL~lt~~aI~lnP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~--npknyqaW~~R~~~l~~l~~~~~  124 (320)
T PLN02789         47 YASDERSPRALDLTADVIRLNPGNYTVWHFRRLCLEALDADLEEELDFAEDVAED--NPKNYQIWHHRRWLAEKLGPDAA  124 (320)
T ss_pred             HHcCCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHH--CCcchHHhHHHHHHHHHcCchhh
Confidence            444567778888887766   344455777777777777 679999999999985  444 3456655555555665  3


Q ss_pred             HHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhc---CCh----hH
Q 005268          451 SEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIH---GNM----EL  520 (705)
Q Consensus       451 ~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~---g~~----~~  520 (705)
                      +++..+++.+.+   +.| +...|+...-++.+.|++++|++.++++ ...| |...|+.......+.   |..    +.
T Consensus       125 ~~el~~~~kal~---~dpkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~N~sAW~~R~~vl~~~~~l~~~~~~~e~  201 (320)
T PLN02789        125 NKELEFTRKILS---LDAKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVRNNSAWNQRYFVITRSPLLGGLEAMRDS  201 (320)
T ss_pred             HHHHHHHHHHHH---hCcccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCchhHHHHHHHHHHhccccccccccHHH
Confidence            677888887774   355 5678888888999999999999999988 3333 677898887776654   222    46


Q ss_pred             HHHHHHHHhccCCCCcchhhhhhhhhhhc----CCcchHHHHHHHHHh
Q 005268          521 GAVASDRLFEVDSENVGYYVLMSNIYANV----GKWEGVDEVRSLARD  564 (705)
Q Consensus       521 a~~~~~~~~~~~p~~~~~~~~l~~~~~~~----g~~~~a~~~~~~m~~  564 (705)
                      +.....+++.++|+|.+++..+..++...    ++..+|.++.....+
T Consensus       202 el~y~~~aI~~~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~  249 (320)
T PLN02789        202 ELKYTIDAILANPRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLS  249 (320)
T ss_pred             HHHHHHHHHHhCCCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhc
Confidence            77778899999999999999999988773    445667776666444

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.13  E-value=0.00023  Score=79.34  Aligned_cols=236  Identities=10%  Similarity=0.060  Sum_probs=134.7

Q ss_pred             CeehHHHHHHHHHcCCChhhHHHHHHHHHHCCCCCChhhHHHHHHHHHccCChhhHHHHHHHHHHhcCCCchhHHHHHHH
Q 005268          194 DVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVV  273 (705)
Q Consensus       194 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li  273 (705)
                      +...|..|+..|...+++++|.++.+.-.+.  .|+.                                   ...+-.+.
T Consensus        30 n~~a~~~Li~~~~~~~~~deai~i~~~~l~~--~P~~-----------------------------------i~~yy~~G   72 (906)
T PRK14720         30 KFKELDDLIDAYKSENLTDEAKDICEEHLKE--HKKS-----------------------------------ISALYISG   72 (906)
T ss_pred             hHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CCcc-----------------------------------eehHHHHH
Confidence            4456777777777777777777777755443  2332                                   22222333


Q ss_pred             HHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccccchhHHhhccCchHHHH
Q 005268          274 DMYAKLGIINSACAVFEGLPVKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGI  353 (705)
Q Consensus       274 ~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~  353 (705)
                      ..|.+.++.+++..+             .++..+....++.-...+...|..   ..-+...+..+..+|.+.|+.+++.
T Consensus        73 ~l~~q~~~~~~~~lv-------------~~l~~~~~~~~~~~ve~~~~~i~~---~~~~k~Al~~LA~~Ydk~g~~~ka~  136 (906)
T PRK14720         73 ILSLSRRPLNDSNLL-------------NLIDSFSQNLKWAIVEHICDKILL---YGENKLALRTLAEAYAKLNENKKLK  136 (906)
T ss_pred             HHHHhhcchhhhhhh-------------hhhhhcccccchhHHHHHHHHHHh---hhhhhHHHHHHHHHHHHcCChHHHH
Confidence            344444444443332             233333333444333333334433   2223446666777777888888888


Q ss_pred             HHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC
Q 005268          354 KIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPD  433 (705)
Q Consensus       354 ~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  433 (705)
                      .+++++++.. +.|+.+.|.+...|+.. ++++|.+++.+.           +..|...+++.++.++|.++..  ..|+
T Consensus       137 ~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~KA-----------V~~~i~~kq~~~~~e~W~k~~~--~~~~  201 (906)
T PRK14720        137 GVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYLKKA-----------IYRFIKKKQYVGIEEIWSKLVH--YNSD  201 (906)
T ss_pred             HHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHHHHH-----------HHHHHhhhcchHHHHHHHHHHh--cCcc
Confidence            8888888776 56788888888888888 888888887654           3346777788888999988888  4555


Q ss_pred             HHHH-HHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHH
Q 005268          434 HITF-VSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLG  510 (705)
Q Consensus       434 ~~t~-~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~  510 (705)
                      .+.+ ..++.                .+....|..--..++--+..-|-...+++++..+++.+ ...| |.....-++.
T Consensus       202 d~d~f~~i~~----------------ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~~~n~~a~~~l~~  265 (906)
T PRK14720        202 DFDFFLRIER----------------KVLGHREFTRLVGLLEDLYEPYKALEDWDEVIYILKKILEHDNKNNKAREELIR  265 (906)
T ss_pred             cchHHHHHHH----------------HHHhhhccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcCCcchhhHHHHHH
Confidence            4432 22222                22221122222223444445555666666777766665 2233 3334444444


Q ss_pred             HHH
Q 005268          511 ACR  513 (705)
Q Consensus       511 ~~~  513 (705)
                      .|+
T Consensus       266 ~y~  268 (906)
T PRK14720        266 FYK  268 (906)
T ss_pred             HHH
Confidence            443

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.13  E-value=4.4e-06  Score=53.09  Aligned_cols=35  Identities=34%  Similarity=0.683  Sum_probs=31.6

Q ss_pred             chHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH
Q 005268          400 VPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDH  434 (705)
Q Consensus       400 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  434 (705)
                      ++||++|.+|++.|++++|.++|++|.+.|+.||.
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            47999999999999999999999999999999973

This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.12  E-value=0.0083  Score=57.87  Aligned_cols=251  Identities=13%  Similarity=0.147  Sum_probs=146.9

Q ss_pred             HHHccCChhhHHHHHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhc---CCCCChhHHHHHHHHHHHcCChhH
Q 005268          239 IVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEG---LPVKDVISWNTLITGYAQNGLASE  315 (705)
Q Consensus       239 a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~---~~~~~~~~~~~li~~~~~~g~~~~  315 (705)
                      .+...|+...+......+++.  -+-|...+..-...|...|++..|+.-++.   +...++...--+-..+-..|+.+.
T Consensus       164 s~~~~GD~~~ai~~i~~llEi--~~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs~DnTe~~ykis~L~Y~vgd~~~  241 (504)
T KOG0624|consen  164 SASGSGDCQNAIEMITHLLEI--QPWDASLRQARAKCYIAEGEPKKAIHDLKQASKLSQDNTEGHYKISQLLYTVGDAEN  241 (504)
T ss_pred             HHhcCCchhhHHHHHHHHHhc--CcchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhccccchHHHHHHHHHHHhhhhHHH
Confidence            344556666666666666655  366777888888888899998888765554   445566777777777778888888


Q ss_pred             HHHHHHhhhhcCCCCCCcccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCC
Q 005268          316 AIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVP  395 (705)
Q Consensus       316 A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~  395 (705)
                      ++...++-.+   +.||....-.   .|   ..+......++.|.+                ....+++.++.+..+...
T Consensus       242 sL~~iRECLK---ldpdHK~Cf~---~Y---KklkKv~K~les~e~----------------~ie~~~~t~cle~ge~vl  296 (504)
T KOG0624|consen  242 SLKEIRECLK---LDPDHKLCFP---FY---KKLKKVVKSLESAEQ----------------AIEEKHWTECLEAGEKVL  296 (504)
T ss_pred             HHHHHHHHHc---cCcchhhHHH---HH---HHHHHHHHHHHHHHH----------------HHhhhhHHHHHHHHHHHH
Confidence            8887777766   7777543211   11   112222222222211                123345555555554443


Q ss_pred             CCCc----ch---HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCc
Q 005268          396 RSSS----VP---WNAIISCHGIHGQGDKALNFFRQMLDEGVRPD-HITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIK  467 (705)
Q Consensus       396 ~~~~----~~---~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~  467 (705)
                      +.++    +.   +..+-.+|...|++.+|++...+.++  +.|| ..++.--..||.-...++.|+.=|+...+   +.
T Consensus       297 k~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~--~d~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e---~n  371 (504)
T KOG0624|consen  297 KNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLD--IDPDDVQVLCDRAEAYLGDEMYDDAIHDYEKALE---LN  371 (504)
T ss_pred             hcCCcccceeeeeeheeeecccccCCHHHHHHHHHHHHh--cCchHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh---cC
Confidence            2222    22   44455667777888888888888888  6776 45777777788888888888888877763   34


Q ss_pred             CCcchHHHHHHHHHhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHhc-cCCCC
Q 005268          468 PHLKHYGCMVDLFGRAGHLGMAHNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFE-VDSEN  535 (705)
Q Consensus       468 p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~-~~p~~  535 (705)
                      ++..-        +|.| ++.|.++..... +.|-  |..  -+-.++.+-.+-.++|+++-. -.|+|
T Consensus       372 ~sn~~--------~reG-le~Akrlkkqs~-kRDY--YKI--LGVkRnAsKqEI~KAYRKlAqkWHPDN  426 (504)
T KOG0624|consen  372 ESNTR--------AREG-LERAKRLKKQSG-KRDY--YKI--LGVKRNASKQEITKAYRKLAQKWHPDN  426 (504)
T ss_pred             cccHH--------HHHH-HHHHHHHHHHhc-cchH--HHH--hhhcccccHHHHHHHHHHHHHhcCCcc
Confidence            43111        1111 344555544443 1121  111  123344445566667776654 45766

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.06  E-value=3.1e-05  Score=67.65  Aligned_cols=95  Identities=16%  Similarity=0.192  Sum_probs=69.0

Q ss_pred             chHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhh
Q 005268          471 KHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYAN  548 (705)
Q Consensus       471 ~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  548 (705)
                      .....++..+...|++++|.+.++.. ...| +...|..+...+...|++++|...++++++.+|+++..+..++.+|..
T Consensus        18 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~   97 (135)
T TIGR02552        18 EQIYALAYNLYQQGRYDEALKLFQLLAAYDPYNSRYWLGLAACCQMLKEYEEAIDAYALAAALDPDDPRPYFHAAECLLA   97 (135)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHH
Confidence            34555566666777777777777665 2233 456777777777778888888888888888888887888888888888


Q ss_pred             cCCcchHHHHHHHHHhC
Q 005268          549 VGKWEGVDEVRSLARDR  565 (705)
Q Consensus       549 ~g~~~~a~~~~~~m~~~  565 (705)
                      .|++++|...++...+.
T Consensus        98 ~g~~~~A~~~~~~al~~  114 (135)
T TIGR02552        98 LGEPESALKALDLAIEI  114 (135)
T ss_pred             cCCHHHHHHHHHHHHHh
Confidence            88888888888776654

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.03  E-value=0.00026  Score=78.31  Aligned_cols=141  Identities=11%  Similarity=0.085  Sum_probs=116.0

Q ss_pred             CCCchhHHHHHHHHHHhcCCHHHHHHHHhhCC--CC-CcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH-HHHH
Q 005268          364 LCFDVFVATCLVDMYGKCGRIDDAMSLFYQVP--RS-SSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHI-TFVS  439 (705)
Q Consensus       364 ~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~--~~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~  439 (705)
                      ...++..+-.|.......|..++|..+++...  .| +...+..++..+.+.+++++|+..+++...  ..|+.. ....
T Consensus        82 ~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~--~~p~~~~~~~~  159 (694)
T PRK15179         82 YPHTELFQVLVARALEAAHRSDEGLAVWRGIHQRFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFS--GGSSSAREILL  159 (694)
T ss_pred             ccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhh--cCCCCHHHHHH
Confidence            55678888999999999999999999999887  33 445588899999999999999999999999  578775 4555


Q ss_pred             HHHHHhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC--CCCCCHHHHHHHH
Q 005268          440 LLTACSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM--PVRPDASIWGALL  509 (705)
Q Consensus       440 ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~ll  509 (705)
                      +..++.+.|++++|..+|+++...   .| +...+..+..++-..|+.++|...|++.  ...|....|+.++
T Consensus       160 ~a~~l~~~g~~~~A~~~y~~~~~~---~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~~~~~~~~~~~~  229 (694)
T PRK15179        160 EAKSWDEIGQSEQADACFERLSRQ---HPEFENGYVGWAQSLTRRGALWRARDVLQAGLDAIGDGARKLTRRL  229 (694)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHhc---CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhCcchHHHHHHH
Confidence            566889999999999999999863   33 3678899999999999999999999987  2345555555544

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.01  E-value=9.3e-06  Score=51.15  Aligned_cols=34  Identities=29%  Similarity=0.570  Sum_probs=30.0

Q ss_pred             cchHHHHHHHHHhCCChhHHHHHHHHHHHCCCCC
Q 005268           94 SGSWNAMISGYCQSGNAVEALDILDEMRLEGVSM  127 (705)
Q Consensus        94 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  127 (705)
                      +.+||.+|.+|++.|+++.|.++|++|.+.|++|
T Consensus         1 v~ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    1 VHTYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             CcHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            3689999999999999999999999999988887

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=97.95  E-value=0.00052  Score=69.41  Aligned_cols=121  Identities=15%  Similarity=0.111  Sum_probs=105.9

Q ss_pred             HHHhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCCh
Q 005268          442 TACSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRPD-ASIWGALLGACRIHGNM  518 (705)
Q Consensus       442 ~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~g~~  518 (705)
                      -.+...|.+++|+..++.+...   .| |+..+....+.+.+.|+.++|.+.++++ ...|+ ...|-++..++.+.|+.
T Consensus       314 ~~~~~~~~~d~A~~~l~~L~~~---~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~P~~~~l~~~~a~all~~g~~  390 (484)
T COG4783         314 LQTYLAGQYDEALKLLQPLIAA---QPDNPYYLELAGDILLEANKAKEAIERLKKALALDPNSPLLQLNLAQALLKGGKP  390 (484)
T ss_pred             HHHHHhcccchHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHhcCCh
Confidence            3556788999999999998754   55 5566677789999999999999999998 46677 67888999999999999


Q ss_pred             hHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhC
Q 005268          519 ELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       519 ~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      .+|+..+.....-+|+|+..|..|+.+|..+|+..++...+.++...
T Consensus       391 ~eai~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~~A~AE~~~~  437 (484)
T COG4783         391 QEAIRILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALLARAEGYAL  437 (484)
T ss_pred             HHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCchHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999999888776543

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=97.92  E-value=0.00017  Score=62.91  Aligned_cols=114  Identities=14%  Similarity=0.104  Sum_probs=88.5

Q ss_pred             HHHHHHHcCCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhC-CC
Q 005268          421 FFRQMLDEGVRPDH-ITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNM-PV  498 (705)
Q Consensus       421 ~~~~m~~~g~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~  498 (705)
                      +|++.++  ..|+. .....+...+...|++++|.+.|+.+...  -+.+...+..+...|.+.|++++|...+++. ..
T Consensus         5 ~~~~~l~--~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~   80 (135)
T TIGR02552         5 TLKDLLG--LDSEQLEQIYALAYNLYQQGRYDEALKLFQLLAAY--DPYNSRYWLGLAACCQMLKEYEEAIDAYALAAAL   80 (135)
T ss_pred             hHHHHHc--CChhhHHHHHHHHHHHHHcccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            4556665  45654 34556667788889999999999888753  1335678888889999999999999988877 33


Q ss_pred             CC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcch
Q 005268          499 RP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGY  538 (705)
Q Consensus       499 ~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~  538 (705)
                      .| +...|..+...+...|+++.|...++++++++|++...
T Consensus        81 ~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~  121 (135)
T TIGR02552        81 DPDDPRPYFHAAECLLALGEPESALKALDLAIEICGENPEY  121 (135)
T ss_pred             CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchH
Confidence            44 56788888889999999999999999999999977653

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=97.91  E-value=2e-05  Score=49.61  Aligned_cols=33  Identities=33%  Similarity=0.659  Sum_probs=25.7

Q ss_pred             chHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC
Q 005268          400 VPWNAIISCHGIHGQGDKALNFFRQMLDEGVRP  432 (705)
Q Consensus       400 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  432 (705)
                      .+||+++.+|++.|+++.|.++|++|.+.|++|
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            467777777777788888888888888777776

>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi

Probab=97.90  E-value=0.00014  Score=74.19  Aligned_cols=122  Identities=12%  Similarity=0.128  Sum_probs=93.7

Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHh
Q 005268          437 FVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRI  514 (705)
Q Consensus       437 ~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~  514 (705)
                      ..+|+..+...++++.|..+|+++.+.   .|+  ....|+..+...++-.+|.+++++. ...| |...+..-...|..
T Consensus       172 v~~Ll~~l~~t~~~~~ai~lle~L~~~---~pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~p~d~~LL~~Qa~fLl~  246 (395)
T PF09295_consen  172 VDTLLKYLSLTQRYDEAIELLEKLRER---DPE--VAVLLARVYLLMNEEVEAIRLLNEALKENPQDSELLNLQAEFLLS  246 (395)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHhc---CCc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHh
Confidence            345556666777888888888887754   344  4555777777777778888887766 2233 55566666677888


Q ss_pred             cCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHH
Q 005268          515 HGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLAR  563 (705)
Q Consensus       515 ~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  563 (705)
                      .++++.|+.+++++.++.|++..+|..|+.+|...|++++|...+..+.
T Consensus       247 k~~~~lAL~iAk~av~lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  247 KKKYELALEIAKKAVELSPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             cCCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            8999999999999999999999999999999999999999998887765

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=97.89  E-value=0.064  Score=58.70  Aligned_cols=122  Identities=12%  Similarity=0.121  Sum_probs=76.2

Q ss_pred             cCCChhHHHHHhccCCC--CCcchHHHHHHHH--HhCCChhHHHHHHHHHHHCCCCCChhhHHhHHHHhhcCCChHHHHH
Q 005268           75 RFGLANVARKLFDDMPV--RDSGSWNAMISGY--CQSGNAVEALDILDEMRLEGVSMDPITVASILPVCARSDNILSGLL  150 (705)
Q Consensus        75 ~~g~~~~A~~~f~~~~~--~~~~~~~~li~~~--~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~  150 (705)
                      ..+++..|....+++..  ||. .|...+.++  .+.|+.++|..+++.....+.. |..|...+-..|...+..+++..
T Consensus        21 d~~qfkkal~~~~kllkk~Pn~-~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~~~~   98 (932)
T KOG2053|consen   21 DSSQFKKALAKLGKLLKKHPNA-LYAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDEAVH   98 (932)
T ss_pred             hhHHHHHHHHHHHHHHHHCCCc-HHHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhHHHH
Confidence            34666677666666542  343 244444444  4677777887777766554333 66677777777777777888888


Q ss_pred             HHHHHHHhCCCCchhHHHHHHHHHHccCCHH----HHHHHHhccCCCCeehHHH
Q 005268          151 IHLYIVKHGLEFNLFVSNNLINMYAKFGMMR----HALRVFDQMMERDVVSWNS  200 (705)
Q Consensus       151 ~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~----~A~~~f~~m~~~~~~~~~~  200 (705)
                      +++...+.  .|+......+..+|+|.+.+.    .|.+++...+++--.-|+.
T Consensus        99 ~Ye~~~~~--~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~~pk~~yyfWsV  150 (932)
T KOG2053|consen   99 LYERANQK--YPSEELLYHLFMAYVREKSYKKQQKAALQLYKNFPKRAYYFWSV  150 (932)
T ss_pred             HHHHHHhh--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcccchHHHH
Confidence            88777664  345666667777777776654    3566666555544444443

>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi

Probab=97.88  E-value=0.00036  Score=71.30  Aligned_cols=127  Identities=12%  Similarity=0.126  Sum_probs=101.6

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhhCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhcc
Q 005268          369 FVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRP-DHITFVSLLTACSHS  447 (705)
Q Consensus       369 ~~~~~li~~y~k~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~  447 (705)
                      ....+|+..+...++++.|..+|+++.+.++..+..++..+...++-.+|++++++.+..  .| +......-...|.+.
T Consensus       170 yLv~~Ll~~l~~t~~~~~ai~lle~L~~~~pev~~~LA~v~l~~~~E~~AI~ll~~aL~~--~p~d~~LL~~Qa~fLl~k  247 (395)
T PF09295_consen  170 YLVDTLLKYLSLTQRYDEAIELLEKLRERDPEVAVLLARVYLLMNEEVEAIRLLNEALKE--NPQDSELLNLQAEFLLSK  247 (395)
T ss_pred             HHHHHHHHHHhhcccHHHHHHHHHHHHhcCCcHHHHHHHHHHhcCcHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhc
Confidence            344556677777889999999999998877777777888888888889999999999874  44 444555556668889


Q ss_pred             CcHHHHHHHHHHhHHhhCCcCCc-chHHHHHHHHHhcCCHHHHHHHHHhCCCCC
Q 005268          448 GLVSEGQRYFHMMQEEFGIKPHL-KHYGCMVDLFGRAGHLGMAHNFIQNMPVRP  500 (705)
Q Consensus       448 g~~~~a~~~~~~m~~~~~~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~~p  500 (705)
                      ++++.|.++.+++.+   ..|+. .+|..|+..|.+.|++++|+..++.+|..|
T Consensus       248 ~~~~lAL~iAk~av~---lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~Pm~~  298 (395)
T PF09295_consen  248 KKYELALEIAKKAVE---LSPSEFETWYQLAECYIQLGDFENALLALNSCPMLT  298 (395)
T ss_pred             CCHHHHHHHHHHHHH---hCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCcCCC
Confidence            999999999988874   46754 589999999999999999999999987543

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.84  E-value=0.0044  Score=57.78  Aligned_cols=146  Identities=11%  Similarity=0.060  Sum_probs=95.9

Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHH----hc
Q 005268          408 CHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFG----RA  483 (705)
Q Consensus       408 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~----~~  483 (705)
                      .|...|++++|++..+....  +  +....  =...+.+..+.+-|.+.++.|.+   +. +..+.+.|..++.    -.
T Consensus       117 i~~~~~~~deAl~~~~~~~~--l--E~~Al--~VqI~lk~~r~d~A~~~lk~mq~---id-ed~tLtQLA~awv~la~gg  186 (299)
T KOG3081|consen  117 IYMHDGDFDEALKALHLGEN--L--EAAAL--NVQILLKMHRFDLAEKELKKMQQ---ID-EDATLTQLAQAWVKLATGG  186 (299)
T ss_pred             HhhcCCChHHHHHHHhccch--H--HHHHH--HHHHHHHHHHHHHHHHHHHHHHc---cc-hHHHHHHHHHHHHHHhccc
Confidence            35555666666666554111  1  11111  11223455566777777776653   22 2234444444443    34


Q ss_pred             CCHHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHH-HHHH
Q 005268          484 GHLGMAHNFIQNMP--VRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVD-EVRS  560 (705)
Q Consensus       484 g~~~~A~~~~~~~~--~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~-~~~~  560 (705)
                      +.+.+|.-+|++|.  ..|+..+.+.....+...|++++|+.+++.++..+|++|.+...++-.-...|+-.++. +...
T Consensus       187 ek~qdAfyifeE~s~k~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~dpetL~Nliv~a~~~Gkd~~~~~r~l~  266 (299)
T KOG3081|consen  187 EKIQDAFYIFEELSEKTPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAKDPETLANLIVLALHLGKDAEVTERNLS  266 (299)
T ss_pred             hhhhhHHHHHHHHhcccCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCCChHHHHHHHH
Confidence            57888888888883  56888888888889999999999999999999999999998888877777788877665 4444


Q ss_pred             HHH
Q 005268          561 LAR  563 (705)
Q Consensus       561 ~m~  563 (705)
                      +.+
T Consensus       267 QLk  269 (299)
T KOG3081|consen  267 QLK  269 (299)
T ss_pred             HHH
Confidence            443

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=97.81  E-value=0.059  Score=55.56  Aligned_cols=438  Identities=13%  Similarity=0.109  Sum_probs=237.5

Q ss_pred             CCcchHHHHHHHHHhCCChhHHHHHHHHHHHCCCCC-ChhhHHhHHHHhhcCCChHHHHHHHHHHHHhCCCCchhHHHHH
Q 005268           92 RDSGSWNAMISGYCQSGNAVEALDILDEMRLEGVSM-DPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNL  170 (705)
Q Consensus        92 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~L  170 (705)
                      -|..+|+.||+-+-.. ..+++.+.++++..  +-| ....|..-+..-....+++..+.+|.+.+..-+  +...|..-
T Consensus        18 ~di~sw~~lire~qt~-~~~~~R~~YEq~~~--~FP~s~r~W~~yi~~El~skdfe~VEkLF~RCLvkvL--nlDLW~lY   92 (656)
T KOG1914|consen   18 YDIDSWSQLIREAQTQ-PIDKVRETYEQLVN--VFPSSPRAWKLYIERELASKDFESVEKLFSRCLVKVL--NLDLWKLY   92 (656)
T ss_pred             ccHHHHHHHHHHHccC-CHHHHHHHHHHHhc--cCCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHh--hHhHHHHH
Confidence            4888999999877655 89999999999985  344 456778888888889999999999999887644  35556555


Q ss_pred             HHHHHc-cCCHHHH----HHHHhccC------CCCeehHHHHHHH---------HHcCCChhhHHHHHHHHHHCCCCCCh
Q 005268          171 INMYAK-FGMMRHA----LRVFDQMM------ERDVVSWNSIIAA---------YEQSNDPITAHGFFTTMQQAGIQPDL  230 (705)
Q Consensus       171 i~~y~~-~g~~~~A----~~~f~~m~------~~~~~~~~~li~~---------~~~~g~~~~A~~~~~~m~~~g~~p~~  230 (705)
                      ++.--+ .|+...+    .+.|+-..      -.+-..|+.-+.-         |.++.+.+...++++++....+.   
T Consensus        93 l~YVR~~~~~~~~~r~~m~qAy~f~l~kig~di~s~siW~eYi~FL~~vea~gk~ee~QRI~~vRriYqral~tPm~---  169 (656)
T KOG1914|consen   93 LSYVRETKGKLFGYREKMVQAYDFALEKIGMDIKSYSIWDEYINFLEGVEAVGKYEENQRITAVRRIYQRALVTPMH---  169 (656)
T ss_pred             HHHHHHHccCcchHHHHHHHHHHHHHHHhccCcccchhHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHhcCccc---
Confidence            543222 1222221    22222221      1233346655432         33444556666677776543211   


Q ss_pred             hhHHHHHHHHHccCChhhHHHHHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCC--------------CC-
Q 005268          231 LTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLP--------------VK-  295 (705)
Q Consensus       231 ~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~--------------~~-  295 (705)
                                    +++   +++....... ...|..+..-++  --+...+..|+++.+++.              ++ 
T Consensus       170 --------------nlE---kLW~DY~~fE-~~IN~~tarK~i--~e~s~~Ym~AR~~~qel~~lt~GL~r~~~~vp~~~  229 (656)
T KOG1914|consen  170 --------------NLE---KLWKDYEAFE-QEINIITARKFI--GERSPEYMNARRVYQELQNLTRGLNRNAPAVPPKG  229 (656)
T ss_pred             --------------cHH---HHHHHHHHHH-HHHHHHHHHHHH--HhhCHHHHHHHHHHHHHHHHHhhhcccCCCCCCCC
Confidence                          111   1111100000 001111111111  011122333333333321              00 


Q ss_pred             ------ChhHHHHHHHHHHHcCCh--------hHHHHHHHhhhhcCCCCCCcccc-cchh----HHhhccCc-------h
Q 005268          296 ------DVISWNTLITGYAQNGLA--------SEAIEVFQMMEECNEINPNQGTY-VSIL----PAYSHVGA-------L  349 (705)
Q Consensus       296 ------~~~~~~~li~~~~~~g~~--------~~A~~~~~~m~~~~~~~p~~~t~-~~ll----~a~~~~~~-------~  349 (705)
                            .+..|-.+|.--..++.-        ....-.+++.....+..|+..-. ...+    ..+...|+       -
T Consensus       230 T~~e~~qv~~W~n~I~wEksNpL~t~~~~~~~~Rv~yayeQ~ll~l~~~peiWy~~s~yl~~~s~l~~~~~d~~~a~~~t  309 (656)
T KOG1914|consen  230 TKDEIQQVELWKNWIKWEKSNPLRTLDGTMLTRRVMYAYEQCLLYLGYHPEIWYDYSMYLIEISDLLTEKGDVPDAKSLT  309 (656)
T ss_pred             ChHHHHHHHHHHHHHHHHhcCCcccccccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhhHHHHHhcccccchhhH
Confidence                  011243333322221110        11111222211112222322110 0000    11222222       3


Q ss_pred             HHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcC---CHHHHHHHHhhCC---C-CCcchHHHHHHHHHhcCChHHHHHHH
Q 005268          350 RQGIKIHARVIKNCLCFDVFVATCLVDMYGKCG---RIDDAMSLFYQVP---R-SSSVPWNAIISCHGIHGQGDKALNFF  422 (705)
Q Consensus       350 ~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g---~~~~A~~~~~~~~---~-~~~~~~~~li~~~~~~g~~~~A~~~~  422 (705)
                      +++..+++..+..-...+..+|..+.+.--..-   ..+.....+++..   . .-...|-..+..-.+..-.+.|..+|
T Consensus       310 ~e~~~~yEr~I~~l~~~~~~Ly~~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF  389 (656)
T KOG1914|consen  310 DEAASIYERAIEGLLKENKLLYFALADYEESRYDDNKEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIF  389 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhcccchhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHH
Confidence            455666666655433334445554443221111   1333334444433   2 22234777777777777789999999


Q ss_pred             HHHHHcCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhCC---C
Q 005268          423 RQMLDEGVRP-DHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNMP---V  498 (705)
Q Consensus       423 ~~m~~~g~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~---~  498 (705)
                      .+..+.+..+ .....++++.-+ ..++.+-|.++|+.=.+++|-.|  .--.+.++-+.+.|+-..|..+|++..   +
T Consensus       390 ~kaR~~~r~~hhVfVa~A~mEy~-cskD~~~AfrIFeLGLkkf~d~p--~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l  466 (656)
T KOG1914|consen  390 KKAREDKRTRHHVFVAAALMEYY-CSKDKETAFRIFELGLKKFGDSP--EYVLKYLDFLSHLNDDNNARALFERVLTSVL  466 (656)
T ss_pred             HHHhhccCCcchhhHHHHHHHHH-hcCChhHHHHHHHHHHHhcCCCh--HHHHHHHHHHHHhCcchhHHHHHHHHHhccC
Confidence            9999998888 445666666644 46788999999987776654433  355677889999999999999999882   3


Q ss_pred             CCC--HHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCc----chhhhhhhhhhhcCCcchHHHHHH
Q 005268          499 RPD--ASIWGALLGACRIHGNMELGAVASDRLFEVDSENV----GYYVLMSNIYANVGKWEGVDEVRS  560 (705)
Q Consensus       499 ~p~--~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~----~~~~~l~~~~~~~g~~~~a~~~~~  560 (705)
                      .||  ..+|..+|.--..-||+..+.++-++....-|.+.    ..-..+.+.|.-.+.+..-..=++
T Consensus       467 ~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~af~~~qe~~~~~~~~~v~RY~~~d~~~c~~~elk  534 (656)
T KOG1914|consen  467 SADKSKEIWDRMLEYESNVGDLNSILKLEKRRFTAFPADQEYEGNETALFVDRYGILDLYPCSLDELK  534 (656)
T ss_pred             ChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHHhcchhhcCCCChHHHHHHHHhhcccccccHHHHH
Confidence            444  56999999999999999999999888776555221    122345566666666554443333

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=97.79  E-value=0.0079  Score=67.57  Aligned_cols=147  Identities=13%  Similarity=0.138  Sum_probs=92.9

Q ss_pred             hHHHHHHHHHccCChhhHHHHHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHHcC
Q 005268          232 TLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDVISWNTLITGYAQNG  311 (705)
Q Consensus       232 t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g  311 (705)
                      .+..+..+|.+.|+.+++.++++.+++..  +.|+.+.|.+...|+.. ++++|..++.+.           +..|...+
T Consensus       118 Al~~LA~~Ydk~g~~~ka~~~yer~L~~D--~~n~~aLNn~AY~~ae~-dL~KA~~m~~KA-----------V~~~i~~k  183 (906)
T PRK14720        118 ALRTLAEAYAKLNENKKLKGVWERLVKAD--RDNPEIVKKLATSYEEE-DKEKAITYLKKA-----------IYRFIKKK  183 (906)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhcC--cccHHHHHHHHHHHHHh-hHHHHHHHHHHH-----------HHHHHhhh
Confidence            34444444445555555555555555543  67788888888888888 888888876543           34477777


Q ss_pred             ChhHHHHHHHhhhhcCCCCCCcccccchhHHhhccCchHHHHHHHHHHHHh-CCCCchhHHHHHHHHHHhcCCHHHHHHH
Q 005268          312 LASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKN-CLCFDVFVATCLVDMYGKCGRIDDAMSL  390 (705)
Q Consensus       312 ~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~-g~~~~~~~~~~li~~y~k~g~~~~A~~~  390 (705)
                      ++.++.+++.++..   ..|+.+.               .-.++.+.+... |..--+.++-.+-..|.+..+++++..+
T Consensus       184 q~~~~~e~W~k~~~---~~~~d~d---------------~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~i  245 (906)
T PRK14720        184 QYVGIEEIWSKLVH---YNSDDFD---------------FFLRIERKVLGHREFTRLVGLLEDLYEPYKALEDWDEVIYI  245 (906)
T ss_pred             cchHHHHHHHHHHh---cCcccch---------------HHHHHHHHHHhhhccchhHHHHHHHHHHHhhhhhhhHHHHH
Confidence            88888998888887   4454332               223333333332 3334455566666777788888888888


Q ss_pred             HhhCC---CCCcchHHHHHHHHH
Q 005268          391 FYQVP---RSSSVPWNAIISCHG  410 (705)
Q Consensus       391 ~~~~~---~~~~~~~~~li~~~~  410 (705)
                      |+.+.   +.|.....-++.+|.
T Consensus       246 LK~iL~~~~~n~~a~~~l~~~y~  268 (906)
T PRK14720        246 LKKILEHDNKNNKAREELIRFYK  268 (906)
T ss_pred             HHHHHhcCCcchhhHHHHHHHHH
Confidence            88776   334444566666665

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.77  E-value=0.0015  Score=60.36  Aligned_cols=153  Identities=16%  Similarity=0.165  Sum_probs=72.5

Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHH-HHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCH
Q 005268          408 CHGIHGQGDKALNFFRQMLDEGVRPDHITFVSL-LTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHL  486 (705)
Q Consensus       408 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~l-l~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~  486 (705)
                      +....|+.+.|...++++... + |.+.-...+ ..-+...|.+++|.++++...++ . +.|..+|---+.++-..|+-
T Consensus        61 AAld~~~~~lAq~C~~~L~~~-f-p~S~RV~~lkam~lEa~~~~~~A~e~y~~lL~d-d-pt~~v~~KRKlAilka~GK~  136 (289)
T KOG3060|consen   61 AALDTGRDDLAQKCINQLRDR-F-PGSKRVGKLKAMLLEATGNYKEAIEYYESLLED-D-PTDTVIRKRKLAILKAQGKN  136 (289)
T ss_pred             HHHHhcchHHHHHHHHHHHHh-C-CCChhHHHHHHHHHHHhhchhhHHHHHHHHhcc-C-cchhHHHHHHHHHHHHcCCc
Confidence            333445555555555555543 1 332211111 11133345555555555555543 1 22334444444444445554


Q ss_pred             HHHHHHHHhC--CCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCC---cchHHHHHHH
Q 005268          487 GMAHNFIQNM--PVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGK---WEGVDEVRSL  561 (705)
Q Consensus       487 ~~A~~~~~~~--~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~---~~~a~~~~~~  561 (705)
                      -+|++-+...  .+..|...|.-|...|...|+++.|.-.+++++-..|-++-.+..+++++...|-   .+-|++++..
T Consensus       137 l~aIk~ln~YL~~F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll~~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~  216 (289)
T KOG3060|consen  137 LEAIKELNEYLDKFMNDQEAWHELAEIYLSEGDFEKAAFCLEELLLIQPFNPLYFQRLAEVLYTQGGAENLELARKYYER  216 (289)
T ss_pred             HHHHHHHHHHHHHhcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            4554444333  2334555565555556555666666656666555555555555555555544432   3334444444


Q ss_pred             HHh
Q 005268          562 ARD  564 (705)
Q Consensus       562 m~~  564 (705)
                      ..+
T Consensus       217 alk  219 (289)
T KOG3060|consen  217 ALK  219 (289)
T ss_pred             HHH
Confidence            443

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.76  E-value=3.5e-05  Score=47.26  Aligned_cols=31  Identities=48%  Similarity=0.942  Sum_probs=26.5

Q ss_pred             chHHHHHHHHHhCCChhHHHHHHHHHHHCCC
Q 005268           95 GSWNAMISGYCQSGNAVEALDILDEMRLEGV  125 (705)
Q Consensus        95 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  125 (705)
                      ++||+||++|++.|++++|.++|++|++.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            4789999999999999999999999988763

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.

>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=97.73  E-value=0.00019  Score=57.67  Aligned_cols=93  Identities=20%  Similarity=0.270  Sum_probs=70.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcC
Q 005268          473 YGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVG  550 (705)
Q Consensus       473 ~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  550 (705)
                      +..++..+.+.|++++|...+++. ...| +..+|..+...+...+++++|...+++.....|.++..+..++.++...|
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKLG   82 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHHH
Confidence            445666777778888888887765 3333 34567777777888888888888888888888887777788888888888


Q ss_pred             CcchHHHHHHHHHhC
Q 005268          551 KWEGVDEVRSLARDR  565 (705)
Q Consensus       551 ~~~~a~~~~~~m~~~  565 (705)
                      ++++|...+....+.
T Consensus        83 ~~~~a~~~~~~~~~~   97 (100)
T cd00189          83 KYEEALEAYEKALEL   97 (100)
T ss_pred             hHHHHHHHHHHHHcc
Confidence            888888887776543

>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=97.72  E-value=4.5e-05  Score=57.40  Aligned_cols=65  Identities=22%  Similarity=0.228  Sum_probs=59.5

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcC-CcchHHHHHHHHHhC
Q 005268          501 DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVG-KWEGVDEVRSLARDR  565 (705)
Q Consensus       501 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g-~~~~a~~~~~~m~~~  565 (705)
                      ++.+|..+...+...|++++|+..|+++++++|+++..+..++.+|...| ++++|.+.+++..+.
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            56789999999999999999999999999999999999999999999999 799999999887754

...

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.70  E-value=4.8e-05  Score=46.60  Aligned_cols=31  Identities=35%  Similarity=0.545  Sum_probs=24.6

Q ss_pred             chHHHHHHHHHhcCChHHHHHHHHHHHHcCC
Q 005268          400 VPWNAIISCHGIHGQGDKALNFFRQMLDEGV  430 (705)
Q Consensus       400 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  430 (705)
                      ++||+||++|++.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            4688888888888888888888888887764

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.

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.68  E-value=0.00025  Score=67.19  Aligned_cols=99  Identities=16%  Similarity=0.165  Sum_probs=71.6

Q ss_pred             HhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCChhH
Q 005268          444 CSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRPD-ASIWGALLGACRIHGNMEL  520 (705)
Q Consensus       444 ~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~g~~~~  520 (705)
                      ..+.+++++|+..|...+   .+.| |...|..-..+|.+.|.++.|++-.+.. .+.|. ..+|..|..+|...|++++
T Consensus        91 ~m~~~~Y~eAv~kY~~AI---~l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~yskay~RLG~A~~~~gk~~~  167 (304)
T KOG0553|consen   91 LMKNKDYQEAVDKYTEAI---ELDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPHYSKAYGRLGLAYLALGKYEE  167 (304)
T ss_pred             HHHhhhHHHHHHHHHHHH---hcCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChHHHHHHHHHHHHHHccCcHHH
Confidence            455677777777777766   3465 3444555567778888888777766655 45665 4588888889999999999


Q ss_pred             HHHHHHHHhccCCCCcchhhhhhhh
Q 005268          521 GAVASDRLFEVDSENVGYYVLMSNI  545 (705)
Q Consensus       521 a~~~~~~~~~~~p~~~~~~~~l~~~  545 (705)
                      |++.|+++++++|+|.+....|-.+
T Consensus       168 A~~aykKaLeldP~Ne~~K~nL~~A  192 (304)
T KOG0553|consen  168 AIEAYKKALELDPDNESYKSNLKIA  192 (304)
T ss_pred             HHHHHHhhhccCCCcHHHHHHHHHH
Confidence            9999999999999887655555443

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.67  E-value=0.0013  Score=70.58  Aligned_cols=143  Identities=13%  Similarity=0.029  Sum_probs=81.6

Q ss_pred             hCCCCCcchHHHHHHHHHhc-----CChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHhcc--------CcHHHHHHHHH
Q 005268          393 QVPRSSSVPWNAIISCHGIH-----GQGDKALNFFRQMLDEGVRPDHI-TFVSLLTACSHS--------GLVSEGQRYFH  458 (705)
Q Consensus       393 ~~~~~~~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~--------g~~~~a~~~~~  458 (705)
                      .....+...|...+.+....     ++..+|.++|++.++  ..|+.. .+..+..++...        ..+..+.+...
T Consensus       331 ~~~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~--ldP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~  408 (517)
T PRK10153        331 QGLPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILK--SEPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELD  408 (517)
T ss_pred             ccCCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH--hCCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHH
Confidence            33456667788877775442     236689999999999  678753 444433333211        11223333332


Q ss_pred             HhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcc
Q 005268          459 MMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVG  537 (705)
Q Consensus       459 ~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~  537 (705)
                      ..........+...|..+.-.....|++++|...++++ ..+|+...|..+...+...|+.++|...+++++.++|.+++
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            22211012223345555555555566777777666666 35566666666666666777777777777777777766654

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.66  E-value=0.00041  Score=71.22  Aligned_cols=97  Identities=10%  Similarity=0.045  Sum_probs=52.9

Q ss_pred             HHhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChh
Q 005268          443 ACSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNME  519 (705)
Q Consensus       443 a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~  519 (705)
                      .+...|++++|++.|..+.+.   .| +...|..+..+|.+.|++++|+..++++ ...| +...|..+..+|...|+++
T Consensus        11 ~a~~~~~~~~Ai~~~~~Al~~---~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~~~~a~~~lg~~~~~lg~~~   87 (356)
T PLN03088         11 EAFVDDDFALAVDLYTQAIDL---DPNNAELYADRAQANIKLGNFTEAVADANKAIELDPSLAKAYLRKGTACMKLEEYQ   87 (356)
T ss_pred             HHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCHH
Confidence            444556666666666655532   33 3344555555566666666666655555 2333 3445555555566666666


Q ss_pred             HHHHHHHHHhccCCCCcchhhhh
Q 005268          520 LGAVASDRLFEVDSENVGYYVLM  542 (705)
Q Consensus       520 ~a~~~~~~~~~~~p~~~~~~~~l  542 (705)
                      +|+..++++++++|+++.....+
T Consensus        88 eA~~~~~~al~l~P~~~~~~~~l  110 (356)
T PLN03088         88 TAKAALEKGASLAPGDSRFTKLI  110 (356)
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHH
Confidence            66666666666666555444433

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=97.66  E-value=0.00092  Score=58.96  Aligned_cols=114  Identities=16%  Similarity=0.119  Sum_probs=61.7

Q ss_pred             cCChHHHHHHHHHHHHcCCCCCH----HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCC--cchHHHHHHHHHhcCC
Q 005268          412 HGQGDKALNFFRQMLDEGVRPDH----ITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPH--LKHYGCMVDLFGRAGH  485 (705)
Q Consensus       412 ~g~~~~A~~~~~~m~~~g~~p~~----~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~--~~~~~~li~~~~~~g~  485 (705)
                      .++...+...++++....  |+.    .....+...+...|++++|...|+..... ...|.  ....-.|...+...|+
T Consensus        24 ~~~~~~~~~~~~~l~~~~--~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~-~~d~~l~~~a~l~LA~~~~~~~~  100 (145)
T PF09976_consen   24 AGDPAKAEAAAEQLAKDY--PSSPYAALAALQLAKAAYEQGDYDEAKAALEKALAN-APDPELKPLARLRLARILLQQGQ  100 (145)
T ss_pred             CCCHHHHHHHHHHHHHHC--CCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh-CCCHHHHHHHHHHHHHHHHHcCC
Confidence            555556666666666532  222    12223334555666666666666666543 21121  1233345566666677


Q ss_pred             HHHHHHHHHhCCCC-CCHHHHHHHHHHHHhcCChhHHHHHHHHH
Q 005268          486 LGMAHNFIQNMPVR-PDASIWGALLGACRIHGNMELGAVASDRL  528 (705)
Q Consensus       486 ~~~A~~~~~~~~~~-p~~~~~~~ll~~~~~~g~~~~a~~~~~~~  528 (705)
                      +++|+..++..+.. .....+..+...+...|+.++|+..|+++
T Consensus       101 ~d~Al~~L~~~~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen  101 YDEALATLQQIPDEAFKALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHHHHHhccCcchHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            77777666655322 23445555666677777777777776654

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=97.65  E-value=0.0021  Score=56.68  Aligned_cols=114  Identities=11%  Similarity=0.084  Sum_probs=51.5

Q ss_pred             cCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhCC-CCCCH----HHHHHHHHHHHhcCChhH
Q 005268          447 SGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNMP-VRPDA----SIWGALLGACRIHGNMEL  520 (705)
Q Consensus       447 ~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~-~~p~~----~~~~~ll~~~~~~g~~~~  520 (705)
                      .++...+...++.+.+.++-.| .....-.+...+...|++++|...|+... ..||.    ..+-.|...+...|++++
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            4445555555555554322111 11222334455555555555555555542 11221    123334444555555555


Q ss_pred             HHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHH
Q 005268          521 GAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSL  561 (705)
Q Consensus       521 a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  561 (705)
                      |+..++.. .-.+-.+..+..++++|...|++++|...|+.
T Consensus       104 Al~~L~~~-~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen  104 ALATLQQI-PDEAFKALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHHHhc-cCcchHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            55555442 11222334444555555555555555555543

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.65  E-value=0.0078  Score=55.75  Aligned_cols=162  Identities=14%  Similarity=0.172  Sum_probs=112.1

Q ss_pred             HHHHHhcCCHHHHHHHHhhCCCCCcchHHHH---HHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHH
Q 005268          375 VDMYGKCGRIDDAMSLFYQVPRSSSVPWNAI---ISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVS  451 (705)
Q Consensus       375 i~~y~k~g~~~~A~~~~~~~~~~~~~~~~~l---i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~  451 (705)
                      .-+...+|+.+.|...++++..+=+-|+...   ..-+-..|++++|+++++..++.. +.|.+++.-=+...-..|+.-
T Consensus        59 ~IAAld~~~~~lAq~C~~~L~~~fp~S~RV~~lkam~lEa~~~~~~A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l  137 (289)
T KOG3060|consen   59 FIAALDTGRDDLAQKCINQLRDRFPGSKRVGKLKAMLLEATGNYKEAIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNL  137 (289)
T ss_pred             HHHHHHhcchHHHHHHHHHHHHhCCCChhHHHHHHHHHHHhhchhhHHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcH
Confidence            3334456667777766666542222221111   112445788999999999999865 445567766565666677777


Q ss_pred             HHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcC---ChhHHHHHHH
Q 005268          452 EGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHG---NMELGAVASD  526 (705)
Q Consensus       452 ~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g---~~~~a~~~~~  526 (705)
                      +|++-+....+.  +..|.+.|.-+.+.|...|+++.|.-.++++ -+.| ++..+..+...+...|   |++.+.+.|+
T Consensus       138 ~aIk~ln~YL~~--F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll~~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~  215 (289)
T KOG3060|consen  138 EAIKELNEYLDK--FMNDQEAWHELAEIYLSEGDFEKAAFCLEELLLIQPFNPLYFQRLAEVLYTQGGAENLELARKYYE  215 (289)
T ss_pred             HHHHHHHHHHHH--hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            888888887764  5778889999999999999999999998888 2445 4555566666655444   6788999999


Q ss_pred             HHhccCCCCcchh
Q 005268          527 RLFEVDSENVGYY  539 (705)
Q Consensus       527 ~~~~~~p~~~~~~  539 (705)
                      +++++.|.+...+
T Consensus       216 ~alkl~~~~~ral  228 (289)
T KOG3060|consen  216 RALKLNPKNLRAL  228 (289)
T ss_pred             HHHHhChHhHHHH
Confidence            9999999664443

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.65  E-value=3.3e-05  Score=60.83  Aligned_cols=77  Identities=16%  Similarity=0.235  Sum_probs=42.1

Q ss_pred             CCHHHHHHHHHhC-CCCC---CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHH
Q 005268          484 GHLGMAHNFIQNM-PVRP---DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVR  559 (705)
Q Consensus       484 g~~~~A~~~~~~~-~~~p---~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~  559 (705)
                      |++++|+.+++++ ...|   +...|-.+...+.+.|++++|..++++ .+.+|.++.....++.+|...|++++|.+++
T Consensus         3 ~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~~~~~~~~l~a~~~~~l~~y~eAi~~l   81 (84)
T PF12895_consen    3 GNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDPSNPDIHYLLARCLLKLGKYEEAIKAL   81 (84)
T ss_dssp             T-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHHCHHHHHHHHHHHHHHTT-HHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCCCCHHHHHHHHHHHHHhCCHHHHHHHH
Confidence            4455555555444 1112   334444556666666666666666666 5555555555555566666666666666666


Q ss_pred             HH
Q 005268          560 SL  561 (705)
Q Consensus       560 ~~  561 (705)
                      ++
T Consensus        82 ~~   83 (84)
T PF12895_consen   82 EK   83 (84)
T ss_dssp             HH
T ss_pred             hc
Confidence            54

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.62  E-value=0.00078  Score=57.05  Aligned_cols=100  Identities=8%  Similarity=0.017  Sum_probs=51.3

Q ss_pred             HHHHHHhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCCC----HHHHHHHHHHH
Q 005268          439 SLLTACSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRPD----ASIWGALLGAC  512 (705)
Q Consensus       439 ~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~ll~~~  512 (705)
                      .+...+...|++++|.+.|..+.+.+.-.| ....+..+...+.+.|++++|...++.+ ...|+    ..++..+...+
T Consensus         7 ~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~~   86 (119)
T TIGR02795         7 DAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGMSL   86 (119)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHHHH
Confidence            333444445555555555555543311101 0123344555555555555555555544 11222    34455666666


Q ss_pred             HhcCChhHHHHHHHHHhccCCCCcch
Q 005268          513 RIHGNMELGAVASDRLFEVDSENVGY  538 (705)
Q Consensus       513 ~~~g~~~~a~~~~~~~~~~~p~~~~~  538 (705)
                      ...|+.++|...++++++..|+++..
T Consensus        87 ~~~~~~~~A~~~~~~~~~~~p~~~~~  112 (119)
T TIGR02795        87 QELGDKEKAKATLQQVIKRYPGSSAA  112 (119)
T ss_pred             HHhCChHHHHHHHHHHHHHCcCChhH
Confidence            66777777777777777777765443

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.

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=97.62  E-value=0.054  Score=53.47  Aligned_cols=246  Identities=15%  Similarity=0.184  Sum_probs=161.7

Q ss_pred             HcCChhHHHHHHHhhhhcCCCCCCcccc----cchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCH
Q 005268          309 QNGLASEAIEVFQMMEECNEINPNQGTY----VSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRI  384 (705)
Q Consensus       309 ~~g~~~~A~~~~~~m~~~~~~~p~~~t~----~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~  384 (705)
                      -.|+++.|.+-|+.|..      |+.|-    ..+.-...+.|+.+.++++-+..-..- +.-.-...+.+...+..|++
T Consensus       132 ~eG~~~~Ar~kfeAMl~------dPEtRllGLRgLyleAqr~GareaAr~yAe~Aa~~A-p~l~WA~~AtLe~r~~~gdW  204 (531)
T COG3898         132 LEGDYEDARKKFEAMLD------DPETRLLGLRGLYLEAQRLGAREAARHYAERAAEKA-PQLPWAARATLEARCAAGDW  204 (531)
T ss_pred             hcCchHHHHHHHHHHhc------ChHHHHHhHHHHHHHHHhcccHHHHHHHHHHHHhhc-cCCchHHHHHHHHHHhcCCh
Confidence            35777777777777765      22222    223333346677777777776665542 22345667788888888999


Q ss_pred             HHHHHHHhhCC-----CCCcch--HHHHHHHHHh---cCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHhccCcHHHH
Q 005268          385 DDAMSLFYQVP-----RSSSVP--WNAIISCHGI---HGQGDKALNFFRQMLDEGVRPDHI-TFVSLLTACSHSGLVSEG  453 (705)
Q Consensus       385 ~~A~~~~~~~~-----~~~~~~--~~~li~~~~~---~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a  453 (705)
                      +.|+++.+.-.     ++++.-  -..|+.+-+.   .-+...|...-.+..+  +.||.+ .-.....++.+.|++.++
T Consensus       205 d~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A~~a~K--L~pdlvPaav~AAralf~d~~~rKg  282 (531)
T COG3898         205 DGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDALEANK--LAPDLVPAAVVAARALFRDGNLRKG  282 (531)
T ss_pred             HHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHhh--cCCccchHHHHHHHHHHhccchhhh
Confidence            99998887654     344332  2333333222   3456677776666666  788865 444456689999999999


Q ss_pred             HHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHH--H--HHHHhCCCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHH
Q 005268          454 QRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMA--H--NFIQNMPVRP-DASIWGALLGACRIHGNMELGAVASDRL  528 (705)
Q Consensus       454 ~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A--~--~~~~~~~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~  528 (705)
                      -.+++.+-+.   .|.+..+..  ..+.|.|+....  .  +-++.|  +| +..+.-++..+-...|++..|..-.+.+
T Consensus       283 ~~ilE~aWK~---ePHP~ia~l--Y~~ar~gdta~dRlkRa~~L~sl--k~nnaes~~~va~aAlda~e~~~ARa~Aeaa  355 (531)
T COG3898         283 SKILETAWKA---EPHPDIALL--YVRARSGDTALDRLKRAKKLESL--KPNNAESSLAVAEAALDAGEFSAARAKAEAA  355 (531)
T ss_pred             hhHHHHHHhc---CCChHHHHH--HHHhcCCCcHHHHHHHHHHHHhc--CccchHHHHHHHHHHHhccchHHHHHHHHHH
Confidence            9999988754   666655533  334566653222  1  122333  44 4566677778888999999999999999


Q ss_pred             hccCCCCcchhhhhhhhhhh-cCCcchHHHHHHHHHhCCCccCCce
Q 005268          529 FEVDSENVGYYVLMSNIYAN-VGKWEGVDEVRSLARDRGLKKTPGW  573 (705)
Q Consensus       529 ~~~~p~~~~~~~~l~~~~~~-~g~~~~a~~~~~~m~~~~~~~~~~~  573 (705)
                      ....|. .++|.+|+++-.. .|+-.+++..+.+..+.  ..+|.+
T Consensus       356 ~r~~pr-es~~lLlAdIeeAetGDqg~vR~wlAqav~A--PrdPaW  398 (531)
T COG3898         356 AREAPR-ESAYLLLADIEEAETGDQGKVRQWLAQAVKA--PRDPAW  398 (531)
T ss_pred             hhhCch-hhHHHHHHHHHhhccCchHHHHHHHHHHhcC--CCCCcc
Confidence            999995 4788889988754 49988888887776654  344543

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.62  E-value=0.0004  Score=58.84  Aligned_cols=96  Identities=16%  Similarity=0.018  Sum_probs=81.2

Q ss_pred             chHHHHHHHHHhcCCHHHHHHHHHhC-CCCCC----HHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCC---cchhhhh
Q 005268          471 KHYGCMVDLFGRAGHLGMAHNFIQNM-PVRPD----ASIWGALLGACRIHGNMELGAVASDRLFEVDSEN---VGYYVLM  542 (705)
Q Consensus       471 ~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~---~~~~~~l  542 (705)
                      .++..++..+.+.|++++|.+.++++ ...|+    ...+..+...+...|+++.|...+++++...|++   +..+..+
T Consensus         3 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~   82 (119)
T TIGR02795         3 EAYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKL   82 (119)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHH
Confidence            35667788899999999999999888 23343    3466778899999999999999999999998875   4567889


Q ss_pred             hhhhhhcCCcchHHHHHHHHHhCC
Q 005268          543 SNIYANVGKWEGVDEVRSLARDRG  566 (705)
Q Consensus       543 ~~~~~~~g~~~~a~~~~~~m~~~~  566 (705)
                      +.++...|++++|.+.++.+.+..
T Consensus        83 ~~~~~~~~~~~~A~~~~~~~~~~~  106 (119)
T TIGR02795        83 GMSLQELGDKEKAKATLQQVIKRY  106 (119)
T ss_pred             HHHHHHhCChHHHHHHHHHHHHHC
Confidence            999999999999999999998764

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.

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.60  E-value=0.0042  Score=57.92  Aligned_cols=141  Identities=13%  Similarity=0.114  Sum_probs=107.5

Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhCCC
Q 005268          419 LNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNMPV  498 (705)
Q Consensus       419 ~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  498 (705)
                      -++.+.+.......|.+....-...|.+.|++++|.+..+..       -+.+....=+..+.|..+++-|...+++|..
T Consensus        93 ~~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~-------~~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~  165 (299)
T KOG3081|consen   93 ASLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLG-------ENLEAAALNVQILLKMHRFDLAEKELKKMQQ  165 (299)
T ss_pred             HHHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhcc-------chHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence            345555655544555444444456799999999999987642       2334555556778889999999999999964


Q ss_pred             CCCHHHHHHHHHHHHh----cCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhCC
Q 005268          499 RPDASIWGALLGACRI----HGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDRG  566 (705)
Q Consensus       499 ~p~~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  566 (705)
                      --+..+.+.|..++.+    .+.+..|.-+|+++-+..|..+......+.++...|+|++|..+.+....+.
T Consensus       166 ided~tLtQLA~awv~la~ggek~qdAfyifeE~s~k~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd  237 (299)
T KOG3081|consen  166 IDEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEKTPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKD  237 (299)
T ss_pred             cchHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcccCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhcc
Confidence            4466677777777654    3467899999999999887788888899999999999999999999998764

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.60  E-value=0.036  Score=55.50  Aligned_cols=122  Identities=16%  Similarity=0.192  Sum_probs=86.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcH
Q 005268          371 ATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLV  450 (705)
Q Consensus       371 ~~~li~~y~k~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~  450 (705)
                      .+..|.-+...|+...|.++-.+..-+|..-|...+.+++..+++++-.++...      +-+++-|-.++.+|...|..
T Consensus       180 l~~Ti~~li~~~~~k~A~kl~k~Fkv~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~~~~~~  253 (319)
T PF04840_consen  180 LNDTIRKLIEMGQEKQAEKLKKEFKVPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACLKYGNK  253 (319)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHHHCCCH
Confidence            344455556678888888888888888888888889999999888876665332      22347788888888888888


Q ss_pred             HHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 005268          451 SEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNMPVRPDASIWGALLGAC  512 (705)
Q Consensus       451 ~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~  512 (705)
                      .+|..+...+           .+..-+.+|.++|++.+|.+.--+.+   |...+..+..-|
T Consensus       254 ~eA~~yI~k~-----------~~~~rv~~y~~~~~~~~A~~~A~~~k---d~~~L~~i~~~~  301 (319)
T PF04840_consen  254 KEASKYIPKI-----------PDEERVEMYLKCGDYKEAAQEAFKEK---DIDLLKQILKRC  301 (319)
T ss_pred             HHHHHHHHhC-----------ChHHHHHHHHHCCCHHHHHHHHHHcC---CHHHHHHHHHHC
Confidence            8888877542           22556788888888888877765543   555444444443

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

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.54  E-value=0.00034  Score=66.34  Aligned_cols=88  Identities=16%  Similarity=0.152  Sum_probs=78.9

Q ss_pred             HHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchH
Q 005268          478 DLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGV  555 (705)
Q Consensus       478 ~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a  555 (705)
                      +-+.+.+++++|+..|.++ .+.| |++.|..=..+|.+.|.++.|++-.+.++.++|....+|..|+-+|...|++++|
T Consensus        89 N~~m~~~~Y~eAv~kY~~AI~l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~yskay~RLG~A~~~~gk~~~A  168 (304)
T KOG0553|consen   89 NKLMKNKDYQEAVDKYTEAIELDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPHYSKAYGRLGLAYLALGKYEEA  168 (304)
T ss_pred             HHHHHhhhHHHHHHHHHHHHhcCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChHHHHHHHHHHHHHHccCcHHHH
Confidence            4466788999999999887 5555 6778888889999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhC
Q 005268          556 DEVRSLARDR  565 (705)
Q Consensus       556 ~~~~~~m~~~  565 (705)
                      .+.|++..+.
T Consensus       169 ~~aykKaLel  178 (304)
T KOG0553|consen  169 IEAYKKALEL  178 (304)
T ss_pred             HHHHHhhhcc
Confidence            9999887654

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.53  E-value=0.00013  Score=54.02  Aligned_cols=58  Identities=17%  Similarity=0.222  Sum_probs=41.6

Q ss_pred             HHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhC
Q 005268          508 LLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       508 ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      +...+...|++++|+..++++++..|+++..+..++.++...|++++|..+++.+.+.
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~   60 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALEL   60 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3455667777777777777777777777777777777777777777777777776654

>PRK15331 chaperone protein SicA; Provisional

Probab=97.49  E-value=0.0019  Score=56.32  Aligned_cols=90  Identities=11%  Similarity=0.079  Sum_probs=77.9

Q ss_pred             HHHHHHHhcCCHHHHHHHHHhCC-CC-CCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCc
Q 005268          475 CMVDLFGRAGHLGMAHNFIQNMP-VR-PDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKW  552 (705)
Q Consensus       475 ~li~~~~~~g~~~~A~~~~~~~~-~~-p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  552 (705)
                      ....-+-..|++++|..+|+-+- .. -+..-|..|...|...++++.|+..|..+..++++||..+...+..|...|+.
T Consensus        42 ~~Ay~~y~~Gk~~eA~~~F~~L~~~d~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~dp~p~f~agqC~l~l~~~  121 (165)
T PRK15331         42 AHAYEFYNQGRLDEAETFFRFLCIYDFYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKNDYRPVFFTGQCQLLMRKA  121 (165)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCCCccchHHHHHHHhCCH
Confidence            34445568899999999998762 22 35667899999999999999999999999999999999999999999999999


Q ss_pred             chHHHHHHHHHh
Q 005268          553 EGVDEVRSLARD  564 (705)
Q Consensus       553 ~~a~~~~~~m~~  564 (705)
                      ++|+..|+...+
T Consensus       122 ~~A~~~f~~a~~  133 (165)
T PRK15331        122 AKARQCFELVNE  133 (165)
T ss_pred             HHHHHHHHHHHh
Confidence            999999998876

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.47  E-value=0.0027  Score=62.81  Aligned_cols=89  Identities=15%  Similarity=0.126  Sum_probs=72.1

Q ss_pred             HHHHhcCCHHHHHHHHHhC-CCC-----CCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCC
Q 005268          478 DLFGRAGHLGMAHNFIQNM-PVR-----PDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGK  551 (705)
Q Consensus       478 ~~~~~~g~~~~A~~~~~~~-~~~-----p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  551 (705)
                      +...+.|++.+|.+.+.+. .+.     |++..|........+.|+.++|+.--+++++++|.-..+|..-++.+...++
T Consensus       257 N~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD~syikall~ra~c~l~le~  336 (486)
T KOG0550|consen  257 NDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKIDSSYIKALLRRANCHLALEK  336 (486)
T ss_pred             hhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcCHHHHHHHHHHHHHHHHHHH
Confidence            4456889999999998776 344     4455566666677788999999999999999999888888888999999999


Q ss_pred             cchHHHHHHHHHhCC
Q 005268          552 WEGVDEVRSLARDRG  566 (705)
Q Consensus       552 ~~~a~~~~~~m~~~~  566 (705)
                      |++|.+-+++..+..
T Consensus       337 ~e~AV~d~~~a~q~~  351 (486)
T KOG0550|consen  337 WEEAVEDYEKAMQLE  351 (486)
T ss_pred             HHHHHHHHHHHHhhc
Confidence            999999998877653

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.40  E-value=0.00052  Score=50.81  Aligned_cols=61  Identities=18%  Similarity=0.241  Sum_probs=50.4

Q ss_pred             HHHHHHhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCc
Q 005268          476 MVDLFGRAGHLGMAHNFIQNM-PVRPD-ASIWGALLGACRIHGNMELGAVASDRLFEVDSENV  536 (705)
Q Consensus       476 li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  536 (705)
                      +...+.+.|++++|.+.|++. ...|+ ...|..+...+...|++++|...++++++.+|++|
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            456778889999999999887 44564 66899999999999999999999999999999874

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.40  E-value=0.00086  Score=61.18  Aligned_cols=80  Identities=13%  Similarity=0.033  Sum_probs=58.4

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHhC-CCCCC----HHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhh
Q 005268          472 HYGCMVDLFGRAGHLGMAHNFIQNM-PVRPD----ASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIY  546 (705)
Q Consensus       472 ~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  546 (705)
                      .+..+...+.+.|++++|...+++. ...|+    ...|..+...+...|++++|...++++++..|+++..+..++.+|
T Consensus        37 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~  116 (172)
T PRK02603         37 VYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPKQPSALNNIAVIY  116 (172)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHH
Confidence            4555566666667777776666655 12222    356778888888888888888888888888888888888888888


Q ss_pred             hhcCC
Q 005268          547 ANVGK  551 (705)
Q Consensus       547 ~~~g~  551 (705)
                      ...|+
T Consensus       117 ~~~g~  121 (172)
T PRK02603        117 HKRGE  121 (172)
T ss_pred             HHcCC
Confidence            77776

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.39  E-value=0.00069  Score=61.56  Aligned_cols=93  Identities=13%  Similarity=-0.124  Sum_probs=72.0

Q ss_pred             cchHHHHHHHHHhcCCHHHHHHHHHhC-CCCCC----HHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhh
Q 005268          470 LKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRPD----ASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSN  544 (705)
Q Consensus       470 ~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~  544 (705)
                      ...|..++..+...|++++|+..+++. ...|+    ..+|..+...+...|++++|+..+++++++.|.....+..++.
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            345566666777778888888887776 22222    3478889999999999999999999999999998888888888


Q ss_pred             hhh-------hcCCcchHHHHHHHH
Q 005268          545 IYA-------NVGKWEGVDEVRSLA  562 (705)
Q Consensus       545 ~~~-------~~g~~~~a~~~~~~m  562 (705)
                      +|.       ..|++++|...+++.
T Consensus       115 i~~~~~~~~~~~g~~~~A~~~~~~a  139 (168)
T CHL00033        115 ICHYRGEQAIEQGDSEIAEAWFDQA  139 (168)
T ss_pred             HHHHhhHHHHHcccHHHHHHHHHHH
Confidence            888       778888666666554

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.30  E-value=0.0022  Score=65.92  Aligned_cols=101  Identities=15%  Similarity=0.122  Sum_probs=81.0

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHh
Q 005268          405 IISCHGIHGQGDKALNFFRQMLDEGVRPD-HITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGR  482 (705)
Q Consensus       405 li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~  482 (705)
                      ....+...|++++|+++|++.++  ..|+ ...+..+..++...|++++|+..++.+.+   +.| +...|..+..+|..
T Consensus         8 ~a~~a~~~~~~~~Ai~~~~~Al~--~~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~---l~P~~~~a~~~lg~~~~~   82 (356)
T PLN03088          8 KAKEAFVDDDFALAVDLYTQAID--LDPNNAELYADRAQANIKLGNFTEAVADANKAIE---LDPSLAKAYLRKGTACMK   82 (356)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCcCCHHHHHHHHHHHHH
Confidence            34566788999999999999999  4555 46777888899999999999999999875   355 45688889999999


Q ss_pred             cCCHHHHHHHHHhC-CCCCCHHHHHHHHH
Q 005268          483 AGHLGMAHNFIQNM-PVRPDASIWGALLG  510 (705)
Q Consensus       483 ~g~~~~A~~~~~~~-~~~p~~~~~~~ll~  510 (705)
                      .|++++|+..|++. .+.|+.......+.
T Consensus        83 lg~~~eA~~~~~~al~l~P~~~~~~~~l~  111 (356)
T PLN03088         83 LEEYQTAKAALEKGASLAPGDSRFTKLIK  111 (356)
T ss_pred             hCCHHHHHHHHHHHHHhCCCCHHHHHHHH
Confidence            99999999999887 45666544444443

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.29  E-value=0.0049  Score=56.20  Aligned_cols=127  Identities=13%  Similarity=0.173  Sum_probs=79.1

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHH
Q 005268          401 PWNAIISCHGIHGQGDKALNFFRQMLDEGVRPD--HITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMV  477 (705)
Q Consensus       401 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~--~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li  477 (705)
                      .+..+...+...|++++|+..|++.++....|+  ...+..+...+.+.|++++|...+.+..+.   .| +...+..+.
T Consensus        37 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~lg  113 (172)
T PRK02603         37 VYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALEL---NPKQPSALNNIA  113 (172)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CcccHHHHHHHH
Confidence            366667777777888888888887776433322  245666666777778888887777776643   34 334455556


Q ss_pred             HHHHhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCC
Q 005268          478 DLFGRAGHLGMAHNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGK  551 (705)
Q Consensus       478 ~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  551 (705)
                      .+|...|+...+..-++..                  ...+++|.+.++++++++|++   |..+...+...|+
T Consensus       114 ~~~~~~g~~~~a~~~~~~A------------------~~~~~~A~~~~~~a~~~~p~~---~~~~~~~~~~~~~  166 (172)
T PRK02603        114 VIYHKRGEKAEEAGDQDEA------------------EALFDKAAEYWKQAIRLAPNN---YIEAQNWLKTTGR  166 (172)
T ss_pred             HHHHHcCChHhHhhCHHHH------------------HHHHHHHHHHHHHHHhhCchh---HHHHHHHHHhcCc
Confidence            6666666655544332221                  112577888999999999876   4444444544443

>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=97.26  E-value=0.0029  Score=50.48  Aligned_cols=58  Identities=19%  Similarity=0.219  Sum_probs=30.8

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHhH
Q 005268          402 WNAIISCHGIHGQGDKALNFFRQMLDEGVRPDH-ITFVSLLTACSHSGLVSEGQRYFHMMQ  461 (705)
Q Consensus       402 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~m~  461 (705)
                      |..+...+...|++++|+..|++..+.  .|+. ..+..+...+...+++++|.+.++...
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~   61 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALEL--DPDNADAYYNLAAAYYKLGKYEEALEDYEKAL   61 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            444555556666666666666666553  2322 344444445555555555555555443

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.26  E-value=0.0015  Score=62.48  Aligned_cols=105  Identities=11%  Similarity=0.056  Sum_probs=88.2

Q ss_pred             cCCcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcC---ChhHHHHHHHHHhccCCCCcchhhh
Q 005268          467 KPHLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHG---NMELGAVASDRLFEVDSENVGYYVL  541 (705)
Q Consensus       467 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g---~~~~a~~~~~~~~~~~p~~~~~~~~  541 (705)
                      +-|.+.|--|...|.+.|+++.|..-|.+. .+.| +...+..+..++....   +..++..++++++.++|.|..+...
T Consensus       153 P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~iral~l  232 (287)
T COG4235         153 PGDAEGWDLLGRAYMALGRASDALLAYRNALRLAGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPANIRALSL  232 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHHHHHH
Confidence            347889999999999999999999999887 3444 5667777777665443   4578999999999999999999999


Q ss_pred             hhhhhhhcCCcchHHHHHHHHHhCCCccCC
Q 005268          542 MSNIYANVGKWEGVDEVRSLARDRGLKKTP  571 (705)
Q Consensus       542 l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~  571 (705)
                      |+-.+...|++.+|...++.|.+.....+|
T Consensus       233 LA~~afe~g~~~~A~~~Wq~lL~~lp~~~~  262 (287)
T COG4235         233 LAFAAFEQGDYAEAAAAWQMLLDLLPADDP  262 (287)
T ss_pred             HHHHHHHcccHHHHHHHHHHHHhcCCCCCc
Confidence            999999999999999999999987654333

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.23  E-value=0.17  Score=50.67  Aligned_cols=105  Identities=20%  Similarity=0.196  Sum_probs=83.2

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccccchhHHhhccCc
Q 005268          269 GNAVVDMYAKLGIINSACAVFEGLPVKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGA  348 (705)
Q Consensus       269 ~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~  348 (705)
                      .+..+.-+...|+...|.++-.+..-+|..-|-..+.+++..++|++-.++... .      -.+.-|..++.+|.+.|.
T Consensus       180 l~~Ti~~li~~~~~k~A~kl~k~Fkv~dkrfw~lki~aLa~~~~w~eL~~fa~s-k------KsPIGyepFv~~~~~~~~  252 (319)
T PF04840_consen  180 LNDTIRKLIEMGQEKQAEKLKKEFKVPDKRFWWLKIKALAENKDWDELEKFAKS-K------KSPIGYEPFVEACLKYGN  252 (319)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCCHHHHHHHHhC-C------CCCCChHHHHHHHHHCCC
Confidence            344466667789999999999999889999999999999999999987765432 1      245788889999999999


Q ss_pred             hHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHH
Q 005268          349 LRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSL  390 (705)
Q Consensus       349 ~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~  390 (705)
                      ..+|..+...          ..+..-+.+|.++|++.+|.+.
T Consensus       253 ~~eA~~yI~k----------~~~~~rv~~y~~~~~~~~A~~~  284 (319)
T PF04840_consen  253 KKEASKYIPK----------IPDEERVEMYLKCGDYKEAAQE  284 (319)
T ss_pred             HHHHHHHHHh----------CChHHHHHHHHHCCCHHHHHHH
Confidence            8888877665          1225678889999999988765

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

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.23  E-value=0.00057  Score=52.00  Aligned_cols=58  Identities=14%  Similarity=0.141  Sum_probs=49.3

Q ss_pred             HHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhCC
Q 005268          509 LGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDRG  566 (705)
Q Consensus       509 l~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  566 (705)
                      ...+.+.+++++|...++++++++|+++..+...+.+|...|++++|.+.++...+.+
T Consensus         2 ~~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~   59 (73)
T PF13371_consen    2 KQIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALELS   59 (73)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHC
Confidence            3567788889999999999999999888888888999999999999998888887654

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=97.21  E-value=0.52  Score=51.97  Aligned_cols=159  Identities=9%  Similarity=0.009  Sum_probs=89.1

Q ss_pred             HHHHHHHHHhcCChH---HHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHH
Q 005268          402 WNAIISCHGIHGQGD---KALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVD  478 (705)
Q Consensus       402 ~~~li~~~~~~g~~~---~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~  478 (705)
                      -|.|+..+.+.++..   +|+-+++.-.... +-|..+-..++..|+-.|-...|.++|..+.-+ .|.-|...|- +..
T Consensus       439 v~~Lid~~rktnd~~~l~eaI~LLE~glt~s-~hnf~~KLlLiriY~~lGa~p~a~~~y~tLdIK-~IQ~DTlgh~-~~~  515 (932)
T KOG2053|consen  439 VNHLIDLWRKTNDLTDLFEAITLLENGLTKS-PHNFQTKLLLIRIYSYLGAFPDAYELYKTLDIK-NIQTDTLGHL-IFR  515 (932)
T ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHHHhhcC-CccHHHHHHHHHHHHHhcCChhHHHHHHhcchH-HhhhccchHH-HHH
Confidence            577888888888765   5666666666632 334556677788999999999999999888655 6666644332 234


Q ss_pred             HHHhcCCHHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCC----CcchhhhhhhhhhhcCCc
Q 005268          479 LFGRAGHLGMAHNFIQNMP--VRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSE----NVGYYVLMSNIYANVGKW  552 (705)
Q Consensus       479 ~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~----~~~~~~~l~~~~~~~g~~  552 (705)
                      .+...|++..+...++..-  ...+..----+|.--.++|.+..-.++..---.+.-.    -...-....+.....++.
T Consensus       516 ~~~t~g~~~~~s~~~~~~lkfy~~~~kE~~eyI~~AYr~g~ySkI~em~~fr~rL~~S~q~~a~~VE~~~l~ll~~~~~~  595 (932)
T KOG2053|consen  516 RAETSGRSSFASNTFNEHLKFYDSSLKETPEYIALAYRRGAYSKIPEMLAFRDRLMHSLQKWACRVENLQLSLLCNADRG  595 (932)
T ss_pred             HHHhcccchhHHHHHHHHHHHHhhhhhhhHHHHHHHHHcCchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcH
Confidence            4556677776666554431  0001000111233334566665544432211112110    011112455566677777


Q ss_pred             chHHHHHHHHH
Q 005268          553 EGVDEVRSLAR  563 (705)
Q Consensus       553 ~~a~~~~~~m~  563 (705)
                      ++-...+..|.
T Consensus       596 ~q~~~~~~~~~  606 (932)
T KOG2053|consen  596 TQLLKLLESMK  606 (932)
T ss_pred             HHHHHHHhccc
Confidence            77777766665

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.21  E-value=0.41  Score=51.63  Aligned_cols=343  Identities=11%  Similarity=0.051  Sum_probs=177.4

Q ss_pred             HCCCCCChhhHHh-----HHHHhhcCCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHccCC---HHHHHHHHhccCC-
Q 005268          122 LEGVSMDPITVAS-----ILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGM---MRHALRVFDQMME-  192 (705)
Q Consensus       122 ~~g~~p~~~t~~~-----ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~---~~~A~~~f~~m~~-  192 (705)
                      .-|++.+..-|..     ++.-+...+.+..|.++-..+-..-.. ...++.....-+.+..+   -+-+..+=+++.. 
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 RIGIPLTHEQYRHLSEEVVIDRLVDRHLYSVAIQVAKLLNLPESQ-GDRVLLEWARRKIKQSDKMDEEVLDKIDEKLSAK  503 (829)
T ss_pred             ccCccccHHHHhhhchhhhhHHHHhcchhHHHHHHHHHhCCcccc-ccHHHHHHHHHHHhccCccchHHHHHHHHHhccc
Confidence            4566666555544     455566677788888877665321111 15677777777777632   3334444445544 


Q ss_pred             -CCeehHHHHHHHHHcCCChhhHHHHHHHHHHCCC----CCChhhHHHHHHHHHccCChhhHHHHHHHHHHhcCCCchhH
Q 005268          193 -RDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGI----QPDLLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVI  267 (705)
Q Consensus       193 -~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~----~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~  267 (705)
                       ..-++|..+.+---+.|+++-|..+++.=...+.    -.+..-+...+.-+...|+.+...++.-.+.+.-       
T Consensus       504 ~~~~iSy~~iA~~Ay~~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kaies~d~~Li~~Vllhlk~~~-------  576 (829)
T KOG2280|consen  504 LTPGISYAAIARRAYQEGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAIESGDTDLIIQVLLHLKNKL-------  576 (829)
T ss_pred             CCCceeHHHHHHHHHhcCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHHhcCCchhHHHHHHHHHHHH-------
Confidence             4567888888888888999988888764322211    1122234444555566666666555554443321       


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhcCCC-CChhHHHHHHHHHHHcCChhHHHHHH--HhhhhcCCCCCCcccccchhHHhh
Q 005268          268 IGNAVVDMYAKLGIINSACAVFEGLPV-KDVISWNTLITGYAQNGLASEAIEVF--QMMEECNEINPNQGTYVSILPAYS  344 (705)
Q Consensus       268 ~~~~li~~y~~~g~~~~A~~~f~~~~~-~~~~~~~~li~~~~~~g~~~~A~~~~--~~m~~~~~~~p~~~t~~~ll~a~~  344 (705)
                         +.-+......+...|..++.+... .|..+   +-+.| +.++-.+++..|  +.-.....+.+-........++|+
T Consensus       577 ---~~s~l~~~l~~~p~a~~lY~~~~r~~~~~~---l~d~y-~q~dn~~~~a~~~~q~~~~~~~~~~r~~~lk~~a~~~a  649 (829)
T KOG2280|consen  577 ---NRSSLFMTLRNQPLALSLYRQFMRHQDRAT---LYDFY-NQDDNHQALASFHLQASYAAETIEGRIPALKTAANAFA  649 (829)
T ss_pred             ---HHHHHHHHHHhchhhhHHHHHHHHhhchhh---hhhhh-hcccchhhhhhhhhhhhhhhhhhcccchhHHHHHHHHh
Confidence               000001111122233333332211 11100   11111 112212222111  110000001111122223344444


Q ss_pred             ccCchHHHH----------HHHHHHHH-hCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCcchHHHHHHHHHhcC
Q 005268          345 HVGALRQGI----------KIHARVIK-NCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHG  413 (705)
Q Consensus       345 ~~~~~~~a~----------~~~~~~~~-~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g  413 (705)
                      +........          ++.+.+.. .|..-...+.+--+.-+...|+..+|.++-.+..-+|-.-|---+.+++..+
T Consensus       650 ~sk~~s~e~ka~ed~~kLl~lQ~~Le~q~~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~FkipdKr~~wLk~~aLa~~~  729 (829)
T KOG2280|consen  650 KSKEKSFEAKALEDQMKLLKLQRTLEDQFGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFKIPDKRLWWLKLTALADIK  729 (829)
T ss_pred             hhhhhhhHHHHHHHHHHHHHHHHHHHHHhccccccCcHHHHHHHHHHccchHHHHHHHHhcCCcchhhHHHHHHHHHhhh
Confidence            443322111          11122211 1222222233334444556788888888888888888888888888888888


Q ss_pred             ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHH
Q 005268          414 QGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFI  493 (705)
Q Consensus       414 ~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~  493 (705)
                      ++++-+++-+.+.      .++-|.....+|.+.|+.++|.+++.+..   |.       .-.+.+|.+.|++.+|.++-
T Consensus       730 kweeLekfAkskk------sPIGy~PFVe~c~~~~n~~EA~KYiprv~---~l-------~ekv~ay~~~~~~~eAad~A  793 (829)
T KOG2280|consen  730 KWEELEKFAKSKK------SPIGYLPFVEACLKQGNKDEAKKYIPRVG---GL-------QEKVKAYLRVGDVKEAADLA  793 (829)
T ss_pred             hHHHHHHHHhccC------CCCCchhHHHHHHhcccHHHHhhhhhccC---Ch-------HHHHHHHHHhccHHHHHHHH
Confidence            8877665554433      14556777888888888888888875432   11       14678888888888887765


Q ss_pred             Hh
Q 005268          494 QN  495 (705)
Q Consensus       494 ~~  495 (705)
                      -+
T Consensus       794 ~~  795 (829)
T KOG2280|consen  794 AE  795 (829)
T ss_pred             HH
Confidence            44

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.14  E-value=0.059  Score=56.51  Aligned_cols=195  Identities=14%  Similarity=0.192  Sum_probs=102.7

Q ss_pred             HHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccccchhHHhhccCchHHH
Q 005268          273 VDMYAKLGIINSACAVFEGLPVKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQG  352 (705)
Q Consensus       273 i~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a  352 (705)
                      .+.++-.|++.+|.++|.                  ++|.-..|+++|..|+- -          -...-+...|+.++-
T Consensus       639 A~~~Ay~gKF~EAAklFk------------------~~G~enRAlEmyTDlRM-F----------D~aQE~~~~g~~~eK  689 (1081)
T KOG1538|consen  639 ADVFAYQGKFHEAAKLFK------------------RSGHENRALEMYTDLRM-F----------DYAQEFLGSGDPKEK  689 (1081)
T ss_pred             HHHHHhhhhHHHHHHHHH------------------HcCchhhHHHHHHHHHH-H----------HHHHHHhhcCChHHH
Confidence            344566677888877775                  45666677777766653 1          112223334444443


Q ss_pred             HHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC
Q 005268          353 IKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRP  432 (705)
Q Consensus       353 ~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  432 (705)
                      +.+...-.+.  ..++.--.+...++...|+.++|..+.                  ..+|-.+-++++-+++-..    
T Consensus       690 KmL~RKRA~W--Ar~~kePkaAAEmLiSaGe~~KAi~i~------------------~d~gW~d~lidI~rkld~~----  745 (1081)
T KOG1538|consen  690 KMLIRKRADW--ARNIKEPKAAAEMLISAGEHVKAIEIC------------------GDHGWVDMLIDIARKLDKA----  745 (1081)
T ss_pred             HHHHHHHHHH--hhhcCCcHHHHHHhhcccchhhhhhhh------------------hcccHHHHHHHHHhhcchh----
Confidence            3333221111  111111133455666677777776653                  3344445555554444322    


Q ss_pred             CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhCC-CCCCHHH-HH----
Q 005268          433 DHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNMP-VRPDASI-WG----  506 (705)
Q Consensus       433 ~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~-~~p~~~~-~~----  506 (705)
                      +..+...+..-+-+...+.-|-++|..|-.          ...++++....|+++||..+-++.| ..||+.. |.    
T Consensus       746 ere~l~~~a~ylk~l~~~gLAaeIF~k~gD----------~ksiVqlHve~~~W~eAFalAe~hPe~~~dVy~pyaqwLA  815 (1081)
T KOG1538|consen  746 EREPLLLCATYLKKLDSPGLAAEIFLKMGD----------LKSLVQLHVETQRWDEAFALAEKHPEFKDDVYMPYAQWLA  815 (1081)
T ss_pred             hhhHHHHHHHHHhhccccchHHHHHHHhcc----------HHHHhhheeecccchHhHhhhhhCccccccccchHHHHhh
Confidence            223444444444455556667777766632          2346677777778888887777775 3344321 11    


Q ss_pred             ------HHHHHHHhcCChhHHHHHHHHHhc
Q 005268          507 ------ALLGACRIHGNMELGAVASDRLFE  530 (705)
Q Consensus       507 ------~ll~~~~~~g~~~~a~~~~~~~~~  530 (705)
                            ---.++.+.|+..+|.++++++..
T Consensus       816 E~DrFeEAqkAfhkAGr~~EA~~vLeQLtn  845 (1081)
T KOG1538|consen  816 ENDRFEEAQKAFHKAGRQREAVQVLEQLTN  845 (1081)
T ss_pred             hhhhHHHHHHHHHHhcchHHHHHHHHHhhh
Confidence                  112355566666777777776653

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.13  E-value=0.038  Score=54.92  Aligned_cols=92  Identities=14%  Similarity=0.153  Sum_probs=48.4

Q ss_pred             HHhcc-CcHHHHHHHHHHhHHhhCCcCC----cchHHHHHHHHHhcCCHHHHHHHHHhCC---CC-----CCHH-HHHHH
Q 005268          443 ACSHS-GLVSEGQRYFHMMQEEFGIKPH----LKHYGCMVDLFGRAGHLGMAHNFIQNMP---VR-----PDAS-IWGAL  508 (705)
Q Consensus       443 a~~~~-g~~~~a~~~~~~m~~~~~~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~~~---~~-----p~~~-~~~~l  508 (705)
                      .|... |++++|.+.|+...+-+.....    ...+..++..+.+.|++++|.++|++..   .+     .+.. .+-..
T Consensus       123 ~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a  202 (282)
T PF14938_consen  123 IYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKA  202 (282)
T ss_dssp             HHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHH
Confidence            34444 5555555555555443222211    1234456667777778888877776651   11     1111 12222


Q ss_pred             HHHHHhcCChhHHHHHHHHHhccCCC
Q 005268          509 LGACRIHGNMELGAVASDRLFEVDSE  534 (705)
Q Consensus       509 l~~~~~~g~~~~a~~~~~~~~~~~p~  534 (705)
                      +-.+...||...|...+++..+.+|.
T Consensus       203 ~l~~L~~~D~v~A~~~~~~~~~~~~~  228 (282)
T PF14938_consen  203 ILCHLAMGDYVAARKALERYCSQDPS  228 (282)
T ss_dssp             HHHHHHTT-HHHHHHHHHHHGTTSTT
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            33455677888888888888888775

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.13  E-value=0.0097  Score=58.89  Aligned_cols=133  Identities=13%  Similarity=0.147  Sum_probs=96.6

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH-HhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHH
Q 005268          401 PWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTA-CSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDL  479 (705)
Q Consensus       401 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a-~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~  479 (705)
                      .|-.++....+.+..+.|..+|.+.++.+ ..+...|...... +...++.+.|.++|+...+.+  ..+...|...++.
T Consensus         3 v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~f--~~~~~~~~~Y~~~   79 (280)
T PF05843_consen    3 VWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKKF--PSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHHH--TT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHH
Confidence            46667777777777888888888887532 2233445444443 344567777999999988764  4455678888999


Q ss_pred             HHhcCCHHHHHHHHHhCC-CCCC----HHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCc
Q 005268          480 FGRAGHLGMAHNFIQNMP-VRPD----ASIWGALLGACRIHGNMELGAVASDRLFEVDSENV  536 (705)
Q Consensus       480 ~~~~g~~~~A~~~~~~~~-~~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  536 (705)
                      +.+.|+.+.|..+|++.- .-|.    ..+|...+.--.+.|+++....+.+++.+.-|++.
T Consensus        80 l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~~~~~~  141 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEELFPEDN  141 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHTTTS-
T ss_pred             HHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhhh
Confidence            999999999999998872 2233    35999999999999999999999999999888643

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.

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.12  E-value=0.52  Score=50.30  Aligned_cols=201  Identities=10%  Similarity=0.138  Sum_probs=94.8

Q ss_pred             CCChhhHHhHHHHhhcCCChHHHHHHHHHHHHh-CCC--------CchhHHHHHHHHHHccCCHHHHHHHHhccCCCCee
Q 005268          126 SMDPITVASILPVCARSDNILSGLLIHLYIVKH-GLE--------FNLFVSNNLINMYAKFGMMRHALRVFDQMMERDVV  196 (705)
Q Consensus       126 ~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~-g~~--------~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~~~~~  196 (705)
                      .|.+..|..+.......-.++.|++.|-..... |+.        .+...-.+=+.+|  -|++++|++++-++..+|..
T Consensus       689 nPHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY~Gik~vkrl~~i~s~~~q~aei~~~--~g~feeaek~yld~drrDLA  766 (1189)
T KOG2041|consen  689 NPHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKLVKRLRTIHSKEQQRAEISAF--YGEFEEAEKLYLDADRRDLA  766 (1189)
T ss_pred             CCchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhHHHHhhhhhhHHHHhHhHhhh--hcchhHhhhhhhccchhhhh
Confidence            466666666665555555555555554332110 110        0011111112222  37788888888877777643


Q ss_pred             hHHHHHHHHHcCCChhhHHHHHHHHHHCCCCCC----hhhHHHHHHHHHccCChhhHHHHHHHHHHhcCCCchhHHHHHH
Q 005268          197 SWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPD----LLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAV  272 (705)
Q Consensus       197 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~----~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~~l  272 (705)
                           |..+.+.|++-...++++.   -|-..|    ...+..+...++....++.|.+.+..--..          ...
T Consensus       767 -----ielr~klgDwfrV~qL~r~---g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~~~~----------e~~  828 (1189)
T KOG2041|consen  767 -----IELRKKLGDWFRVYQLIRN---GGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYCGDT----------ENQ  828 (1189)
T ss_pred             -----HHHHHhhhhHHHHHHHHHc---cCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccch----------HhH
Confidence                 4555666666666555542   111111    123444444444444445444444332111          123


Q ss_pred             HHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccccchhHHhhccCchHHH
Q 005268          273 VDMYAKLGIINSACAVFEGLPVKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQG  352 (705)
Q Consensus       273 i~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a  352 (705)
                      ++.|.+..++++-+.+-+.+++ |......|...+.+.|.-++|.+.|-+-..     |.     ..+..|..++++.+|
T Consensus       829 ~ecly~le~f~~LE~la~~Lpe-~s~llp~~a~mf~svGMC~qAV~a~Lr~s~-----pk-----aAv~tCv~LnQW~~a  897 (1189)
T KOG2041|consen  829 IECLYRLELFGELEVLARTLPE-DSELLPVMADMFTSVGMCDQAVEAYLRRSL-----PK-----AAVHTCVELNQWGEA  897 (1189)
T ss_pred             HHHHHHHHhhhhHHHHHHhcCc-ccchHHHHHHHHHhhchHHHHHHHHHhccC-----cH-----HHHHHHHHHHHHHHH
Confidence            3444444444444444444433 233445556666666666666665543221     11     234455556665555


Q ss_pred             HHHHH
Q 005268          353 IKIHA  357 (705)
Q Consensus       353 ~~~~~  357 (705)
                      .++-+
T Consensus       898 velaq  902 (1189)
T KOG2041|consen  898 VELAQ  902 (1189)
T ss_pred             HHHHH
Confidence            55433

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.12  E-value=0.015  Score=52.71  Aligned_cols=78  Identities=12%  Similarity=0.137  Sum_probs=47.9

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCC-cchHHHHH
Q 005268          401 PWNAIISCHGIHGQGDKALNFFRQMLDEGVRPD--HITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPH-LKHYGCMV  477 (705)
Q Consensus       401 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~--~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li  477 (705)
                      .|..+...+...|++++|+..|++.+.....|.  ..++..+...+...|++++|+..++.....   .|+ ...+..+.
T Consensus        37 ~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~---~~~~~~~~~~la  113 (168)
T CHL00033         37 TYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALER---NPFLPQALNNMA  113 (168)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CcCcHHHHHHHH
Confidence            356666667777888888888887776422221  235666667777777777777777766542   332 23344444


Q ss_pred             HHHH
Q 005268          478 DLFG  481 (705)
Q Consensus       478 ~~~~  481 (705)
                      ..+.
T Consensus       114 ~i~~  117 (168)
T CHL00033        114 VICH  117 (168)
T ss_pred             HHHH
Confidence            4444

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.11  E-value=0.0014  Score=51.41  Aligned_cols=80  Identities=13%  Similarity=0.223  Sum_probs=47.6

Q ss_pred             cCChHHHHHHHHHHHHcCCC-CCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCc-chHHHHHHHHHhcCCHHHH
Q 005268          412 HGQGDKALNFFRQMLDEGVR-PDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHL-KHYGCMVDLFGRAGHLGMA  489 (705)
Q Consensus       412 ~g~~~~A~~~~~~m~~~g~~-p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~-~~~~~li~~~~~~g~~~~A  489 (705)
                      +|+++.|+.+|+++.+.... |+...+..+..++.+.|++++|..+++. .   ...|.. .....+...+.+.|++++|
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~---~~~~~~~~~~~l~a~~~~~l~~y~eA   77 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-L---KLDPSNPDIHYLLARCLLKLGKYEEA   77 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-H---THHHCHHHHHHHHHHHHHHTT-HHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-h---CCCCCCHHHHHHHHHHHHHhCCHHHH
Confidence            56777888888887774321 1333444466777777777777777766 2   223322 3333446667777777777


Q ss_pred             HHHHHh
Q 005268          490 HNFIQN  495 (705)
Q Consensus       490 ~~~~~~  495 (705)
                      ++.+++
T Consensus        78 i~~l~~   83 (84)
T PF12895_consen   78 IKALEK   83 (84)
T ss_dssp             HHHHHH
T ss_pred             HHHHhc
Confidence            777654

>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=97.07  E-value=0.00033  Score=52.46  Aligned_cols=52  Identities=12%  Similarity=0.273  Sum_probs=35.4

Q ss_pred             hcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhC
Q 005268          514 IHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       514 ~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      ..|++++|+..++++++.+|+++.....++.+|.+.|++++|.++++.+...
T Consensus         3 ~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~   54 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRNPDNPEARLLLAQCYLKQGQYDEAEELLERLLKQ   54 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG
T ss_pred             hccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            4566777777777777777777777777777777777777777776665543

...

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.07  E-value=0.027  Score=49.66  Aligned_cols=148  Identities=11%  Similarity=0.073  Sum_probs=106.2

Q ss_pred             hcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCC-cCCcchHHHHHHHHHhcCCHHHH
Q 005268          411 IHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGI-KPHLKHYGCMVDLFGRAGHLGMA  489 (705)
Q Consensus       411 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~-~p~~~~~~~li~~~~~~g~~~~A  489 (705)
                      +.=+++..++-..+-.+  +.|....-..|..+....|+..+|...|++...  |+ .-|....-.+..+....+++.+|
T Consensus        68 q~ldP~R~~Rea~~~~~--~ApTvqnr~rLa~al~elGr~~EA~~hy~qals--G~fA~d~a~lLglA~Aqfa~~~~A~a  143 (251)
T COG4700          68 QKLDPERHLREATEELA--IAPTVQNRYRLANALAELGRYHEAVPHYQQALS--GIFAHDAAMLLGLAQAQFAIQEFAAA  143 (251)
T ss_pred             HhcChhHHHHHHHHHHh--hchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhc--cccCCCHHHHHHHHHHHHhhccHHHH
Confidence            33344444443333333  567776667788888888999999988887764  44 44666777777888888888888


Q ss_pred             HHHHHhC-CC-----CCCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHH
Q 005268          490 HNFIQNM-PV-----RPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLAR  563 (705)
Q Consensus       490 ~~~~~~~-~~-----~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  563 (705)
                      ...+++. +.     .||..  -.+...+...|..+.|+..|+.++.-.| ++..-...+..++++|+.+++..-+....
T Consensus       144 ~~tLe~l~e~~pa~r~pd~~--Ll~aR~laa~g~~a~Aesafe~a~~~yp-g~~ar~~Y~e~La~qgr~~ea~aq~~~v~  220 (251)
T COG4700         144 QQTLEDLMEYNPAFRSPDGH--LLFARTLAAQGKYADAESAFEVAISYYP-GPQARIYYAEMLAKQGRLREANAQYVAVV  220 (251)
T ss_pred             HHHHHHHhhcCCccCCCCch--HHHHHHHHhcCCchhHHHHHHHHHHhCC-CHHHHHHHHHHHHHhcchhHHHHHHHHHH
Confidence            8888776 22     24433  3566788899999999999999999888 45666667788899999999886665554


Q ss_pred             hC
Q 005268          564 DR  565 (705)
Q Consensus       564 ~~  565 (705)
                      +.
T Consensus       221 d~  222 (251)
T COG4700         221 DT  222 (251)
T ss_pred             HH
Confidence            43

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.06  E-value=0.45  Score=48.36  Aligned_cols=35  Identities=11%  Similarity=0.236  Sum_probs=26.9

Q ss_pred             hhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcc
Q 005268          297 VISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQG  334 (705)
Q Consensus       297 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~  334 (705)
                      +.++..++....+.++..+|-+.+.-+..   +.|+..
T Consensus       298 i~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~---ldp~~s  332 (549)
T PF07079_consen  298 IDRFGNLLSFKVKQVQTEEAKQYLALLKI---LDPRIS  332 (549)
T ss_pred             HHHHHHHHHHHHHHHhHHHHHHHHHHHHh---cCCcch
Confidence            45778888888888999998888877765   666543

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=97.04  E-value=0.00019  Score=44.74  Aligned_cols=32  Identities=25%  Similarity=0.451  Sum_probs=30.3

Q ss_pred             HHHHhccCCCCcchhhhhhhhhhhcCCcchHH
Q 005268          525 SDRLFEVDSENVGYYVLMSNIYANVGKWEGVD  556 (705)
Q Consensus       525 ~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~  556 (705)
                      ++++++++|+|+.+|..|+.+|...|++++|+
T Consensus         2 y~kAie~~P~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    2 YKKAIELNPNNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             hHHHHHHCCCCHHHHHHHHHHHHHCcCHHhhc
Confidence            68899999999999999999999999999986

>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=97.03  E-value=0.00073  Score=50.54  Aligned_cols=47  Identities=11%  Similarity=0.217  Sum_probs=21.7

Q ss_pred             cCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC
Q 005268          447 SGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM  496 (705)
Q Consensus       447 ~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~  496 (705)
                      .|++++|.++|+.+...   .| +...+..++.+|.+.|++++|.++++++
T Consensus         4 ~~~~~~A~~~~~~~l~~---~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~   51 (68)
T PF14559_consen    4 QGDYDEAIELLEKALQR---NPDNPEARLLLAQCYLKQGQYDEAEELLERL   51 (68)
T ss_dssp             TTHHHHHHHHHHHHHHH---TTTSHHHHHHHHHHHHHTT-HHHHHHHHHCC
T ss_pred             ccCHHHHHHHHHHHHHH---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            45555555555555432   22 3334444444444555555555444444

...

>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=96.95  E-value=0.0014  Score=49.15  Aligned_cols=64  Identities=14%  Similarity=0.196  Sum_probs=50.7

Q ss_pred             cchHHHHHHHHHhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcC-ChhHHHHHHHHHhccCC
Q 005268          470 LKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRPD-ASIWGALLGACRIHG-NMELGAVASDRLFEVDS  533 (705)
Q Consensus       470 ~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~g-~~~~a~~~~~~~~~~~p  533 (705)
                      ...|..+...+.+.|++++|+..|++. ...|+ ...|..+..++...| ++++|+..++++++++|
T Consensus         3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l~P   69 (69)
T PF13414_consen    3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKLDP   69 (69)
T ss_dssp             HHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHcCc
Confidence            446677777788888888888887766 34454 668888888999998 79999999999999887

...

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=96.93  E-value=0.012  Score=63.24  Aligned_cols=135  Identities=13%  Similarity=0.115  Sum_probs=98.2

Q ss_pred             CCCCCHHHHHHHHHHHhc-----cCcHHHHHHHHHHhHHhhCCcCCc-chHHHHHHHHHhc--------CCHHHHHHHHH
Q 005268          429 GVRPDHITFVSLLTACSH-----SGLVSEGQRYFHMMQEEFGIKPHL-KHYGCMVDLFGRA--------GHLGMAHNFIQ  494 (705)
Q Consensus       429 g~~p~~~t~~~ll~a~~~-----~g~~~~a~~~~~~m~~~~~~~p~~-~~~~~li~~~~~~--------g~~~~A~~~~~  494 (705)
                      +.+.|...|...+.+...     .+..+.|+.+|++..+   ..|+- ..|..+..++...        ++++.+.+..+
T Consensus       332 ~~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~---ldP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~  408 (517)
T PRK10153        332 GLPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILK---SEPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELD  408 (517)
T ss_pred             cCCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH---hCCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHH
Confidence            356677888888887543     2347799999998885   47864 3444443333221        23445555555


Q ss_pred             hC---C-CCCCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhCCC
Q 005268          495 NM---P-VRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDRGL  567 (705)
Q Consensus       495 ~~---~-~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  567 (705)
                      +.   + ...+..++..+.-.....|++++|...++++++++| +...|..++.+|...|+.++|...++++.....
T Consensus       409 ~a~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~p-s~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P  484 (517)
T PRK10153        409 NIVALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLEM-SWLNYVLLGKVYELKGDNRLAADAYSTAFNLRP  484 (517)
T ss_pred             HhhhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Confidence            53   1 233557788887777788999999999999999999 578999999999999999999999999877643

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=96.89  E-value=0.018  Score=50.71  Aligned_cols=107  Identities=17%  Similarity=0.151  Sum_probs=92.9

Q ss_pred             hHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhC---CCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCC--
Q 005268          460 MQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNM---PVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSE--  534 (705)
Q Consensus       460 m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~---~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~--  534 (705)
                      ..+...+.|++..-..|...+.+.|+..||...|++.   .+.-|....-.+.++....++..+|...++.+.+-.|.  
T Consensus        79 a~~~~~~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r  158 (251)
T COG4700          79 ATEELAIAPTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFR  158 (251)
T ss_pred             HHHHHhhchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccC
Confidence            3344467888888889999999999999999999987   35568888889999999999999999999999998875  


Q ss_pred             CcchhhhhhhhhhhcCCcchHHHHHHHHHhCC
Q 005268          535 NVGYYVLMSNIYANVGKWEGVDEVRSLARDRG  566 (705)
Q Consensus       535 ~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  566 (705)
                      .|.....++..|...|++++|..-|+...+.-
T Consensus       159 ~pd~~Ll~aR~laa~g~~a~Aesafe~a~~~y  190 (251)
T COG4700         159 SPDGHLLFARTLAAQGKYADAESAFEVAISYY  190 (251)
T ss_pred             CCCchHHHHHHHHhcCCchhHHHHHHHHHHhC
Confidence            56677889999999999999999999988753

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=96.87  E-value=0.011  Score=47.56  Aligned_cols=77  Identities=9%  Similarity=0.151  Sum_probs=60.0

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCC-CCCHHHHHHHHHHHhccC--------cHHHHHHHHHHhHHhhCCcCCcchHHH
Q 005268          405 IISCHGIHGQGDKALNFFRQMLDEGV-RPDHITFVSLLTACSHSG--------LVSEGQRYFHMMQEEFGIKPHLKHYGC  475 (705)
Q Consensus       405 li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~~t~~~ll~a~~~~g--------~~~~a~~~~~~m~~~~~~~p~~~~~~~  475 (705)
                      .|..+...+++.....+|+.+.+.|+ -|+..+|+.++.+..+..        ++-+.+.+++.|... +++|+.++|+.
T Consensus        31 ~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~-~lKP~~etYni  109 (120)
T PF08579_consen   31 NINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSN-KLKPNDETYNI  109 (120)
T ss_pred             HHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHh-ccCCcHHHHHH
Confidence            45555566899999999999999999 899999999998766532        345677788888765 78888888888


Q ss_pred             HHHHHHh
Q 005268          476 MVDLFGR  482 (705)
Q Consensus       476 li~~~~~  482 (705)
                      ++..+.+
T Consensus       110 vl~~Llk  116 (120)
T PF08579_consen  110 VLGSLLK  116 (120)
T ss_pred             HHHHHHH
Confidence            8876643

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 [, , ].

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=96.84  E-value=0.6  Score=46.40  Aligned_cols=155  Identities=12%  Similarity=0.153  Sum_probs=82.7

Q ss_pred             HHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccccchhHHhhcc-CchHHHHHHHHHHHHhCCCCchhHHHHHHHHHH
Q 005268          301 NTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHV-GALRQGIKIHARVIKNCLCFDVFVATCLVDMYG  379 (705)
Q Consensus       301 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~-~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~  379 (705)
                      ...+..|...|++..|-+.+.++-+                .|... |+++.|.+.|..+.+.               |.
T Consensus        98 ~~A~~~y~~~G~~~~aA~~~~~lA~----------------~ye~~~~d~e~Ai~~Y~~A~~~---------------y~  146 (282)
T PF14938_consen   98 EKAIEIYREAGRFSQAAKCLKELAE----------------IYEEQLGDYEKAIEYYQKAAEL---------------YE  146 (282)
T ss_dssp             HHHHHHHHHCT-HHHHHHHHHHHHH----------------HHCCTT--HHHHHHHHHHHHHH---------------HH
T ss_pred             HHHHHHHHhcCcHHHHHHHHHHHHH----------------HHHHHcCCHHHHHHHHHHHHHH---------------HH
Confidence            3456677777777777777766654                34444 6677777766665442               33


Q ss_pred             hcCCHHHHHHHHhhCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-----CHH-HHHHHHHHHhccCcHHHH
Q 005268          380 KCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRP-----DHI-TFVSLLTACSHSGLVSEG  453 (705)
Q Consensus       380 k~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-----~~~-t~~~ll~a~~~~g~~~~a  453 (705)
                      ..|....+..+           +..+...+.+.|++++|+++|++....-...     +.. .|...+-++...|++..|
T Consensus       147 ~e~~~~~a~~~-----------~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A  215 (282)
T PF14938_consen  147 QEGSPHSAAEC-----------LLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAA  215 (282)
T ss_dssp             HTT-HHHHHHH-----------HHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHH
T ss_pred             HCCChhhHHHH-----------HHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHH
Confidence            33333333332           2345566777778888888887776643221     111 233333356667788888


Q ss_pred             HHHHHHhHHhh-CCcCC--cchHHHHHHHHHh--cCCHHHHHHHHHhCC
Q 005268          454 QRYFHMMQEEF-GIKPH--LKHYGCMVDLFGR--AGHLGMAHNFIQNMP  497 (705)
Q Consensus       454 ~~~~~~m~~~~-~~~p~--~~~~~~li~~~~~--~g~~~~A~~~~~~~~  497 (705)
                      .+.++...... ++..+  -.....|++++-.  ...+++|..-|+.+.
T Consensus       216 ~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~~~~D~e~f~~av~~~d~~~  264 (282)
T PF14938_consen  216 RKALERYCSQDPSFASSREYKFLEDLLEAYEEGDVEAFTEAVAEYDSIS  264 (282)
T ss_dssp             HHHHHHHGTTSTTSTTSHHHHHHHHHHHHHHTT-CCCHHHHCHHHTTSS
T ss_pred             HHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHhCCHHHHHHHHHHHcccC
Confidence            88887765221 12112  1234455555533  235667777777664

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=96.82  E-value=0.018  Score=46.42  Aligned_cols=80  Identities=13%  Similarity=0.057  Sum_probs=66.8

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHHCCC-CCChhhHHhHHHHhhcCC--------ChHHHHHHHHHHHHhCCCCchhHH
Q 005268           97 WNAMISGYCQSGNAVEALDILDEMRLEGV-SMDPITVASILPVCARSD--------NILSGLLIHLYIVKHGLEFNLFVS  167 (705)
Q Consensus        97 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~~t~~~ll~~~~~~~--------~~~~a~~~~~~~~~~g~~~~~~~~  167 (705)
                      -...|..+...+++.....+|+.+++.|+ .|+..+|+.+|.+.++..        .+.....+++.|+..++.|+..+|
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            34556677777999999999999999999 899999999999887643        244577889999999999999999


Q ss_pred             HHHHHHHHc
Q 005268          168 NNLINMYAK  176 (705)
Q Consensus       168 ~~Li~~y~~  176 (705)
                      +.++..+.+
T Consensus       108 nivl~~Llk  116 (120)
T PF08579_consen  108 NIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHH
Confidence            999887654

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 [, , ].

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.80  E-value=0.0031  Score=64.22  Aligned_cols=61  Identities=7%  Similarity=-0.075  Sum_probs=31.2

Q ss_pred             chHHHHHHHHHhcCCHHHHHHHHHhC-CCCCCH----HHHHHHHHHHHhcCChhHHHHHHHHHhcc
Q 005268          471 KHYGCMVDLFGRAGHLGMAHNFIQNM-PVRPDA----SIWGALLGACRIHGNMELGAVASDRLFEV  531 (705)
Q Consensus       471 ~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~~----~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  531 (705)
                      ..++.+..+|.+.|++++|+..|++. .++|+.    .+|..+..+|...|+.++|+..+++++++
T Consensus        76 ~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         76 EDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            34455555555555555555555543 344442    23555555555555555555555555554

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=96.79  E-value=0.027  Score=48.96  Aligned_cols=91  Identities=11%  Similarity=0.024  Sum_probs=69.7

Q ss_pred             HHHHHHHhcCCHHHHHHHHhhCC---CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccC
Q 005268          373 CLVDMYGKCGRIDDAMSLFYQVP---RSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPD-HITFVSLLTACSHSG  448 (705)
Q Consensus       373 ~li~~y~k~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g  448 (705)
                      .+...+...|++++|..+|+-..   ..+..-|..|..++-..|++++|+..|......  .|| +..+-.+..++...|
T Consensus        40 ~~A~~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L--~~ddp~~~~~ag~c~L~lG  117 (157)
T PRK15363         40 RYAMQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQI--KIDAPQAPWAAAECYLACD  117 (157)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc--CCCCchHHHHHHHHHHHcC
Confidence            34445567889999999888766   334445888888888899999999999988884  454 467777888888899


Q ss_pred             cHHHHHHHHHHhHHhhC
Q 005268          449 LVSEGQRYFHMMQEEFG  465 (705)
Q Consensus       449 ~~~~a~~~~~~m~~~~~  465 (705)
                      +.+.|++.|+.....-+
T Consensus       118 ~~~~A~~aF~~Ai~~~~  134 (157)
T PRK15363        118 NVCYAIKALKAVVRICG  134 (157)
T ss_pred             CHHHHHHHHHHHHHHhc
Confidence            99999998887775433

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=96.78  E-value=0.069  Score=51.50  Aligned_cols=168  Identities=12%  Similarity=0.047  Sum_probs=97.8

Q ss_pred             HHHhcCCHHHHHHHHhhCCCCCcch------HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHhc--
Q 005268          377 MYGKCGRIDDAMSLFYQVPRSSSVP------WNAIISCHGIHGQGDKALNFFRQMLDEGVRPDH--ITFVSLLTACSH--  446 (705)
Q Consensus       377 ~y~k~g~~~~A~~~~~~~~~~~~~~------~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~t~~~ll~a~~~--  446 (705)
                      .+.+.|++++|.+.|+.+....+.+      .-.++.+|.+.+++++|+..|++.++.  .|+.  .-+...+.+.+.  
T Consensus        41 ~~~~~g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~--~P~~~~~~~a~Y~~g~~~~~  118 (243)
T PRK10866         41 QKLQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRL--NPTHPNIDYVLYMRGLTNMA  118 (243)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CcCCCchHHHHHHHHHhhhh
Confidence            3445677777777777766332222      223456667778888888888888773  3432  334333333321  


Q ss_pred             c---------------Cc---HHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhCCCCCCHHHHHHH
Q 005268          447 S---------------GL---VSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNMPVRPDASIWGAL  508 (705)
Q Consensus       447 ~---------------g~---~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l  508 (705)
                      .               .+   ..+|...|+.+.+.   -|+             ..-..+|...+..+...--..- -.+
T Consensus       119 ~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~---yP~-------------S~ya~~A~~rl~~l~~~la~~e-~~i  181 (243)
T PRK10866        119 LDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRG---YPN-------------SQYTTDATKRLVFLKDRLAKYE-LSV  181 (243)
T ss_pred             cchhhhhhccCCCccccCHHHHHHHHHHHHHHHHH---CcC-------------ChhHHHHHHHHHHHHHHHHHHH-HHH
Confidence            1               01   22344444444433   232             2223344433333210000000 134


Q ss_pred             HHHHHhcCChhHHHHHHHHHhccCCCCc---chhhhhhhhhhhcCCcchHHHHHHHHH
Q 005268          509 LGACRIHGNMELGAVASDRLFEVDSENV---GYYVLMSNIYANVGKWEGVDEVRSLAR  563 (705)
Q Consensus       509 l~~~~~~g~~~~a~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~a~~~~~~m~  563 (705)
                      ..-|.+.|.+.-|..-++.+++--|+.+   .+...+..+|...|..++|..+.....
T Consensus       182 a~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        182 AEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             HHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence            4558888999999999999999877643   456678899999999999998877654

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=96.78  E-value=1  Score=48.22  Aligned_cols=381  Identities=15%  Similarity=0.112  Sum_probs=199.0

Q ss_pred             hhHHHHHhccCCCCCcchHHHHHHHHHhCCChhHHHHHHHHHHH-CCCCCC--------hhhHHhHHHHhhcCCChHHHH
Q 005268           79 ANVARKLFDDMPVRDSGSWNAMISGYCQSGNAVEALDILDEMRL-EGVSMD--------PITVASILPVCARSDNILSGL  149 (705)
Q Consensus        79 ~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-~g~~p~--------~~t~~~ll~~~~~~~~~~~a~  149 (705)
                      +++|.+..+.-  |.+..|..+.....+.-.++-|...|-+... .|++.-        ...-.+-+.  +--|++++|.
T Consensus       679 ledA~qfiEdn--PHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY~Gik~vkrl~~i~s~~~q~aei~--~~~g~feeae  754 (1189)
T KOG2041|consen  679 LEDAIQFIEDN--PHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKLVKRLRTIHSKEQQRAEIS--AFYGEFEEAE  754 (1189)
T ss_pred             hHHHHHHHhcC--CchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhHHHHhhhhhhHHHHhHhHh--hhhcchhHhh
Confidence            45555555543  3445677777666666666666666655432 122110        000011111  2347888888


Q ss_pred             HHHHHHHHhCCCCchhHHHHHHHHHHccCCHHHHHHHHhccCCC--C---eehHHHHHHHHHcCCChhhHHHHHHHHHHC
Q 005268          150 LIHLYIVKHGLEFNLFVSNNLINMYAKFGMMRHALRVFDQMMER--D---VVSWNSIIAAYEQSNDPITAHGFFTTMQQA  224 (705)
Q Consensus       150 ~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~~--~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  224 (705)
                      +++-.+-++.+         -|.++.+.|++-...++++.-...  |   ...|+.+...+.....+++|.+.|..-...
T Consensus       755 k~yld~drrDL---------Aielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~~~~  825 (1189)
T KOG2041|consen  755 KLYLDADRRDL---------AIELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYCGDT  825 (1189)
T ss_pred             hhhhccchhhh---------hHHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccch
Confidence            88877665532         367778888888887777653321  1   246778888887777888888777654211


Q ss_pred             CCCCChhhHHHHHHHHHccCChhhHHHHHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHH
Q 005268          225 GIQPDLLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDVISWNTLI  304 (705)
Q Consensus       225 g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li  304 (705)
                               ...+.++.....+++-+.+-..      ++.+....-.+.+|+.+.|.-++|.+.|-+-..|.     ..+
T Consensus       826 ---------e~~~ecly~le~f~~LE~la~~------Lpe~s~llp~~a~mf~svGMC~qAV~a~Lr~s~pk-----aAv  885 (1189)
T KOG2041|consen  826 ---------ENQIECLYRLELFGELEVLART------LPEDSELLPVMADMFTSVGMCDQAVEAYLRRSLPK-----AAV  885 (1189)
T ss_pred             ---------HhHHHHHHHHHhhhhHHHHHHh------cCcccchHHHHHHHHHhhchHHHHHHHHHhccCcH-----HHH
Confidence                     1233444444443333222221      67778888889999999999999988886655442     345


Q ss_pred             HHHHHcCChhHHHHHHHhhhhcCCCCCCcccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCH
Q 005268          305 TGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRI  384 (705)
Q Consensus       305 ~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~  384 (705)
                      ..|...++|.+|.++-++..-     |...|+   +.        ..+-+++...         .+ .--|..+.+.|+.
T Consensus       886 ~tCv~LnQW~~avelaq~~~l-----~qv~tl---ia--------k~aaqll~~~---------~~-~eaIe~~Rka~~~  939 (1189)
T KOG2041|consen  886 HTCVELNQWGEAVELAQRFQL-----PQVQTL---IA--------KQAAQLLADA---------NH-MEAIEKDRKAGRH  939 (1189)
T ss_pred             HHHHHHHHHHHHHHHHHhccc-----hhHHHH---HH--------HHHHHHHhhc---------ch-HHHHHHhhhcccc
Confidence            667788889999888766543     332221   11        1111222111         01 1235667778887


Q ss_pred             HHHHHHHhhCCCC---CcchHHHHHHHHHh----cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHH
Q 005268          385 DDAMSLFYQVPRS---SSVPWNAIISCHGI----HGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYF  457 (705)
Q Consensus       385 ~~A~~~~~~~~~~---~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~  457 (705)
                      -+|.+++.+|.++   ..+++..+=..|.-    ..+..+++.-.++....|...+...       +...|...++-++.
T Consensus       940 ~daarll~qmae~e~~K~~p~lr~KklYVL~AlLvE~h~~~ik~~~~~~~~g~~~dat~-------lles~~l~~~~ri~ 1012 (1189)
T KOG2041|consen  940 LDAARLLSQMAEREQEKYVPYLRLKKLYVLGALLVENHRQTIKELRKIDKHGFLEDATD-------LLESGLLAEQSRIL 1012 (1189)
T ss_pred             hhHHHHHHHHhHHHhhccCCHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCcchhhhh-------hhhhhhhhhHHHHH
Confidence            7777777777622   23333332222221    1123334444444444443322221       12223333333333


Q ss_pred             HHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhCC----CCCCHHHHHHHHHHHHhcCChhHHHHHHHHHh
Q 005268          458 HMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNMP----VRPDASIWGALLGACRIHGNMELGAVASDRLF  529 (705)
Q Consensus       458 ~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~----~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~  529 (705)
                      +..-+    -....|+-.|..--...|+.+.|+.---.+.    +-|...+|..|.-+-+....+.-.-++|-++.
T Consensus      1013 ~n~Wr----gAEAyHFmilAQrql~eg~v~~Al~Tal~L~DYEd~lpP~eiySllALaaca~raFGtCSKAfmkLe 1084 (1189)
T KOG2041|consen 1013 ENTWR----GAEAYHFMILAQRQLFEGRVKDALQTALILSDYEDFLPPAEIYSLLALAACAVRAFGTCSKAFMKLE 1084 (1189)
T ss_pred             Hhhhh----hHHHHHHHHHHHHHHHhchHHHHHHHHhhhccHhhcCCHHHHHHHHHHHHhhhhhhhhhHHHHHHHH
Confidence            22111    1123345555555667788888876533332    23445555544433333333433444444433

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=96.76  E-value=0.018  Score=59.43  Aligned_cols=116  Identities=12%  Similarity=0.064  Sum_probs=65.4

Q ss_pred             CcccccchhHHhhccCchHHHHHHHHHHHHh--CCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCC----CCCcchHHHH
Q 005268          332 NQGTYVSILPAYSHVGALRQGIKIHARVIKN--CLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVP----RSSSVPWNAI  405 (705)
Q Consensus       332 ~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~--g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~----~~~~~~~~~l  405 (705)
                      +...+..+++.+....+++.+..++-.....  ....-..+..++|..|.+.|..+++..+++.=.    =+|..++|.|
T Consensus        65 S~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n~L  144 (429)
T PF10037_consen   65 SSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFNLL  144 (429)
T ss_pred             cHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHHHH
Confidence            5555556666666666666666666555443  222223333466666666666666666655433    2555556666


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcc
Q 005268          406 ISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHS  447 (705)
Q Consensus       406 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~  447 (705)
                      +..+.+.|++..|.++...|...+...+..|+...+.+|.+-
T Consensus       145 md~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  145 MDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            666666666666666666666555555555555555554443

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 [].

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.76  E-value=0.32  Score=45.63  Aligned_cols=232  Identities=11%  Similarity=0.036  Sum_probs=131.9

Q ss_pred             hhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccccchhHHh-hccCc--hHHHHHHHHHHHHhCCCCchhHHHH
Q 005268          297 VISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAY-SHVGA--LRQGIKIHARVIKNCLCFDVFVATC  373 (705)
Q Consensus       297 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~-~~~~~--~~~a~~~~~~~~~~g~~~~~~~~~~  373 (705)
                      ...|+.-...+++....++|..-+....+..  .||. -|...=..+ .+.|.  +-..+-+|..+...-    ..-+++
T Consensus        69 lq~wT~r~~~l~kLR~~~~a~~EL~~f~~lD--~pdl-~Yey~p~iyp~rrGSmVPFsmR~lhAe~~~~l----gnpqes  141 (366)
T KOG2796|consen   69 LQLWTVRLALLVKLRLFQNAEMELEPFGNLD--QPDL-YYEYYPHVYPGRRGSMVPFSMRILHAELQQYL----GNPQES  141 (366)
T ss_pred             HHHHHHHHHHHHHHhhhHHHHhhhhhhccCC--Ccce-eeeeccccCCCCcCccccHHHHHHHHHHHHhc----CCcHHH
Confidence            3456666777777777777765555443311  1111 111100000 11121  122334444444421    112456


Q ss_pred             HHHHHHhcCCHHHHHHHHhhCCC--CCcch--------HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 005268          374 LVDMYGKCGRIDDAMSLFYQVPR--SSSVP--------WNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTA  443 (705)
Q Consensus       374 li~~y~k~g~~~~A~~~~~~~~~--~~~~~--------~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a  443 (705)
                      |...|.-..-+++-...|+.-..  ..+.-        -+.++..+.-+|.+.-.+.++++.++...+-++.....|.+.
T Consensus       142 LdRl~~L~~~V~~ii~~~e~~~~~ESsv~lW~KRl~~Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~  221 (366)
T KOG2796|consen  142 LDRLHKLKTVVSKILANLEQGLAEESSIRLWRKRLGRVMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRI  221 (366)
T ss_pred             HHHHHHHHHHHHHHHHHHHhccchhhHHHHHHHHHHHHHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHH
Confidence            66666655555555555554332  22222        355666666678888888899999987655566777888888


Q ss_pred             HhccCcHHHHHHHHHHhHHhhCCcCCcchHH-----HHHHHHHhcCCHHHHHHHHHhCCCC--CCHHHHHHHHHHHHhcC
Q 005268          444 CSHSGLVSEGQRYFHMMQEEFGIKPHLKHYG-----CMVDLFGRAGHLGMAHNFIQNMPVR--PDASIWGALLGACRIHG  516 (705)
Q Consensus       444 ~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~-----~li~~~~~~g~~~~A~~~~~~~~~~--p~~~~~~~ll~~~~~~g  516 (705)
                      -.+.|+.+.|..+|+...+. .-..+....+     .+...|.-+.++.+|...+.+.+..  .|+..-|+-.-...-.|
T Consensus       222 ~MQ~GD~k~a~~yf~~vek~-~~kL~~~q~~~~V~~n~a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg  300 (366)
T KOG2796|consen  222 SMQIGDIKTAEKYFQDVEKV-TQKLDGLQGKIMVLMNSAFLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLG  300 (366)
T ss_pred             HHhcccHHHHHHHHHHHHHH-HhhhhccchhHHHHhhhhhheecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHH
Confidence            88999999999999977654 2222322333     3334455666778888888777422  23444444433444567


Q ss_pred             ChhHHHHHHHHHhccCCCCc
Q 005268          517 NMELGAVASDRLFEVDSENV  536 (705)
Q Consensus       517 ~~~~a~~~~~~~~~~~p~~~  536 (705)
                      +...|.+..+.+.+..|...
T Consensus       301 ~l~DAiK~~e~~~~~~P~~~  320 (366)
T KOG2796|consen  301 KLKDALKQLEAMVQQDPRHY  320 (366)
T ss_pred             HHHHHHHHHHHHhccCCccc
Confidence            77788888888888877543

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=96.75  E-value=0.033  Score=46.61  Aligned_cols=92  Identities=15%  Similarity=0.198  Sum_probs=67.2

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHH
Q 005268          404 AIISCHGIHGQGDKALNFFRQMLDEGVRPDH--ITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLF  480 (705)
Q Consensus       404 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~  480 (705)
                      .+..++-..|+.++|+.+|++.+..|+....  ..+..+.+++...|++++|..+++.....+.-.+ +......+..++
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            3456677889999999999999998876653  4677788889999999999999998876532111 112223344567


Q ss_pred             HhcCCHHHHHHHHHh
Q 005268          481 GRAGHLGMAHNFIQN  495 (705)
Q Consensus       481 ~~~g~~~~A~~~~~~  495 (705)
                      ...|+.+||++.+-.
T Consensus        86 ~~~gr~~eAl~~~l~  100 (120)
T PF12688_consen   86 YNLGRPKEALEWLLE  100 (120)
T ss_pred             HHCCCHHHHHHHHHH
Confidence            888999998887744

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=96.71  E-value=0.022  Score=56.46  Aligned_cols=85  Identities=24%  Similarity=0.255  Sum_probs=62.6

Q ss_pred             CChhhHHHHHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCCCC------ChhHHHHHHHHHHHcCChhHHH
Q 005268          244 NDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVK------DVISWNTLITGYAQNGLASEAI  317 (705)
Q Consensus       244 ~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~------~~~~~~~li~~~~~~g~~~~A~  317 (705)
                      ++.+.|..||+..++.  ++.+...|...++.+.+.++.+.|+.+|++....      ....|...+.--.+.|+.+.+.
T Consensus        50 ~d~~~A~~Ife~glk~--f~~~~~~~~~Y~~~l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~  127 (280)
T PF05843_consen   50 KDPKRARKIFERGLKK--FPSDPDFWLEYLDFLIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVR  127 (280)
T ss_dssp             S-HHHHHHHHHHHHHH--HTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHH
T ss_pred             CCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHH
Confidence            3444455555555554  7888899999999999999999999999876533      3357999999888999999999


Q ss_pred             HHHHhhhhcCCCCCCc
Q 005268          318 EVFQMMEECNEINPNQ  333 (705)
Q Consensus       318 ~~~~~m~~~~~~~p~~  333 (705)
                      ++.+++.+   ..|+.
T Consensus       128 ~v~~R~~~---~~~~~  140 (280)
T PF05843_consen  128 KVEKRAEE---LFPED  140 (280)
T ss_dssp             HHHHHHHH---HTTTS
T ss_pred             HHHHHHHH---Hhhhh
Confidence            99988887   45553

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.

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=96.69  E-value=0.026  Score=58.23  Aligned_cols=81  Identities=11%  Similarity=0.078  Sum_probs=46.9

Q ss_pred             HHHHHHHHHcCCChhhHHHHHHHHHHCCCCCChhhHHHHHHHHHccCChhhHHHHHHHHHHhcCCCchhHHHHHHHHHHH
Q 005268          198 WNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYA  277 (705)
Q Consensus       198 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~  277 (705)
                      ..++|+.|.+.|..++++.+++.=..-|+-||.+|++.++..+...|++..|.++...++..+ ...+..++..-+..+.
T Consensus       106 ~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n~Lmd~fl~~~~~~~A~~V~~~~~lQe-~~~~~~t~~L~l~~~~  184 (429)
T PF10037_consen  106 HHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFNLLMDHFLKKGNYKSAAKVATEMMLQE-EFDNPSTQALALYSCY  184 (429)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHHHHHHHHhhcccHHHHHHHHHHHHHhh-ccCCchHHHHHHHHHH
Confidence            345666666666666666666666666666666666666666666666666666666665555 3344444443333344


Q ss_pred             hc
Q 005268          278 KL  279 (705)
Q Consensus       278 ~~  279 (705)
                      +.
T Consensus       185 ~~  186 (429)
T PF10037_consen  185 KY  186 (429)
T ss_pred             Hh
Confidence            43

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 [].

>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=96.68  E-value=0.017  Score=52.73  Aligned_cols=96  Identities=16%  Similarity=0.208  Sum_probs=67.2

Q ss_pred             HHhccC--CCCCcchHHHHHHHHHhC-----CChhHHHHHHHHHHHCCCCCChhhHHhHHHHhhcC--------------
Q 005268           84 KLFDDM--PVRDSGSWNAMISGYCQS-----GNAVEALDILDEMRLEGVSMDPITVASILPVCARS--------------  142 (705)
Q Consensus        84 ~~f~~~--~~~~~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~--------------  142 (705)
                      ..|+..  ..+|..+|..++..|.+.     |..+=....+..|.+-|+.-|..+|+.||+.+=+.              
T Consensus        35 ~~f~~~~~~~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~h  114 (228)
T PF06239_consen   35 ELFERAPGQAKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMH  114 (228)
T ss_pred             HHHHHHhhccccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhcc
Confidence            344444  345666666666666543     55565666677777778888888888888776542              


Q ss_pred             --CChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHccCC
Q 005268          143 --DNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGM  179 (705)
Q Consensus       143 --~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~  179 (705)
                        .+-+-|..++++|...|+-||..++..|++.+++.+.
T Consensus       115 yp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  115 YPRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             CcHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence              2345688889999999999999999988888866554

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=96.67  E-value=0.0028  Score=42.38  Aligned_cols=42  Identities=19%  Similarity=0.274  Sum_probs=37.2

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhh
Q 005268          503 SIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSN  544 (705)
Q Consensus       503 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~  544 (705)
                      .+|..+..++...|++++|++.++++++.+|+|+..+..|+.
T Consensus         2 ~~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~~~~a~~~La~   43 (44)
T PF13428_consen    2 AAWLALARAYRRLGQPDEAERLLRRALALDPDDPEAWRALAQ   43 (44)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCHHHHHHhhh
Confidence            357888999999999999999999999999999988877764

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=96.63  E-value=0.97  Score=46.05  Aligned_cols=72  Identities=17%  Similarity=0.170  Sum_probs=57.4

Q ss_pred             HHHHHhCCCCC----CHHHHHHHHHH--HHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHH
Q 005268          490 HNFIQNMPVRP----DASIWGALLGA--CRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLA  562 (705)
Q Consensus       490 ~~~~~~~~~~p----~~~~~~~ll~~--~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  562 (705)
                      ..++++.++.|    +...-|.|..|  ...+|++.++.....-+.++.| ++.+|.+++-.+....+++||..++...
T Consensus       444 e~fi~e~gl~~i~i~e~eian~LaDAEyLysqgey~kc~~ys~WL~~iaP-S~~~~RLlGl~l~e~k~Y~eA~~~l~~L  521 (549)
T PF07079_consen  444 EDFITEVGLTPITISEEEIANFLADAEYLYSQGEYHKCYLYSSWLTKIAP-SPQAYRLLGLCLMENKRYQEAWEYLQKL  521 (549)
T ss_pred             HHHHHhcCCCcccccHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCC-cHHHHHHHHHHHHHHhhHHHHHHHHHhC
Confidence            34455555544    34456666665  4689999999999999999999 8899999999999999999999998764

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.54  E-value=0.19  Score=50.80  Aligned_cols=160  Identities=18%  Similarity=0.142  Sum_probs=99.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHhhCCCC---Ccch----HHHHHHHHHh---cCChHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 005268          373 CLVDMYGKCGRIDDAMSLFYQVPRS---SSVP----WNAIISCHGI---HGQGDKALNFFRQMLDEGVRPDHITFVSLLT  442 (705)
Q Consensus       373 ~li~~y~k~g~~~~A~~~~~~~~~~---~~~~----~~~li~~~~~---~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~  442 (705)
                      .++-.|....+++...++.+.+...   ++..    -....-++-+   .|+.++|++++..+....-.+++.|+..+..
T Consensus       146 ~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL~GR  225 (374)
T PF13281_consen  146 NLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGLLGR  225 (374)
T ss_pred             HHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHHHHH
Confidence            3444577788888888888877633   1111    1223344555   7888999999988776666777788877766


Q ss_pred             HHhc---------cCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHH----HHHHH---Hh----C-CCCC-
Q 005268          443 ACSH---------SGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGM----AHNFI---QN----M-PVRP-  500 (705)
Q Consensus       443 a~~~---------~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~----A~~~~---~~----~-~~~p-  500 (705)
                      .|-.         ....++|+..|.+.   +.+.|+..+--.++-++...|.-.+    ..++-   ..    - ...+ 
T Consensus       226 IyKD~~~~s~~~d~~~ldkAi~~Y~kg---Fe~~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~~~  302 (374)
T PF13281_consen  226 IYKDLFLESNFTDRESLDKAIEWYRKG---FEIEPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLEKM  302 (374)
T ss_pred             HHHHHHHHcCccchHHHHHHHHHHHHH---HcCCccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhcccccc
Confidence            5532         23467777776643   4566765554444555555553222    22221   11    0 1223 


Q ss_pred             -CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCC
Q 005268          501 -DASIWGALLGACRIHGNMELGAVASDRLFEVDSEN  535 (705)
Q Consensus       501 -~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  535 (705)
                       |--.+.+++.++.-.||.+.|.+++++++.+.|+.
T Consensus       303 ~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~~~~  338 (374)
T PF13281_consen  303 QDYWDVATLLEASVLAGDYEKAIQAAEKAFKLKPPA  338 (374)
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCcc
Confidence             33445788888999999999999999999888743

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.54  E-value=0.01  Score=57.72  Aligned_cols=61  Identities=10%  Similarity=-0.085  Sum_probs=31.9

Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHhccCCCCc---chhhhhhhhhhhcCCcchHHHHHHHHHhC
Q 005268          505 WGALLGACRIHGNMELGAVASDRLFEVDSENV---GYYVLMSNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       505 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      +--+...+...|++++|...|+++++..|+++   .++..++.+|...|++++|.++++...+.
T Consensus       183 ~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        183 NYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGVIMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            33445555555555555555555555555432   23333455555556666666555555443

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.53  E-value=0.14  Score=47.86  Aligned_cols=167  Identities=11%  Similarity=0.054  Sum_probs=111.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhcCCC--CChh--------HHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccccc
Q 005268          269 GNAVVDMYAKLGIINSACAVFEGLPV--KDVI--------SWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVS  338 (705)
Q Consensus       269 ~~~li~~y~~~g~~~~A~~~f~~~~~--~~~~--------~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~  338 (705)
                      +++|...|.-..-+++-...|+.-..  ..+.        .-+.++..+.-.|.+.-.+.++.+..+ ..-.-++...+.
T Consensus       139 qesLdRl~~L~~~V~~ii~~~e~~~~~ESsv~lW~KRl~~Vmy~~~~~llG~kEy~iS~d~~~~vi~-~~~e~~p~L~s~  217 (366)
T KOG2796|consen  139 QESLDRLHKLKTVVSKILANLEQGLAEESSIRLWRKRLGRVMYSMANCLLGMKEYVLSVDAYHSVIK-YYPEQEPQLLSG  217 (366)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhccchhhHHHHHHHHHHHHHHHHHHHHhcchhhhhhHHHHHHHHH-hCCcccHHHHHH
Confidence            45666666655555555555554332  2222        335566666667788888888888887 433446666777


Q ss_pred             hhHHhhccCchHHHHHHHHHHHHhCCC-----CchhHHHHHHHHHHhcCCHHHHHHHHhhCCCC---CcchHHHHHHHHH
Q 005268          339 ILPAYSHVGALRQGIKIHARVIKNCLC-----FDVFVATCLVDMYGKCGRIDDAMSLFYQVPRS---SSVPWNAIISCHG  410 (705)
Q Consensus       339 ll~a~~~~~~~~~a~~~~~~~~~~g~~-----~~~~~~~~li~~y~k~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~  410 (705)
                      +.+...+.||.+.+...++...+..-.     ....+.......|.-.+++..|...|.+++..   |++.-|.-.-+..
T Consensus       218 Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcll  297 (366)
T KOG2796|consen  218 LGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSAFLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLL  297 (366)
T ss_pred             HHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhhhheecccchHHHHHHHhhccccCCCchhhhchHHHHHH
Confidence            788888899999999999977764323     33334444445566678888888889888744   4444666666666


Q ss_pred             hcCChHHHHHHHHHHHHcCCCCCHHHHH
Q 005268          411 IHGQGDKALNFFRQMLDEGVRPDHITFV  438 (705)
Q Consensus       411 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~  438 (705)
                      -.|+..+|++..+.|.+  ..|...+-+
T Consensus       298 Ylg~l~DAiK~~e~~~~--~~P~~~l~e  323 (366)
T KOG2796|consen  298 YLGKLKDALKQLEAMVQ--QDPRHYLHE  323 (366)
T ss_pred             HHHHHHHHHHHHHHHhc--cCCccchhh
Confidence            67899999999999998  566655444

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=96.47  E-value=0.25  Score=49.26  Aligned_cols=92  Identities=16%  Similarity=0.160  Sum_probs=45.1

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHH----cCC-CCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHh---h-CCcCCcch
Q 005268          402 WNAIISCHGIHGQGDKALNFFRQMLD----EGV-RPDHITFVSLLTACSHSGLVSEGQRYFHMMQEE---F-GIKPHLKH  472 (705)
Q Consensus       402 ~~~li~~~~~~g~~~~A~~~~~~m~~----~g~-~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~---~-~~~p~~~~  472 (705)
                      +..+..++.-.|+++.|.+.|+.-..    .|- .....+..+|.+.|.-...++.|+.++.+-...   . ...-....
T Consensus       238 ~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~Ra  317 (639)
T KOG1130|consen  238 HSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRA  317 (639)
T ss_pred             hcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHH
Confidence            33445555556666666666654432    121 112334556666666667777777777643211   0 01112234


Q ss_pred             HHHHHHHHHhcCCHHHHHHHH
Q 005268          473 YGCMVDLFGRAGHLGMAHNFI  493 (705)
Q Consensus       473 ~~~li~~~~~~g~~~~A~~~~  493 (705)
                      |.+|..+|...|..++|+.+.
T Consensus       318 cwSLgna~~alg~h~kAl~fa  338 (639)
T KOG1130|consen  318 CWSLGNAFNALGEHRKALYFA  338 (639)
T ss_pred             HHHHHHHHHhhhhHHHHHHHH
Confidence            444555555555555554443

>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=96.45  E-value=0.021  Score=52.05  Aligned_cols=89  Identities=16%  Similarity=0.264  Sum_probs=62.3

Q ss_pred             CCCcchHHHHHHHHHh-----cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcc----------------CcHHHHH
Q 005268          396 RSSSVPWNAIISCHGI-----HGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHS----------------GLVSEGQ  454 (705)
Q Consensus       396 ~~~~~~~~~li~~~~~-----~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~----------------g~~~~a~  454 (705)
                      .++..+|..++..|.+     .|..+=....++.|.+-|+.-|..+|+.||..+=+.                .+-+-|+
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            3444444444444433     356666666777788888888888888888776542                2346688


Q ss_pred             HHHHHhHHhhCCcCCcchHHHHHHHHHhcCC
Q 005268          455 RYFHMMQEEFGIKPHLKHYGCMVDLFGRAGH  485 (705)
Q Consensus       455 ~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~  485 (705)
                      +++++|.. +|+.||.+++..+++.+++.+.
T Consensus       124 ~lL~qME~-~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  124 DLLEQMEN-NGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             HHHHHHHH-cCCCCcHHHHHHHHHHhccccH
Confidence            89999975 4999999999999999887775

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=96.40  E-value=0.072  Score=44.59  Aligned_cols=105  Identities=13%  Similarity=0.105  Sum_probs=61.2

Q ss_pred             HHHHHHcCCChhhHHHHHHHHHHCCCCCCh--hhHHHHHHHHHccCChhhHHHHHHHHHHhcCCCc---hhHHHHHHHHH
Q 005268          201 IIAAYEQSNDPITAHGFFTTMQQAGIQPDL--LTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFME---DVIIGNAVVDM  275 (705)
Q Consensus       201 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~---~~~~~~~li~~  275 (705)
                      +...+-..|+.++|+.+|++....|...+.  ..+..+-+.+...|+++++..+++.....  +|.   +..+...+.-.
T Consensus         7 ~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~--~p~~~~~~~l~~f~Al~   84 (120)
T PF12688_consen    7 LAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEE--FPDDELNAALRVFLALA   84 (120)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCccccHHHHHHHHHH
Confidence            345666778888888888888887766542  24555566666777777777777766654  222   22333333345


Q ss_pred             HHhcCCHHHHHHHHhcCCCCChhHHHHHHHHH
Q 005268          276 YAKLGIINSACAVFEGLPVKDVISWNTLITGY  307 (705)
Q Consensus       276 y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~  307 (705)
                      +...|+.++|...+-....++...|.--|..|
T Consensus        85 L~~~gr~~eAl~~~l~~la~~~~~y~ra~~~y  116 (120)
T PF12688_consen   85 LYNLGRPKEALEWLLEALAETLPRYRRAIRFY  116 (120)
T ss_pred             HHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55666666666665443333333444444333

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=96.37  E-value=0.0087  Score=59.13  Aligned_cols=129  Identities=10%  Similarity=0.087  Sum_probs=90.6

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHh---HHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC-------CC-CCCHH
Q 005268          436 TFVSLLTACSHSGLVSEGQRYFHMM---QEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM-------PV-RPDAS  503 (705)
Q Consensus       436 t~~~ll~a~~~~g~~~~a~~~~~~m---~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-------~~-~p~~~  503 (705)
                      .|..|.+.|.-.|++++|+..++.-   .+.+|-.. ....++.+.+.+.-.|+++.|.+.++..       +. .-...
T Consensus       197 a~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEAQ  276 (639)
T KOG1130|consen  197 AYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEAQ  276 (639)
T ss_pred             hhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHHH
Confidence            5666666667788899998877642   23344333 2356778888888899999998888654       11 12344


Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHhcc----C--CCCcchhhhhhhhhhhcCCcchHHHHHHHHHh
Q 005268          504 IWGALLGACRIHGNMELGAVASDRLFEV----D--SENVGYYVLMSNIYANVGKWEGVDEVRSLARD  564 (705)
Q Consensus       504 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~----~--p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  564 (705)
                      +.-+|.+.|....+++.|+..+.+-+.+    +  .....++..|+++|...|..+.|..+.+...+
T Consensus       277 scYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~  343 (639)
T KOG1130|consen  277 SCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLR  343 (639)
T ss_pred             HHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            5667888888888889998888775543    2  23456678899999999999999877766543

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.33  E-value=0.01  Score=44.96  Aligned_cols=63  Identities=13%  Similarity=0.204  Sum_probs=50.3

Q ss_pred             HHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhh
Q 005268          478 DLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYV  540 (705)
Q Consensus       478 ~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~  540 (705)
                      ..|.+.+++++|.+.++++ ...| +...|......+...|++++|...++++++..|+++....
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p~~~~~~~   67 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALELSPDDPDARA   67 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCCCcHHHHH
Confidence            5677888888888888877 3445 4667788888899999999999999999999997765544

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.28  E-value=0.023  Score=56.71  Aligned_cols=84  Identities=14%  Similarity=0.134  Sum_probs=69.9

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhCCCccCCceeEEEECCE
Q 005268          502 ASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDRGLKKTPGWSSIEVNNK  581 (705)
Q Consensus       502 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~s~~~~~~~  581 (705)
                      ...++.|...|.+.+++..|+....++++++|+|..+...-+.+|...|+++.|+..|+++.+.                
T Consensus       257 ~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~----------------  320 (397)
T KOG0543|consen  257 LACHLNLAACYLKLKEYKEAIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKALKL----------------  320 (397)
T ss_pred             HHHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHHHHh----------------
Confidence            3456677778889999999999999999999999999999999999999999999999999875                


Q ss_pred             EEEEEeCCCCCCCcHHHHHHHHHHHHHHHh
Q 005268          582 VDIFYTGNRTHPKYEKIYDELRNLTAKMKS  611 (705)
Q Consensus       582 ~~~~~~~~~~~~~~~~~~~~~~~l~~~m~~  611 (705)
                                .|..+.+..++..+.+++++
T Consensus       321 ----------~P~Nka~~~el~~l~~k~~~  340 (397)
T KOG0543|consen  321 ----------EPSNKAARAELIKLKQKIRE  340 (397)
T ss_pred             ----------CCCcHHHHHHHHHHHHHHHH
Confidence                      34456666666666666654

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=96.28  E-value=1.1  Score=42.53  Aligned_cols=192  Identities=18%  Similarity=0.167  Sum_probs=95.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhhCC-----CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHH-H
Q 005268          370 VATCLVDMYGKCGRIDDAMSLFYQVP-----RSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLT-A  443 (705)
Q Consensus       370 ~~~~li~~y~k~g~~~~A~~~~~~~~-----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~-a  443 (705)
                      ........+...+.+..+...+....     ......+......+...+++..+...+.........+. ........ +
T Consensus        61 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~  139 (291)
T COG0457          61 LLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDPD-LAEALLALGA  139 (291)
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCcc-hHHHHHHHHH
Confidence            33444444444555555544444432     12222244444444455555556666555555322221 11111112 4


Q ss_pred             HhccCcHHHHHHHHHHhHHhhCCcC----CcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCCC--HHHHHHHHHHHHhcC
Q 005268          444 CSHSGLVSEGQRYFHMMQEEFGIKP----HLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRPD--ASIWGALLGACRIHG  516 (705)
Q Consensus       444 ~~~~g~~~~a~~~~~~m~~~~~~~p----~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~--~~~~~~ll~~~~~~g  516 (705)
                      +...|+++.+...+.....   ..|    ....+......+...++.++|...+.+. ...|+  ...+..+...+...+
T Consensus       140 ~~~~~~~~~a~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  216 (291)
T COG0457         140 LYELGDYEEALELYEKALE---LDPELNELAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEALLNLGLLYLKLG  216 (291)
T ss_pred             HHHcCCHHHHHHHHHHHHh---cCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhCcccchHHHHHhhHHHHHcc
Confidence            5556666666666655532   222    1222333333345566666666666555 22222  455666666666666


Q ss_pred             ChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhC
Q 005268          517 NMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       517 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      +.+.|...+.......|.....+..++..+...|.++++...+......
T Consensus       217 ~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  265 (291)
T COG0457         217 KYEEALEYYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKALEL  265 (291)
T ss_pred             cHHHHHHHHHHHHhhCcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            6777777777777766654444455555555555566666666655543

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.19  E-value=0.05  Score=52.90  Aligned_cols=92  Identities=8%  Similarity=-0.012  Sum_probs=54.0

Q ss_pred             hccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhCC-CCCC----HHHHHHHHHHHHhcCCh
Q 005268          445 SHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNMP-VRPD----ASIWGALLGACRIHGNM  518 (705)
Q Consensus       445 ~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~-~~p~----~~~~~~ll~~~~~~g~~  518 (705)
                      ...|++++|...|+.+.+.+.-.+ ....+..+...|...|++++|...|+++- ..|+    ...|-.+...+...|+.
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            344556666666665554421111 01244455666666666666666665551 1122    33445556667788888


Q ss_pred             hHHHHHHHHHhccCCCCc
Q 005268          519 ELGAVASDRLFEVDSENV  536 (705)
Q Consensus       519 ~~a~~~~~~~~~~~p~~~  536 (705)
                      +.|...++++++..|++.
T Consensus       234 ~~A~~~~~~vi~~yP~s~  251 (263)
T PRK10803        234 AKAKAVYQQVIKKYPGTD  251 (263)
T ss_pred             HHHHHHHHHHHHHCcCCH
Confidence            888888888888888654

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=96.13  E-value=0.67  Score=44.72  Aligned_cols=57  Identities=18%  Similarity=0.151  Sum_probs=28.5

Q ss_pred             HHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccc----cchhHHhhccCchHHHHHHHHHHHHh
Q 005268          303 LITGYAQNGLASEAIEVFQMMEECNEINPNQGTY----VSILPAYSHVGALRQGIKIHARVIKN  362 (705)
Q Consensus       303 li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~----~~ll~a~~~~~~~~~a~~~~~~~~~~  362 (705)
                      ....+...|++++|.+.|+++..   ..|+....    -.+..++.+.++++.|...++..++.
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 TAQQKLQDGNWKQAITQLEALDN---RYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRL   98 (243)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHH---hCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Confidence            34444556666666666666655   33433211    12334444555555555555555543

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.10  E-value=2.8  Score=45.65  Aligned_cols=319  Identities=12%  Similarity=0.044  Sum_probs=154.3

Q ss_pred             HCCCCCChhhHHH-----HHHHHHccCChhhHHHHHHHHHHhcCCCchhHHHHHHHHHHHhcCC---HHHHHHHHhcCCC
Q 005268          223 QAGIQPDLLTLVS-----LTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGI---INSACAVFEGLPV  294 (705)
Q Consensus       223 ~~g~~p~~~t~~~-----ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~---~~~A~~~f~~~~~  294 (705)
                      .-|++.+..-|..     +++-+...+.+..|.++-..+...- .. ...++.....-+.+..+   -+-+..+=+++..
T Consensus       425 ~~gIplT~~qy~~l~~~~vi~Rl~~r~~Y~vaIQva~~l~~p~-~~-~~~Vl~~Wa~~kI~~~d~~d~~vld~I~~kls~  502 (829)
T KOG2280|consen  425 RIGIPLTHEQYRHLSEEVVIDRLVDRHLYSVAIQVAKLLNLPE-SQ-GDRVLLEWARRKIKQSDKMDEEVLDKIDEKLSA  502 (829)
T ss_pred             ccCccccHHHHhhhchhhhhHHHHhcchhHHHHHHHHHhCCcc-cc-ccHHHHHHHHHHHhccCccchHHHHHHHHHhcc
Confidence            3456555554443     3445555666667776665553221 11 14566666666666532   2333444444444


Q ss_pred             --CChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCC---CcccccchhHHhhccCchHHHHHHHHHHHHhC------
Q 005268          295 --KDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINP---NQGTYVSILPAYSHVGALRQGIKIHARVIKNC------  363 (705)
Q Consensus       295 --~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p---~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g------  363 (705)
                        .+.++|.....---+.|+.+-|..+++.=.....-.|   +..-+...+.-+...|+.+...+++-.+.+.-      
T Consensus       503 ~~~~~iSy~~iA~~Ay~~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kaies~d~~Li~~Vllhlk~~~~~s~l~  582 (829)
T KOG2280|consen  503 KLTPGISYAAIARRAYQEGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAIESGDTDLIIQVLLHLKNKLNRSSLF  582 (829)
T ss_pred             cCCCceeHHHHHHHHHhcCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHH
Confidence              4567777777777778888888777654332111111   22233444555666666666665554443321      


Q ss_pred             -----CCCchhHHHHHH---------HHHHhcCCHHHHHHH-HhhCCC-----CCcchHHHHHHHHHhcCC---hHHHH-
Q 005268          364 -----LCFDVFVATCLV---------DMYGKCGRIDDAMSL-FYQVPR-----SSSVPWNAIISCHGIHGQ---GDKAL-  419 (705)
Q Consensus       364 -----~~~~~~~~~~li---------~~y~k~g~~~~A~~~-~~~~~~-----~~~~~~~~li~~~~~~g~---~~~A~-  419 (705)
                           .+.....|.-++         +.|-...+...+-.+ ++....     .-..........+.+...   -.+|+ 
T Consensus       583 ~~l~~~p~a~~lY~~~~r~~~~~~l~d~y~q~dn~~~~a~~~~q~~~~~~~~~~r~~~lk~~a~~~a~sk~~s~e~ka~e  662 (829)
T KOG2280|consen  583 MTLRNQPLALSLYRQFMRHQDRATLYDFYNQDDNHQALASFHLQASYAAETIEGRIPALKTAANAFAKSKEKSFEAKALE  662 (829)
T ss_pred             HHHHhchhhhHHHHHHHHhhchhhhhhhhhcccchhhhhhhhhhhhhhhhhhcccchhHHHHHHHHhhhhhhhhHHHHHH
Confidence                 111111221111         111111111111111 111000     001112222233333222   11111 


Q ss_pred             ------HHHHHHHH-cCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHH
Q 005268          420 ------NFFRQMLD-EGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNF  492 (705)
Q Consensus       420 ------~~~~~m~~-~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~  492 (705)
                            .+.+.+.. .|..-...|.+--+.-+...|...+|.++-...+     -||...|.--+.+++..+++++-+++
T Consensus       663 d~~kLl~lQ~~Le~q~~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk-----ipdKr~~wLk~~aLa~~~kweeLekf  737 (829)
T KOG2280|consen  663 DQMKLLKLQRTLEDQFGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFK-----IPDKRLWWLKLTALADIKKWEELEKF  737 (829)
T ss_pred             HHHHHHHHHHHHHHHhccccccCcHHHHHHHHHHccchHHHHHHHHhcC-----CcchhhHHHHHHHHHhhhhHHHHHHH
Confidence                  11222211 1222233344444555666677777776654432     45666666667777777777777776


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHH
Q 005268          493 IQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVR  559 (705)
Q Consensus       493 ~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~  559 (705)
                      -++++   .+.-|.-...+|.+.|+.++|.+.+-+.-.+.        -...+|.+.|++.+|.++-
T Consensus       738 Akskk---sPIGy~PFVe~c~~~~n~~EA~KYiprv~~l~--------ekv~ay~~~~~~~eAad~A  793 (829)
T KOG2280|consen  738 AKSKK---SPIGYLPFVEACLKQGNKDEAKKYIPRVGGLQ--------EKVKAYLRVGDVKEAADLA  793 (829)
T ss_pred             HhccC---CCCCchhHHHHHHhcccHHHHhhhhhccCChH--------HHHHHHHHhccHHHHHHHH
Confidence            66653   13445556677777777777777665543221        3455677777777776543

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=96.01  E-value=2  Score=43.31  Aligned_cols=83  Identities=10%  Similarity=0.019  Sum_probs=47.9

Q ss_pred             HHhcCCHHHHHHHHhhCCCCCcch-------HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHhccCc
Q 005268          378 YGKCGRIDDAMSLFYQVPRSSSVP-------WNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHI-TFVSLLTACSHSGL  449 (705)
Q Consensus       378 y~k~g~~~~A~~~~~~~~~~~~~~-------~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g~  449 (705)
                      ..+.|.+..|.+.+.+....|+..       |........+.|+.++|+.--++...  +.|..+ .+..-..++.-.+.
T Consensus       259 ~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~--iD~syikall~ra~c~l~le~  336 (486)
T KOG0550|consen  259 AFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALK--IDSSYIKALLRRANCHLALEK  336 (486)
T ss_pred             HhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhh--cCHHHHHHHHHHHHHHHHHHH
Confidence            456677777777776665322222       44455556667777777777766665  444322 23333344555677


Q ss_pred             HHHHHHHHHHhHH
Q 005268          450 VSEGQRYFHMMQE  462 (705)
Q Consensus       450 ~~~a~~~~~~m~~  462 (705)
                      |++|.+-++...+
T Consensus       337 ~e~AV~d~~~a~q  349 (486)
T KOG0550|consen  337 WEEAVEDYEKAMQ  349 (486)
T ss_pred             HHHHHHHHHHHHh
Confidence            7777777776654

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=95.91  E-value=0.41  Score=50.53  Aligned_cols=210  Identities=14%  Similarity=0.123  Sum_probs=106.1

Q ss_pred             HHHHHHHHHHHHcCCChhHHHHHhccCC-C----------CCcchHHHHHHHHHhCCC--hhHHHHHHHHHHHCCCCCCh
Q 005268           63 VFVAASLLHMYCRFGLANVARKLFDDMP-V----------RDSGSWNAMISGYCQSGN--AVEALDILDEMRLEGVSMDP  129 (705)
Q Consensus        63 ~~~~~~ll~~y~~~g~~~~A~~~f~~~~-~----------~~~~~~~~li~~~~~~g~--~~~A~~~~~~m~~~g~~p~~  129 (705)
                      ..-+.+-+.-|...|.+++|.++----. .          -+.--++..=.+|.+-.+  +-+-+.-+++|+++|-.|+.
T Consensus       556 evp~~~~m~q~Ieag~f~ea~~iaclgVv~~DW~~LA~~ALeAL~f~~ARkAY~rVRdl~~L~li~EL~~~k~rge~P~~  635 (1081)
T KOG1538|consen  556 EVPQSAPMYQYIERGLFKEAYQIACLGVTDTDWRELAMEALEALDFETARKAYIRVRDLRYLELISELEERKKRGETPND  635 (1081)
T ss_pred             cccccccchhhhhccchhhhhcccccceecchHHHHHHHHHhhhhhHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCchH
Confidence            3344555566777888887765421100 0          011123333344544332  33444456677777877877


Q ss_pred             hhHHhHHHHhhcCCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHccCCHHHHHHHHhccCC--------------CCe
Q 005268          130 ITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGMMRHALRVFDQMME--------------RDV  195 (705)
Q Consensus       130 ~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~--------------~~~  195 (705)
                      ....   ..|+-.|.+.+|.++|.   +.|.+      |.-+.+|.....++.|.++...-..              +|+
T Consensus       636 iLlA---~~~Ay~gKF~EAAklFk---~~G~e------nRAlEmyTDlRMFD~aQE~~~~g~~~eKKmL~RKRA~WAr~~  703 (1081)
T KOG1538|consen  636 LLLA---DVFAYQGKFHEAAKLFK---RSGHE------NRALEMYTDLRMFDYAQEFLGSGDPKEKKMLIRKRADWARNI  703 (1081)
T ss_pred             HHHH---HHHHhhhhHHHHHHHHH---HcCch------hhHHHHHHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHhhhc
Confidence            6443   44667788888888774   34543      4456666666666666666543311              111


Q ss_pred             ehHHHHHHHHHcCCChhhHHHHHHH------HHHCCCCCC---hhhHHHHHHHHHccCChhhHHHHHHHHHHhcCCCchh
Q 005268          196 VSWNSIIAAYEQSNDPITAHGFFTT------MQQAGIQPD---LLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDV  266 (705)
Q Consensus       196 ~~~~~li~~~~~~g~~~~A~~~~~~------m~~~g~~p~---~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~  266 (705)
                      .--.+-...+...|+.++|..+.-+      +.+-+-+.|   ..+...+..-+.+...+..|.++|..+-..       
T Consensus       704 kePkaAAEmLiSaGe~~KAi~i~~d~gW~d~lidI~rkld~~ere~l~~~a~ylk~l~~~gLAaeIF~k~gD~-------  776 (1081)
T KOG1538|consen  704 KEPKAAAEMLISAGEHVKAIEICGDHGWVDMLIDIARKLDKAEREPLLLCATYLKKLDSPGLAAEIFLKMGDL-------  776 (1081)
T ss_pred             CCcHHHHHHhhcccchhhhhhhhhcccHHHHHHHHHhhcchhhhhHHHHHHHHHhhccccchHHHHHHHhccH-------
Confidence            1112333445556666666654321      111122222   223333333344445555555555544322       


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHhcCCC
Q 005268          267 IIGNAVVDMYAKLGIINSACAVFEGLPV  294 (705)
Q Consensus       267 ~~~~~li~~y~~~g~~~~A~~~f~~~~~  294 (705)
                         .+++++....+++++|..+-++.++
T Consensus       777 ---ksiVqlHve~~~W~eAFalAe~hPe  801 (1081)
T KOG1538|consen  777 ---KSLVQLHVETQRWDEAFALAEKHPE  801 (1081)
T ss_pred             ---HHHhhheeecccchHhHhhhhhCcc
Confidence               2455666666666666666666654

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=95.88  E-value=2.2  Score=42.68  Aligned_cols=212  Identities=14%  Similarity=0.138  Sum_probs=111.9

Q ss_pred             hcCCHHHHHHHHhcCCCC---ChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccc--cchhHHhhc---cCch
Q 005268          278 KLGIINSACAVFEGLPVK---DVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTY--VSILPAYSH---VGAL  349 (705)
Q Consensus       278 ~~g~~~~A~~~f~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~--~~ll~a~~~---~~~~  349 (705)
                      +.|..+.|+..-+..-..   =.-.|.+.+...+..|+++.|+++++.-+...-+.++..--  ..++.+-+.   ..+.
T Consensus       166 r~GareaAr~yAe~Aa~~Ap~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp  245 (531)
T COG3898         166 RLGAREAARHYAERAAEKAPQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADP  245 (531)
T ss_pred             hcccHHHHHHHHHHHHhhccCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCCh
Confidence            455666555554443221   23456667777777788888887777665533344443321  122222111   1233


Q ss_pred             HHHHHHHHHHHHhCCCCchhHH-HHHHHHHHhcCCHHHHHHHHhhCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHH-
Q 005268          350 RQGIKIHARVIKNCLCFDVFVA-TCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQMLD-  427 (705)
Q Consensus       350 ~~a~~~~~~~~~~g~~~~~~~~-~~li~~y~k~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-  427 (705)
                      ..++..-.+..+  +.||..-. -.-...|.+.|++.++-.+++.+-+....+--..+-.+.+.|+  .++.-+++... 
T Consensus       246 ~~Ar~~A~~a~K--L~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~ePHP~ia~lY~~ar~gd--ta~dRlkRa~~L  321 (531)
T COG3898         246 ASARDDALEANK--LAPDLVPAAVVAARALFRDGNLRKGSKILETAWKAEPHPDIALLYVRARSGD--TALDRLKRAKKL  321 (531)
T ss_pred             HHHHHHHHHHhh--cCCccchHHHHHHHHHHhccchhhhhhHHHHHHhcCCChHHHHHHHHhcCCC--cHHHHHHHHHHH
Confidence            444444444433  33432221 2223566777777777777777765444443333333344444  33333333322 


Q ss_pred             cCCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHH-hcCCHHHHHHHHHhC
Q 005268          428 EGVRPDH-ITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFG-RAGHLGMAHNFIQNM  496 (705)
Q Consensus       428 ~g~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~-~~g~~~~A~~~~~~~  496 (705)
                      ..++||. .+...+..+-...|++..|..--+...   ...|....|..|.+.=. ..|+-.++...+.+.
T Consensus       322 ~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~---r~~pres~~lLlAdIeeAetGDqg~vR~wlAqa  389 (531)
T COG3898         322 ESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAA---REAPRESAYLLLADIEEAETGDQGKVRQWLAQA  389 (531)
T ss_pred             HhcCccchHHHHHHHHHHHhccchHHHHHHHHHHh---hhCchhhHHHHHHHHHhhccCchHHHHHHHHHH
Confidence            1256664 455566666677777777766554443   44677777777766643 337777777766655

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=95.79  E-value=0.0084  Score=46.19  Aligned_cols=60  Identities=13%  Similarity=0.184  Sum_probs=34.2

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHhcc----CCC---CcchhhhhhhhhhhcCCcchHHHHHHHHH
Q 005268          504 IWGALLGACRIHGNMELGAVASDRLFEV----DSE---NVGYYVLMSNIYANVGKWEGVDEVRSLAR  563 (705)
Q Consensus       504 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~----~p~---~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  563 (705)
                      +++.+...+...|++++|+..+++++++    .++   -..++..++.+|...|++++|.+++++..
T Consensus         7 ~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al   73 (78)
T PF13424_consen    7 AYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKAL   73 (78)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4555556666666666666666655543    111   13345566667777777777776666554

...

>PRK11906 transcriptional regulator; Provisional

Probab=95.76  E-value=0.45  Score=49.08  Aligned_cols=174  Identities=9%  Similarity=0.100  Sum_probs=112.1

Q ss_pred             CCHHHHHHHHhhCCCCCc---chH--HHHHHHHHhcC-----ChHHHHHHHHHHHH-cCCCCCHH-HHHHHHHHHhc---
Q 005268          382 GRIDDAMSLFYQVPRSSS---VPW--NAIISCHGIHG-----QGDKALNFFRQMLD-EGVRPDHI-TFVSLLTACSH---  446 (705)
Q Consensus       382 g~~~~A~~~~~~~~~~~~---~~~--~~li~~~~~~g-----~~~~A~~~~~~m~~-~g~~p~~~-t~~~ll~a~~~---  446 (705)
                      ..+..++. -...++.+.   ..|  ...+.|.....     ..+.|+.+|.+... ..+.|+.. .|..+..++..   
T Consensus       232 ~~~~~~E~-~~r~~~~~l~~~~a~~~d~ylrg~~~~~~~t~~~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~  310 (458)
T PRK11906        232 QTVHKPER-SVRLAKQDQGYKNHYLSDEMLAGKKELYDFTPESIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLAL  310 (458)
T ss_pred             hhhhhhhh-hhcCCCCCcccccchhhHHHHHHHHHhhccCHHHHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHH
Confidence            33444444 233334455   557  66666655422     34578889999982 22677753 44443333221   


Q ss_pred             ------cCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCC
Q 005268          447 ------SGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRPD-ASIWGALLGACRIHGN  517 (705)
Q Consensus       447 ------~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~g~  517 (705)
                            .....+|.++-+...   .+.| |......+..++.-.|+++.|...|++. ...|| ..+|-.....+...|+
T Consensus       311 ~g~~~~~~~~~~a~~~A~rAv---eld~~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~Pn~A~~~~~~~~~~~~~G~  387 (458)
T PRK11906        311 HGKSELELAAQKALELLDYVS---DITTVDGKILAIMGLITGLSGQAKVSHILFEQAKIHSTDIASLYYYRALVHFHNEK  387 (458)
T ss_pred             hcCCCchHHHHHHHHHHHHHH---hcCCCCHHHHHHHHHHHHhhcchhhHHHHHHHHhhcCCccHHHHHHHHHHHHHcCC
Confidence                  234455666655555   3455 5667777777788888899999999988 46676 5678777888888999


Q ss_pred             hhHHHHHHHHHhccCCCCcchhhh--hhhhhhhcCCcchHHHHHH
Q 005268          518 MELGAVASDRLFEVDSENVGYYVL--MSNIYANVGKWEGVDEVRS  560 (705)
Q Consensus       518 ~~~a~~~~~~~~~~~p~~~~~~~~--l~~~~~~~g~~~~a~~~~~  560 (705)
                      .++|.+.+++.++++|....+-+.  .+++|...+ .++|.+++-
T Consensus       388 ~~~a~~~i~~alrLsP~~~~~~~~~~~~~~~~~~~-~~~~~~~~~  431 (458)
T PRK11906        388 IEEARICIDKSLQLEPRRRKAVVIKECVDMYVPNP-LKNNIKLYY  431 (458)
T ss_pred             HHHHHHHHHHHhccCchhhHHHHHHHHHHHHcCCc-hhhhHHHHh
Confidence            999999999999999976554443  344565544 566666654

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=95.61  E-value=0.015  Score=44.78  Aligned_cols=58  Identities=16%  Similarity=0.239  Sum_probs=31.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhC-------C-CCCC-HHHHHHHHHHHHhcCChhHHHHHHHHHhc
Q 005268          473 YGCMVDLFGRAGHLGMAHNFIQNM-------P-VRPD-ASIWGALLGACRIHGNMELGAVASDRLFE  530 (705)
Q Consensus       473 ~~~li~~~~~~g~~~~A~~~~~~~-------~-~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  530 (705)
                      |+.+...|.+.|++++|++.+++.       + ..|+ ..++..+...+...|++++|+..++++++
T Consensus         8 ~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen    8 YNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            444444444444444444444433       1 1122 44566667777777777777777777654

...

>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=95.60  E-value=0.47  Score=39.56  Aligned_cols=139  Identities=12%  Similarity=0.136  Sum_probs=80.9

Q ss_pred             hcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHH
Q 005268          411 IHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAH  490 (705)
Q Consensus       411 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~  490 (705)
                      ..|..++..++..+...+.   +..-++-++.-....-+-+-..+.++.+-+    -.|          ...+|++....
T Consensus        14 ldG~V~qGveii~k~v~Ss---ni~E~NWvICNiiDaa~C~yvv~~LdsIGk----iFD----------is~C~NlKrVi   76 (161)
T PF09205_consen   14 LDGDVKQGVEIIEKTVNSS---NIKEYNWVICNIIDAADCDYVVETLDSIGK----IFD----------ISKCGNLKRVI   76 (161)
T ss_dssp             HTT-HHHHHHHHHHHHHHS----HHHHTHHHHHHHHH--HHHHHHHHHHHGG----GS-----------GGG-S-THHHH
T ss_pred             HhchHHHHHHHHHHHcCcC---CccccceeeeecchhhchhHHHHHHHHHhh----hcC----------chhhcchHHHH
Confidence            3566777777777776532   333344343333333333344444444322    222          13456666666


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhCCCc
Q 005268          491 NFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDRGLK  568 (705)
Q Consensus       491 ~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  568 (705)
                      ..+-.+.  .+....+.-++....+|.-+.-.+++..+.+-+..+|....-++++|.+.|+..++.+++.++-++|++
T Consensus        77 ~C~~~~n--~~se~vD~ALd~lv~~~kkDqLdki~~~l~kn~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~k  152 (161)
T PF09205_consen   77 ECYAKRN--KLSEYVDLALDILVKQGKKDQLDKIYNELKKNEEINPEFLVKIANAYKKLGNTREANELLKEACEKGLK  152 (161)
T ss_dssp             HHHHHTT-----HHHHHHHHHHHHTT-HHHHHHHHHHH-----S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-H
T ss_pred             HHHHHhc--chHHHHHHHHHHHHHhccHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhchH
Confidence            6665553  234445666788889999998889999988655557889999999999999999999999999999874

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>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=95.60  E-value=0.11  Score=45.83  Aligned_cols=61  Identities=20%  Similarity=0.123  Sum_probs=52.2

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHh
Q 005268          504 IWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARD  564 (705)
Q Consensus       504 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  564 (705)
                      ....++..+...|++++|...+++++..+|-+...|..+..+|...|+..+|.++++.+..
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~  124 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALDPYDEEAYRLLMRALAAQGRRAEALRVYERYRR  124 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence            4566777888999999999999999999999999999999999999999999999988754

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=95.54  E-value=0.072  Score=44.00  Aligned_cols=90  Identities=18%  Similarity=0.181  Sum_probs=69.7

Q ss_pred             HHHHhcCCHHHHHHHHHhC-CCC-CCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCc----chhhhhhhhhhhcCC
Q 005268          478 DLFGRAGHLGMAHNFIQNM-PVR-PDASIWGALLGACRIHGNMELGAVASDRLFEVDSENV----GYYVLMSNIYANVGK  551 (705)
Q Consensus       478 ~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~----~~~~~l~~~~~~~g~  551 (705)
                      -+++..|++++|++.|.+. ..- .+...||.-..+++-+|+.++|..-+++++++.-+..    .+|+.-+.+|...|+
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            3567788888888888776 222 3577888889999999999999999999888753322    346677888889999


Q ss_pred             cchHHHHHHHHHhCCC
Q 005268          552 WEGVDEVRSLARDRGL  567 (705)
Q Consensus       552 ~~~a~~~~~~m~~~~~  567 (705)
                      -+.|+.-|+...+.|-
T Consensus       131 dd~AR~DFe~AA~LGS  146 (175)
T KOG4555|consen  131 DDAARADFEAAAQLGS  146 (175)
T ss_pred             hHHHHHhHHHHHHhCC
Confidence            9999999988877764

>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=95.17  E-value=0.056  Score=45.73  Aligned_cols=95  Identities=9%  Similarity=0.153  Sum_probs=60.9

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcc
Q 005268          368 VFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHS  447 (705)
Q Consensus       368 ~~~~~~li~~y~k~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~  447 (705)
                      ..++.+++.++++.|+++....+++..-..|+..       -...+.         --......|+..+..+++.+|+..
T Consensus         2 e~~~~~ii~al~r~g~~~~i~~~i~~~WgI~~~~-------~~~~~~---------~~~~spl~Pt~~lL~AIv~sf~~n   65 (126)
T PF12921_consen    2 EELLCNIIYALGRSGQLDSIKSYIKSVWGIDVNG-------KKKEGD---------YPPSSPLYPTSRLLIAIVHSFGYN   65 (126)
T ss_pred             hHHHHHHHHHHhhcCCHHHHHHHHHHhcCCCCCC-------ccccCc---------cCCCCCCCCCHHHHHHHHHHHHhc
Confidence            3456677777777777777777766553222111       000000         111233678888888888888888


Q ss_pred             CcHHHHHHHHHHhHHhhCCcCCcchHHHHHH
Q 005268          448 GLVSEGQRYFHMMQEEFGIKPHLKHYGCMVD  478 (705)
Q Consensus       448 g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~  478 (705)
                      |++..|.++.+...+.|+++-+...|..|+.
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            8888888888888888887666666666654

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.15  E-value=1.7  Score=40.59  Aligned_cols=47  Identities=19%  Similarity=0.243  Sum_probs=26.1

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhhCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHH
Q 005268          369 FVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQMLD  427 (705)
Q Consensus       369 ~~~~~li~~y~k~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  427 (705)
                      ..++.-..+|..+|.++.|-..+++..            -...+-++++|+++|++...
T Consensus        92 dl~eKAs~lY~E~GspdtAAmaleKAa------------k~lenv~Pd~AlqlYqrala  138 (308)
T KOG1585|consen   92 DLYEKASELYVECGSPDTAAMALEKAA------------KALENVKPDDALQLYQRALA  138 (308)
T ss_pred             HHHHHHHHHHHHhCCcchHHHHHHHHH------------HHhhcCCHHHHHHHHHHHHH
Confidence            345556667777777766655554331            11234456666666665544

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=95.09  E-value=0.1  Score=53.47  Aligned_cols=60  Identities=15%  Similarity=0.071  Sum_probs=45.9

Q ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcc----hHHHHHHHHHhcCCHHHHHHHHHhC
Q 005268          434 HITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLK----HYGCMVDLFGRAGHLGMAHNFIQNM  496 (705)
Q Consensus       434 ~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~----~~~~li~~~~~~g~~~~A~~~~~~~  496 (705)
                      ...++.+..+|.+.|++++|...|+...+   +.|+..    .|..+..+|...|++++|++.++++
T Consensus        75 a~a~~NLG~AL~~lGryeEAIa~f~rALe---L~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrA  138 (453)
T PLN03098         75 AEDAVNLGLSLFSKGRVKDALAQFETALE---LNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTA  138 (453)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHh---hCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            45777888888888888888888887763   466643    4778888888888888888888776

>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=95.07  E-value=0.5  Score=41.53  Aligned_cols=70  Identities=20%  Similarity=0.289  Sum_probs=46.2

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHH----hhCCcCCcch
Q 005268          402 WNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQE----EFGIKPHLKH  472 (705)
Q Consensus       402 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~----~~~~~p~~~~  472 (705)
                      ...++..+...|++++|+++.+++.... +-|...+..++.++...|+..+|.+.|+.+.+    ..|+.|+..+
T Consensus        65 ~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~  138 (146)
T PF03704_consen   65 LERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPET  138 (146)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHH
T ss_pred             HHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHH
Confidence            3445666777888888888888888842 33556888888888888888888888876643    4577776544

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=95.03  E-value=0.35  Score=45.32  Aligned_cols=160  Identities=10%  Similarity=0.098  Sum_probs=81.8

Q ss_pred             HHhcCCHHHHHHHHhhCCCCCc------chHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHhc---
Q 005268          378 YGKCGRIDDAMSLFYQVPRSSS------VPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDH--ITFVSLLTACSH---  446 (705)
Q Consensus       378 y~k~g~~~~A~~~~~~~~~~~~------~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~t~~~ll~a~~~---  446 (705)
                      +...|++++|...|+.+...-+      ...-.++.++-+.|++++|...|++.++.  -|+.  .-+...+.+.+.   
T Consensus        15 ~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~--yP~~~~~~~A~Y~~g~~~~~~   92 (203)
T PF13525_consen   15 ALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKL--YPNSPKADYALYMLGLSYYKQ   92 (203)
T ss_dssp             HHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH---TT-TTHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCCcchhhHHHHHHHHHHHh
Confidence            4455666666666666652111      11445566677777777777777777763  3332  222222222221   


Q ss_pred             ----------cCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 005268          447 ----------SGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNMPVRPDASIWGALLGACRIHG  516 (705)
Q Consensus       447 ----------~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~g  516 (705)
                                .+...+|...|+.+.+.                |=......+|...+..+...--.. =-.+..-|.+.|
T Consensus        93 ~~~~~~~~~D~~~~~~A~~~~~~li~~----------------yP~S~y~~~A~~~l~~l~~~la~~-e~~ia~~Y~~~~  155 (203)
T PF13525_consen   93 IPGILRSDRDQTSTRKAIEEFEELIKR----------------YPNSEYAEEAKKRLAELRNRLAEH-ELYIARFYYKRG  155 (203)
T ss_dssp             HHHHH-TT---HHHHHHHHHHHHHHHH-----------------TTSTTHHHHHHHHHHHHHHHHHH-HHHHHHHHHCTT
T ss_pred             CccchhcccChHHHHHHHHHHHHHHHH----------------CcCchHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHcc
Confidence                      11223444444444433                222333344443333321000000 012445678889


Q ss_pred             ChhHHHHHHHHHhccCCCCcc---hhhhhhhhhhhcCCcchHH
Q 005268          517 NMELGAVASDRLFEVDSENVG---YYVLMSNIYANVGKWEGVD  556 (705)
Q Consensus       517 ~~~~a~~~~~~~~~~~p~~~~---~~~~l~~~~~~~g~~~~a~  556 (705)
                      .+..|..-++.+++.-|+.+.   +...++.+|.+.|..+.+.
T Consensus       156 ~y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a~  198 (203)
T PF13525_consen  156 KYKAAIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAAD  198 (203)
T ss_dssp             -HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             cHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHHH
Confidence            999999999999998887543   3456788888888877443

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=95.01  E-value=1.8  Score=40.43  Aligned_cols=56  Identities=27%  Similarity=0.307  Sum_probs=26.9

Q ss_pred             HHHHHHcCChhHHHHHHHhhhhcCCCCCCc----ccccchhHHhhccCchHHHHHHHHHHHHh
Q 005268          304 ITGYAQNGLASEAIEVFQMMEECNEINPNQ----GTYVSILPAYSHVGALRQGIKIHARVIKN  362 (705)
Q Consensus       304 i~~~~~~g~~~~A~~~~~~m~~~~~~~p~~----~t~~~ll~a~~~~~~~~~a~~~~~~~~~~  362 (705)
                      ...+.+.|++++|.+.|+.+..   .-|++    ...-.+..++.+.|+++.|...++..++.
T Consensus        12 a~~~~~~g~y~~Ai~~f~~l~~---~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~   71 (203)
T PF13525_consen   12 ALEALQQGDYEEAIKLFEKLID---RYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKL   71 (203)
T ss_dssp             HHHHHHCT-HHHHHHHHHHHHH---H-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHH---HCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3445566666666666666665   22321    11223344455555555555555555443

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=94.97  E-value=5  Score=41.05  Aligned_cols=141  Identities=7%  Similarity=0.064  Sum_probs=90.1

Q ss_pred             HHHHHHHHHhCCCCCHHHHHHHHHHHHcCCChhHHHHHhccCCCCC---cchHHHHHHHHHhCCChhHHHHHHHHHHHCC
Q 005268           48 KKIHCSVLKLGFEWDVFVAASLLHMYCRFGLANVARKLFDDMPVRD---SGSWNAMISGYCQSGNAVEALDILDEMRLEG  124 (705)
Q Consensus        48 ~~~~~~~~~~g~~~~~~~~~~ll~~y~~~g~~~~A~~~f~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  124 (705)
                      .++-+++...  +.|..+|-.|+.-|...|..++-++++++|..|-   ..+|..-+++=....++.....+|.+.....
T Consensus        29 lrLRerIkdN--PtnI~S~fqLiq~~~tq~s~~~~re~yeq~~~pfp~~~~aw~ly~s~ELA~~df~svE~lf~rCL~k~  106 (660)
T COG5107          29 LRLRERIKDN--PTNILSYFQLIQYLETQESMDAEREMYEQLSSPFPIMEHAWRLYMSGELARKDFRSVESLFGRCLKKS  106 (660)
T ss_pred             HHHHHHhhcC--chhHHHHHHHHHHHhhhhhHHHHHHHHHHhcCCCccccHHHHHHhcchhhhhhHHHHHHHHHHHHhhh
Confidence            3444455443  5688899999999999999999999999998775   3479998988888889999999999988765


Q ss_pred             CCCChhhHHhHHHHhhcCCChH------HHHHHHHHHHH-hCCCCc-hhHHHHHHHHHH---ccC------CHHHHHHHH
Q 005268          125 VSMDPITVASILPVCARSDNIL------SGLLIHLYIVK-HGLEFN-LFVSNNLINMYA---KFG------MMRHALRVF  187 (705)
Q Consensus       125 ~~p~~~t~~~ll~~~~~~~~~~------~a~~~~~~~~~-~g~~~~-~~~~~~Li~~y~---~~g------~~~~A~~~f  187 (705)
                      ..  ...|..-|.--.+.+...      .-.+.++..+. .+++|- ...|+..+...-   ..|      +++..++.+
T Consensus       107 l~--ldLW~lYl~YIRr~n~~~tGq~r~~i~~ayefv~~~~~~e~~s~~~W~ey~~fle~~~~~~kwEeQqrid~iR~~Y  184 (660)
T COG5107         107 LN--LDLWMLYLEYIRRVNNLITGQKRFKIYEAYEFVLGCAIFEPQSENYWDEYGLFLEYIEELGKWEEQQRIDKIRNGY  184 (660)
T ss_pred             cc--HhHHHHHHHHHHhhCcccccchhhhhHHHHHHHHhcccccccccchHHHHHHHHHhccccccHHHHHHHHHHHHHH
Confidence            44  444444444333333221      22344444444 234443 234554443321   223      345566666


Q ss_pred             hccCC
Q 005268          188 DQMME  192 (705)
Q Consensus       188 ~~m~~  192 (705)
                      .++..
T Consensus       185 ~ral~  189 (660)
T COG5107         185 MRALQ  189 (660)
T ss_pred             HHHHc
Confidence            66644

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=94.87  E-value=3.5  Score=38.82  Aligned_cols=194  Identities=14%  Similarity=0.126  Sum_probs=125.9

Q ss_pred             cchhHHhhccCchHHHHHHHHHHHHh-CCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCc---chHHHHHH-HHHh
Q 005268          337 VSILPAYSHVGALRQGIKIHARVIKN-CLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSS---VPWNAIIS-CHGI  411 (705)
Q Consensus       337 ~~ll~a~~~~~~~~~a~~~~~~~~~~-g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~~~~~---~~~~~li~-~~~~  411 (705)
                      ......+...+.+..+...+...... ........+..+...+...+....+...+......+.   ..+..... .+..
T Consensus        63 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  142 (291)
T COG0457          63 LLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDPDLAEALLALGALYE  142 (291)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCcchHHHHHHHHHHHH
Confidence            33334444444555554444444331 2233444555556666666777777777776653222   22333333 6788


Q ss_pred             cCChHHHHHHHHHHHHcCCCC----CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCH
Q 005268          412 HGQGDKALNFFRQMLDEGVRP----DHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHL  486 (705)
Q Consensus       412 ~g~~~~A~~~~~~m~~~g~~p----~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~  486 (705)
                      .|+++.|...|.+...  ..|    ....+......+...++.+.+...+......  ... ....+..+...+...+++
T Consensus       143 ~~~~~~a~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~  218 (291)
T COG0457         143 LGDYEEALELYEKALE--LDPELNELAEALLALGALLEALGRYEEALELLEKALKL--NPDDDAEALLNLGLLYLKLGKY  218 (291)
T ss_pred             cCCHHHHHHHHHHHHh--cCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhh--CcccchHHHHHhhHHHHHcccH
Confidence            8999999999998865  344    2234444444567788899999998888753  222 356788888888889999


Q ss_pred             HHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCChhHHHHHHHHHhccCCC
Q 005268          487 GMAHNFIQNM-PVRPD-ASIWGALLGACRIHGNMELGAVASDRLFEVDSE  534 (705)
Q Consensus       487 ~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~  534 (705)
                      ++|...+... ...|+ ...+..+...+...++.+.+...+++.....|.
T Consensus       219 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  268 (291)
T COG0457         219 EEALEYYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKALELDPD  268 (291)
T ss_pred             HHHHHHHHHHHhhCcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHhCcc
Confidence            9999888877 33444 455666666666777799999999999998886

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=94.82  E-value=0.2  Score=47.46  Aligned_cols=111  Identities=17%  Similarity=0.208  Sum_probs=79.3

Q ss_pred             hHHHHHhccCC--CCCcchHHHHHHHHHhC-----CChhHHHHHHHHHHHCCCCCChhhHHhHHHHhhcCC---------
Q 005268           80 NVARKLFDDMP--VRDSGSWNAMISGYCQS-----GNAVEALDILDEMRLEGVSMDPITVASILPVCARSD---------  143 (705)
Q Consensus        80 ~~A~~~f~~~~--~~~~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~---------  143 (705)
                      -..+..|...+  ++|-.+|-+++..+...     +..+=-...++.|.+-|+.-|..+|..||..+-+..         
T Consensus        51 v~~e~~F~aa~~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~  130 (406)
T KOG3941|consen   51 VHVEKQFEAAEPEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQK  130 (406)
T ss_pred             cchhhhhhccCcccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHH
Confidence            34456777777  67888898888887654     556666667788999999999999999998875543         


Q ss_pred             -------ChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHccCCH-HHHHHHHhcc
Q 005268          144 -------NILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGMM-RHALRVFDQM  190 (705)
Q Consensus       144 -------~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~-~~A~~~f~~m  190 (705)
                             .-+-+..++++|...|+.||..+-..|++++.+.+-. .+..++.-.|
T Consensus       131 ~F~HYP~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p~~K~~Rm~yWm  185 (406)
T KOG3941|consen  131 VFLHYPQQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNFPTKKVKRMLYWM  185 (406)
T ss_pred             HHhhCchhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhccccccHHHHHHHHHhh
Confidence                   2234677788888888888888888888887776642 2333343344

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=94.79  E-value=0.045  Score=33.97  Aligned_cols=33  Identities=24%  Similarity=0.206  Sum_probs=28.1

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHhccCCCC
Q 005268          503 SIWGALLGACRIHGNMELGAVASDRLFEVDSEN  535 (705)
Q Consensus       503 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  535 (705)
                      .+|..+...+...|++++|+..++++++++|++
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~   34 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALELDPDN   34 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTTH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHCcCC
Confidence            468888999999999999999999999999863

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 ....

>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=94.76  E-value=0.28  Score=41.51  Aligned_cols=76  Identities=22%  Similarity=0.399  Sum_probs=42.8

Q ss_pred             CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCc-----------------CCcchHHHHHHHHHhcCCHHHHHHHHHh
Q 005268          433 DHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIK-----------------PHLKHYGCMVDLFGRAGHLGMAHNFIQN  495 (705)
Q Consensus       433 ~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~-----------------p~~~~~~~li~~~~~~g~~~~A~~~~~~  495 (705)
                      |..++..++.++++.|+++....+.+..   +|+.                 |+.....+++.+|+..|++..|+++++.
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~---WgI~~~~~~~~~~~~~~spl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~   77 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSV---WGIDVNGKKKEGDYPPSSPLYPTSRLLIAIVHSFGYNGDIFSALKLVDF   77 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHh---cCCCCCCccccCccCCCCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHH
Confidence            3456677777777777777777766533   3444                 4445555555555555555555555443


Q ss_pred             C----CCCCCHHHHHHHHHH
Q 005268          496 M----PVRPDASIWGALLGA  511 (705)
Q Consensus       496 ~----~~~p~~~~~~~ll~~  511 (705)
                      .    +++-+..+|..|+.=
T Consensus        78 fs~~Y~I~i~~~~W~~Ll~W   97 (126)
T PF12921_consen   78 FSRKYPIPIPKEFWRRLLEW   97 (126)
T ss_pred             HHHHcCCCCCHHHHHHHHHH
Confidence            3    333335555555543

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.68  E-value=8.8  Score=42.56  Aligned_cols=75  Identities=13%  Similarity=0.124  Sum_probs=43.8

Q ss_pred             HHHHHHhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHhc-cCCCCcchhhhhhhhhhhcCC
Q 005268          476 MVDLFGRAGHLGMAHNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFE-VDSENVGYYVLMSNIYANVGK  551 (705)
Q Consensus       476 li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~-~~p~~~~~~~~l~~~~~~~g~  551 (705)
                      ++..+....+.+++..+.+..+.. ++..|-.+++-+...+.++.-.+...+.++ +..++--.-..+.+++++.+.
T Consensus       711 l~~~~~q~~d~E~~it~~~~~g~~-~p~l~~~~L~yF~~~~~i~~~~~~v~~vl~~I~~~~~ippl~VL~~Lakn~~  786 (933)
T KOG2114|consen  711 LMLYFQQISDPETVITLCERLGKE-DPSLWLHALKYFVSEESIEDCYEIVYKVLEAIEMQERIPPLHVLQILAKNGT  786 (933)
T ss_pred             HHHHHHHhhChHHHHHHHHHhCcc-ChHHHHHHHHHHhhhcchhhHHHHHHHHHHHHHhcccCCHHHHHHHHhcCCc
Confidence            344455666777777777777533 778888888888888876655555444443 222222222344555555554

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=94.63  E-value=1  Score=43.61  Aligned_cols=102  Identities=13%  Similarity=0.026  Sum_probs=64.6

Q ss_pred             CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcC---CHHHHHHHHHhC-CCCCC-HHHHHH
Q 005268          433 DHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAG---HLGMAHNFIQNM-PVRPD-ASIWGA  507 (705)
Q Consensus       433 ~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g---~~~~A~~~~~~~-~~~p~-~~~~~~  507 (705)
                      |...|..|..+|...|+.+.|...|....+--  .+++..+..+..++..+.   .-.++..+|+++ ..+|+ +.+..-
T Consensus       155 d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~--g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~iral~l  232 (287)
T COG4235         155 DAEGWDLLGRAYMALGRASDALLAYRNALRLA--GDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPANIRALSL  232 (287)
T ss_pred             CchhHHHHHHHHHHhcchhHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHHHHHH
Confidence            44567777777777777777777776665431  223445555555543332   345667777776 34454 445555


Q ss_pred             HHHHHHhcCChhHHHHHHHHHhccCCCCc
Q 005268          508 LLGACRIHGNMELGAVASDRLFEVDSENV  536 (705)
Q Consensus       508 ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  536 (705)
                      |..++...|++.+|...++.|++..|.+.
T Consensus       233 LA~~afe~g~~~~A~~~Wq~lL~~lp~~~  261 (287)
T COG4235         233 LAFAAFEQGDYAEAAAAWQMLLDLLPADD  261 (287)
T ss_pred             HHHHHHHcccHHHHHHHHHHHHhcCCCCC
Confidence            56678888888888888888888777553

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=94.58  E-value=0.075  Score=32.86  Aligned_cols=33  Identities=27%  Similarity=0.279  Sum_probs=27.3

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHhccCCCC
Q 005268          503 SIWGALLGACRIHGNMELGAVASDRLFEVDSEN  535 (705)
Q Consensus       503 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  535 (705)
                      ..|..+...+...|++++|+..++++++++|+|
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            457778888999999999999999999999865

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 ....

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=94.46  E-value=0.25  Score=46.73  Aligned_cols=99  Identities=15%  Similarity=0.171  Sum_probs=79.2

Q ss_pred             HHHHHhhCC--CCCcchHHHHHHHHHhc-----CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccC-----------
Q 005268          387 AMSLFYQVP--RSSSVPWNAIISCHGIH-----GQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSG-----------  448 (705)
Q Consensus       387 A~~~~~~~~--~~~~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g-----------  448 (705)
                      .+..|..+.  ++|-.+|-+++..|..+     ++.+=....++.|.+-|+.-|..+|..||+.+-+..           
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            345666666  67788888888877654     566667777899999999999999999999876543           


Q ss_pred             -----cHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCH
Q 005268          449 -----LVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHL  486 (705)
Q Consensus       449 -----~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~  486 (705)
                           .-+-++.++++|.. +|+.||.++-..|+++++|.|..
T Consensus       133 ~HYP~QQ~C~I~vLeqME~-hGVmPdkE~e~~lvn~FGr~~~p  174 (406)
T KOG3941|consen  133 LHYPQQQNCAIKVLEQMEW-HGVMPDKEIEDILVNAFGRWNFP  174 (406)
T ss_pred             hhCchhhhHHHHHHHHHHH-cCCCCchHHHHHHHHHhcccccc
Confidence                 22458899999976 59999999999999999999864

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=94.26  E-value=7.3  Score=39.89  Aligned_cols=132  Identities=11%  Similarity=0.128  Sum_probs=91.7

Q ss_pred             chHHHHHHHHHhcCChHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchH-HHHH
Q 005268          400 VPWNAIISCHGIHGQGDKALNFFRQMLDEG-VRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHY-GCMV  477 (705)
Q Consensus       400 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~-~~li  477 (705)
                      ..|...+..-.+..-.+.|..+|-+..+.| +.|+...+++.+.-++ .|+..-|..+|+.=...   -||...| .-.+
T Consensus       398 ~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~---f~d~~~y~~kyl  473 (660)
T COG5107         398 FVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLK---FPDSTLYKEKYL  473 (660)
T ss_pred             hHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHh---CCCchHHHHHHH
Confidence            336666766666666778888888888887 5566667777776444 56777788888754433   3444333 3455


Q ss_pred             HHHHhcCCHHHHHHHHHhC--CCCCC--HHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCC
Q 005268          478 DLFGRAGHLGMAHNFIQNM--PVRPD--ASIWGALLGACRIHGNMELGAVASDRLFEVDSEN  535 (705)
Q Consensus       478 ~~~~~~g~~~~A~~~~~~~--~~~p~--~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  535 (705)
                      +-+.+.++-+.|..+|++.  .+..+  ..+|..+|.--..-|++..+..+-+++.++-|..
T Consensus       474 ~fLi~inde~naraLFetsv~r~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~~pQe  535 (660)
T COG5107         474 LFLIRINDEENARALFETSVERLEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRELVPQE  535 (660)
T ss_pred             HHHHHhCcHHHHHHHHHHhHHHHHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHHcCcH
Confidence            6677888888888888755  12223  5578888888888888888888888888887754

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=94.20  E-value=9.3  Score=40.82  Aligned_cols=182  Identities=13%  Similarity=0.093  Sum_probs=115.8

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhhCCCCC---cchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 005268          367 DVFVATCLVDMYGKCGRIDDAMSLFYQVPRSS---SVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTA  443 (705)
Q Consensus       367 ~~~~~~~li~~y~k~g~~~~A~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a  443 (705)
                      +..+|...++.-.+.|+.+...-+|++..-+-   ..-|--.+.-....|+.+-|-.++....+--++-.+.+-..-..-
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            45566777777777788888887777765221   112444444444457877777777766664333333333222334


Q ss_pred             HhccCcHHHHHHHHHHhHHhhCCcCCc-chHHHHHHHHHhcCCHHHHH---HHHHhC-CCCCCHHHHHHHHH-----HHH
Q 005268          444 CSHSGLVSEGQRYFHMMQEEFGIKPHL-KHYGCMVDLFGRAGHLGMAH---NFIQNM-PVRPDASIWGALLG-----ACR  513 (705)
Q Consensus       444 ~~~~g~~~~a~~~~~~m~~~~~~~p~~-~~~~~li~~~~~~g~~~~A~---~~~~~~-~~~p~~~~~~~ll~-----~~~  513 (705)
                      +...|+.+.|..+++.+.+.  . |+. ..-..-+....|.|+++.+.   +++... +.+-+..+...+.-     .+.
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            66788999999999998875  3 543 23333456677888888887   555443 22222223332222     244


Q ss_pred             hcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCC
Q 005268          514 IHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGK  551 (705)
Q Consensus       514 ~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  551 (705)
                      ..++.+.|..++.++.+..|++...|..+.+.....+.
T Consensus       453 i~~d~~~a~~~l~~~~~~~~~~k~~~~~~~~~~~~~~~  490 (577)
T KOG1258|consen  453 IREDADLARIILLEANDILPDCKVLYLELIRFELIQPS  490 (577)
T ss_pred             HhcCHHHHHHHHHHhhhcCCccHHHHHHHHHHHHhCCc
Confidence            56788999999999999999998888888887766653

>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=94.15  E-value=0.36  Score=50.80  Aligned_cols=133  Identities=17%  Similarity=0.237  Sum_probs=85.5

Q ss_pred             HHHhcCChHHHHHHHHH-HHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCH
Q 005268          408 CHGIHGQGDKALNFFRQ-MLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHL  486 (705)
Q Consensus       408 ~~~~~g~~~~A~~~~~~-m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~  486 (705)
                      ....+|+++++.++.+. -.-..++  ..-...++.-+.+.|..+.|+++-..-..             -.++..++|++
T Consensus       270 ~av~~~d~~~v~~~i~~~~ll~~i~--~~~~~~i~~fL~~~G~~e~AL~~~~D~~~-------------rFeLAl~lg~L  334 (443)
T PF04053_consen  270 TAVLRGDFEEVLRMIAASNLLPNIP--KDQGQSIARFLEKKGYPELALQFVTDPDH-------------RFELALQLGNL  334 (443)
T ss_dssp             HHHHTT-HHH-----HHHHTGGG----HHHHHHHHHHHHHTT-HHHHHHHSS-HHH-------------HHHHHHHCT-H
T ss_pred             HHHHcCChhhhhhhhhhhhhcccCC--hhHHHHHHHHHHHCCCHHHHHhhcCChHH-------------HhHHHHhcCCH
Confidence            33456777777666641 1111122  23466677777888888888887544332             34667789999


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhCC
Q 005268          487 GMAHNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDRG  566 (705)
Q Consensus       487 ~~A~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  566 (705)
                      +.|.++.++..   +...|..|......+|+++.|++.+++.-        -+..|.-+|...|+.+.-.++-+....+|
T Consensus       335 ~~A~~~a~~~~---~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~--------d~~~L~lLy~~~g~~~~L~kl~~~a~~~~  403 (443)
T PF04053_consen  335 DIALEIAKELD---DPEKWKQLGDEALRQGNIELAEECYQKAK--------DFSGLLLLYSSTGDREKLSKLAKIAEERG  403 (443)
T ss_dssp             HHHHHHCCCCS---THHHHHHHHHHHHHTTBHHHHHHHHHHCT---------HHHHHHHHHHCT-HHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhcC---cHHHHHHHHHHHHHcCCHHHHHHHHHhhc--------CccccHHHHHHhCCHHHHHHHHHHHHHcc
Confidence            99998887754   77899999999999999999999998754        35567777888888877777777666665

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=94.12  E-value=2  Score=37.32  Aligned_cols=42  Identities=17%  Similarity=0.238  Sum_probs=21.6

Q ss_pred             chhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHh
Q 005268          338 SILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGK  380 (705)
Q Consensus       338 ~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k  380 (705)
                      .++..+...+.......+++.+.+.+ ..+....|.++..|++
T Consensus        12 ~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~   53 (140)
T smart00299       12 EVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAK   53 (140)
T ss_pred             HHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHH
Confidence            44455554555555555555555544 2444455555555544

>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=93.93  E-value=1.4  Score=46.55  Aligned_cols=101  Identities=18%  Similarity=0.229  Sum_probs=66.6

Q ss_pred             HHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccccchhHHhhccCchHHHH
Q 005268          274 DMYAKLGIINSACAVFEGLPVKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGI  353 (705)
Q Consensus       274 ~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~  353 (705)
                      +...++|+++.|.++-++..  +...|..|.....++|+.+-|.+.|.+...          +..++-.|...|+.+.-.
T Consensus       326 eLAl~lg~L~~A~~~a~~~~--~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d----------~~~L~lLy~~~g~~~~L~  393 (443)
T PF04053_consen  326 ELALQLGNLDIALEIAKELD--DPEKWKQLGDEALRQGNIELAEECYQKAKD----------FSGLLLLYSSTGDREKLS  393 (443)
T ss_dssp             HHHHHCT-HHHHHHHCCCCS--THHHHHHHHHHHHHTTBHHHHHHHHHHCT-----------HHHHHHHHHHCT-HHHHH
T ss_pred             HHHHhcCCHHHHHHHHHhcC--cHHHHHHHHHHHHHcCCHHHHHHHHHhhcC----------ccccHHHHHHhCCHHHHH
Confidence            34567788888888877665  566888888888888998888888888765          445666666777777766


Q ss_pred             HHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHh
Q 005268          354 KIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFY  392 (705)
Q Consensus       354 ~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~  392 (705)
                      ++...+...|-      +|....++...|++++..+++.
T Consensus       394 kl~~~a~~~~~------~n~af~~~~~lgd~~~cv~lL~  426 (443)
T PF04053_consen  394 KLAKIAEERGD------INIAFQAALLLGDVEECVDLLI  426 (443)
T ss_dssp             HHHHHHHHTT-------HHHHHHHHHHHT-HHHHHHHHH
T ss_pred             HHHHHHHHccC------HHHHHHHHHHcCCHHHHHHHHH
Confidence            66666665541      3333444445577766666553

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.

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=93.93  E-value=0.24  Score=47.22  Aligned_cols=64  Identities=16%  Similarity=0.164  Sum_probs=36.6

Q ss_pred             CCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCC---cchhhhhhhhhhhcCCcchHHHHHHHHHhC
Q 005268          500 PDASIWGALLGACRIHGNMELGAVASDRLFEVDSEN---VGYYVLMSNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       500 p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~---~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      ||..-|  |+..+...|+++.|...|..+.+-.|++   |..+.-|+.+..+.|+.++|...+++..++
T Consensus       178 ~nA~yW--LGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         178 PNAYYW--LGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             chhHHH--HHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            444444  5555666666666666666665544433   344555666666666666666666666554

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=93.78  E-value=0.58  Score=47.06  Aligned_cols=138  Identities=8%  Similarity=-0.031  Sum_probs=94.1

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCC
Q 005268          406 ISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGH  485 (705)
Q Consensus       406 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~  485 (705)
                      .+.|.+.|++..|...|++.+..  -+           +...-+.++...... .        -...+..+.-.|.+.++
T Consensus       215 Gn~~fK~gk~~~A~~~Yerav~~--l~-----------~~~~~~~ee~~~~~~-~--------k~~~~lNlA~c~lKl~~  272 (397)
T KOG0543|consen  215 GNVLFKEGKFKLAKKRYERAVSF--LE-----------YRRSFDEEEQKKAEA-L--------KLACHLNLAACYLKLKE  272 (397)
T ss_pred             hhHHHhhchHHHHHHHHHHHHHH--hh-----------ccccCCHHHHHHHHH-H--------HHHHhhHHHHHHHhhhh
Confidence            45677788888888888876652  11           111111222222211 1        12356677788889999


Q ss_pred             HHHHHHHHHhC-CCC-CCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchH-HHHHHHH
Q 005268          486 LGMAHNFIQNM-PVR-PDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGV-DEVRSLA  562 (705)
Q Consensus       486 ~~~A~~~~~~~-~~~-p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a-~~~~~~m  562 (705)
                      +.+|+..-++. ... +|....--=..+|...|+++.|+..|+++++++|+|-.+-.-|+.+-.+..+..+. .++|..|
T Consensus       273 ~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~P~Nka~~~el~~l~~k~~~~~~kekk~y~~m  352 (397)
T KOG0543|consen  273 YKEAIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKALKLEPSNKAARAELIKLKQKIREYEEKEKKMYANM  352 (397)
T ss_pred             HHHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99998887766 333 45555555567899999999999999999999999988877787777666666555 6788888


Q ss_pred             HhC
Q 005268          563 RDR  565 (705)
Q Consensus       563 ~~~  565 (705)
                      -.+
T Consensus       353 F~k  355 (397)
T KOG0543|consen  353 FAK  355 (397)
T ss_pred             hhc
Confidence            654

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=93.78  E-value=3  Score=36.22  Aligned_cols=85  Identities=12%  Similarity=0.129  Sum_probs=44.4

Q ss_pred             HhHHHHhhcCCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHccCCHHHHHHHHhccCCCCeehHHHHHHHHHcCCChh
Q 005268          133 ASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGMMRHALRVFDQMMERDVVSWNSIIAAYEQSNDPI  212 (705)
Q Consensus       133 ~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~  212 (705)
                      ..++..+...+.......+++.+++.+. .+....|.|+..|++.+. .+....+..  ..+......+++.+.+.+.++
T Consensus        11 ~~vv~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~~~~-~~ll~~l~~--~~~~yd~~~~~~~c~~~~l~~   86 (140)
T smart00299       11 SEVVELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAKYDP-QKEIERLDN--KSNHYDIEKVGKLCEKAKLYE   86 (140)
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHHHCH-HHHHHHHHh--ccccCCHHHHHHHHHHcCcHH
Confidence            3444445455556666666666666552 456677777777776532 333333331  123333344555555555555


Q ss_pred             hHHHHHHHH
Q 005268          213 TAHGFFTTM  221 (705)
Q Consensus       213 ~A~~~~~~m  221 (705)
                      ++.-++.++
T Consensus        87 ~~~~l~~k~   95 (140)
T smart00299       87 EAVELYKKD   95 (140)
T ss_pred             HHHHHHHhh
Confidence            555555444

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.71  E-value=13  Score=40.91  Aligned_cols=50  Identities=12%  Similarity=0.200  Sum_probs=35.4

Q ss_pred             hhHHHHHHHHHHccCCHHHHHHHHhccCCCCeehHHHHHHHHHcCCChhh
Q 005268          164 LFVSNNLINMYAKFGMMRHALRVFDQMMERDVVSWNSIIAAYEQSNDPIT  213 (705)
Q Consensus       164 ~~~~~~Li~~y~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~  213 (705)
                      ..++...|+.+.-.|++++|-...-.|...+..-|.-.+.-+...++...
T Consensus       392 ~kv~~~yI~HLl~~~~y~~Aas~~p~m~gn~~~eWe~~V~~f~e~~~l~~  441 (846)
T KOG2066|consen  392 KKVGKTYIDHLLFEGKYDEAASLCPKMLGNNAAEWELWVFKFAELDQLTD  441 (846)
T ss_pred             HHHHHHHHHHHHhcchHHHHHhhhHHHhcchHHHHHHHHHHhccccccch
Confidence            34566677777777888888877777777777777777666666665544

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=93.63  E-value=12  Score=43.41  Aligned_cols=94  Identities=16%  Similarity=0.218  Sum_probs=49.3

Q ss_pred             HHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCccc--ccchhHHhhccCchHHH
Q 005268          275 MYAKLGIINSACAVFEGLPVKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGT--YVSILPAYSHVGALRQG  352 (705)
Q Consensus       275 ~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t--~~~ll~a~~~~~~~~~a  352 (705)
                      +|.++|+.++|.+                  +|..+|+|.+|+.+-.++.. .   -|...  -..|..-+...++.-+|
T Consensus       961 ~Ye~~GklekAl~------------------a~~~~~dWr~~l~~a~ql~~-~---~de~~~~a~~L~s~L~e~~kh~eA 1018 (1265)
T KOG1920|consen  961 MYERCGKLEKALK------------------AYKECGDWREALSLAAQLSE-G---KDELVILAEELVSRLVEQRKHYEA 1018 (1265)
T ss_pred             HHHHhccHHHHHH------------------HHHHhccHHHHHHHHHhhcC-C---HHHHHHHHHHHHHHHHHcccchhH
Confidence            4666666666654                  44567888888887776653 1   11111  12344444455555555


Q ss_pred             HHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCCCCC
Q 005268          353 IKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSS  398 (705)
Q Consensus       353 ~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~~~~  398 (705)
                      -++..+....        ..-.+..|++...+++|..+-......|
T Consensus      1019 a~il~e~~sd--------~~~av~ll~ka~~~~eAlrva~~~~~~d 1056 (1265)
T KOG1920|consen 1019 AKILLEYLSD--------PEEAVALLCKAKEWEEALRVASKAKRDD 1056 (1265)
T ss_pred             HHHHHHHhcC--------HHHHHHHHhhHhHHHHHHHHHHhcccch
Confidence            4444433221        1233455666667777776655444333

>PRK11906 transcriptional regulator; Provisional

Probab=93.43  E-value=0.81  Score=47.28  Aligned_cols=117  Identities=9%  Similarity=0.050  Sum_probs=88.2

Q ss_pred             cHHHHHHHHHHhHHhhCCcCCc-chHHHHHHHHH---------hcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcC
Q 005268          449 LVSEGQRYFHMMQEEFGIKPHL-KHYGCMVDLFG---------RAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHG  516 (705)
Q Consensus       449 ~~~~a~~~~~~m~~~~~~~p~~-~~~~~li~~~~---------~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g  516 (705)
                      ..+.|..+|.+......+.|+- ..|..+...+.         ......+|.++.++. ...| |+.....+..+....+
T Consensus       273 ~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAveld~~Da~a~~~~g~~~~~~~  352 (458)
T PRK11906        273 SIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSDITTVDGKILAIMGLITGLSG  352 (458)
T ss_pred             HHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHhhc
Confidence            4677888898887554667763 34444433221         123455667776665 3344 6777777777788888


Q ss_pred             ChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhC
Q 005268          517 NMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       517 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      +++.|...|+++..++|+.+.++...++...-.|+.++|.+.+++..+.
T Consensus       353 ~~~~a~~~f~rA~~L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrL  401 (458)
T PRK11906        353 QAKVSHILFEQAKIHSTDIASLYYYRALVHFHNEKIEEARICIDKSLQL  401 (458)
T ss_pred             chhhHHHHHHHHhhcCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhcc
Confidence            8999999999999999999999999999999999999999999886655

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=93.19  E-value=0.7  Score=45.50  Aligned_cols=47  Identities=15%  Similarity=0.181  Sum_probs=21.9

Q ss_pred             HHHcCChhHHHHHHHhhhhcC-CCCCCcccccchhHHhhccCchHHHH
Q 005268          307 YAQNGLASEAIEVFQMMEECN-EINPNQGTYVSILPAYSHVGALRQGI  353 (705)
Q Consensus       307 ~~~~g~~~~A~~~~~~m~~~~-~~~p~~~t~~~ll~a~~~~~~~~~a~  353 (705)
                      +.+..+.++|+..+.+-.... ...---.++..+..+.+..|.++++.
T Consensus        16 Ly~s~~~~~al~~w~~~L~~l~~~~~Rf~~lG~l~~a~s~~g~y~~mL   63 (518)
T KOG1941|consen   16 LYQSNQTEKALQVWTKVLEKLSDLMGRFRVLGCLVTAHSEMGRYKEML   63 (518)
T ss_pred             HhcCchHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhhHHHHHHH
Confidence            345566666766665544300 01112234445555555555544443

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=93.10  E-value=2.9  Score=38.32  Aligned_cols=177  Identities=18%  Similarity=0.166  Sum_probs=96.7

Q ss_pred             CCHHHHHHHHhhCC--CCC-cchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhccCcHHHHHHHH
Q 005268          382 GRIDDAMSLFYQVP--RSS-SVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDH-ITFVSLLTACSHSGLVSEGQRYF  457 (705)
Q Consensus       382 g~~~~A~~~~~~~~--~~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~a~~~~g~~~~a~~~~  457 (705)
                      |-+.-|+--|.+..  .|+ ...||-+.--+...|+++.|.+.|+...+  +.|.. .++..-.-++.-.|++.-|.+=|
T Consensus        79 GL~~LAR~DftQaLai~P~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~E--LDp~y~Ya~lNRgi~~YY~gR~~LAq~d~  156 (297)
T COG4785          79 GLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLE--LDPTYNYAHLNRGIALYYGGRYKLAQDDL  156 (297)
T ss_pred             hHHHHHhhhhhhhhhcCCCcHHHHHHHHHHHHhcccchHHHHHhhhHhc--cCCcchHHHhccceeeeecCchHhhHHHH
Confidence            44444444444332  233 23477777777778888888888888877  44542 23322223455567777777654


Q ss_pred             HHhHHhhCCcCCcchHHHHH-HHHHhcCCHHHHHHHH-HhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCC
Q 005268          458 HMMQEEFGIKPHLKHYGCMV-DLFGRAGHLGMAHNFI-QNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSEN  535 (705)
Q Consensus       458 ~~m~~~~~~~p~~~~~~~li-~~~~~~g~~~~A~~~~-~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  535 (705)
                      ...-+.   .|+. .|.+|- ..--+.-+..+|..-+ ++.. ..|..-|..-|-.+.--.--+  +.+++++.+-..++
T Consensus       157 ~~fYQ~---D~~D-PfR~LWLYl~E~k~dP~~A~tnL~qR~~-~~d~e~WG~~iV~~yLgkiS~--e~l~~~~~a~a~~n  229 (297)
T COG4785         157 LAFYQD---DPND-PFRSLWLYLNEQKLDPKQAKTNLKQRAE-KSDKEQWGWNIVEFYLGKISE--ETLMERLKADATDN  229 (297)
T ss_pred             HHHHhc---CCCC-hHHHHHHHHHHhhCCHHHHHHHHHHHHH-hccHhhhhHHHHHHHHhhccH--HHHHHHHHhhccch
Confidence            433322   3321 222222 1112334566665443 3332 345566766665544322211  12233333322222


Q ss_pred             -------cchhhhhhhhhhhcCCcchHHHHHHHHHhCCC
Q 005268          536 -------VGYYVLMSNIYANVGKWEGVDEVRSLARDRGL  567 (705)
Q Consensus       536 -------~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  567 (705)
                             ..+|.-|+.-|...|..++|..+|+..+..++
T Consensus       230 ~~~Ae~LTEtyFYL~K~~l~~G~~~~A~~LfKLaiannV  268 (297)
T COG4785         230 TSLAEHLTETYFYLGKYYLSLGDLDEATALFKLAVANNV  268 (297)
T ss_pred             HHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhH
Confidence                   35688899999999999999999999886543

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=93.09  E-value=1  Score=38.58  Aligned_cols=58  Identities=17%  Similarity=0.149  Sum_probs=37.4

Q ss_pred             HHhcCCHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcc
Q 005268          480 FGRAGHLGMAHNFIQNM----PVRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVG  537 (705)
Q Consensus       480 ~~~~g~~~~A~~~~~~~----~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~  537 (705)
                      ..+.|++++|.+.|+.+    |..| ....--.|+.++.+.+++++|...+++.+++.|.++.
T Consensus        20 ~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~   82 (142)
T PF13512_consen   20 ALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPN   82 (142)
T ss_pred             HHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCC
Confidence            34566666666666655    2111 2234445677788888888888888888888877653

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=92.93  E-value=2  Score=41.56  Aligned_cols=120  Identities=11%  Similarity=0.058  Sum_probs=82.9

Q ss_pred             HHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhCCCCCCHHHHHH---HHHHHHhcCChh
Q 005268          443 ACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNMPVRPDASIWGA---LLGACRIHGNME  519 (705)
Q Consensus       443 a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~---ll~~~~~~g~~~  519 (705)
                      .....|+..++...|+.....  ..-+...--.|+..|...|+.++|..++..+|.+-...-|..   =+....+..+..
T Consensus       143 ~~~~~e~~~~a~~~~~~al~~--~~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~  220 (304)
T COG3118         143 ELIEAEDFGEAAPLLKQALQA--APENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATP  220 (304)
T ss_pred             hhhhccchhhHHHHHHHHHHh--CcccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCC
Confidence            456678888888888877754  222355667788889999999999999999875543333333   222333333333


Q ss_pred             HHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhC
Q 005268          520 LGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       520 ~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      +.. .+++-...+|+|...-..++..|...|+.++|.+.+-.+.++
T Consensus       221 ~~~-~l~~~~aadPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~  265 (304)
T COG3118         221 EIQ-DLQRRLAADPDDVEAALALADQLHLVGRNEAALEHLLALLRR  265 (304)
T ss_pred             CHH-HHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            322 234455678999888899999999999999999776666554

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=92.74  E-value=6.1  Score=41.24  Aligned_cols=55  Identities=18%  Similarity=0.186  Sum_probs=28.4

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCC--CHHHHHHHHHHHhccCcHHHHHHHHHHh
Q 005268          405 IISCHGIHGQGDKALNFFRQMLDEGVRP--DHITFVSLLTACSHSGLVSEGQRYFHMM  460 (705)
Q Consensus       405 li~~~~~~g~~~~A~~~~~~m~~~g~~p--~~~t~~~ll~a~~~~g~~~~a~~~~~~m  460 (705)
                      +..+..+.|+.++|++.|++|.+.. ++  +......|+.++...+.+.++..++.+.
T Consensus       265 LAmCarklGr~~EAIk~~rdLlke~-p~~~~l~IrenLie~LLelq~Yad~q~lL~kY  321 (539)
T PF04184_consen  265 LAMCARKLGRLREAIKMFRDLLKEF-PNLDNLNIRENLIEALLELQAYADVQALLAKY  321 (539)
T ss_pred             HHHHHHHhCChHHHHHHHHHHHhhC-CccchhhHHHHHHHHHHhcCCHHHHHHHHHHh
Confidence            4444455566666666666665432 11  1124445555555556666655555443

The molecular function of this protein is uncertain.

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=92.73  E-value=2.7  Score=36.10  Aligned_cols=114  Identities=10%  Similarity=-0.007  Sum_probs=61.2

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCCC---HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHH
Q 005268          405 IISCHGIHGQGDKALNFFRQMLDEGVRPD---HITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFG  481 (705)
Q Consensus       405 li~~~~~~g~~~~A~~~~~~m~~~g~~p~---~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~  481 (705)
                      -.....+.|++++|.+.|+.+...- +..   ...-..++.++...+++++|...+++..+.+.-.|++ .|.....+++
T Consensus        16 ~a~~~l~~~~Y~~A~~~le~L~~ry-P~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~v-dYa~Y~~gL~   93 (142)
T PF13512_consen   16 EAQEALQKGNYEEAIKQLEALDTRY-PFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNV-DYAYYMRGLS   93 (142)
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHhcC-CCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCc-cHHHHHHHHH
Confidence            3344456677777777777777642 221   2345556667777777777777777776654444432 3333333333


Q ss_pred             hcCCHHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCc
Q 005268          482 RAGHLGMAHNFIQNM-PVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENV  536 (705)
Q Consensus       482 ~~g~~~~A~~~~~~~-~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  536 (705)
                      .-...+.   .+..+ ..+-|             .+....|...|++++..-|++.
T Consensus        94 ~~~~~~~---~~~~~~~~drD-------------~~~~~~A~~~f~~lv~~yP~S~  133 (142)
T PF13512_consen   94 YYEQDEG---SLQSFFRSDRD-------------PTPARQAFRDFEQLVRRYPNSE  133 (142)
T ss_pred             HHHHhhh---HHhhhcccccC-------------cHHHHHHHHHHHHHHHHCcCCh
Confidence            2222111   11111 11111             1234578888888888888654

>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=92.45  E-value=12  Score=36.98  Aligned_cols=65  Identities=12%  Similarity=0.091  Sum_probs=31.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhhCCCC---CcchHHHHHHHHHh--cCChHHHHHHHHHHHHcCCCCCH
Q 005268          370 VATCLVDMYGKCGRIDDAMSLFYQVPRS---SSVPWNAIISCHGI--HGQGDKALNFFRQMLDEGVRPDH  434 (705)
Q Consensus       370 ~~~~li~~y~k~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~--~g~~~~A~~~~~~m~~~g~~p~~  434 (705)
                      ++-.-+..+.+.++.+++.+++.+|...   ...++...+..+..  ......|...+..++...+.|..
T Consensus       123 ~~~L~l~il~~~~~~~~~~~~L~~mi~~~~~~e~~~~~~l~~i~~l~~~~~~~a~~~ld~~l~~r~~~~~  192 (278)
T PF08631_consen  123 VFLLKLEILLKSFDEEEYEEILMRMIRSVDHSESNFDSILHHIKQLAEKSPELAAFCLDYLLLNRFKSSE  192 (278)
T ss_pred             HHHHHHHHHhccCChhHHHHHHHHHHHhcccccchHHHHHHHHHHHHhhCcHHHHHHHHHHHHHHhCCCh
Confidence            3333444444556666666666665521   22334444444421  22344566666666655455544

It is also involved in sporulation [].

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=92.31  E-value=5.8  Score=40.46  Aligned_cols=72  Identities=19%  Similarity=0.148  Sum_probs=48.2

Q ss_pred             HHHHHHHcCCChhHHHHHhccCCCC---Ccc-h---HHHHHHHHHh---CCChhHHHHHHHHHHHCCCCCChhhHHhHHH
Q 005268           68 SLLHMYCRFGLANVARKLFDDMPVR---DSG-S---WNAMISGYCQ---SGNAVEALDILDEMRLEGVSMDPITVASILP  137 (705)
Q Consensus        68 ~ll~~y~~~g~~~~A~~~f~~~~~~---~~~-~---~~~li~~~~~---~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~  137 (705)
                      .++-.|....+++...++++.++..   +.. +   -....-++.+   .|+.++|++++..+....-.++..||..+.+
T Consensus       146 ~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL~GR  225 (374)
T PF13281_consen  146 NLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGLLGR  225 (374)
T ss_pred             HHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHHHHH
Confidence            3333577788888888888887743   111 1   1123345556   7888889998888666666778888877776


Q ss_pred             Hh
Q 005268          138 VC  139 (705)
Q Consensus       138 ~~  139 (705)
                      .+
T Consensus       226 Iy  227 (374)
T PF13281_consen  226 IY  227 (374)
T ss_pred             HH
Confidence            65

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=92.30  E-value=6  Score=38.39  Aligned_cols=152  Identities=14%  Similarity=0.093  Sum_probs=89.6

Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCH
Q 005268          408 CHGIHGQGDKALNFFRQMLDEGVRPD-HITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHL  486 (705)
Q Consensus       408 ~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~  486 (705)
                      .....|++.+|..+|+.....  .|+ ...-..+..++...|+++.|..++..+-.+ --.........-+..+.+....
T Consensus       143 ~~~~~e~~~~a~~~~~~al~~--~~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~-~~~~~~~~l~a~i~ll~qaa~~  219 (304)
T COG3118         143 ELIEAEDFGEAAPLLKQALQA--APENSEAKLLLAECLLAAGDVEAAQAILAALPLQ-AQDKAAHGLQAQIELLEQAAAT  219 (304)
T ss_pred             hhhhccchhhHHHHHHHHHHh--CcccchHHHHHHHHHHHcCChHHHHHHHHhCccc-chhhHHHHHHHHHHHHHHHhcC
Confidence            345667788888888877774  333 345556677788888888888888765432 0011111122334556666555


Q ss_pred             HHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccC--CCCcchhhhhhhhhhhcCCcch-HHHHHHHH
Q 005268          487 GMAHNFIQNMPVRP-DASIWGALLGACRIHGNMELGAVASDRLFEVD--SENVGYYVLMSNIYANVGKWEG-VDEVRSLA  562 (705)
Q Consensus       487 ~~A~~~~~~~~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~--p~~~~~~~~l~~~~~~~g~~~~-a~~~~~~m  562 (705)
                      .+..++-++....| |...--.|...+...|+.+.|...+-.++..+  -+|...-..|..++.-.|.-+. +.+.++++
T Consensus       220 ~~~~~l~~~~aadPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~lle~f~~~g~~Dp~~~~~RRkL  299 (304)
T COG3118         220 PEIQDLQRRLAADPDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARKTLLELFEAFGPADPLVLAYRRKL  299 (304)
T ss_pred             CCHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHHHHHHHHHhcCCCCHHHHHHHHHH
Confidence            55555555554455 45555667777788888888877766666543  3345555566666666564443 33444443

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=91.94  E-value=1.3  Score=42.27  Aligned_cols=61  Identities=11%  Similarity=0.065  Sum_probs=29.1

Q ss_pred             HHHHHHhcCCHHHHHHHHHhC----CCCCC-HHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCc
Q 005268          476 MVDLFGRAGHLGMAHNFIQNM----PVRPD-ASIWGALLGACRIHGNMELGAVASDRLFEVDSENV  536 (705)
Q Consensus       476 li~~~~~~g~~~~A~~~~~~~----~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  536 (705)
                      |...+...|++++|...|..+    |..|- +...--|.......|+.++|...++++.+.-|+.+
T Consensus       184 LGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~~~d~A~atl~qv~k~YP~t~  249 (262)
T COG1729         184 LGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLGNTDEACATLQQVIKRYPGTD  249 (262)
T ss_pred             HHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHHCCCCH
Confidence            444455555555554444333    11111 12333344445555566666666666666555543

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=91.89  E-value=2.3  Score=44.14  Aligned_cols=150  Identities=13%  Similarity=0.110  Sum_probs=79.5

Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHH
Q 005268          410 GIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMA  489 (705)
Q Consensus       410 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A  489 (705)
                      -+..++.+-+++-++.++  +.||-.+-..++ +-.....+.++.+++++..+. |-    ..+..- ......|.   .
T Consensus       179 WRERnp~aRIkaA~eALe--i~pdCAdAYILL-AEEeA~Ti~Eae~l~rqAvkA-gE----~~lg~s-~~~~~~g~---~  246 (539)
T PF04184_consen  179 WRERNPQARIKAAKEALE--INPDCADAYILL-AEEEASTIVEAEELLRQAVKA-GE----ASLGKS-QFLQHHGH---F  246 (539)
T ss_pred             HhcCCHHHHHHHHHHHHH--hhhhhhHHHhhc-ccccccCHHHHHHHHHHHHHH-HH----Hhhchh-hhhhcccc---h
Confidence            344556666677777777  667765443333 333455677888887766543 10    000000 00000111   1


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCC--CcchhhhhhhhhhhcCCcchHHHHHHHHHhCCC
Q 005268          490 HNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSE--NVGYYVLMSNIYANVGKWEGVDEVRSLARDRGL  567 (705)
Q Consensus       490 ~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~--~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  567 (705)
                      .+.+.+-..+|-..+=.-|...+++.|+.++|++.++++++..|.  +......|+..+...+++.++..++.+-.+..+
T Consensus       247 ~e~~~~Rdt~~~~y~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~l  326 (539)
T PF04184_consen  247 WEAWHRRDTNVLVYAKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISL  326 (539)
T ss_pred             hhhhhccccchhhhhHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccC
Confidence            111111111222333345666667777777787777777776654  334556677777777777777777776554444


Q ss_pred             ccCC
Q 005268          568 KKTP  571 (705)
Q Consensus       568 ~~~~  571 (705)
                      .+..
T Consensus       327 pkSA  330 (539)
T PF04184_consen  327 PKSA  330 (539)
T ss_pred             CchH
Confidence            3433

The molecular function of this protein is uncertain.

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=91.88  E-value=12  Score=35.67  Aligned_cols=59  Identities=8%  Similarity=0.070  Sum_probs=44.4

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHhccCCCCcc---hhhhhhhhhhhcCCcchHHHHHHHHHhC
Q 005268          507 ALLGACRIHGNMELGAVASDRLFEVDSENVG---YYVLMSNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       507 ~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~---~~~~l~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      ++..-|.+.|.+..|..-++++++--|+.+.   .+..|..+|...|..++|.+.-+-+...
T Consensus       172 ~IaryY~kr~~~~AA~nR~~~v~e~y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~N  233 (254)
T COG4105         172 AIARYYLKRGAYVAAINRFEEVLENYPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGAN  233 (254)
T ss_pred             HHHHHHHHhcChHHHHHHHHHHHhccccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHhc
Confidence            3456688889888888889998887665443   3456778889999999998887766543

>PRK11619 lytic murein transglycosylase; Provisional

Probab=91.82  E-value=25  Score=39.32  Aligned_cols=258  Identities=9%  Similarity=0.020  Sum_probs=114.5

Q ss_pred             CchhHHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccccchhHH
Q 005268          263 MEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPA  342 (705)
Q Consensus       263 ~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a  342 (705)
                      +.....-......+.+.++++...+ |..-+..+...-.....+....|+.++|......+=. .|- ..+.....++..
T Consensus        96 P~~~~Lr~~~l~~La~~~~w~~~~~-~~~~~p~~~~~~c~~~~A~~~~G~~~~A~~~a~~lW~-~g~-~~p~~cd~l~~~  172 (644)
T PRK11619         96 PPARSLQSRFVNELARREDWRGLLA-FSPEKPKPVEARCNYYYAKWATGQQQEAWQGAKELWL-TGK-SLPNACDKLFSV  172 (644)
T ss_pred             chHHHHHHHHHHHHHHccCHHHHHH-hcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhc-cCC-CCChHHHHHHHH
Confidence            3344444455555566677777776 3322234444455566667777777766666666543 221 122334445544


Q ss_pred             hhccCchHHHH--HHHHHHHHhC-----------CCCc-hhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCcchHHHHHHH
Q 005268          343 YSHVGALRQGI--KIHARVIKNC-----------LCFD-VFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISC  408 (705)
Q Consensus       343 ~~~~~~~~~a~--~~~~~~~~~g-----------~~~~-~~~~~~li~~y~k~g~~~~A~~~~~~~~~~~~~~~~~li~~  408 (705)
                      +.+.|.+....  +-+..+...|           +.++ ......++..+.+   ...+...+.... ++...-...+-+
T Consensus       173 ~~~~g~lt~~d~w~R~~~al~~~~~~lA~~l~~~l~~~~~~~a~a~~al~~~---p~~~~~~~~~~~-~~~~~~~~~~~~  248 (644)
T PRK11619        173 WQQSGKQDPLAYLERIRLAMKAGNTGLVTYLAKQLPADYQTIASALIKLQND---PNTVETFARTTG-PTDFTRQMAAVA  248 (644)
T ss_pred             HHHcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHhcChhHHHHHHHHHHHHHC---HHHHHHHhhccC-CChhhHHHHHHH
Confidence            44333322211  1111111111           1111 1122222222222   222222222221 111111111122


Q ss_pred             HH--hcCChHHHHHHHHHHHHcC-CCCCHH--HHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhc
Q 005268          409 HG--IHGQGDKALNFFRQMLDEG-VRPDHI--TFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRA  483 (705)
Q Consensus       409 ~~--~~g~~~~A~~~~~~m~~~g-~~p~~~--t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~  483 (705)
                      +.  ...+.+.|..++.+..... +.+...  ....+.......+..+++...++.....   ..+......-+..-.+.
T Consensus       249 l~Rlar~d~~~A~~~~~~~~~~~~~~~~~~~~~~~~lA~~~a~~~~~~~a~~w~~~~~~~---~~~~~~~e~r~r~Al~~  325 (644)
T PRK11619        249 FASVARQDAENARLMIPSLVRAQKLNEDQRQELRDIVAWRLMGNDVTDEQAKWRDDVIMR---SQSTSLLERRVRMALGT  325 (644)
T ss_pred             HHHHHHhCHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhccCCHHHHHHHHhcccc---cCCcHHHHHHHHHHHHc
Confidence            22  2445677777777764432 333322  2223322222222245566655543221   12333444444454577


Q ss_pred             CCHHHHHHHHHhCCCC-CCHHHH-HHHHHHHHhcCChhHHHHHHHHHhc
Q 005268          484 GHLGMAHNFIQNMPVR-PDASIW-GALLGACRIHGNMELGAVASDRLFE  530 (705)
Q Consensus       484 g~~~~A~~~~~~~~~~-p~~~~~-~~ll~~~~~~g~~~~a~~~~~~~~~  530 (705)
                      ++++.+...|..|+.. .+..-| -=+..+....|+.++|...|+++..
T Consensus       326 ~dw~~~~~~i~~L~~~~~~~~rw~YW~aRa~~~~g~~~~A~~~~~~~a~  374 (644)
T PRK11619        326 GDRRGLNTWLARLPMEAKEKDEWRYWQADLLLEQGRKAEAEEILRQLMQ  374 (644)
T ss_pred             cCHHHHHHHHHhcCHhhccCHhhHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            8888888888877411 111112 1234555557888888888888643

>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=91.64  E-value=0.26  Score=30.41  Aligned_cols=31  Identities=13%  Similarity=0.126  Sum_probs=25.8

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHhccCCC
Q 005268          504 IWGALLGACRIHGNMELGAVASDRLFEVDSE  534 (705)
Q Consensus       504 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~  534 (705)
                      +|..+...+...|++++|...+++.++++|+
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            5677778888888888888888888888884

...

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=91.57  E-value=4.4  Score=39.78  Aligned_cols=111  Identities=9%  Similarity=0.096  Sum_probs=46.5

Q ss_pred             CCHHHHHHHHhhCC---CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHH--H--HHHhccCcHHHHH
Q 005268          382 GRIDDAMSLFYQVP---RSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSL--L--TACSHSGLVSEGQ  454 (705)
Q Consensus       382 g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~l--l--~a~~~~g~~~~a~  454 (705)
                      |+..+|-..++++.   +.|..+|+--=.+|..+|+...-...+++.+-. ..||...|..+  +  -++...|-+++|.
T Consensus       117 g~~h~a~~~wdklL~d~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~-wn~dlp~~sYv~GmyaFgL~E~g~y~dAE  195 (491)
T KOG2610|consen  117 GKHHEAAIEWDKLLDDYPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK-WNADLPCYSYVHGMYAFGLEECGIYDDAE  195 (491)
T ss_pred             ccccHHHHHHHHHHHhCchhhhhhhhhhhHHHhccchhhhhhHHHHhccc-cCCCCcHHHHHHHHHHhhHHHhccchhHH
Confidence            44444444444443   334444544445555555555555555544432 23333222111  1  1223445555555


Q ss_pred             HHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC
Q 005268          455 RYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM  496 (705)
Q Consensus       455 ~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~  496 (705)
                      +.-++..   .+.| |.-.-.++...+--.|+..|+.+++.+-
T Consensus       196 k~A~ral---qiN~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~t  235 (491)
T KOG2610|consen  196 KQADRAL---QINRFDCWASHAKAHVLEMNGRHKEGKEFMYKT  235 (491)
T ss_pred             HHHHhhc---cCCCcchHHHHHHHHHHHhcchhhhHHHHHHhc
Confidence            4443332   1222 2223333444444555555555555443

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=91.33  E-value=4.9  Score=43.11  Aligned_cols=80  Identities=15%  Similarity=0.219  Sum_probs=39.8

Q ss_pred             CchHHHHHHHHHHHHhCCCCchhHH-HHHHHHHHhcCCHHHHHHHHhhCCCC-------CcchHHHHHHHHHhcCChHHH
Q 005268          347 GALRQGIKIHARVIKNCLCFDVFVA-TCLVDMYGKCGRIDDAMSLFYQVPRS-------SSVPWNAIISCHGIHGQGDKA  418 (705)
Q Consensus       347 ~~~~~a~~~~~~~~~~g~~~~~~~~-~~li~~y~k~g~~~~A~~~~~~~~~~-------~~~~~~~li~~~~~~g~~~~A  418 (705)
                      .+.+.+.+++..+.+.  -|+...+ ---...+...|++++|.+.|++....       ....+--+.-.+...+++++|
T Consensus       247 ~~~~~a~~lL~~~~~~--yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A  324 (468)
T PF10300_consen  247 VPLEEAEELLEEMLKR--YPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEA  324 (468)
T ss_pred             CCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHH
Confidence            3455566666666554  2333222 22234455566666666666654310       111133334445555666666


Q ss_pred             HHHHHHHHHc
Q 005268          419 LNFFRQMLDE  428 (705)
Q Consensus       419 ~~~~~~m~~~  428 (705)
                      .+.|.++.+.
T Consensus       325 ~~~f~~L~~~  334 (468)
T PF10300_consen  325 AEYFLRLLKE  334 (468)
T ss_pred             HHHHHHHHhc
Confidence            6666666653

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.

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=91.19  E-value=7.2  Score=41.84  Aligned_cols=159  Identities=13%  Similarity=0.116  Sum_probs=100.9

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcC-CCCCH-----HHHHHHHHHHh----ccCcHHHHHHHHHHhHHhhCCcCCcchH
Q 005268          404 AIISCHGIHGQGDKALNFFRQMLDEG-VRPDH-----ITFVSLLTACS----HSGLVSEGQRYFHMMQEEFGIKPHLKHY  473 (705)
Q Consensus       404 ~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~-----~t~~~ll~a~~----~~g~~~~a~~~~~~m~~~~~~~p~~~~~  473 (705)
                      .+++...-.||-+.+++++.+..+.+ +.-..     .+|..++..+.    .....+.+.++++.+.+.   -|+...|
T Consensus       193 kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~---yP~s~lf  269 (468)
T PF10300_consen  193 KLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR---YPNSALF  269 (468)
T ss_pred             HHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh---CCCcHHH
Confidence            34444455666666776666655422 11111     12333333222    245778899999988865   5666555


Q ss_pred             HHH-HHHHHhcCCHHHHHHHHHhCCC-C-----CCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhh-hhhhh
Q 005268          474 GCM-VDLFGRAGHLGMAHNFIQNMPV-R-----PDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYV-LMSNI  545 (705)
Q Consensus       474 ~~l-i~~~~~~g~~~~A~~~~~~~~~-~-----p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~-~l~~~  545 (705)
                      ... ...+...|++++|++.|+++-. +     -....+--+...+....++++|...+.++.+...-+...|. ..+-.
T Consensus       270 l~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s~WSka~Y~Y~~a~c  349 (468)
T PF10300_consen  270 LFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKESKWSKAFYAYLAAAC  349 (468)
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhccccHHHHHHHHHHHH
Confidence            443 3566778999999999987521 1     12233344566677889999999999999987665555554 45666


Q ss_pred             hhhcCCc-------chHHHHHHHHHhC
Q 005268          546 YANVGKW-------EGVDEVRSLARDR  565 (705)
Q Consensus       546 ~~~~g~~-------~~a~~~~~~m~~~  565 (705)
                      |...|+.       ++|.+++++....
T Consensus       350 ~~~l~~~~~~~~~~~~a~~l~~~vp~l  376 (468)
T PF10300_consen  350 LLMLGREEEAKEHKKEAEELFRKVPKL  376 (468)
T ss_pred             HHhhccchhhhhhHHHHHHHHHHHHHH
Confidence            7788888       7888888776654

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=91.08  E-value=0.3  Score=30.71  Aligned_cols=28  Identities=14%  Similarity=0.127  Sum_probs=18.4

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHhcc
Q 005268          504 IWGALLGACRIHGNMELGAVASDRLFEV  531 (705)
Q Consensus       504 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~  531 (705)
                      +|..|...|...|++++|+.++++++.+
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            3566777777777777777777775543

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=90.92  E-value=1.4  Score=42.92  Aligned_cols=159  Identities=13%  Similarity=0.026  Sum_probs=116.8

Q ss_pred             hcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHH----HHHHHhcCCH
Q 005268          411 IHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCM----VDLFGRAGHL  486 (705)
Q Consensus       411 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~l----i~~~~~~g~~  486 (705)
                      -+|+..+|...++++++. .+.|-..+.-.=.+|...|+.+.-...++++..  ...|+...|+.+    .-++..+|-+
T Consensus       115 ~~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip--~wn~dlp~~sYv~GmyaFgL~E~g~y  191 (491)
T KOG2610|consen  115 GRGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIP--KWNADLPCYSYVHGMYAFGLEECGIY  191 (491)
T ss_pred             ccccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhcc--ccCCCCcHHHHHHHHHHhhHHHhccc
Confidence            468888999999999985 566677888888899999999999998888764  346666555444    3445689999


Q ss_pred             HHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCC----CcchhhhhhhhhhhcCCcchHHHHHH
Q 005268          487 GMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSE----NVGYYVLMSNIYANVGKWEGVDEVRS  560 (705)
Q Consensus       487 ~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~----~~~~~~~l~~~~~~~g~~~~a~~~~~  560 (705)
                      ++|++.-++. .++| |.-.-.++......+|+..++.++.++-...-..    -.-.|-..+-.+...+.++.|.++++
T Consensus       192 ~dAEk~A~ralqiN~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD  271 (491)
T KOG2610|consen  192 DDAEKQADRALQINRFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYD  271 (491)
T ss_pred             hhHHHHHHhhccCCCcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHH
Confidence            9999999887 4544 4445566777778899999999987765543221    12234456666778899999999998


Q ss_pred             HHHhCCCccCCc
Q 005268          561 LARDRGLKKTPG  572 (705)
Q Consensus       561 ~m~~~~~~~~~~  572 (705)
                      .-+-+.+.++.+
T Consensus       272 ~ei~k~l~k~Da  283 (491)
T KOG2610|consen  272 REIWKRLEKDDA  283 (491)
T ss_pred             HHHHHHhhccch
Confidence            776655666554

>PRK09687 putative lyase; Provisional

Probab=90.87  E-value=18  Score=35.77  Aligned_cols=60  Identities=12%  Similarity=0.074  Sum_probs=24.6

Q ss_pred             chhHHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHHcCCh----hHHHHHHHhh
Q 005268          264 EDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDVISWNTLITGYAQNGLA----SEAIEVFQMM  323 (705)
Q Consensus       264 ~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~----~~A~~~~~~m  323 (705)
                      +|..+....+..+.+.|..+....+..-+..+|...-...+.++.+-|+.    .++...+..+
T Consensus        35 ~d~~vR~~A~~aL~~~~~~~~~~~l~~ll~~~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l   98 (280)
T PRK09687         35 HNSLKRISSIRVLQLRGGQDVFRLAIELCSSKNPIERDIGADILSQLGMAKRCQDNVFNILNNL   98 (280)
T ss_pred             CCHHHHHHHHHHHHhcCcchHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccchHHHHHHHHHH
Confidence            33344444444444444332222222222233444444444445555442    3445555544

>PRK15331 chaperone protein SicA; Provisional

Probab=90.85  E-value=6.5  Score=34.72  Aligned_cols=83  Identities=12%  Similarity=-0.013  Sum_probs=35.2

Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHH
Q 005268          410 GIHGQGDKALNFFRQMLDEGVRPDHI-TFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGM  488 (705)
Q Consensus       410 ~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~  488 (705)
                      -+.|++++|..+|+-+..  ..|... -+..|..+|-..+.+++|...|.....- . .-|+..+-.....|...|+.+.
T Consensus        48 y~~Gk~~eA~~~F~~L~~--~d~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l-~-~~dp~p~f~agqC~l~l~~~~~  123 (165)
T PRK15331         48 YNQGRLDEAETFFRFLCI--YDFYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTL-L-KNDYRPVFFTGQCQLLMRKAAK  123 (165)
T ss_pred             HHCCCHHHHHHHHHHHHH--hCcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc-c-cCCCCccchHHHHHHHhCCHHH
Confidence            344555555555555544  222222 2233333333445555555555443321 1 1122222223444555555555


Q ss_pred             HHHHHHhC
Q 005268          489 AHNFIQNM  496 (705)
Q Consensus       489 A~~~~~~~  496 (705)
                      |...|+..
T Consensus       124 A~~~f~~a  131 (165)
T PRK15331        124 ARQCFELV  131 (165)
T ss_pred             HHHHHHHH
Confidence            55555444

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=90.75  E-value=0.84  Score=41.09  Aligned_cols=88  Identities=13%  Similarity=0.060  Sum_probs=64.4

Q ss_pred             HHHhcCCHHHHHHHHHhC-CCCC------CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCC
Q 005268          479 LFGRAGHLGMAHNFIQNM-PVRP------DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGK  551 (705)
Q Consensus       479 ~~~~~g~~~~A~~~~~~~-~~~p------~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  551 (705)
                      -+.+.|++++|..-|..+ ..-|      ..+.|..-..+..+.+.++.|+.-..++++++|.+..+...-+.+|.+..+
T Consensus       104 ~~F~ngdyeeA~skY~~Ale~cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pty~kAl~RRAeayek~ek  183 (271)
T KOG4234|consen  104 ELFKNGDYEEANSKYQEALESCPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPTYEKALERRAEAYEKMEK  183 (271)
T ss_pred             HhhhcccHHHHHHHHHHHHHhCccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCchhHHHHHHHHHHHHhhhh
Confidence            345667777776666554 1112      233444445667788889999999999999999887777778889999999


Q ss_pred             cchHHHHHHHHHhCC
Q 005268          552 WEGVDEVRSLARDRG  566 (705)
Q Consensus       552 ~~~a~~~~~~m~~~~  566 (705)
                      +++|.+-++++.+..
T Consensus       184 ~eealeDyKki~E~d  198 (271)
T KOG4234|consen  184 YEEALEDYKKILESD  198 (271)
T ss_pred             HHHHHHHHHHHHHhC
Confidence            999999988887753

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=90.75  E-value=5.8  Score=39.41  Aligned_cols=63  Identities=14%  Similarity=0.308  Sum_probs=42.2

Q ss_pred             HHHHHHHHHHHHcCCCCCHH--HHHHHHHHHhccCc--HHHHHHHHHHhHHhhCCcCCcchHHHHHHH
Q 005268          416 DKALNFFRQMLDEGVRPDHI--TFVSLLTACSHSGL--VSEGQRYFHMMQEEFGIKPHLKHYGCMVDL  479 (705)
Q Consensus       416 ~~A~~~~~~m~~~g~~p~~~--t~~~ll~a~~~~g~--~~~a~~~~~~m~~~~~~~p~~~~~~~li~~  479 (705)
                      +.+..+|+.+.+.|+..+..  ....+|..+.....  +..+.++++.+.+. |+++...+|..+.-+
T Consensus       160 ~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~-~~kik~~~yp~lGlL  226 (297)
T PF13170_consen  160 ERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKN-GVKIKYMHYPTLGLL  226 (297)
T ss_pred             HHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHc-CCccccccccHHHHH
Confidence            56778888888888776543  34444443333222  45788888888876 999988888766543

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=90.68  E-value=20  Score=41.62  Aligned_cols=111  Identities=15%  Similarity=0.097  Sum_probs=49.3

Q ss_pred             HHHHHhcCCHHHHHHHHhhCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHH
Q 005268          375 VDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQ  454 (705)
Q Consensus       375 i~~y~k~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~  454 (705)
                      ++.--+.|.+.+|..++..-.+.-.+.|.+...-+...+.+++|.-.|+..-+         ..-.+.+|-..|+|+++.
T Consensus       915 ~n~I~kh~Ly~~aL~ly~~~~e~~k~i~~~ya~hL~~~~~~~~Aal~Ye~~Gk---------lekAl~a~~~~~dWr~~l  985 (1265)
T KOG1920|consen  915 KNYIKKHGLYDEALALYKPDSEKQKVIYEAYADHLREELMSDEAALMYERCGK---------LEKALKAYKECGDWREAL  985 (1265)
T ss_pred             HHHHHhcccchhhhheeccCHHHHHHHHHHHHHHHHHhccccHHHHHHHHhcc---------HHHHHHHHHHhccHHHHH
Confidence            33334445555555544332222223333333444444555555555443322         112344555566666666


Q ss_pred             HHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhC
Q 005268          455 RYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNM  496 (705)
Q Consensus       455 ~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~  496 (705)
                      .+...+..  +-..-..+-..|+.-+...++.-||-++..+.
T Consensus       986 ~~a~ql~~--~~de~~~~a~~L~s~L~e~~kh~eAa~il~e~ 1025 (1265)
T KOG1920|consen  986 SLAAQLSE--GKDELVILAEELVSRLVEQRKHYEAAKILLEY 1025 (1265)
T ss_pred             HHHHhhcC--CHHHHHHHHHHHHHHHHHcccchhHHHHHHHH
Confidence            65544321  11111112244555555556555555555544

>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=90.39  E-value=9.9  Score=32.03  Aligned_cols=58  Identities=12%  Similarity=0.148  Sum_probs=33.0

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHh
Q 005268          405 IISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEE  463 (705)
Q Consensus       405 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~  463 (705)
                      -+......|+-++-.+++.++... -+|++.....+.+||.+.|+..++.+++.+.-+.
T Consensus        92 ALd~lv~~~kkDqLdki~~~l~kn-~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACek  149 (161)
T PF09205_consen   92 ALDILVKQGKKDQLDKIYNELKKN-EEINPEFLVKIANAYKKLGNTREANELLKEACEK  149 (161)
T ss_dssp             HHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHT
T ss_pred             HHHHHHHhccHHHHHHHHHHHhhc-cCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHh
Confidence            345556666666666666666543 3566666666777777777777777777666654

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=89.92  E-value=18  Score=34.44  Aligned_cols=169  Identities=13%  Similarity=0.092  Sum_probs=104.7

Q ss_pred             CchhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCcch------HHHHHHHHHhcCChHHHHHHHHHHHHcC-CCCCHHHHH
Q 005268          366 FDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVP------WNAIISCHGIHGQGDKALNFFRQMLDEG-VRPDHITFV  438 (705)
Q Consensus       366 ~~~~~~~~li~~y~k~g~~~~A~~~~~~~~~~~~~~------~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~t~~  438 (705)
                      |-...|+.-++-+ +.|++++|.+.|+.+....+.+      --.++-++-+.+++++|+..+++.+..- -.|| .-|.
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 PASELYNEGLTEL-QKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPN-ADYA  110 (254)
T ss_pred             CHHHHHHHHHHHH-hcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCC-hhHH
Confidence            4445666555544 6799999999999998443333      3445667778999999999999998842 2233 3344


Q ss_pred             HHHHHHh---ccCc-------HHHHHHHHHHhHHhhC---CcCCcch------------HHHHHHHHHhcCCHHHHHHHH
Q 005268          439 SLLTACS---HSGL-------VSEGQRYFHMMQEEFG---IKPHLKH------------YGCMVDLFGRAGHLGMAHNFI  493 (705)
Q Consensus       439 ~ll~a~~---~~g~-------~~~a~~~~~~m~~~~~---~~p~~~~------------~~~li~~~~~~g~~~~A~~~~  493 (705)
                      ..|.+.+   ...+       ..+|..-|+...+++.   ..||...            =-.+..-|.+.|.+..|..-+
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            4444443   3332       2345555555555532   1222211            112345678889888888777


Q ss_pred             HhCC-CCCC----HHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCc
Q 005268          494 QNMP-VRPD----ASIWGALLGACRIHGNMELGAVASDRLFEVDSENV  536 (705)
Q Consensus       494 ~~~~-~~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  536 (705)
                      ++|- .-|+    ....--+..+|...|-.++|....+-+-...|+++
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            7772 1122    23455567889999999999888766666667554

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=89.74  E-value=16  Score=34.47  Aligned_cols=24  Identities=13%  Similarity=0.167  Sum_probs=13.5

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHhh
Q 005268          300 WNTLITGYAQNGLASEAIEVFQMM  323 (705)
Q Consensus       300 ~~~li~~~~~~g~~~~A~~~~~~m  323 (705)
                      |+--...|..+|.++.|-..+++.
T Consensus        94 ~eKAs~lY~E~GspdtAAmaleKA  117 (308)
T KOG1585|consen   94 YEKASELYVECGSPDTAAMALEKA  117 (308)
T ss_pred             HHHHHHHHHHhCCcchHHHHHHHH
Confidence            444555666666666555555443

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=89.65  E-value=2  Score=35.79  Aligned_cols=87  Identities=11%  Similarity=0.082  Sum_probs=44.4

Q ss_pred             HHhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC-CCC-C-C---HHHHHHHHHHHHhc
Q 005268          443 ACSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVR-P-D---ASIWGALLGACRIH  515 (705)
Q Consensus       443 a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~-p-~---~~~~~~ll~~~~~~  515 (705)
                      +.+..|+++.|++.|.....   +-| ....||.-..+|--+|+.++|++-+++. ... | .   -..|-.-...|+..
T Consensus        52 alaE~g~Ld~AlE~F~qal~---l~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~  128 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALC---LAPERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLL  128 (175)
T ss_pred             HHHhccchHHHHHHHHHHHH---hcccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHh
Confidence            34455566666666655442   222 4445666666666666666665555544 110 1 1   11222233446666


Q ss_pred             CChhHHHHHHHHHhccC
Q 005268          516 GNMELGAVASDRLFEVD  532 (705)
Q Consensus       516 g~~~~a~~~~~~~~~~~  532 (705)
                      |+.+.|..-|+.+-++.
T Consensus       129 g~dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  129 GNDDAARADFEAAAQLG  145 (175)
T ss_pred             CchHHHHHhHHHHHHhC
Confidence            77776666666655544

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=89.11  E-value=2.4  Score=41.25  Aligned_cols=76  Identities=16%  Similarity=0.233  Sum_probs=57.7

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhhCCC---CCcchHHHHHHHHHhcCChHHHHHHHHHHHH-----cCCCCCHHHHHH
Q 005268          368 VFVATCLVDMYGKCGRIDDAMSLFYQVPR---SSSVPWNAIISCHGIHGQGDKALNFFRQMLD-----EGVRPDHITFVS  439 (705)
Q Consensus       368 ~~~~~~li~~y~k~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~g~~p~~~t~~~  439 (705)
                      ..++..++..+..+|+.+.+...+++...   -+...|..++.+|.+.|+...|+..|+++.+     .|+.|...+...
T Consensus       153 ~~~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~  232 (280)
T COG3629         153 IKALTKLAEALIACGRADAVIEHLERLIELDPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRAL  232 (280)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHH
Confidence            34667788888888988888888887763   4455589999999999999999988888765     577777665555


Q ss_pred             HHHH
Q 005268          440 LLTA  443 (705)
Q Consensus       440 ll~a  443 (705)
                      ...+
T Consensus       233 y~~~  236 (280)
T COG3629         233 YEEI  236 (280)
T ss_pred             HHHH
Confidence            4444

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=88.79  E-value=8.4  Score=42.94  Aligned_cols=214  Identities=13%  Similarity=0.070  Sum_probs=86.4

Q ss_pred             hHHHHHHHHHHccCCHHHHHHHHhccC---CCCeehHHHHHHHHHcCCC-------hhhHHHHHHHHHHCCCCCChhh--
Q 005268          165 FVSNNLINMYAKFGMMRHALRVFDQMM---ERDVVSWNSIIAAYEQSND-------PITAHGFFTTMQQAGIQPDLLT--  232 (705)
Q Consensus       165 ~~~~~Li~~y~~~g~~~~A~~~f~~m~---~~~~~~~~~li~~~~~~g~-------~~~A~~~~~~m~~~g~~p~~~t--  232 (705)
                      .+| ++|-.+.|+|++++|.++..+..   ++....+-..+..|..+.+       -++...-|++..+.....|++-  
T Consensus       113 p~W-a~Iyy~LR~G~~~~A~~~~~~~~~~~~~~~~~f~~~l~~~~~s~~~~l~~~~~~~l~~ey~~~~r~~~~~DpyK~A  191 (613)
T PF04097_consen  113 PIW-ALIYYCLRCGDYDEALEVANENRNQFQKIERSFPTYLKAYASSPDRRLPPELRDKLKLEYNQRIRNSTDGDPYKRA  191 (613)
T ss_dssp             EHH-HHHHHHHTTT-HHHHHHHHHHTGGGS-TTTTHHHHHHHHCTTTTSS---TCCCHHHHHHHHHHTTT-TTS-HHHHH
T ss_pred             ccH-HHHHHHHhcCCHHHHHHHHHHhhhhhcchhHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHhcCCCCCChHHHH
Confidence            344 46777889999999998883332   2333456666777766532       2345555666555444335542  


Q ss_pred             HHHHHHHHHccC-Ch-hhHH------HHHHHHHHhcCCC----chhHHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHH
Q 005268          233 LVSLTSIVAQLN-DC-RNSR------SVHGFIMRRGWFM----EDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDVISW  300 (705)
Q Consensus       233 ~~~ll~a~~~~~-~~-~~a~------~i~~~~~~~g~~~----~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~  300 (705)
                      .-.++..|--.. .. +.+.      .+.-.+++...-.    .+..++..|-+...+-|     ...|..  ..+...|
T Consensus       192 vY~ilg~cD~~~~~~~~V~~tiED~LW~~L~~vr~~~~~~~~~~e~~~L~~LQ~~i~~~G-----e~~F~~--~~~p~~Y  264 (613)
T PF04097_consen  192 VYKILGRCDLSRRHLPEVARTIEDWLWLQLSLVREDERSSSSAYERYTLEDLQKLILKYG-----ESHFNA--GSNPLLY  264 (613)
T ss_dssp             HHHHHHT--CCC-S-TTC--SHHHHHHHHHHH---TTSSSSSSS----HHHHHHHHHHH------GGGCTT--------H
T ss_pred             HHHHHhcCCccccchHHHhCcHHHHHHHHHHhhccCCCccccccccccHHHHHHHHHHhc-----hhhccc--chhHHHH
Confidence            223333332211 11 1111      1111122222000    11222222222222221     122222  1222222


Q ss_pred             HHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccccchhHHhhccCchHHHHHHHHHHHHhC-CCCchhHHHHHHHHHH
Q 005268          301 NTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNC-LCFDVFVATCLVDMYG  379 (705)
Q Consensus       301 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g-~~~~~~~~~~li~~y~  379 (705)
                         ...+.-.|+++.|++.+.+.   .+...|.+.+...+.-+.-+.-.+...   ..+.... -.|...-+..||..|.
T Consensus       265 ---f~~LlLtgqFE~AI~~L~~~---~~~~~dAVH~AIaL~~~gLL~~~~~~~---~~lls~~~~~~~~ln~arLI~~Y~  335 (613)
T PF04097_consen  265 ---FQVLLLTGQFEAAIEFLYRN---EFNRVDAVHFAIALAYYGLLRVSDSSS---APLLSVDPGDPPPLNFARLIGQYT  335 (613)
T ss_dssp             ---HHHHHHTT-HHHHHHHHHT-----T-HHHHHHHHHHHHHTT---------------------------HHHHHHHHH
T ss_pred             ---HHHHHHHhhHHHHHHHHHhh---ccCcccHHHHHHHHHHcCCCCCCCccc---cceeeecCCCCCCcCHHHHHHHHH
Confidence               34456689999999998872   335556666665555443332222111   2221111 0111245667777776


Q ss_pred             h---cCCHHHHHHHHhhCC
Q 005268          380 K---CGRIDDAMSLFYQVP  395 (705)
Q Consensus       380 k---~g~~~~A~~~~~~~~  395 (705)
                      +   ..+..+|.++|--+.
T Consensus       336 ~~F~~td~~~Al~Y~~li~  354 (613)
T PF04097_consen  336 RSFEITDPREALQYLYLIC  354 (613)
T ss_dssp             HTTTTT-HHHHHHHHHGGG
T ss_pred             HHHhccCHHHHHHHHHHHH
Confidence            5   456778887776655

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.

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=88.20  E-value=46  Score=36.73  Aligned_cols=211  Identities=11%  Similarity=0.102  Sum_probs=95.3

Q ss_pred             chHHHHHHHHHHHHhCCCCchhHHHHHHHHHHh-cCCHHHHHHHHhhCCCCCcc-hHHHHHHHHH----hcCChHHHHHH
Q 005268          348 ALRQGIKIHARVIKNCLCFDVFVATCLVDMYGK-CGRIDDAMSLFYQVPRSSSV-PWNAIISCHG----IHGQGDKALNF  421 (705)
Q Consensus       348 ~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k-~g~~~~A~~~~~~~~~~~~~-~~~~li~~~~----~~g~~~~A~~~  421 (705)
                      +.+.|..++....+.|.+ +....-..+..... ..+...|.++|......+-. +.-.+...|.    ...+.+.|..+
T Consensus       308 d~~~A~~~~~~aA~~g~~-~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~~~A~~~la~~y~~G~gv~r~~~~A~~~  386 (552)
T KOG1550|consen  308 DYEKALKLYTKAAELGNP-DAQYLLGVLYETGTKERDYRRAFEYYSLAAKAGHILAIYRLALCYELGLGVERNLELAFAY  386 (552)
T ss_pred             cHHHHHHHHHHHHhcCCc-hHHHHHHHHHHcCCccccHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCcCCCHHHHHHH
Confidence            345566666665555532 22222111111111 23455666666655533322 2222222221    22356677777


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHH-----Hh--cCCHHHHHHHHH
Q 005268          422 FRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLF-----GR--AGHLGMAHNFIQ  494 (705)
Q Consensus       422 ~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~-----~~--~g~~~~A~~~~~  494 (705)
                      +.+..+.| .|...--...+..+.. +.++.+.-.+..+... |.+-....-..+.+..     .+  ..+.+.+..++.
T Consensus       387 ~k~aA~~g-~~~A~~~~~~~~~~g~-~~~~~~~~~~~~~a~~-g~~~~q~~a~~l~~~~~~~~~~~~~~~~~~~~~~~~~  463 (552)
T KOG1550|consen  387 YKKAAEKG-NPSAAYLLGAFYEYGV-GRYDTALALYLYLAEL-GYEVAQSNAAYLLDQSEEDLFSRGVISTLERAFSLYS  463 (552)
T ss_pred             HHHHHHcc-ChhhHHHHHHHHHHcc-ccccHHHHHHHHHHHh-hhhHHhhHHHHHHHhccccccccccccchhHHHHHHH
Confidence            77777766 3332222233333333 5555555444444322 3222111111111111     11  124555666666


Q ss_pred             hCCCCCCHHHHHHHHHHHHhc----CChhHHHHHHHHHhccCCCCcchhhhhhhhhhhc-C--CcchHHHHHHHHHhC
Q 005268          495 NMPVRPDASIWGALLGACRIH----GNMELGAVASDRLFEVDSENVGYYVLMSNIYANV-G--KWEGVDEVRSLARDR  565 (705)
Q Consensus       495 ~~~~~p~~~~~~~ll~~~~~~----g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~-g--~~~~a~~~~~~m~~~  565 (705)
                      +....-+......|...|..-    .+.+.|...+.++-+..   +.....|+.++-.. |  .+..|.++++.....
T Consensus       464 ~a~~~g~~~a~~~lgd~y~~g~g~~~d~~~a~~~y~~a~~~~---~~~~~nlg~~~e~g~g~~~~~~a~~~~~~~~~~  538 (552)
T KOG1550|consen  464 RAAAQGNADAILKLGDYYYYGLGTGRDPEKAAAQYARASEQG---AQALFNLGYMHEHGEGIKVLHLAKRYYDQASEE  538 (552)
T ss_pred             HHHhccCHHHHhhhcceeeecCCCCCChHHHHHHHHHHHHhh---hHHHhhhhhHHhcCcCcchhHHHHHHHHHHHhc
Confidence            654344444444444444332    24666777666665554   45555666655331 1  157777777776653

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=88.01  E-value=1.5  Score=29.01  Aligned_cols=33  Identities=30%  Similarity=0.476  Sum_probs=22.8

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH
Q 005268          401 PWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHI  435 (705)
Q Consensus       401 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~  435 (705)
                      .|..+...|...|++++|+++|++.++  ..|+..
T Consensus         3 ~~~~la~~~~~~G~~~~A~~~~~~~l~--~~P~~~   35 (44)
T PF13428_consen    3 AWLALARAYRRLGQPDEAERLLRRALA--LDPDDP   35 (44)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHH--HCcCCH
Confidence            356667777777777777777777777  455543

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=87.57  E-value=1.2  Score=28.03  Aligned_cols=25  Identities=24%  Similarity=0.375  Sum_probs=15.6

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHH
Q 005268          402 WNAIISCHGIHGQGDKALNFFRQML  426 (705)
Q Consensus       402 ~~~li~~~~~~g~~~~A~~~~~~m~  426 (705)
                      |+.|...|.+.|++++|+++|++.+
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~aL   26 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQAL   26 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            5566666666666677776666644

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=87.40  E-value=37  Score=34.78  Aligned_cols=147  Identities=7%  Similarity=-0.053  Sum_probs=78.0

Q ss_pred             CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC---CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCC--cc
Q 005268          397 SSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRP---DHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPH--LK  471 (705)
Q Consensus       397 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p---~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~--~~  471 (705)
                      ....+|..++..+.+.|+++.|...+.++...+..+   .+.....-+...-..|+.++|...++...+. .+..+  ..
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            344558888888889999999999888888744222   2233333444556678888888888777652 11111  11


Q ss_pred             hHHHHHHHHHhcCCHHHHHHH-HHhCCCCCCHHHHHHHHHHHHhc------CChhHHHHHHHHHhccCCCCcchhhhhhh
Q 005268          472 HYGCMVDLFGRAGHLGMAHNF-IQNMPVRPDASIWGALLGACRIH------GNMELGAVASDRLFEVDSENVGYYVLMSN  544 (705)
Q Consensus       472 ~~~~li~~~~~~g~~~~A~~~-~~~~~~~p~~~~~~~ll~~~~~~------g~~~~a~~~~~~~~~~~p~~~~~~~~l~~  544 (705)
                      ....+...+..  ..+..... ........-...+..+..-+...      ++.+++...|+++.++.|.....+..++.
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            11111111000  00000000 00000000012222333333333      77888999999999999987777776665


Q ss_pred             hh
Q 005268          545 IY  546 (705)
Q Consensus       545 ~~  546 (705)
                      .+
T Consensus       301 ~~  302 (352)
T PF02259_consen  301 FN  302 (352)
T ss_pred             HH
Confidence            54

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>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=87.07  E-value=14  Score=32.50  Aligned_cols=87  Identities=14%  Similarity=0.079  Sum_probs=47.9

Q ss_pred             HhccCcHHHHHHHHHHhHHhhCCcCCcc-hHHHHHHHHHhcCCHHHHHHHHHhCC-CCCCHHHHHHHHHHHHhcCChhHH
Q 005268          444 CSHSGLVSEGQRYFHMMQEEFGIKPHLK-HYGCMVDLFGRAGHLGMAHNFIQNMP-VRPDASIWGALLGACRIHGNMELG  521 (705)
Q Consensus       444 ~~~~g~~~~a~~~~~~m~~~~~~~p~~~-~~~~li~~~~~~g~~~~A~~~~~~~~-~~p~~~~~~~ll~~~~~~g~~~~a  521 (705)
                      -...++.+++..++..+.   -+.|... .-..-.-.+.+.|++.+|..+|+++. ..|....-.+|+..|.....-..=
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            345567777777777665   3455432 22223345567777888877777773 234444445666655544433333


Q ss_pred             HHHHHHHhccCC
Q 005268          522 AVASDRLFEVDS  533 (705)
Q Consensus       522 ~~~~~~~~~~~p  533 (705)
                      ....+++++..|
T Consensus        97 r~~A~evle~~~  108 (160)
T PF09613_consen   97 RRYADEVLESGA  108 (160)
T ss_pred             HHHHHHHHhcCC
Confidence            334455555554

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=86.99  E-value=2.8  Score=40.81  Aligned_cols=70  Identities=14%  Similarity=0.213  Sum_probs=47.8

Q ss_pred             HHHHHHHHHHcCCChhHHHHHhccCCC---CCcchHHHHHHHHHhCCChhHHHHHHHHHHH-----CCCCCChhhHHh
Q 005268           65 VAASLLHMYCRFGLANVARKLFDDMPV---RDSGSWNAMISGYCQSGNAVEALDILDEMRL-----EGVSMDPITVAS  134 (705)
Q Consensus        65 ~~~~ll~~y~~~g~~~~A~~~f~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~g~~p~~~t~~~  134 (705)
                      ++..++..+..+|+.+.+...+++...   -|...|..++.+|.++|+...|+..|+++.+     .|+.|-..+...
T Consensus       155 ~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~  232 (280)
T COG3629         155 ALTKLAEALIACGRADAVIEHLERLIELDPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRAL  232 (280)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHH
Confidence            566677777777877777777776653   3556788888888888888888888777754     355555444433

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=86.64  E-value=9.7  Score=33.76  Aligned_cols=118  Identities=15%  Similarity=0.082  Sum_probs=52.0

Q ss_pred             ccCCHHHHHHHHhccCCCCeehHHHHH-----HHHHcCCChhhHHHHHHHHHHCCCCCChh-hHHHHHHH--HHccCChh
Q 005268          176 KFGMMRHALRVFDQMMERDVVSWNSII-----AAYEQSNDPITAHGFFTTMQQAGIQPDLL-TLVSLTSI--VAQLNDCR  247 (705)
Q Consensus       176 ~~g~~~~A~~~f~~m~~~~~~~~~~li-----~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a--~~~~~~~~  247 (705)
                      +.+..++|+.-|..+.+.+--+|-.|.     ....+.|+...|...|.+.-...-.|-.. -...+=.+  +...|.++
T Consensus        70 ~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlraa~lLvD~gsy~  149 (221)
T COG4649          70 QENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLRAAYLLVDNGSYD  149 (221)
T ss_pred             HcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHHHHHHHhccccHH
Confidence            334455555555555444333333322     23344555555555555554433333222 11111111  12233333


Q ss_pred             hHHHHHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCCC
Q 005268          248 NSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPV  294 (705)
Q Consensus       248 ~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~  294 (705)
                      ....-.+-+...+ .+.-.....+|.-+-.|.|++.+|.+.|..+..
T Consensus       150 dV~srvepLa~d~-n~mR~sArEALglAa~kagd~a~A~~~F~qia~  195 (221)
T COG4649         150 DVSSRVEPLAGDG-NPMRHSAREALGLAAYKAGDFAKAKSWFVQIAN  195 (221)
T ss_pred             HHHHHhhhccCCC-ChhHHHHHHHHhHHHHhccchHHHHHHHHHHHc
Confidence            3333333322222 333344445555555666666666666666543

>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=86.49  E-value=17  Score=32.37  Aligned_cols=134  Identities=7%  Similarity=0.032  Sum_probs=80.6

Q ss_pred             HHHHHHHHHCCCCCChhhHHHHHHHHHccCChhhHHHHHHHHHHhcCCCchhHHHHHHHHHHHhc-CCHHHHHHHHhcCC
Q 005268          215 HGFFTTMQQAGIQPDLLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKL-GIINSACAVFEGLP  293 (705)
Q Consensus       215 ~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~-g~~~~A~~~f~~~~  293 (705)
                      ++.++.+.+.+++|+...+..+++.+...+....-.++..    .+-++++..+...|++.-.+. .-.+-|.+.+.++.
T Consensus        14 lEYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~qllq----~~Vi~DSk~lA~~LLs~~~~~~~~~Ql~lDMLkRL~   89 (167)
T PF07035_consen   14 LEYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLHQLLQ----YHVIPDSKPLACQLLSLGNQYPPAYQLGLDMLKRLG   89 (167)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHh----hcccCCcHHHHHHHHHhHccChHHHHHHHHHHHHhh
Confidence            4566677778888888888888888888887655444433    332444555544444432221 11344555555543


Q ss_pred             CCChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccccchhHHhhccCchHHHHHHHHHHHH
Q 005268          294 VKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIK  361 (705)
Q Consensus       294 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~  361 (705)
                          ..+..++..+...|++-+|+++.+....     -+......++.+..+.+|...--.++....+
T Consensus        90 ----~~~~~iievLL~~g~vl~ALr~ar~~~~-----~~~~~~~~fLeAA~~~~D~~lf~~V~~ff~~  148 (167)
T PF07035_consen   90 ----TAYEEIIEVLLSKGQVLEALRYARQYHK-----VDSVPARKFLEAAANSNDDQLFYAVFRFFEE  148 (167)
T ss_pred             ----hhHHHHHHHHHhCCCHHHHHHHHHHcCC-----cccCCHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence                2455667788899999999998877533     1222334566666666666555555555544

>PRK09687 putative lyase; Provisional

Probab=86.46  E-value=36  Score=33.66  Aligned_cols=75  Identities=11%  Similarity=0.044  Sum_probs=43.2

Q ss_pred             CchhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHh
Q 005268          366 FDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACS  445 (705)
Q Consensus       366 ~~~~~~~~li~~y~k~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~  445 (705)
                      ++..+-...+.++++.|+.. |...+-...+.+. ..-..+.++...|.. +|+..+.++.+.  .||...-...+.+|.
T Consensus       204 ~~~~VR~~A~~aLg~~~~~~-av~~Li~~L~~~~-~~~~a~~ALg~ig~~-~a~p~L~~l~~~--~~d~~v~~~a~~a~~  278 (280)
T PRK09687        204 KNEEIRIEAIIGLALRKDKR-VLSVLIKELKKGT-VGDLIIEAAGELGDK-TLLPVLDTLLYK--FDDNEIITKAIDKLK  278 (280)
T ss_pred             CChHHHHHHHHHHHccCChh-HHHHHHHHHcCCc-hHHHHHHHHHhcCCH-hHHHHHHHHHhh--CCChhHHHHHHHHHh
Confidence            45556666667777777643 4333333332222 234566777777775 688888887763  456655555555543

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=86.18  E-value=1.3  Score=27.11  Aligned_cols=31  Identities=19%  Similarity=0.419  Sum_probs=23.6

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC
Q 005268          401 PWNAIISCHGIHGQGDKALNFFRQMLDEGVRPD  433 (705)
Q Consensus       401 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  433 (705)
                      .|..+...|...|++++|+..|++.++  +.|+
T Consensus         3 ~~~~~g~~~~~~~~~~~A~~~~~~al~--~~p~   33 (34)
T PF00515_consen    3 AYYNLGNAYFQLGDYEEALEYYQRALE--LDPD   33 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHH--HSTT
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHH--HCcC
Confidence            467778888888888888888888887  5554

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 ....

>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=86.15  E-value=15  Score=33.46  Aligned_cols=25  Identities=24%  Similarity=0.446  Sum_probs=12.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhCC
Q 005268          371 ATCLVDMYGKCGRIDDAMSLFYQVP  395 (705)
Q Consensus       371 ~~~li~~y~k~g~~~~A~~~~~~~~  395 (705)
                      +..+.+.|.+.|+.+.|.+.|.++.
T Consensus        39 ~~~l~~~~~~~Gd~~~A~k~y~~~~   63 (177)
T PF10602_consen   39 LEDLADHYCKIGDLEEALKAYSRAR   63 (177)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHh
Confidence            4445555555555555555554444

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.

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=85.27  E-value=5.6  Score=38.69  Aligned_cols=100  Identities=18%  Similarity=0.210  Sum_probs=71.1

Q ss_pred             CCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCCC-CCc-----chHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHH
Q 005268          363 CLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPR-SSS-----VPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHIT  436 (705)
Q Consensus       363 g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~~-~~~-----~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t  436 (705)
                      |.+....+...+++.-....+++++...+-++.. ++.     .+-.+.+. ++..-++++++.++..=++-|+-||..|
T Consensus        59 g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~~ir-lllky~pq~~i~~l~npIqYGiF~dqf~  137 (418)
T KOG4570|consen   59 GLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIHTWIR-LLLKYDPQKAIYTLVNPIQYGIFPDQFT  137 (418)
T ss_pred             CCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHHHHHH-HHHccChHHHHHHHhCcchhccccchhh
Confidence            4555666666777777777788888887766652 111     01111122 2333467899999999999999999999


Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHhHHh
Q 005268          437 FVSLLTACSHSGLVSEGQRYFHMMQEE  463 (705)
Q Consensus       437 ~~~ll~a~~~~g~~~~a~~~~~~m~~~  463 (705)
                      ++.++..+.+.+++.+|.++.-.|...
T Consensus       138 ~c~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  138 FCLLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            999999999999999988887766644

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=85.18  E-value=14  Score=32.80  Aligned_cols=50  Identities=20%  Similarity=0.308  Sum_probs=26.6

Q ss_pred             HcCCChhHHHHHhccCCCCCcchHHHHH-----HHHHhCCChhHHHHHHHHHHHC
Q 005268           74 CRFGLANVARKLFDDMPVRDSGSWNAMI-----SGYCQSGNAVEALDILDEMRLE  123 (705)
Q Consensus        74 ~~~g~~~~A~~~f~~~~~~~~~~~~~li-----~~~~~~g~~~~A~~~~~~m~~~  123 (705)
                      ++.+..++|+.-|..+...+-.+|-.|.     ...++.|+..+|+..|.+.-..
T Consensus        69 A~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~d  123 (221)
T COG4649          69 AQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAAD  123 (221)
T ss_pred             HHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhcc
Confidence            3445556666666665555444444332     2344556666666666665443

>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=85.03  E-value=22  Score=31.79  Aligned_cols=131  Identities=10%  Similarity=0.092  Sum_probs=64.5

Q ss_pred             HHHHHHhHhCCCCCCccchHHHHHHhcCCchHHHHHHHHHHhCCCCCHHHHHHHHHHHHcC-CChhHHHHHhccCCCCCc
Q 005268           16 DCFYQFTLTSGLRPDFYTFPPVLKACRNLVDGKKIHCSVLKLGFEWDVFVAASLLHMYCRF-GLANVARKLFDDMPVRDS   94 (705)
Q Consensus        16 ~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~ll~~y~~~-g~~~~A~~~f~~~~~~~~   94 (705)
                      +..+. +...++.|+...+..+++.+.+.+...+++..+.-.-+.++..+.-.|++.-.+. .-..-|...+.++.    
T Consensus        15 EYirS-l~~~~i~~~~~L~~lli~lLi~~~~~~~L~qllq~~Vi~DSk~lA~~LLs~~~~~~~~~Ql~lDMLkRL~----   89 (167)
T PF07035_consen   15 EYIRS-LNQHNIPVQHELYELLIDLLIRNGQFSQLHQLLQYHVIPDSKPLACQLLSLGNQYPPAYQLGLDMLKRLG----   89 (167)
T ss_pred             HHHHH-HHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHhhcccCCcHHHHHHHHHhHccChHHHHHHHHHHHHhh----
Confidence            34444 5566777777777777777766665444444333333333444444443332211 01222333333332    


Q ss_pred             chHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHhHHHHhhcCCChHHHHHHHHHH
Q 005268           95 GSWNAMISGYCQSGNAVEALDILDEMRLEGVSMDPITVASILPVCARSDNILSGLLIHLYI  155 (705)
Q Consensus        95 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~  155 (705)
                      ..+..++..+...|++-+|+++.++...    .+......++.+....+|...=-.++...
T Consensus        90 ~~~~~iievLL~~g~vl~ALr~ar~~~~----~~~~~~~~fLeAA~~~~D~~lf~~V~~ff  146 (167)
T PF07035_consen   90 TAYEEIIEVLLSKGQVLEALRYARQYHK----VDSVPARKFLEAAANSNDDQLFYAVFRFF  146 (167)
T ss_pred             hhHHHHHHHHHhCCCHHHHHHHHHHcCC----cccCCHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            2456666777777777777777666422    12222344455555555544444444433

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=84.95  E-value=45  Score=33.47  Aligned_cols=162  Identities=9%  Similarity=0.098  Sum_probs=86.1

Q ss_pred             hHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCc---ccccchhHHhhccCchHHHHHHHHHHHHhCC-----CCchh
Q 005268          298 ISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQ---GTYVSILPAYSHVGALRQGIKIHARVIKNCL-----CFDVF  369 (705)
Q Consensus       298 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~---~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~-----~~~~~  369 (705)
                      .+|-.+..++-+.-++.+++.+-+.-....|..|..   ....++-.+....+.++++.+.|+.+.+...     .....
T Consensus        84 ea~lnlar~~e~l~~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElq  163 (518)
T KOG1941|consen   84 EAYLNLARSNEKLCEFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQ  163 (518)
T ss_pred             HHHHHHHHHHHHHHHhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeee
Confidence            345555555555555555555544433323444421   1223455666677778888888877765321     12345


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhhCC-------CCCcch-H-----HHHHHHHHhcCChHHHHHHHHHHHH----cCCCC
Q 005268          370 VATCLVDMYGKCGRIDDAMSLFYQVP-------RSSSVP-W-----NAIISCHGIHGQGDKALNFFRQMLD----EGVRP  432 (705)
Q Consensus       370 ~~~~li~~y~k~g~~~~A~~~~~~~~-------~~~~~~-~-----~~li~~~~~~g~~~~A~~~~~~m~~----~g~~p  432 (705)
                      ++.+|-..|.+..++++|.-...+..       -.|... |     .-|.-++...|...+|.+.-++..+    .|-.|
T Consensus       164 vcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra  243 (518)
T KOG1941|consen  164 VCVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRA  243 (518)
T ss_pred             hhhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChH
Confidence            77788888888888887765443322       223222 2     2234455666666666665555433    23222


Q ss_pred             CH-HHHHHHHHHHhccCcHHHHHHHHHH
Q 005268          433 DH-ITFVSLLTACSHSGLVSEGQRYFHM  459 (705)
Q Consensus       433 ~~-~t~~~ll~a~~~~g~~~~a~~~~~~  459 (705)
                      -. .....+...|...|+.+.|+.-++.
T Consensus       244 ~~arc~~~~aDIyR~~gd~e~af~rYe~  271 (518)
T KOG1941|consen  244 LQARCLLCFADIYRSRGDLERAFRRYEQ  271 (518)
T ss_pred             HHHHHHHHHHHHHHhcccHhHHHHHHHH
Confidence            22 2334445556666666666655543

>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=84.94  E-value=2.1  Score=37.55  Aligned_cols=70  Identities=14%  Similarity=0.053  Sum_probs=34.5

Q ss_pred             hcCCHHHHHHHHHhCC-CCCCHHHHHH-HHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCC
Q 005268          482 RAGHLGMAHNFIQNMP-VRPDASIWGA-LLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGK  551 (705)
Q Consensus       482 ~~g~~~~A~~~~~~~~-~~p~~~~~~~-ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  551 (705)
                      +.++.+++..++..+. .+|....... -...+...|++.+|+++++.+.+-.|..+..-.+++..+...|+
T Consensus        22 ~~~~~~D~e~lL~ALrvLRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~~~~p~~kALlA~CL~~~~D   93 (160)
T PF09613_consen   22 RLGDPDDAEALLDALRVLRPEFPELDLFDGWLHIVRGDWDDALRLLRELEERAPGFPYAKALLALCLYALGD   93 (160)
T ss_pred             ccCChHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccCCCChHHHHHHHHHHHHcCC
Confidence            4456666666665552 3443332221 12334455666666666666555555554444444444444443

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=84.47  E-value=25  Score=34.12  Aligned_cols=57  Identities=11%  Similarity=-0.056  Sum_probs=50.5

Q ss_pred             HHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHh
Q 005268          508 LLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARD  564 (705)
Q Consensus       508 ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  564 (705)
                      ....|...|.+.+|.++.++++.++|-+...+-.|.++|+..|+--+|.+-++.+.+
T Consensus       285 va~~yle~g~~neAi~l~qr~ltldpL~e~~nk~lm~~la~~gD~is~~khyerya~  341 (361)
T COG3947         285 VARAYLEAGKPNEAIQLHQRALTLDPLSEQDNKGLMASLATLGDEISAIKHYERYAE  341 (361)
T ss_pred             HHHHHHHcCChHHHHHHHHHHhhcChhhhHHHHHHHHHHHHhccchhhhhHHHHHHH
Confidence            346788999999999999999999999999999999999999998888887777654

>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=84.45  E-value=9.6  Score=34.63  Aligned_cols=93  Identities=13%  Similarity=0.109  Sum_probs=65.4

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH--HHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCc------chH
Q 005268          402 WNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHI--TFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHL------KHY  473 (705)
Q Consensus       402 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~--t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~------~~~  473 (705)
                      +..+..-|.+.|+.++|++.|.++.+....|...  .+..++..+...+++..+.....+......-..|.      ..|
T Consensus        39 ~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk~~  118 (177)
T PF10602_consen   39 LEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLKVY  118 (177)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHHHH
Confidence            6778888999999999999999998876666654  56777888888889988888877765432111122      223


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhC
Q 005268          474 GCMVDLFGRAGHLGMAHNFIQNM  496 (705)
Q Consensus       474 ~~li~~~~~~g~~~~A~~~~~~~  496 (705)
                      ..|.  +...|++.+|-+.|-..
T Consensus       119 ~gL~--~l~~r~f~~AA~~fl~~  139 (177)
T PF10602_consen  119 EGLA--NLAQRDFKEAAELFLDS  139 (177)
T ss_pred             HHHH--HHHhchHHHHHHHHHcc
Confidence            2222  23567899988887665

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.

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=84.18  E-value=79  Score=35.62  Aligned_cols=75  Identities=7%  Similarity=0.028  Sum_probs=38.5

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCC
Q 005268          406 ISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGH  485 (705)
Q Consensus       406 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~  485 (705)
                      +..+.+..+++.++.+.+..-..    ++..|..+|+.+.+.+.++.-.+...+..+. =...+...-..+++.+++.+.
T Consensus       712 ~~~~~q~~d~E~~it~~~~~g~~----~p~l~~~~L~yF~~~~~i~~~~~~v~~vl~~-I~~~~~ippl~VL~~Lakn~~  786 (933)
T KOG2114|consen  712 MLYFQQISDPETVITLCERLGKE----DPSLWLHALKYFVSEESIEDCYEIVYKVLEA-IEMQERIPPLHVLQILAKNGT  786 (933)
T ss_pred             HHHHHHhhChHHHHHHHHHhCcc----ChHHHHHHHHHHhhhcchhhHHHHHHHHHHH-HHhcccCCHHHHHHHHhcCCc
Confidence            34445556666666665554332    5566777777777766555444433333221 111111222345667777764

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=84.18  E-value=44  Score=34.20  Aligned_cols=65  Identities=18%  Similarity=0.201  Sum_probs=53.7

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCC----CcchhhhhhhhhhhcCCcchHHHHHHHHHhC
Q 005268          501 DASIWGALLGACRIHGNMELGAVASDRLFEVDSE----NVGYYVLMSNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       501 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~----~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      ...+|..+...++++|+++.|...+.++....+.    .+.....-+......|+-++|...++...+.
T Consensus       145 ~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~~  213 (352)
T PF02259_consen  145 LAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLKC  213 (352)
T ss_pred             HHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            4668999999999999999999999999886532    3455666788889999999999988887763

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>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=84.13  E-value=0.91  Score=39.67  Aligned_cols=84  Identities=12%  Similarity=0.171  Sum_probs=54.8

Q ss_pred             ccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCcchHHHHHHHHHhcCCh
Q 005268          336 YVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQG  415 (705)
Q Consensus       336 ~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~  415 (705)
                      ...++..+.+.+.+.....+++.+.+.+...+....+.++..|++.+..++..++++....   .....++..+.+.|.+
T Consensus        10 ~~~vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~~~---yd~~~~~~~c~~~~l~   86 (143)
T PF00637_consen   10 ISEVISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTSNN---YDLDKALRLCEKHGLY   86 (143)
T ss_dssp             SCCCHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSSSS---S-CTHHHHHHHTTTSH
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccccc---cCHHHHHHHHHhcchH
Confidence            3467788888888888889999998877667788999999999998777777776653222   2223344444444444


Q ss_pred             HHHHHHH
Q 005268          416 DKALNFF  422 (705)
Q Consensus       416 ~~A~~~~  422 (705)
                      ++|.-++
T Consensus        87 ~~a~~Ly   93 (143)
T PF00637_consen   87 EEAVYLY   93 (143)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            4444333

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.

>KOG4279 consensus Serine/threonine protein kinase [Signal transduction mechanisms]

Probab=83.82  E-value=23  Score=38.88  Aligned_cols=182  Identities=19%  Similarity=0.312  Sum_probs=111.1

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCc----------ccccchhHHhhccCchHHHHHHHHHHHHh-C-CCC
Q 005268          299 SWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQ----------GTYVSILPAYSHVGALRQGIKIHARVIKN-C-LCF  366 (705)
Q Consensus       299 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~----------~t~~~ll~a~~~~~~~~~a~~~~~~~~~~-g-~~~  366 (705)
                      +-..++-.|-...+++..+++.+.++.   + ||.          +.|.-.++---+-|+-+.|....-.+++. | +.|
T Consensus       203 ~V~nlmlSyRDvQdY~amirLVe~Lk~---i-P~t~~vve~~nv~f~YaFALNRRNr~GDRakAL~~~l~lve~eg~vap  278 (1226)
T KOG4279|consen  203 TVSNLMLSYRDVQDYDAMIRLVEDLKR---I-PDTLKVVETHNVRFHYAFALNRRNRPGDRAKALNTVLPLVEKEGPVAP  278 (1226)
T ss_pred             HHHHHHhhhccccchHHHHHHHHHHHh---C-cchhhhhccCceEEEeeehhcccCCCccHHHHHHHHHHHHHhcCCCCC
Confidence            344566677777788888888888765   2 321          23444444444567777787776666554 2 233


Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHH---HHHHHHH
Q 005268          367 DVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHIT---FVSLLTA  443 (705)
Q Consensus       367 ~~~~~~~li~~y~k~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t---~~~ll~a  443 (705)
                               ++|+-||++-+      .|-         +-+.|...+..+.|.+.|++..+  +.|+..+   +..|+.+
T Consensus       279 ---------Dm~Cl~GRIYK------DmF---------~~S~ytDa~s~~~a~~WyrkaFe--veP~~~sGIN~atLL~a  332 (1226)
T KOG4279|consen  279 ---------DMYCLCGRIYK------DMF---------IASNYTDAESLNHAIEWYRKAFE--VEPLEYSGINLATLLRA  332 (1226)
T ss_pred             ---------ceeeeechhhh------hhh---------hccCCcchhhHHHHHHHHHHHhc--cCchhhccccHHHHHHH
Confidence                     35667776532      221         12334455667789999999988  7887653   4444433


Q ss_pred             HhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHH
Q 005268          444 CSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNMPVRPDASIWGALLGACRIHGNMELGAV  523 (705)
Q Consensus       444 ~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~  523 (705)
                      -.+  .++...+    +... |+        .|-.+++|.|.++.-.++++-.          ..+.+-.-.+|+.+|.+
T Consensus       333 aG~--~Fens~E----lq~I-gm--------kLn~LlgrKG~leklq~YWdV~----------~y~~asVLAnd~~kaiq  387 (1226)
T KOG4279|consen  333 AGE--HFENSLE----LQQI-GM--------KLNSLLGRKGALEKLQEYWDVA----------TYFEASVLANDYQKAIQ  387 (1226)
T ss_pred             hhh--hccchHH----HHHH-HH--------HHHHHhhccchHHHHHHHHhHH----------HhhhhhhhccCHHHHHH
Confidence            221  1222222    1111 22        2456789999998887777432          33555667789999999


Q ss_pred             HHHHHhccCCCC
Q 005268          524 ASDRLFEVDSEN  535 (705)
Q Consensus       524 ~~~~~~~~~p~~  535 (705)
                      +.+.|++++|..
T Consensus       388 Aae~mfKLk~P~  399 (1226)
T KOG4279|consen  388 AAEMMFKLKPPV  399 (1226)
T ss_pred             HHHHHhccCCce
Confidence            999999999854

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=83.80  E-value=49  Score=32.96  Aligned_cols=125  Identities=13%  Similarity=0.160  Sum_probs=74.1

Q ss_pred             hhHHHHHHHHHHHCCCCCChhhHHhHHHHhhc--CC----ChHHHHHHHHHHHHhCC---CCchhHHHHHHHHHHccCCH
Q 005268          110 AVEALDILDEMRLEGVSMDPITVASILPVCAR--SD----NILSGLLIHLYIVKHGL---EFNLFVSNNLINMYAKFGMM  180 (705)
Q Consensus       110 ~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~--~~----~~~~a~~~~~~~~~~g~---~~~~~~~~~Li~~y~~~g~~  180 (705)
                      +++.+.+++.|.+.|.+-+.++|.+..-....  ..    ....++.+|+.|.+..+   .++..++..|+..  ...+.
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            34566778888888888888887665444433  22    24568888999888653   3455666666554  33333


Q ss_pred             ----HHHHHHHhccCC-----CCe-ehHHHHHHHHHcCCC--hhhHHHHHHHHHHCCCCCChhhHHHH
Q 005268          181 ----RHALRVFDQMME-----RDV-VSWNSIIAAYEQSND--PITAHGFFTTMQQAGIQPDLLTLVSL  236 (705)
Q Consensus       181 ----~~A~~~f~~m~~-----~~~-~~~~~li~~~~~~g~--~~~A~~~~~~m~~~g~~p~~~t~~~l  236 (705)
                          +.++..|+.+.+     .|. ...+.++...-....  ..++.++++.+.+.|+++....|..+
T Consensus       156 e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~l  223 (297)
T PF13170_consen  156 EELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTL  223 (297)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHH
Confidence                344555555433     222 222222222211111  45788888888888888877776544

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=83.30  E-value=83  Score=35.22  Aligned_cols=21  Identities=24%  Similarity=0.419  Sum_probs=15.9

Q ss_pred             HHhcCCHHHHHHHHHhCCCCC
Q 005268          480 FGRAGHLGMAHNFIQNMPVRP  500 (705)
Q Consensus       480 ~~~~g~~~~A~~~~~~~~~~p  500 (705)
                      +...|++++|++.++++++-|
T Consensus       515 ~~~~g~~~~AL~~i~~L~liP  535 (613)
T PF04097_consen  515 LYHAGQYEQALDIIEKLDLIP  535 (613)
T ss_dssp             HHHTT-HHHHHHHHHHTT-S-
T ss_pred             HHHcCCHHHHHHHHHhCCCCC
Confidence            568899999999999998777

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.

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=83.28  E-value=4.3  Score=35.02  Aligned_cols=52  Identities=6%  Similarity=-0.033  Sum_probs=34.8

Q ss_pred             cCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhCC
Q 005268          515 HGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDRG  566 (705)
Q Consensus       515 ~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  566 (705)
                      .++.++++.++..+.-+.|+.+..-..-++++...|+|+||.++++...+.+
T Consensus        23 ~~d~~D~e~lLdALrvLrP~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~~   74 (153)
T TIGR02561        23 SADPYDAQAMLDALRVLRPNLKELDMFDGWLLIARGNYDEAARILRELLSSA   74 (153)
T ss_pred             cCCHHHHHHHHHHHHHhCCCccccchhHHHHHHHcCCHHHHHHHHHhhhccC
Confidence            5666666666666666677666666666666777777777777776665543

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>KOG0403 consensus Neoplastic transformation suppressor Pdcd4/MA-3, contains MA3 domain [Signal transduction mechanisms]

Probab=83.27  E-value=60  Score=33.57  Aligned_cols=120  Identities=17%  Similarity=0.156  Sum_probs=60.6

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHhHHHHhhcCCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHc
Q 005268           97 WNAMISGYCQSGNAVEALDILDEMRLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAK  176 (705)
Q Consensus        97 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~  176 (705)
                      -|-++.-|...|+..+|.+..+++...- -.+...-.++..+.    .-..+.-+.-.+.+.+...+...-+.+..++.|
T Consensus       217 In~~l~eyv~~getrea~rciR~L~vsf-fhhe~vkralv~am----e~~~ae~l~l~llke~~e~glissSq~~kGfsr  291 (645)
T KOG0403|consen  217 INGNLIEYVEIGETREACRCIRELGVSF-FHHEGVKRALVDAM----EDALAEGLTLKLLKEGREEGLISSSQMGKGFSR  291 (645)
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHhCCCc-hhhHHHHHHHHHHH----hhhhcccceeccchhhhhhcchhhhccccCchh
Confidence            4566778888999888888887775321 11222222222222    111111111111222222233333444455554


Q ss_pred             cC--------CHHHHHHHHhccCCCCe---------------------------ehHHHHHHHHHcCCChhhHHHHHHHH
Q 005268          177 FG--------MMRHALRVFDQMMERDV---------------------------VSWNSIIAAYEQSNDPITAHGFFTTM  221 (705)
Q Consensus       177 ~g--------~~~~A~~~f~~m~~~~~---------------------------~~~~~li~~~~~~g~~~~A~~~~~~m  221 (705)
                      .+        ++..|...|+.+..+++                           .....+|.-|...|+..+..+.++++
T Consensus       292 ~~~slddl~ldiP~a~~~~esiv~Ka~s~gwl~e~s~k~~s~~~g~~e~~r~Fkk~~~~IIqEYFlsgDt~Evi~~L~DL  371 (645)
T KOG0403|consen  292 KGGSLDDLVLDIPSARYDFESIVPKAPSGGWLDENSFKETSVLPGDSENLRAFKKDLTPIIQEYFLSGDTPEVIRSLRDL  371 (645)
T ss_pred             hccccccccccCcchhhhhhhhcccCCCCCccchhhhcccccCCCcchHHHHHHHhhHHHHHHHHhcCChHHHHHHHHHc
Confidence            43        24456777776633110                           12346777888888887777777654

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=83.20  E-value=25  Score=33.53  Aligned_cols=231  Identities=13%  Similarity=0.139  Sum_probs=125.7

Q ss_pred             cCCHHHHHHHHhcCCC----C---ChhHHHHHHHHHHHcCChhHHHHHHHhhhhc--CCCC--CCcccccchhHHhhccC
Q 005268          279 LGIINSACAVFEGLPV----K---DVISWNTLITGYAQNGLASEAIEVFQMMEEC--NEIN--PNQGTYVSILPAYSHVG  347 (705)
Q Consensus       279 ~g~~~~A~~~f~~~~~----~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--~~~~--p~~~t~~~ll~a~~~~~  347 (705)
                      ....++|..-|+.+.+    +   .-.+...+|..+.+.+++++.++.+.+|..-  ..+.  -+....++++.-.+...
T Consensus        40 e~~p~~Al~sF~kVlelEgEKgeWGFKALKQmiKI~f~l~~~~eMm~~Y~qlLTYIkSAVTrNySEKsIN~IlDyiStS~  119 (440)
T KOG1464|consen   40 EDEPKEALSSFQKVLELEGEKGEWGFKALKQMIKINFRLGNYKEMMERYKQLLTYIKSAVTRNYSEKSINSILDYISTSK  119 (440)
T ss_pred             ccCHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHhhhh
Confidence            3456667666665431    1   2234456777788888888888887777530  0111  12334566666666555


Q ss_pred             chHHHHHHHHHHHHh-----CCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCCC------------CCc---chHHHHHH
Q 005268          348 ALRQGIKIHARVIKN-----CLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPR------------SSS---VPWNAIIS  407 (705)
Q Consensus       348 ~~~~a~~~~~~~~~~-----g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~~------------~~~---~~~~~li~  407 (705)
                      +.+.-..+++.-++.     +-..--.+-+.|...|...|.+.+-.+++.++.+            ++.   ..|..-|.
T Consensus       120 ~m~LLQ~FYeTTL~ALkdAKNeRLWFKTNtKLgkl~fd~~e~~kl~KIlkqLh~SCq~edGedD~kKGtQLLEiYAlEIQ  199 (440)
T KOG1464|consen  120 NMDLLQEFYETTLDALKDAKNERLWFKTNTKLGKLYFDRGEYTKLQKILKQLHQSCQTEDGEDDQKKGTQLLEIYALEIQ  199 (440)
T ss_pred             hhHHHHHHHHHHHHHHHhhhcceeeeeccchHhhhheeHHHHHHHHHHHHHHHHHhccccCchhhhccchhhhhHhhHhh
Confidence            555555555443321     1111122334566667777777777777665531            111   22666677


Q ss_pred             HHHhcCChHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHh-----ccCcHHHHHH-HHHHhHHhhCCcCCc-----chHHH
Q 005268          408 CHGIHGQGDKALNFFRQMLDEG-VRPDHITFVSLLTACS-----HSGLVSEGQR-YFHMMQEEFGIKPHL-----KHYGC  475 (705)
Q Consensus       408 ~~~~~g~~~~A~~~~~~m~~~g-~~p~~~t~~~ll~a~~-----~~g~~~~a~~-~~~~m~~~~~~~p~~-----~~~~~  475 (705)
                      .|....+-.+-..+|++.+.-. --|- .....++.-|.     +.|.+++|.. +|+.. +.|.-.-++     --|-.
T Consensus       200 mYT~qKnNKkLK~lYeqalhiKSAIPH-PlImGvIRECGGKMHlreg~fe~AhTDFFEAF-KNYDEsGspRRttCLKYLV  277 (440)
T KOG1464|consen  200 MYTEQKNNKKLKALYEQALHIKSAIPH-PLIMGVIRECGGKMHLREGEFEKAHTDFFEAF-KNYDESGSPRRTTCLKYLV  277 (440)
T ss_pred             hhhhhcccHHHHHHHHHHHHhhccCCc-hHHHhHHHHcCCccccccchHHHHHhHHHHHH-hcccccCCcchhHHHHHHH
Confidence            7887787777778888776522 2233 33445555553     5677877764 44433 333222222     23555


Q ss_pred             HHHHHHhcC----CHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 005268          476 MVDLFGRAG----HLGMAHNFIQNMPVRPDASIWGALLGACRIH  515 (705)
Q Consensus       476 li~~~~~~g----~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~  515 (705)
                      |.+++.+.|    +-+||.-    .+..|.......|+.+|..+
T Consensus       278 LANMLmkS~iNPFDsQEAKP----yKNdPEIlAMTnlv~aYQ~N  317 (440)
T KOG1464|consen  278 LANMLMKSGINPFDSQEAKP----YKNDPEILAMTNLVAAYQNN  317 (440)
T ss_pred             HHHHHHHcCCCCCcccccCC----CCCCHHHHHHHHHHHHHhcc
Confidence            667777766    2222211    01335566778888887654

>KOG3364 consensus Membrane protein involved in organellar division [Cell wall/membrane/envelope biogenesis]

Probab=83.13  E-value=9  Score=32.40  Aligned_cols=60  Identities=10%  Similarity=-0.030  Sum_probs=33.7

Q ss_pred             HHHHHHHHhcC---ChhHHHHHHHHHhc-cCCCCcch-hhhhhhhhhhcCCcchHHHHHHHHHhC
Q 005268          506 GALLGACRIHG---NMELGAVASDRLFE-VDSENVGY-YVLMSNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       506 ~~ll~~~~~~g---~~~~a~~~~~~~~~-~~p~~~~~-~~~l~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      -.+.++..+..   ++.+++.+++.+.+ -.|....- ...|+-.+++.|+++.+.++.+...+.
T Consensus        36 f~lAwaLV~S~~~~dv~~GI~iLe~l~~~~~~~~rRe~lyYLAvg~yRlkeY~~s~~yvd~ll~~  100 (149)
T KOG3364|consen   36 FNLAWALVRSRDTEDVQEGIVILEDLLKSAHPERRRECLYYLAVGHYRLKEYSKSLRYVDALLET  100 (149)
T ss_pred             HHHHHHHHcccchHHHHHhHHHHHHHhhhcCcccchhhhhhhHHHHHHHhhHHHHHHHHHHHHhh
Confidence            34444444433   44566777777775 33432222 233555677777777777777766554

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=83.09  E-value=2.2  Score=25.98  Aligned_cols=30  Identities=20%  Similarity=0.492  Sum_probs=21.0

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC
Q 005268          402 WNAIISCHGIHGQGDKALNFFRQMLDEGVRPD  433 (705)
Q Consensus       402 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  433 (705)
                      |..+...|...|++++|++.|++.++  +.|+
T Consensus         4 ~~~lg~~~~~~~~~~~A~~~~~~al~--l~p~   33 (34)
T PF07719_consen    4 WYYLGQAYYQLGNYEEAIEYFEKALE--LDPN   33 (34)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHH--HSTT
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHH--HCcC
Confidence            55667777778888888888888777  4454

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 ....

>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=83.02  E-value=1.5  Score=30.50  Aligned_cols=33  Identities=21%  Similarity=0.139  Sum_probs=26.1

Q ss_pred             HHHHHHHhcCChhHHHHHHHHHhccCCCCcchh
Q 005268          507 ALLGACRIHGNMELGAVASDRLFEVDSENVGYY  539 (705)
Q Consensus       507 ~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~  539 (705)
                      .+.-|+.+.|++++|.+..+.+++++|+|..+-
T Consensus         6 ~lAig~ykl~~Y~~A~~~~~~lL~~eP~N~Qa~   38 (53)
T PF14853_consen    6 YLAIGHYKLGEYEKARRYCDALLEIEPDNRQAQ   38 (53)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHHHHHHTTS-HHHH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHhhCCCcHHHH
Confidence            355688999999999999999999999886543

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=82.52  E-value=20  Score=28.51  Aligned_cols=61  Identities=21%  Similarity=0.267  Sum_probs=46.8

Q ss_pred             HHHHhcCCHHHHHHHHhhCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHH
Q 005268          376 DMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVS  439 (705)
Q Consensus       376 ~~y~k~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~  439 (705)
                      ..+...|++++|..+.+...-||..+|-+|-.  .+.|..+++..-+.+|..+| .|...+|..
T Consensus        47 sSLmNrG~Yq~Al~l~~~~~~pdlepw~ALce--~rlGl~s~l~~rl~rla~sg-~p~lq~Faa  107 (115)
T TIGR02508        47 SSLMNRGDYQSALQLGNKLCYPDLEPWLALCE--WRLGLGSALESRLNRLAASG-DPRLQTFVA  107 (115)
T ss_pred             HHHHccchHHHHHHhcCCCCCchHHHHHHHHH--HhhccHHHHHHHHHHHHhCC-CHHHHHHHH
Confidence            44567899999999999999999999988755  35677777777788888876 666666644

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=82.26  E-value=13  Score=39.69  Aligned_cols=148  Identities=18%  Similarity=0.100  Sum_probs=99.2

Q ss_pred             hcCCHHHHHHHHhhCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHhccCcHHHHHHHHH
Q 005268          380 KCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHI-TFVSLLTACSHSGLVSEGQRYFH  458 (705)
Q Consensus       380 k~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~  458 (705)
                      -.|+++.|..++..++++   .-+.++.-+...|..++|++         +.||+. -|..    ..+.|+++.|.++..
T Consensus       598 mrrd~~~a~~vLp~I~k~---~rt~va~Fle~~g~~e~AL~---------~s~D~d~rFel----al~lgrl~iA~~la~  661 (794)
T KOG0276|consen  598 LRRDLEVADGVLPTIPKE---IRTKVAHFLESQGMKEQALE---------LSTDPDQRFEL----ALKLGRLDIAFDLAV  661 (794)
T ss_pred             hhccccccccccccCchh---hhhhHHhHhhhccchHhhhh---------cCCChhhhhhh----hhhcCcHHHHHHHHH
Confidence            457888888877777632   23455566667777777765         344442 2322    346788898888765


Q ss_pred             HhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcch
Q 005268          459 MMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGY  538 (705)
Q Consensus       459 ~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~  538 (705)
                      +..       +..-|..|.++....|++..|.+.|.+..      -|.+|+-.+...|+-+.-..+.....+....|.. 
T Consensus       662 e~~-------s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~------d~~~LlLl~t~~g~~~~l~~la~~~~~~g~~N~A-  727 (794)
T KOG0276|consen  662 EAN-------SEVKWRQLGDAALSAGELPLASECFLRAR------DLGSLLLLYTSSGNAEGLAVLASLAKKQGKNNLA-  727 (794)
T ss_pred             hhc-------chHHHHHHHHHHhhcccchhHHHHHHhhc------chhhhhhhhhhcCChhHHHHHHHHHHhhcccchH-
Confidence            432       44578899999999999999999998764      2667777778888866555555555444444422 


Q ss_pred             hhhhhhhhhhcCCcchHHHHHHH
Q 005268          539 YVLMSNIYANVGKWEGVDEVRSL  561 (705)
Q Consensus       539 ~~~l~~~~~~~g~~~~a~~~~~~  561 (705)
                          -.+|...|+++++.+++..
T Consensus       728 ----F~~~~l~g~~~~C~~lLi~  746 (794)
T KOG0276|consen  728 ----FLAYFLSGDYEECLELLIS  746 (794)
T ss_pred             ----HHHHHHcCCHHHHHHHHHh
Confidence                2356778999998887654

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=82.12  E-value=1.7  Score=42.59  Aligned_cols=112  Identities=9%  Similarity=0.037  Sum_probs=76.4

Q ss_pred             HHHHHhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhCCCCCC---HHHHHHHHHHHHhc
Q 005268          440 LLTACSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNMPVRPD---ASIWGALLGACRIH  515 (705)
Q Consensus       440 ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~---~~~~~~ll~~~~~~  515 (705)
                      -.+-|.+.|.+++|+..+..-.   .+.| +...+..-..+|.+..++..|+.-.+.+- .-|   ...|.--..+-...
T Consensus       103 ~GN~yFKQgKy~EAIDCYs~~i---a~~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~Ai-aLd~~Y~KAYSRR~~AR~~L  178 (536)
T KOG4648|consen  103 RGNTYFKQGKYEEAIDCYSTAI---AVYPHNPVYHINRALAYLKQKSFAQAEEDCEAAI-ALDKLYVKAYSRRMQARESL  178 (536)
T ss_pred             hhhhhhhccchhHHHHHhhhhh---ccCCCCccchhhHHHHHHHHHHHHHHHHhHHHHH-HhhHHHHHHHHHHHHHHHHH
Confidence            3556888999999999998665   4567 78888888899999999988876555441 111   12233333334455


Q ss_pred             CChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHH
Q 005268          516 GNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVR  559 (705)
Q Consensus       516 g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~  559 (705)
                      |+..+|.+-++.+++++|++..    |-..|++.....|+.-+.
T Consensus       179 g~~~EAKkD~E~vL~LEP~~~E----LkK~~a~i~Sl~E~~I~~  218 (536)
T KOG4648|consen  179 GNNMEAKKDCETVLALEPKNIE----LKKSLARINSLRERKIAT  218 (536)
T ss_pred             hhHHHHHHhHHHHHhhCcccHH----HHHHHHHhcchHhhhHHh
Confidence            7889999999999999998543    444455555555554443

>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=81.24  E-value=1.7e+02  Score=37.43  Aligned_cols=279  Identities=12%  Similarity=0.045  Sum_probs=150.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhc-CCCCChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCC-cccccchhHHhhc
Q 005268          268 IGNAVVDMYAKLGIINSACAVFEG-LPVKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPN-QGTYVSILPAYSH  345 (705)
Q Consensus       268 ~~~~li~~y~~~g~~~~A~~~f~~-~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~-~~t~~~ll~a~~~  345 (705)
                      .+-.+...|+.-+++|....+... ...+   +...-|.-....|++..|...|+.+.+   ..|+ ..+++.++.....
T Consensus      1422 l~fllq~lY~~i~dpDgV~Gv~~~r~a~~---sl~~qil~~e~~g~~~da~~Cye~~~q---~~p~~~~~~~g~l~sml~ 1495 (2382)
T KOG0890|consen 1422 LYFLLQNLYGSIHDPDGVEGVSARRFADP---SLYQQILEHEASGNWADAAACYERLIQ---KDPDKEKHHSGVLKSMLA 1495 (2382)
T ss_pred             HHHHHHHHHHhcCCcchhhhHHHHhhcCc---cHHHHHHHHHhhccHHHHHHHHHHhhc---CCCccccchhhHHHhhhc
Confidence            344455577777777766665542 2222   233445556677888899999988876   5565 6677777777667


Q ss_pred             cCchHHHHHHHHHHHHhCCCCchhHHH-HHHHHHHhcCCHHHHHHHHhhCCCCCcchHHHH-HH-HHHhc--CChHHHHH
Q 005268          346 VGALRQGIKIHARVIKNCLCFDVFVAT-CLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAI-IS-CHGIH--GQGDKALN  420 (705)
Q Consensus       346 ~~~~~~a~~~~~~~~~~g~~~~~~~~~-~li~~y~k~g~~~~A~~~~~~~~~~~~~~~~~l-i~-~~~~~--g~~~~A~~  420 (705)
                      .+.++...-..+..... ..+....++ .=+.+--+.++++.......   ..+...|.+. +. ...+.  .+.-.-.+
T Consensus      1496 ~~~l~t~i~~~dg~~~~-~se~~~~~~s~~~eaaW~l~qwD~~e~~l~---~~n~e~w~~~~~g~~ll~~~~kD~~~~~~ 1571 (2382)
T KOG0890|consen 1496 IQHLSTEILHLDGLIIN-RSEEVDELNSLGVEAAWRLSQWDLLESYLS---DRNIEYWSVESIGKLLLRNKKKDEIATLD 1571 (2382)
T ss_pred             ccchhHHHhhhcchhhc-cCHHHHHHHHHHHHHHhhhcchhhhhhhhh---cccccchhHHHHHHHHHhhcccchhhHHH
Confidence            77776665544433322 222222222 22333356666766666554   5566667665 22 22221  22222223


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHH----------HhHHhhCCcCCcc------hHHHHHHHHHhcC
Q 005268          421 FFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFH----------MMQEEFGIKPHLK------HYGCMVDLFGRAG  484 (705)
Q Consensus       421 ~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~----------~m~~~~~~~p~~~------~~~~li~~~~~~g  484 (705)
                      ..+.+++.-+.|        +.+|+..|.+..+.++.-          ......++.++..      -|..-...-....
T Consensus      1572 ~i~~~r~~~i~~--------lsa~s~~~Sy~~~Y~~~~kLH~l~el~~~~~~l~~~s~~~~s~~~sd~W~~Rl~~tq~s~ 1643 (2382)
T KOG0890|consen 1572 LIENSRELVIEN--------LSACSIEGSYVRSYEILMKLHLLLELENSIEELKKVSYDEDSANNSDNWKNRLERTQPSF 1643 (2382)
T ss_pred             HHHHHHHHhhhh--------HHHhhccchHHHHHHHHHHHHHHHHHHHHHHHhhccCccccccccchhHHHHHHHhchhH
Confidence            444444322222        223333332222222111          1111123444322      1222221111111


Q ss_pred             CHHHHHHHHHhC----CCCC-----CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchH
Q 005268          485 HLGMAHNFIQNM----PVRP-----DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGV  555 (705)
Q Consensus       485 ~~~~A~~~~~~~----~~~p-----~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a  555 (705)
                      +..+-+--+++.    ..+|     -..+|-.....++..|.++.|....-++.+..+  +..+.-.+......|+-..|
T Consensus      1644 ~~~epILa~RRs~l~~~~~~~~~~~~ge~wLqsAriaR~aG~~q~A~nall~A~e~r~--~~i~~E~AK~lW~~gd~~~A 1721 (2382)
T KOG0890|consen 1644 RIKEPILAFRRSMLDLRMRSNLKSRLGECWLQSARIARLAGHLQRAQNALLNAKESRL--PEIVLERAKLLWQTGDELNA 1721 (2382)
T ss_pred             HHHhHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHhcccHHHHHHHHHhhhhccc--chHHHHHHHHHHhhccHHHH
Confidence            222222112211    1122     255899999999999999999998887777663  46788889999999999999


Q ss_pred             HHHHHHHHhCC
Q 005268          556 DEVRSLARDRG  566 (705)
Q Consensus       556 ~~~~~~m~~~~  566 (705)
                      ..+.+.-.+..
T Consensus      1722 l~~Lq~~l~~~ 1732 (2382)
T KOG0890|consen 1722 LSVLQEILSKN 1732 (2382)
T ss_pred             HHHHHHHHHhh
Confidence            99998887654

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=80.78  E-value=2.9  Score=25.86  Aligned_cols=24  Identities=17%  Similarity=0.196  Sum_probs=16.1

Q ss_pred             CchhHHHHHHHHHHHhcCCHHHHH
Q 005268          263 MEDVIIGNAVVDMYAKLGIINSAC  286 (705)
Q Consensus       263 ~~~~~~~~~li~~y~~~g~~~~A~  286 (705)
                      |.+..+|+.|...|...|++++|+
T Consensus        10 P~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen   10 PNNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             CCCHHHHHHHHHHHHHCcCHHhhc
Confidence            556666677777777777666664

>smart00028 TPR Tetratricopeptide repeats

Probab=80.52  E-value=3.3  Score=24.08  Aligned_cols=31  Identities=16%  Similarity=0.102  Sum_probs=22.1

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHhccCCC
Q 005268          504 IWGALLGACRIHGNMELGAVASDRLFEVDSE  534 (705)
Q Consensus       504 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~  534 (705)
                      .|..+...+...|+++.|...+++.+++.|+
T Consensus         3 ~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~~   33 (34)
T smart00028        3 ALYNLGNAYLKLGDYDEALEYYEKALELDPN   33 (34)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHccCCC
Confidence            4556666777777777777777777777664

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.

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=80.29  E-value=39  Score=29.38  Aligned_cols=35  Identities=14%  Similarity=0.250  Sum_probs=20.9

Q ss_pred             HHhcCCHHHHHHHHhhCCCCCc-chHHHHHHHHHhc
Q 005268          378 YGKCGRIDDAMSLFYQVPRSSS-VPWNAIISCHGIH  412 (705)
Q Consensus       378 y~k~g~~~~A~~~~~~~~~~~~-~~~~~li~~~~~~  412 (705)
                      +.+.|++++|..+|+++..... .+|..-+.++|..
T Consensus        54 ~i~rg~w~eA~rvlr~l~~~~~~~p~~kAL~A~CL~   89 (153)
T TIGR02561        54 LIARGNYDEAARILRELLSSAGAPPYGKALLALCLN   89 (153)
T ss_pred             HHHcCCHHHHHHHHHhhhccCCCchHHHHHHHHHHH
Confidence            4566777777777777775443 3455555554443

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

---

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	705
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	1e-11
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	8e-09
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	9e-08
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-07
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-09
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	9e-05
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-04

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 67.5 bits (163), Expect = 1e-11
 Identities = 24/203 (11%), Positives = 56/203 (27%), Gaps = 9/203 (4%)

Query: 308 AQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFD 367
               L+ +     +        +P +     +L       +L        +  +  L   
Sbjct: 67  EPRLLSKQMAGCLEDCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQ 126

Query: 368 VFVATCLVDMYGKCGRIDDAMSL---FYQVPRSSSVP----WNAIISCHGIHGQGDKALN 420
                          ++  A  L    +   +   +     +NA++      G   + + 
Sbjct: 127 QQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVY 186

Query: 421 FFRQMLDEGVRPDHITFVSLLTACSHSGLVSEG-QRYFHMMQEEFGIKPHLKHYGCMVDL 479
               + D G+ PD +++ + L         +   +R    M  + G+K        ++  
Sbjct: 187 VLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMS-QEGLKLQALFTAVLLSE 245

Query: 480 FGRAGHLGMAHNFIQNMPVRPDA 502
             RA  L   H       + P  
Sbjct: 246 EDRATVLKAVHKVKPTFSLPPQL 268

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 58.3 bits (139), Expect = 8e-09
 Identities = 26/251 (10%), Positives = 58/251 (23%), Gaps = 39/251 (15%)

Query: 221 MQQAGIQPDLLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLG 280
            +QA   P    L  L             ++  G    +           A         
Sbjct: 83  TRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQ-HSQAQLSGQQQRLLAFFKCCLLTD 141

Query: 281 IINSACAVFEGL-------PVKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQ 333
            +  A  +            +  +  +N ++ G+A+ G   E + V  M+++   + P+ 
Sbjct: 142 QLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKD-AGLTPDL 200

Query: 334 GTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQ 393
            +Y + L            I+                  CL  M  +  ++    +    
Sbjct: 201 LSYAAALQCMGRQDQDAGTIE-----------------RCLEQMSQEGLKLQALFT---- 239

Query: 394 VPRSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEG 453
                      ++S                        P  +    LL            
Sbjct: 240 ---------AVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSY 290

Query: 454 QRYFHMMQEEF 464
            +    ++   
Sbjct: 291 PKLHLPLKTLQ 301

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 54.8 bits (130), Expect = 9e-08
 Identities = 19/232 (8%), Positives = 62/232 (26%), Gaps = 11/232 (4%)

Query: 113 ALDILDEMRLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLIN 172
           A  + D  R    S     +A +L       ++           +  L            
Sbjct: 76  AGCLEDCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFK 135

Query: 173 MYAKFGMMRHALRVFDQMMER-------DVVSWNSIIAAYEQSNDPITAHGFFTTMQQAG 225
                  +  A  +      +        +  +N+++  + +             ++ AG
Sbjct: 136 CCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAG 195

Query: 226 IQPDLLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSA 285
           + PDLL+  +    + + +    +       M +       +    ++    +  ++ + 
Sbjct: 196 LTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAV 255

Query: 286 CAVFEGL----PVKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQ 333
             V         +   ++ + L+             ++   ++    +   Q
Sbjct: 256 HKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPLKTLQCLFEKQ 307

>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 = 2e-07
 Identities = 18/137 (13%), Positives = 48/137 (35%), Gaps = 8/137 (5%)

Query: 68  SLLHMYCRFGLANVARKLFDDM-------PVRDSGSWNAMISGYCQSGNAVEALDILDEM 120
           +            +A  L            +     +NA++ G+ + G   E + +L  +
Sbjct: 132 AFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMV 191

Query: 121 RLEGVSMDPITVASILPVCARSDNILSGLL-IHLYIVKHGLEFNLFVSNNLINMYAKFGM 179
           +  G++ D ++ A+ L    R D     +      + + GL+     +  L++   +  +
Sbjct: 192 KDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATV 251

Query: 180 MRHALRVFDQMMERDVV 196
           ++   +V         +
Sbjct: 252 LKAVHKVKPTFSLPPQL 268

>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 = 58.3 bits (140), Expect = 6e-09
 Identities = 78/491 (15%), Positives = 143/491 (29%), Gaps = 139/491 (28%)

Query: 37  VLKACRNLVDGKKIHCSVLKLGFE--W--------DVFVAASLLHMYCRFGLANVARKLF 86
            L  C +     K+ C   K+ F+  W           V   L  +  +      +R   
Sbjct: 167 ALDVCLS----YKVQC---KMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDH 219

Query: 87  DDMPVRDSGSWNAMISGYCQSGNAVEALDILDEMRLEGVSMDPITVAS------ILPVCA 140
                    S  A +    +S      L +L  ++      +     +      IL +  
Sbjct: 220 SSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQ------NAKAWNAFNLSCKIL-LTT 272

Query: 141 R----SDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGMMRHALRVFDQMMERDVV 196
           R    +D + +    H+ +  H +       + + ++  K+      L    Q + R+V+
Sbjct: 273 RFKQVTDFLSAATTTHISLDHHSMTLT---PDEVKSLLLKY------LDCRPQDLPREVL 323

Query: 197 SWN----SIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQLNDCRNSRSV 252
           + N    SIIA     +   T   +    +   +  D LT +  +S+   L      +  
Sbjct: 324 TTNPRRLSIIAE-SIRDGLATWDNW----KH--VNCDKLTTIIESSL-NVLEPAEYRKMF 375

Query: 253 HGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDVISWNTLITGYAQNGL 312
               +    F     I   +      L +I                 W  +I        
Sbjct: 376 DRLSV----FPPSAHIPTIL------LSLI-----------------WFDVIK------- 401

Query: 313 ASEAIEVFQMMEECN-----EINPNQGTYVSILPAYSHVGA-LRQGIKIHARVI-----K 361
                +V  ++ + +     E  P + T  SI   Y  +   L     +H  ++      
Sbjct: 402 ----SDVMVVVNKLHKYSLVEKQPKESTI-SIPSIYLELKVKLENEYALHRSIVDHYNIP 456

Query: 362 NCLCFDVFVATCLVDMY-----G---KCGRIDDAMSLFYQV----------PRSSSVPWN 403
                D  +   L D Y     G   K     + M+LF  V           R  S  WN
Sbjct: 457 KTFDSDDLIPPYL-DQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWN 515

Query: 404 AIISCHGIHGQGDKALNFFRQML------DEGVRPDHITFVSLLTACSHSGLVSEGQRYF 457
           A  S      Q    L F++  +       E +    + F   L     + + S+     
Sbjct: 516 ASGSILNTLQQ----LKFYKPYICDNDPKYERLVNAILDF---LPKIEENLICSKYTDLL 568

Query: 458 H--MMQEEFGI 466
              +M E+  I
Sbjct: 569 RIALMAEDEAI 579

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 50.6 bits (120), Expect = 2e-06
 Identities = 92/653 (14%), Positives = 196/653 (30%), Gaps = 181/653 (27%)

Query: 115 DILDEMRLEGVSMDPITVASILPVCARSDNILSGLLI-HLYIVKHGLE-----FNLFVSN 168
           D+ D  +                      +ILS   I H+ + K  +      F   +S 
Sbjct: 37  DVQDMPK----------------------SILSKEEIDHIIMSKDAVSGTLRLFWTLLSK 74

Query: 169 NLINMYAKFGMMRHALRVFDQMMERDVVSWNSIIAAY-EQSNDPITAHGFFTTMQQAGIQ 227
               M  KF          ++++  +   +  +++    +   P      +   +     
Sbjct: 75  QE-EMVQKF---------VEEVLRINY-KF--LMSPIKTEQRQPSMMTRMYIEQRD---- 117

Query: 228 PDLLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGI-----I 282
                L +   + A+ N  R    +  ++  R   +E     N ++     LG       
Sbjct: 118 ----RLYNDNQVFAKYNVSR----LQPYLKLRQALLELRPAKNVLI--DGVLGSGKTWVA 167

Query: 283 NSACAVFEGLPVKDV-ISWNTLITGYAQNGLASEAIEVFQMMEE-CNEINPNQGTYVSIL 340
              C  ++     D  I W  L          +    V +M+++   +I+PN  +     
Sbjct: 168 LDVCLSYKVQCKMDFKIFWLNL-------KNCNSPETVLEMLQKLLYQIDPNWTSRSDHS 220

Query: 341 PAYSH-VGALRQGIK--IHARVIKNCLCF--DVFVATCLVDMYGKCGRIDDAMSLFYQVP 395
                 + +++  ++  + ++  +NCL    +V  A         C +I     L     
Sbjct: 221 SNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSC-KI-----LL--TT 272

Query: 396 RSSSVPWNAIISCHGIH------GQG---DKALNFFRQMLDEGVRPDHITFVSL-LTACS 445
           R   V  + + +    H            D+  +   + L    RP       L     +
Sbjct: 273 RFKQVT-DFLSAATTTHISLDHHSMTLTPDEVKSLLLKYL--DCRPQ-----DLPREVLT 324

Query: 446 HS----GLVSEGQRYFHMMQEEFGIKPHLKHYGC-----MVDLFGRAGHLG---MAHNFI 493
            +     +++E       +++      + KH  C     +++       L        F 
Sbjct: 325 TNPRRLSIIAE------SIRDGLATWDNWKHVNCDKLTTIIESS--LNVLEPAEYRKMF- 375

Query: 494 QNMPV-RPDASIWGALLGACRIHGNME-------LGAVASDRLFEVDSENVGYYVLMSNI 545
             + V  P A I   LL    I  ++        +  +    L E   +     +   +I
Sbjct: 376 DRLSVFPPSAHIPTILL--SLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIP--SI 431

Query: 546 YANV-GKWEGVDEV--RSLARDRGLKKTPGWSSIEVNNKVD--IF-YTGNRTHPK----- 594
           Y  +  K E    +    +      K         +   +D   + + G+  H K     
Sbjct: 432 YLELKVKLENEYALHRSIVDHYNIPKTFDSDD--LIPPYLDQYFYSHIGH--HLKNIEHP 487

Query: 595 -----YEKIYDELRNLTAKMKSLGYVPDKSF----VLQDVEEDEKEHILTSHS--ERLAI 643
                +  ++ + R L  K++      + S      LQ ++   K +I  +    ERL  
Sbjct: 488 ERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKF-YKPYICDNDPKYERLVN 546

Query: 644 AFGIISSPPKSPIQIFKNLRVCG-DCHNWTKF--ISQI---TEREIIVRDSNR 690
           A             I   L     +    +K+  + +I    E E I  ++++
Sbjct: 547 A-------------ILDFLPKIEENLIC-SKYTDLLRIALMAEDEAIFEEAHK 585

>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 = 44.8 bits (105), Expect = 9e-05
 Identities = 36/266 (13%), Positives = 73/266 (27%), Gaps = 62/266 (23%)

Query: 454 QRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNMPVRPDASIWGALLGACR 513
             + H M  E G   +   Y  ++ +F           F+ N   +    +  ++L    
Sbjct: 1   HHHHHHMDFETGEHQY--QYKDILSVF--------EDAFVDNFDCKDVQDMPKSILSKEE 50

Query: 514 IHGNMELGAV--ASDRLFEV--DSENVGYYVLMSNIYANVGKWEGVDEVRSLARDRGLKK 569
           I   +        + RLF      +       +  +     K+  +  +++  R      
Sbjct: 51  IDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFL-MSPIKTEQRQ----- 104

Query: 570 TPGWSSIEVNNKVDIFYTGNRTHPKY----EKIYDELRNLTAKMKSLGYVP-------DK 618
            P   +     + D  Y  N+   KY     + Y +LR    +++    V         K
Sbjct: 105 -PSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGK 163

Query: 619 SFVLQDVEEDEKEHILTSHSERLAIAFGIISSPPKSPIQIFKNLRVCGDCHNWTKFISQI 678
           ++V  DV    K                      K   +IF           W    +  
Sbjct: 164 TWVALDVCLSYKVQ-------------------CKMDFKIF-----------WLNLKNCN 193

Query: 679 TEREIIVRDSNRFHHFKDGICSCGDY 704
           +   ++       +       S  D+
Sbjct: 194 SPETVLEMLQKLLYQIDPNWTSRSDH 219

>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 = 42.9 bits (100), Expect = 4e-04
 Identities = 71/555 (12%), Positives = 152/555 (27%), Gaps = 161/555 (29%)

Query: 41  CRNLVDGKKIHCSVLKLGFEWDVFVAAS--------LLHMYCRFGLANVARKLFDDMPVR 92
           C+++ D  K   S+L    E D  + +         L           + +K  +++ +R
Sbjct: 35  CKDVQDMPK---SILSKE-EIDHIIMSKDAVSGTLRLFWTLLSKQ-EEMVQKFVEEV-LR 88

Query: 93  DSGSW-NAMISGYCQ--SGNAVEALDILDEMRLEGVSMDPITVASILPVCARSDNILSGL 149
            +  +  + I    +  S      ++  D +  +        V+ + P        L  L
Sbjct: 89  INYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLR-QALLEL 147

Query: 150 LIHLYIVKHGLEFNLFVSNNLINMYAKFG---MMRHALR--VFDQMMERDVVSWNSIIAA 204
                ++  G             +    G   +             M+   + W ++   
Sbjct: 148 RPAKNVLIDG-------------V-LGSGKTWVALDVCLSYKVQCKMD-FKIFWLNL--K 190

Query: 205 YEQSNDPITAHGFFTTMQQA---GIQPDLLTLVS-LTSIVAQLNDCRNSRSVHGFIMRRG 260
              S + +        M Q     I P+  +     ++I  +++  +        +  + 
Sbjct: 191 NCNSPETVLE------MLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELR--RLLKSKP 242

Query: 261 W-----FMEDVIIGNAV--VDMYAKLGIINSACAVFEGLPVKDV--ISWNTLITGYAQNG 311
           +      + +V    A    ++  K+ +      V + L       IS +          
Sbjct: 243 YENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTP-- 300

Query: 312 LASEAIEVF---------QMMEECNEINPNQGTYVSILPAYSHVGALR------QGIKIH 356
              E   +           +  E    NP     +SI+      G               
Sbjct: 301 --DEVKSLLLKYLDCRPQDLPREVLTTNP---RRLSIIAESIRDGLATWDNWKHVNCDKL 355

Query: 357 ARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVP-------WNAIIS-- 407
             +I++ L  +V        M+       D +S+F   P S+ +P       W  +I   
Sbjct: 356 TTIIESSL--NVLEPAEYRKMF-------DRLSVF---PPSAHIPTILLSLIWFDVIKSD 403

Query: 408 -------CH--------------GIHGQGDKALNFFRQMLDEGVRPDHITFVS----LLT 442
                   H               I       L    ++ +E     H + V       T
Sbjct: 404 VMVVVNKLHKYSLVEKQPKESTISIP---SIYLELKVKLENEYAL--HRSIVDHYNIPKT 458

Query: 443 ACSHSGLVSEGQRYF------HMMQ----EEFGIKPHLKHYGCMVDLFGRAGHLGMAHNF 492
             S   +     +YF      H+      E   +   +  +   +D             F
Sbjct: 459 FDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMV--F---LDF-----------RF 502

Query: 493 IQNMPVRPDASIWGA 507
           ++   +R D++ W A
Sbjct: 503 LEQ-KIRHDSTAWNA 516

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	705
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
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.95
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.95
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.95
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.91
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.91
2gw1_A	514	Mitochondrial precursor proteins import receptor;	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
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.88
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.82
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.82
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.79
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.77
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.76
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.76
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.76
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.75
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.75
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.75
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.74
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.73
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.71
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.71
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.7
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.7
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.7
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.69
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.67
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.67
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.67
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.67
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.64
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.64
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.58
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.57
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.54
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.54
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.53
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.47
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.47
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.45
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.45
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.45
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.44
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.44
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.43
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.42
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.42
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.41
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.41
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.41
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.41
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.4
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.4
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.4
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.39
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.38
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.38
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.37
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.35
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.32
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.3
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.3
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.3
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.28
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.25
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.24
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.24
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.22
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.21
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.2
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.2
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.19
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.19
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.19
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.17
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.16
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.06
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.06
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.05
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.04
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.0
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	98.98
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	98.98
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	98.98
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.94
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	98.91
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.89
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.88
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.86
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.85
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.85
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	98.85
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.84
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.84
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.78
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.77
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.76
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.76
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.71
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.71
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.71
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.71
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.68
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.67
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.66
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.66
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.65
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.64
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.63
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.62
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.58
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.57
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.57
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.57
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.56
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.56
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.55
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.55
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.55
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.53
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.47
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.47
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.45
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.43
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.43
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.43
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.42
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.4
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.4
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.39
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.38
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.36
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.36
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.33
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.33
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.33
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.32
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.32
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.29
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.28
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.27
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.25
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.25
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.25
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.25
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.23
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.23
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.22
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.22
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.21
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.2
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.19
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.18
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.18
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.17
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.17
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.15
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.14
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.11
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.09
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.08
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.08
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.07
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.05
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.04
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.01
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.01
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.0
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.0
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	97.98
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	97.98
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	97.97
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	97.97
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	97.95
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	97.95
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	97.95
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.93
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	97.92
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	97.92
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.92
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	97.9
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.88
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.86
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.85
3k9i_A	117	BH0479 protein; putative protein binding protein,	97.79
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	97.79
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	97.79
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.78
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.75
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.73
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	97.72
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	97.72
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.64
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.59
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.54
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.46
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.44
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.34
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.32
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.3
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.26
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.24
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.24
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.2
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.18
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.05
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	96.86
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.83
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.78
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.78
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.76
2kat_A	115	Uncharacterized protein; NESG, structure, structur	96.72
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	96.6
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.58
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	96.58
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.4
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	96.35
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.29
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	96.0
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	95.94
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	95.57
1pc2_A	152	Mitochondria fission protein; unknown function; NM	95.39
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	95.27
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	95.04
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	94.93
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	94.86
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	94.68
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	93.92
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	93.64
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	92.96
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	92.56
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	92.23
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	89.85
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	88.98
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	88.88
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	88.4
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	87.69
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	87.59
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	87.59
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	86.93
2p58_C	116	Putative type III secretion protein YSCG; type III	85.82
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	85.21
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	84.17
2qx5_A	661	Nucleoporin NIC96; mRNA transport, nuclear pore co	83.92
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	81.93
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	81.65
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	81.07
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	80.52
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	80.37
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	80.32

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=6.9e-43  Score=389.72  Aligned_cols=481  Identities=10%  Similarity=-0.028  Sum_probs=399.5

Q ss_pred             HHHHcCCChhHHHHHhccCCCCCcchHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHhHHHHhhcCCChHHHHH
Q 005268           71 HMYCRFGLANVARKLFDDMPVRDSGSWNAMISGYCQSGNAVEALDILDEMRLEGVSMDPITVASILPVCARSDNILSGLL  150 (705)
Q Consensus        71 ~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~  150 (705)
                      ..+.++|.+..+...|+.++.+++..|+.++..|.+.|++++|+.+|++|..  ..||..++..++.+|...|++++|..
T Consensus        61 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~--~~p~~~~~~~l~~~~~~~g~~~~A~~  138 (597)
T 2xpi_A           61 NNTSTDGSFLKERNAQNTDSLSREDYLRLWRHDALMQQQYKCAAFVGEKVLD--ITGNPNDAFWLAQVYCCTGDYARAKC  138 (597)
T ss_dssp             ---------------------CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HHCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             ccccccCccCCCCCccccchHHHHHHHHHHHHHHHHccCchHHHHHHHHHHh--hCCCchHHHHHHHHHHHcCcHHHHHH
Confidence            3466788899999999999999999999999999999999999999999985  46888999999999999999999999


Q ss_pred             HHHHHHHhCCCCchhHHHHHHHHHHccCCHHHHHHHHhccCCC-------------------CeehHHHHHHHHHcCCCh
Q 005268          151 IHLYIVKHGLEFNLFVSNNLINMYAKFGMMRHALRVFDQMMER-------------------DVVSWNSIIAAYEQSNDP  211 (705)
Q Consensus       151 ~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~~-------------------~~~~~~~li~~~~~~g~~  211 (705)
                      +++.+...  +++..+++.++.+|.++|++++|.++|+++...                   ++.+|+.++.+|.+.|++
T Consensus       139 ~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  216 (597)
T 2xpi_A          139 LLTKEDLY--NRSSACRYLAAFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNF  216 (597)
T ss_dssp             HHHHTCGG--GTCHHHHHHHHHHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHhcc--ccchhHHHHHHHHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCH
Confidence            99987653  678999999999999999999999999965433                   478999999999999999


Q ss_pred             hhHHHHHHHHHHCCCCCChhh-HHHHHHHHHccCChhhHHHH----HHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHH
Q 005268          212 ITAHGFFTTMQQAGIQPDLLT-LVSLTSIVAQLNDCRNSRSV----HGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSAC  286 (705)
Q Consensus       212 ~~A~~~~~~m~~~g~~p~~~t-~~~ll~a~~~~~~~~~a~~i----~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~  286 (705)
                      ++|++.|++|.+.+  |+..+ +..+...+.. ........+    +..+...+ ......+++.++.+|.+.|++++|.
T Consensus       217 ~~A~~~~~~~~~~~--p~~~~~~~~l~~~~~~-~~~~~~~~~~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~g~~~~A~  292 (597)
T 2xpi_A          217 DRAKECYKEALMVD--AKCYEAFDQLVSNHLL-TADEEWDLVLKLNYSTYSKED-AAFLRSLYMLKLNKTSHEDELRRAE  292 (597)
T ss_dssp             HHHHHHHHHHHHHC--TTCHHHHHHHHHTTCS-CHHHHHHHHHHSCTHHHHGGG-HHHHHHHHHTTSCTTTTHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC--chhhHHHHHHHHhhcc-cchhHHHHHHhcCCcccccch-HHHHHHHHHHHHHHHcCcchHHHHH
Confidence            99999999998853  54443 3333322222 211111111    33344444 4555667888899999999999999


Q ss_pred             HHHhcCCC--CChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCC-CcccccchhHHhhccCchHHHHHHHHHHHHhC
Q 005268          287 AVFEGLPV--KDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINP-NQGTYVSILPAYSHVGALRQGIKIHARVIKNC  363 (705)
Q Consensus       287 ~~f~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p-~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g  363 (705)
                      ++|+++..  ++..+|+.++.+|.+.|++++|+++|+++.+   ..| +..++..++.++...|++++|..+++.+.+..
T Consensus       293 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  369 (597)
T 2xpi_A          293 DYLSSINGLEKSSDLLLCKADTLFVRSRFIDVLAITTKILE---IDPYNLDVYPLHLASLHESGEKNKLYLISNDLVDRH  369 (597)
T ss_dssp             HHHHTSTTGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHhhcCCchHHHHHHHHHHHHHhcCHHHHHHHHHHHHH---cCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC
Confidence            99999987  7999999999999999999999999999987   334 67788999999999999999999999998763


Q ss_pred             CCCchhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHH
Q 005268          364 LCFDVFVATCLVDMYGKCGRIDDAMSLFYQVP---RSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSL  440 (705)
Q Consensus       364 ~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~l  440 (705)
                       +.+..+++.++.+|.++|++++|.++|+++.   +.+..+|+.++.+|.+.|++++|+++|++|.+.+ +++..++..+
T Consensus       370 -~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l  447 (597)
T 2xpi_A          370 -PEKAVTWLAVGIYYLCVNKISEARRYFSKSSTMDPQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFL  447 (597)
T ss_dssp             -TTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHH
T ss_pred             -cccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHH
Confidence             5678899999999999999999999999875   4567789999999999999999999999999853 4477899999


Q ss_pred             HHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhC-------CCCCC--HHHHHHHHHH
Q 005268          441 LTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNM-------PVRPD--ASIWGALLGA  511 (705)
Q Consensus       441 l~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-------~~~p~--~~~~~~ll~~  511 (705)
                      +.+|.+.|++++|.++|+.+.+.  .+.+..+|..++.+|.+.|++++|.++|+++       +..|+  ..+|..++.+
T Consensus       448 ~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~  525 (597)
T 2xpi_A          448 GMQHMQLGNILLANEYLQSSYAL--FQYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHA  525 (597)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHH
Confidence            99999999999999999999864  2336789999999999999999999999988       44777  7899999999


Q ss_pred             HHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhCC
Q 005268          512 CRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDRG  566 (705)
Q Consensus       512 ~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  566 (705)
                      |.+.|++++|+..++++++++|+++.+|..++.+|...|++++|.+.++++.+..
T Consensus       526 ~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~  580 (597)
T 2xpi_A          526 YRKLKMYDAAIDALNQGLLLSTNDANVHTAIALVYLHKKIPGLAITHLHESLAIS  580 (597)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhcC
Confidence            9999999999999999999999999999999999999999999999999998763

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=1.9e-39  Score=361.93  Aligned_cols=477  Identities=9%  Similarity=0.004  Sum_probs=303.0

Q ss_pred             CCccchHHHHHHhcCCch---HHHHHHHHHHhCCCCCHHHHHHHHHHHHcCCChhHHHHHhccC--CCCCcchHHHHHHH
Q 005268           29 PDFYTFPPVLKACRNLVD---GKKIHCSVLKLGFEWDVFVAASLLHMYCRFGLANVARKLFDDM--PVRDSGSWNAMISG  103 (705)
Q Consensus        29 p~~~~~~~ll~~~~~~~~---~~~~~~~~~~~g~~~~~~~~~~ll~~y~~~g~~~~A~~~f~~~--~~~~~~~~~~li~~  103 (705)
                      ++...|+.+++.+.+.++   |..++..+.+.  .|+..++..++.+|.+.|++++|..+|+.+  ..++..+|+.++.+
T Consensus        82 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~  159 (597)
T 2xpi_A           82 SREDYLRLWRHDALMQQQYKCAAFVGEKVLDI--TGNPNDAFWLAQVYCCTGDYARAKCLLTKEDLYNRSSACRYLAAFC  159 (597)
T ss_dssp             CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HCCHHHHHHHHHHHHHTTCHHHHHHHHHHTCGGGTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHccCchHHHHHHHHHHhh--CCCchHHHHHHHHHHHcCcHHHHHHHHHHHhccccchhHHHHHHHH
Confidence            455667777776655554   66667666643  356667777777777777777777777776  35667777777777


Q ss_pred             HHhCCChhHHHHHHHHHHH-C--------------CCCCChhhHHhHHHHhhcCCChHHHHHHHHHHHHhCCCCchhHHH
Q 005268          104 YCQSGNAVEALDILDEMRL-E--------------GVSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSN  168 (705)
Q Consensus       104 ~~~~g~~~~A~~~~~~m~~-~--------------g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~  168 (705)
                      |.+.|++++|+++|+++.. .              +.+++..+|+.++.++.+.|++++|.++|+.+++.++. +...+.
T Consensus       160 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~  238 (597)
T 2xpi_A          160 LVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVDAK-CYEAFD  238 (597)
T ss_dssp             HHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHH
T ss_pred             HHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCch-hhHHHH
Confidence            7777777777777774321 1              22334667777777777777777777777777776432 444455


Q ss_pred             HHHHHHHccCCHHHHHHH---HhccCCC----CeehHHHHHHHHHcCCChhhHHHHHHHHHHCCCCCChhhHHHHHHHHH
Q 005268          169 NLINMYAKFGMMRHALRV---FDQMMER----DVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVA  241 (705)
Q Consensus       169 ~Li~~y~~~g~~~~A~~~---f~~m~~~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~  241 (705)
                      .+...+...+..+.+...   |+.+...    +..+|+.++..|.+.|++++|.++|++|.+.  +++..++..+..++.
T Consensus       239 ~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~  316 (597)
T 2xpi_A          239 QLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSSINGL--EKSSDLLLCKADTLF  316 (597)
T ss_dssp             HHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHHTSTTG--GGCHHHHHHHHHHHH
T ss_pred             HHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHHHhhcC--CchHHHHHHHHHHHH
Confidence            554444333222221110   2222211    2234555566666666666666666666442  233333333333333


Q ss_pred             ccCChhhHHHHHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHHcCChhHHHHHHH
Q 005268          242 QLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDVISWNTLITGYAQNGLASEAIEVFQ  321 (705)
Q Consensus       242 ~~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~  321 (705)
                      ..|++++|..++..+.+.+  +.                               +..+|+.++.+|.+.|++++|.++|+
T Consensus       317 ~~g~~~~A~~~~~~~~~~~--~~-------------------------------~~~~~~~l~~~~~~~g~~~~A~~~~~  363 (597)
T 2xpi_A          317 VRSRFIDVLAITTKILEID--PY-------------------------------NLDVYPLHLASLHESGEKNKLYLISN  363 (597)
T ss_dssp             HTTCHHHHHHHHHHHHHHC--TT-------------------------------CCTTHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHcC--cc-------------------------------cHHHHHHHHHHHHHhCCHHHHHHHHH
Confidence            3333333333333333322  22                               33334444444444444444444444


Q ss_pred             hhhhcCCCCC-CcccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCC---CC
Q 005268          322 MMEECNEINP-NQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVP---RS  397 (705)
Q Consensus       322 ~m~~~~~~~p-~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~---~~  397 (705)
                      ++.+   ..| +..++..+...|.+.|++++|.++++.+.+.. +.+..+++.++.+|.+.|++++|.++|+++.   +.
T Consensus       364 ~~~~---~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  439 (597)
T 2xpi_A          364 DLVD---RHPEKAVTWLAVGIYYLCVNKISEARRYFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLFQG  439 (597)
T ss_dssp             HHHH---HCTTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTTT
T ss_pred             HHHh---hCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc
Confidence            4433   112 23333334444444444444444444444321 2345567777777777777777777777654   34


Q ss_pred             CcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhh---CCcCC--cch
Q 005268          398 SSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEF---GIKPH--LKH  472 (705)
Q Consensus       398 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~---~~~p~--~~~  472 (705)
                      +..+|+.++.+|.+.|++++|+++|++|.+.. +.+..+|..++..|.+.|++++|.++|+.+.+..   +..|+  ..+
T Consensus       440 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~  518 (597)
T 2xpi_A          440 THLPYLFLGMQHMQLGNILLANEYLQSSYALF-QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAAT  518 (597)
T ss_dssp             CSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHH
T ss_pred             chHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHH
Confidence            66778888888888888888888888888753 3457788888889999999999999998887543   55776  678


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhh
Q 005268          473 YGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYAN  548 (705)
Q Consensus       473 ~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  548 (705)
                      |..++.+|.+.|++++|.+.++++ ...| +..+|..+..+|...|++++|...++++++++|+++..+..|+++|..
T Consensus       519 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~  596 (597)
T 2xpi_A          519 WANLGHAYRKLKMYDAAIDALNQGLLLSTNDANVHTAIALVYLHKKIPGLAITHLHESLAISPNEIMASDLLKRALEE  596 (597)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHTTC-
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCChHHHHHHHHHHhc
Confidence            999999999999999999999887 2334 788999999999999999999999999999999999999999998854

>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=7.8e-26  Score=237.33  Aligned_cols=370  Identities=14%  Similarity=0.165  Sum_probs=263.3

Q ss_pred             HHHHHhCCChhHHHHHHHHHHHCCCCCC-hhhHHhHHHHhhcCCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHccCC
Q 005268          101 ISGYCQSGNAVEALDILDEMRLEGVSMD-PITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGM  179 (705)
Q Consensus       101 i~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~  179 (705)
                      ...+.+.|++++|++.+.++.+.  .|+ ...+..+...+...|++++|...+...++.. +.+..++..+...|.+.|+
T Consensus         6 a~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~-p~~~~~~~~lg~~~~~~g~   82 (388)
T 1w3b_A            6 AHREYQAGDFEAAERHCMQLWRQ--EPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQ   82 (388)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCC
Confidence            34556677777777777777654  343 3344445555566777777777777766653 3356666777777777777


Q ss_pred             HHHHHHHHhccCC--C-CeehHHHHHHHHHcCCChhhHHHHHHHHHHCCCCCChhhHHHHHHHHHccCChhhHHHHHHHH
Q 005268          180 MRHALRVFDQMME--R-DVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQLNDCRNSRSVHGFI  256 (705)
Q Consensus       180 ~~~A~~~f~~m~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~  256 (705)
                      +++|...|+++.+  | +..+|..+...+.+.|++++|++.|+++.+.                                
T Consensus        83 ~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--------------------------------  130 (388)
T 1w3b_A           83 LQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQY--------------------------------  130 (388)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHH--------------------------------
T ss_pred             HHHHHHHHHHHHHcCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--------------------------------
Confidence            7777777766532  2 3345666666666666666666666666543                                


Q ss_pred             HHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCC---CCChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCc
Q 005268          257 MRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLP---VKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQ  333 (705)
Q Consensus       257 ~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~  333 (705)
                           .|.+...+..+...|.+.|++++|.+.|+++.   +.+..+|+.+...|...|++++|+..|+++.+   +.|+ 
T Consensus       131 -----~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~---~~p~-  201 (388)
T 1w3b_A          131 -----NPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVT---LDPN-  201 (388)
T ss_dssp             -----CTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH---HCTT-
T ss_pred             -----CCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh---cCCC-
Confidence                 23334445555555666666666666665543   23456677777777777777777777777665   3343 


Q ss_pred             ccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCcchHHHHHHHHH
Q 005268          334 GTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVP---RSSSVPWNAIISCHG  410 (705)
Q Consensus       334 ~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~  410 (705)
                                                       +...+..+...+...|++++|...|++..   +.+...|..+...|.
T Consensus       202 ---------------------------------~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~  248 (388)
T 1w3b_A          202 ---------------------------------FLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYY  248 (388)
T ss_dssp             ---------------------------------CHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             ---------------------------------cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCCHHHHHHHHHHHH
Confidence                                             23345556666666777777777666554   344566788888888


Q ss_pred             hcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHH
Q 005268          411 IHGQGDKALNFFRQMLDEGVRPD-HITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMA  489 (705)
Q Consensus       411 ~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A  489 (705)
                      ..|++++|++.|+++.+  ..|+ ..++..+..++...|++++|.+.|+.+.+.  .+++...+..++..+.+.|++++|
T Consensus       249 ~~g~~~~A~~~~~~al~--~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A  324 (388)
T 1w3b_A          249 EQGLIDLAIDTYRRAIE--LQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRL--CPTHADSLNNLANIKREQGNIEEA  324 (388)
T ss_dssp             HTTCHHHHHHHHHHHHH--TCSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTTTCHHHH
T ss_pred             HcCCHHHHHHHHHHHHh--hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CcccHHHHHHHHHHHHHcCCHHHH
Confidence            88999999999999988  4554 568888888999999999999999998864  244677899999999999999999


Q ss_pred             HHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCC
Q 005268          490 HNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGK  551 (705)
Q Consensus       490 ~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  551 (705)
                      .+.++++ ...| +..+|..+...+.+.|++++|...++++++++|+++..+..++.++...|+
T Consensus       325 ~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~p~~~~a~~~lg~~~~~~~~  388 (388)
T 1w3b_A          325 VRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHhHHHHHHHccC
Confidence            9999887 3445 477899999999999999999999999999999999999999998877663

>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=2.7e-27  Score=252.97  Aligned_cols=184  Identities=14%  Similarity=0.148  Sum_probs=164.5

Q ss_pred             hHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccccchhHHhhccC---------chHHHHHHHHHHHHhCCCCch
Q 005268          298 ISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVG---------ALRQGIKIHARVIKNCLCFDV  368 (705)
Q Consensus       298 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~---------~~~~a~~~~~~~~~~g~~~~~  368 (705)
                      ..++.+|.+|++.|+.++|+++|++|.+ .|++||..||+++|.+|+..+         .++.|.++|++|.+.|+.||.
T Consensus        27 ~~l~~~id~c~k~G~~~~A~~lf~~M~~-~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~~Pd~  105 (501)
T 4g26_A           27 ALLKQKLDMCSKKGDVLEALRLYDEARR-NGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNE  105 (501)
T ss_dssp             HHHHHHHHHTTTSCCHHHHHHHHHHHHH-HTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTCCCCH
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHH-cCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCCCCCH
Confidence            4578888999999999999999999998 899999999999999987654         367889999999999999999


Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhhCC----CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 005268          369 FVATCLVDMYGKCGRIDDAMSLFYQVP----RSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTAC  444 (705)
Q Consensus       369 ~~~~~li~~y~k~g~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~  444 (705)
                      .+||+||.+|++.|++++|.++|++|.    .||..+||+||.+|++.|+.++|.++|++|.+.|+.||..||+.|+.+|
T Consensus       106 ~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~  185 (501)
T 4g26_A          106 ATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVS  185 (501)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHH
Confidence            999999999999999999999999886    5788889999999999999999999999999999999999999999999


Q ss_pred             hccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhc
Q 005268          445 SHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRA  483 (705)
Q Consensus       445 ~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~  483 (705)
                      ++.|++++|.++|++|.+. |+.|+..+|+.+++.|...
T Consensus       186 ~~~g~~d~A~~ll~~Mr~~-g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          186 MDTKNADKVYKTLQRLRDL-VRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             HHTTCHHHHHHHHHHHHHH-TSSBCHHHHHHHHHHHHSH
T ss_pred             hhCCCHHHHHHHHHHHHHh-CCCcCHHHHHHHHHHHhcC
Confidence            9999999999999999876 9999999999999888754

>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=99.95  E-value=9.7e-25  Score=228.98  Aligned_cols=351  Identities=15%  Similarity=0.095  Sum_probs=293.6

Q ss_pred             HHHHHcCCChhhHHHHHHHHHHCCCCCChh-hHHHHHHHHHccCChhhHHHHHHHHHHhcCCCchhHHHHHHHHHHHhcC
Q 005268          202 IAAYEQSNDPITAHGFFTTMQQAGIQPDLL-TLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLG  280 (705)
Q Consensus       202 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g  280 (705)
                      ...+.+.|++++|++.+.++.+.  .|+.. .+..+...+...++++.+...+...++.  .+.+...+..+...|.+.|
T Consensus         6 a~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~--~p~~~~~~~~lg~~~~~~g   81 (388)
T 1w3b_A            6 AHREYQAGDFEAAERHCMQLWRQ--EPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQ--NPLLAEAYSNLGNVYKERG   81 (388)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHHCC
Confidence            34455667777777777666553  34433 3444445556667777777777776665  3777888999999999999


Q ss_pred             CHHHHHHHHhcCC---CCChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcc-cccchhHHhhccCchHHHHHHH
Q 005268          281 IINSACAVFEGLP---VKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQG-TYVSILPAYSHVGALRQGIKIH  356 (705)
Q Consensus       281 ~~~~A~~~f~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~-t~~~ll~a~~~~~~~~~a~~~~  356 (705)
                      ++++|...|+++.   +.+..+|..+...+.+.|++++|++.|+++.+   ..|+.. .+..+...+...|++++|...+
T Consensus        82 ~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (388)
T 1w3b_A           82 QLQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQ---YNPDLYCVRSDLGNLLKALGRLEEAKACY  158 (388)
T ss_dssp             CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHH---HCTTCTHHHHHHHHHHHTTSCHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCCCcHHHHHHHHHHHHHccCHHHHHHHH
Confidence            9999999998764   44667899999999999999999999999988   667655 4556677788889999999999


Q ss_pred             HHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC
Q 005268          357 ARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVP---RSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPD  433 (705)
Q Consensus       357 ~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  433 (705)
                      ..+++.. +.+..+++.+...|.+.|++++|...|+++.   +.+...|..+...+...|++++|+..|++..+  +.|+
T Consensus       159 ~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~--~~p~  235 (388)
T 1w3b_A          159 LKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALS--LSPN  235 (388)
T ss_dssp             HHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHH--HCTT
T ss_pred             HHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--hCcC
Confidence            9998874 4467889999999999999999999999886   44456699999999999999999999999998  4565


Q ss_pred             -HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC-C-CCCCHHHHHHHH
Q 005268          434 -HITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM-P-VRPDASIWGALL  509 (705)
Q Consensus       434 -~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~ll  509 (705)
                       ..++..+..++...|++++|.+.|+.+.+.   .| +...|..++..|.+.|++++|.+.++++ . .+++..+|..+.
T Consensus       236 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~  312 (388)
T 1w3b_A          236 HAVVHGNLACVYYEQGLIDLAIDTYRRAIEL---QPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLA  312 (388)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---CSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHH
Confidence             578889999999999999999999999864   45 4678999999999999999999999988 2 345788999999


Q ss_pred             HHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhC
Q 005268          510 GACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       510 ~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      ..+...|++++|...+++++++.|+++..+..++.+|.+.|++++|.+.++++.+.
T Consensus       313 ~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  368 (388)
T 1w3b_A          313 NIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI  368 (388)
T ss_dssp             HHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTT
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            99999999999999999999999999999999999999999999999999998864

>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=5.8e-27  Score=250.46  Aligned_cols=181  Identities=14%  Similarity=0.147  Sum_probs=98.4

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHhHHHHhhcCCC---------hHHHHHHHHHHHHhCCCCchhHH
Q 005268           97 WNAMISGYCQSGNAVEALDILDEMRLEGVSMDPITVASILPVCARSDN---------ILSGLLIHLYIVKHGLEFNLFVS  167 (705)
Q Consensus        97 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~---------~~~a~~~~~~~~~~g~~~~~~~~  167 (705)
                      ++.+|.+|++.|++++|+++|++|.+.|++||..||++||.+|++.+.         ++.|.++|++|.+.|+.||..+|
T Consensus        29 l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~~Pd~~ty  108 (501)
T 4g26_A           29 LKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEATF  108 (501)
T ss_dssp             HHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTCCCCHHHH
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCCCCCHHHH
Confidence            444455555555555555555555555555555555555555544332         34455555555555555555555


Q ss_pred             HHHHHHHHccCCHHHHHHHHhccCC----CCeehHHHHHHHHHcCCChhhHHHHHHHHHHCCCCCChhhHHHHHHHHHcc
Q 005268          168 NNLINMYAKFGMMRHALRVFDQMME----RDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQL  243 (705)
Q Consensus       168 ~~Li~~y~~~g~~~~A~~~f~~m~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~  243 (705)
                      |+||.+|++.|++++|.++|++|.+    ||..+||+||.+|++.|++++|.++|++|.+.|+.||..||+++|.+|++.
T Consensus       109 n~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~~  188 (501)
T 4g26_A          109 TNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDT  188 (501)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhhC
Confidence            5555555555555555555555532    455555555555555555555555555555555555555555555555555


Q ss_pred             CChhhHHHHHHHHHHhcCCCchhHHHHHHHHHHHh
Q 005268          244 NDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAK  278 (705)
Q Consensus       244 ~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~  278 (705)
                      |+.++|.++++.|.+.| ..|+..+++.++..|..
T Consensus       189 g~~d~A~~ll~~Mr~~g-~~ps~~T~~~l~~~F~s  222 (501)
T 4g26_A          189 KNADKVYKTLQRLRDLV-RQVSKSTFDMIEEWFKS  222 (501)
T ss_dssp             TCHHHHHHHHHHHHHHT-SSBCHHHHHHHHHHHHS
T ss_pred             CCHHHHHHHHHHHHHhC-CCcCHHHHHHHHHHHhc
Confidence            55555555555555555 55555555555555554

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.91  E-value=1e-22  Score=221.93  Aligned_cols=438  Identities=9%  Similarity=-0.050  Sum_probs=242.9

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHhHHHHhhcCCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHc
Q 005268           97 WNAMISGYCQSGNAVEALDILDEMRLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAK  176 (705)
Q Consensus        97 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~  176 (705)
                      |......+.+.|++++|+..|+++.+..  ||..+|..+..++...|++++|.+.+..+++.. +.+..++..+..+|.+
T Consensus         9 ~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~   85 (514)
T 2gw1_A            9 LKDKGNQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRASANEG   85 (514)
T ss_dssp             HHHHHHHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHHHHHHH
Confidence            4445555666666666666666666543  555666666666666666666666666666554 2244555666666666


Q ss_pred             cCCHHHHHHHHhccCC---CCeehHHHHHHHHHcCCChhhHHHHHHHHHHCCCCCChhhHHHHHHHHHccCChhhHHHHH
Q 005268          177 FGMMRHALRVFDQMME---RDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQLNDCRNSRSVH  253 (705)
Q Consensus       177 ~g~~~~A~~~f~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~  253 (705)
                      .|++++|...|+.+..   .+......++..+........+.+.+..+...+..|+...+..-...............+.
T Consensus        86 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  165 (514)
T 2gw1_A           86 LGKFADAMFDLSVLSLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSMA  165 (514)
T ss_dssp             TTCHHHHHHHHHHHHHSSSCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHHHHH
T ss_pred             HhhHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHHH
Confidence            6666666666655532   1222222333322222222222222222211111111111110000000000000000000


Q ss_pred             HHHHHhc--------CCCchhHHHHHHHHHHHh---cCCHHHHHHHHhcCCC-----------------CChhHHHHHHH
Q 005268          254 GFIMRRG--------WFMEDVIIGNAVVDMYAK---LGIINSACAVFEGLPV-----------------KDVISWNTLIT  305 (705)
Q Consensus       254 ~~~~~~g--------~~~~~~~~~~~li~~y~~---~g~~~~A~~~f~~~~~-----------------~~~~~~~~li~  305 (705)
                      ..+....        .-+.+...+..+...+..   .|++++|...|+++..                 .+..+|..+..
T Consensus       166 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  245 (514)
T 2gw1_A          166 SFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGI  245 (514)
T ss_dssp             HHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHH
Confidence            0000000        002223344444444443   6777777777665432                 12456666777


Q ss_pred             HHHHcCChhHHHHHHHhhhhcCCCCCCcccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHH
Q 005268          306 GYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRID  385 (705)
Q Consensus       306 ~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~  385 (705)
                      .+...|++++|+..|+++.+   ..|+...+..+...+...|+++.|...+..+++.. +.+..++..+...|.+.|+++
T Consensus       246 ~~~~~~~~~~A~~~~~~~l~---~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~  321 (514)
T 2gw1_A          246 FKFLKNDPLGAHEDIKKAIE---LFPRVNSYIYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQMNFILQNYD  321 (514)
T ss_dssp             HHHHSSCHHHHHHHHHHHHH---HCCCHHHHHHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHHHHHHTTCTT
T ss_pred             HHHHCCCHHHHHHHHHHHHh---hCccHHHHHHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHHHHHHhCCHH
Confidence            77777777777777777766   34445555666666777777777777777776653 335566777777777777777


Q ss_pred             HHHHHHhhCC---CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHH
Q 005268          386 DAMSLFYQVP---RSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQE  462 (705)
Q Consensus       386 ~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~  462 (705)
                      +|...|+++.   +.+...|..+...|...|++++|+..|+++.+.. +.+..++..+...+...|++++|...++.+.+
T Consensus       322 ~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~  400 (514)
T 2gw1_A          322 QAGKDFDKAKELDPENIFPYIQLACLAYRENKFDDCETLFSEAKRKF-PEAPEVPNFFAEILTDKNDFDKALKQYDLAIE  400 (514)
T ss_dssp             HHHHHHHHHHHTCSSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            7777777654   3445567777777777777777777777777642 22345677777777777777777777777765


Q ss_pred             hhCCcCC----cchHHHHHHHHHh---cCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCC
Q 005268          463 EFGIKPH----LKHYGCMVDLFGR---AGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDS  533 (705)
Q Consensus       463 ~~~~~p~----~~~~~~li~~~~~---~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p  533 (705)
                      ...-.++    ...+..++..|.+   .|++++|...++++ ...| +..+|..+...+...|++++|...++++++++|
T Consensus       401 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~  480 (514)
T 2gw1_A          401 LENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLDPRSEQAKIGLAQMKLQQEDIDEAITLFEESADLAR  480 (514)
T ss_dssp             HHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS
T ss_pred             hhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhcc
Confidence            4222222    2267777777777   77777777777765 2223 466777777777777788788887777777777


Q ss_pred             CCcchhhhh
Q 005268          534 ENVGYYVLM  542 (705)
Q Consensus       534 ~~~~~~~~l  542 (705)
                      +++..+..+
T Consensus       481 ~~~~~~~~~  489 (514)
T 2gw1_A          481 TMEEKLQAI  489 (514)
T ss_dssp             SHHHHHHHH
T ss_pred             ccHHHHHHH
Confidence            766555444

>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=99.91  E-value=8.5e-22  Score=210.90  Aligned_cols=335  Identities=12%  Similarity=0.107  Sum_probs=241.8

Q ss_pred             CeehHHHHHHHHHcCCChhhHHHHHHHHHHCCCCCChhhHHHHHHHHHccCChhhHHHHHHHHHHhcCCCchhHHHHHHH
Q 005268          194 DVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVV  273 (705)
Q Consensus       194 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li  273 (705)
                      +...|..+...|.+.|++++|+..|+++.+. .+.+..++..+..++...|+++.|...+..+++.+  +.+..++..+.
T Consensus        25 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~-~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~  101 (450)
T 2y4t_A           25 DVEKHLELGKKLLAAGQLADALSQFHAAVDG-DPDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLK--MDFTAARLQRG  101 (450)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCcHHHHHHHH
Confidence            3456777777788888888888888877654 12234455555555666666666666666665553  44455566666


Q ss_pred             HHHHhcCCHHHHHHHHhcCCCC---Ch---hHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccccchhHHhhccC
Q 005268          274 DMYAKLGIINSACAVFEGLPVK---DV---ISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVG  347 (705)
Q Consensus       274 ~~y~~~g~~~~A~~~f~~~~~~---~~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~  347 (705)
                      ..|.+.|++++|...|+++...   +.   ..|..++..+...+.                        ..+...+...|
T Consensus       102 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~------------------------~~~a~~~~~~~  157 (450)
T 2y4t_A          102 HLLLKQGKLDEAEDDFKKVLKSNPSENEEKEAQSQLIKSDEMQRL------------------------RSQALNAFGSG  157 (450)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHH------------------------HHHHHHHHHHT
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHHHH------------------------HHHHHHHHHcC
Confidence            6666666666666666554322   22   444444333111111                        11122355567


Q ss_pred             chHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCcchHHHHHHHHHhcCChHHHHHHHHH
Q 005268          348 ALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVP---RSSSVPWNAIISCHGIHGQGDKALNFFRQ  424 (705)
Q Consensus       348 ~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~  424 (705)
                      +++.|...++.+.+.. +.+..++..+..+|.+.|++++|...|+++.   +.+...|..++..|...|++++|+..|++
T Consensus       158 ~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  236 (450)
T 2y4t_A          158 DYTAAIAFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLKNDNTEAFYKISTLYYQLGDHELSLSEVRE  236 (450)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHCSCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            7777777777776653 3467778888899999999999999998876   45677799999999999999999999999


Q ss_pred             HHHcCCCCCHH-HHHHH------------HHHHhccCcHHHHHHHHHHhHHhhCCcCC-----cchHHHHHHHHHhcCCH
Q 005268          425 MLDEGVRPDHI-TFVSL------------LTACSHSGLVSEGQRYFHMMQEEFGIKPH-----LKHYGCMVDLFGRAGHL  486 (705)
Q Consensus       425 m~~~g~~p~~~-t~~~l------------l~a~~~~g~~~~a~~~~~~m~~~~~~~p~-----~~~~~~li~~~~~~g~~  486 (705)
                      +.+  ..|+.. .+..+            ..+|.+.|++++|..+|+.+.+.   .|+     ..+|..++.++.+.|++
T Consensus       237 ~~~--~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~---~p~~~~~~~~~~~~l~~~~~~~g~~  311 (450)
T 2y4t_A          237 CLK--LDQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKT---EPSIAEYTVRSKERICHCFSKDEKP  311 (450)
T ss_dssp             HHH--HCTTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CCSSHHHHHHHHHHHHHHHHTTTCH
T ss_pred             HHH--hCCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc---CCcchHHHHHHHHHHHHHHHHCCCH
Confidence            997  456654 33333            77899999999999999999864   454     45789999999999999


Q ss_pred             HHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhh------------hhhhhcC--
Q 005268          487 GMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMS------------NIYANVG--  550 (705)
Q Consensus       487 ~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~------------~~~~~~g--  550 (705)
                      ++|+..++++ ...| +..+|..+..+|...|++++|...++++++++|+++..+..++            +.|...|  
T Consensus       312 ~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~~~y~~lg~~  391 (450)
T 2y4t_A          312 VEAIRVCSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYETAQEHNENDQQIREGLEKAQRLLKQSQKRDYYKILGVK  391 (450)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHHHHHHSCCSGGGSCSS
T ss_pred             HHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcchHHHHHHHHHHHHHhhcccchhHHHHhCCC
Confidence            9999999987 3344 6889999999999999999999999999999999999999888            6787777  


Q ss_pred             ---CcchHHHHHHH
Q 005268          551 ---KWEGVDEVRSL  561 (705)
Q Consensus       551 ---~~~~a~~~~~~  561 (705)
                         +.+++.+.+++
T Consensus       392 ~~~~~~~~~~~y~~  405 (450)
T 2y4t_A          392 RNAKKQEIIKAYRK  405 (450)
T ss_dssp             TTCCTTHHHHHHHH
T ss_pred             ccCCHHHHHHHHHH
Confidence               44455655554

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.90  E-value=4.8e-22  Score=216.60  Aligned_cols=428  Identities=8%  Similarity=-0.059  Sum_probs=318.8

Q ss_pred             hhHHhHHHHhhcCCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHccCCHHHHHHHHhccCC---CCeehHHHHHHHHH
Q 005268          130 ITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGMMRHALRVFDQMME---RDVVSWNSIIAAYE  206 (705)
Q Consensus       130 ~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~---~~~~~~~~li~~~~  206 (705)
                      ..+......+...|++++|...+..+++..  |+..++..+..+|.+.|++++|...|+.+.+   .+..+|..+...|.
T Consensus         7 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~   84 (514)
T 2gw1_A            7 LALKDKGNQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELKPDYSKVLLRRASANE   84 (514)
T ss_dssp             HHHHHHHHHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccChHHHHHHHHHHHHHH
Confidence            345666677889999999999999999986  6889999999999999999999999998754   35568999999999


Q ss_pred             cCCChhhHHHHHHHHHHCCCCCChhhHHHHHHHHHccCChhhHHHHHHHHHHhcCCCchhHHHH---HHHHHHHhcCCHH
Q 005268          207 QSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGN---AVVDMYAKLGIIN  283 (705)
Q Consensus       207 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~---~li~~y~~~g~~~  283 (705)
                      +.|++++|+..|+++...+. ++......++..+..........+.+..+...+ ..++....+   .............
T Consensus        85 ~~g~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~  162 (514)
T 2gw1_A           85 GLGKFADAMFDLSVLSLNGD-FNDASIEPMLERNLNKQAMSKLKEKFGDIDTAT-ATPTELSTQPAKERKDKQENLPSVT  162 (514)
T ss_dssp             HTTCHHHHHHHHHHHHHSSS-CCGGGTHHHHHHHHHHHHHHHHTTC----------------------------CCCCHH
T ss_pred             HHhhHHHHHHHHHHHHhcCC-CccchHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HhhhhccCChhhHHHhhccCCchhH
Confidence            99999999999999988753 444444444444433322222222222111111 000000000   0000011111111


Q ss_pred             HHHHHHhcCC----------CCChhHHHHHHHHHHH---cCChhHHHHHHHhhhh-----cCCC------CC-Ccccccc
Q 005268          284 SACAVFEGLP----------VKDVISWNTLITGYAQ---NGLASEAIEVFQMMEE-----CNEI------NP-NQGTYVS  338 (705)
Q Consensus       284 ~A~~~f~~~~----------~~~~~~~~~li~~~~~---~g~~~~A~~~~~~m~~-----~~~~------~p-~~~t~~~  338 (705)
                      .+...+....          ..+...|......+..   .|++++|+..|+++.+     ....      .| +..++..
T Consensus       163 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  242 (514)
T 2gw1_A          163 SMASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEH  242 (514)
T ss_dssp             HHHHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHH
Confidence            2222222221          1124455555555554   8999999999999876     1101      12 3456777


Q ss_pred             hhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCcchHHHHHHHHHhcCCh
Q 005268          339 ILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVP---RSSSVPWNAIISCHGIHGQG  415 (705)
Q Consensus       339 ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~  415 (705)
                      +...+...|+++.|...++.+++....  ...+..+...|.+.|++++|...|+++.   +.+...|..+...|...|++
T Consensus       243 ~~~~~~~~~~~~~A~~~~~~~l~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  320 (514)
T 2gw1_A          243 TGIFKFLKNDPLGAHEDIKKAIELFPR--VNSYIYMALIMADRNDSTEYYNYFDKALKLDSNNSSVYYHRGQMNFILQNY  320 (514)
T ss_dssp             HHHHHHHSSCHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTCTTCTHHHHHHHHHHHHTTCT
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhCcc--HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcCcCCHHHHHHHHHHHHHhCCH
Confidence            888899999999999999999987644  8888999999999999999999999875   34566799999999999999


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHh
Q 005268          416 DKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQN  495 (705)
Q Consensus       416 ~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~  495 (705)
                      ++|+..|+++.+.. +.+..++..+...+...|++++|..+++.+.+.  .+.+...+..+...|.+.|++++|...+++
T Consensus       321 ~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~  397 (514)
T 2gw1_A          321 DQAGKDFDKAKELD-PENIFPYIQLACLAYRENKFDDCETLFSEAKRK--FPEAPEVPNFFAEILTDKNDFDKALKQYDL  397 (514)
T ss_dssp             THHHHHHHHHHHTC-SSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHH--STTCSHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--cccCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            99999999999853 234578888999999999999999999998864  223567899999999999999999999988


Q ss_pred             C----CCCCC----HHHHHHHHHHHHh---cCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHh
Q 005268          496 M----PVRPD----ASIWGALLGACRI---HGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARD  564 (705)
Q Consensus       496 ~----~~~p~----~~~~~~ll~~~~~---~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  564 (705)
                      +    +..|+    ..+|..+...+..   .|++++|...++++++.+|+++..+..++.+|...|++++|...++++.+
T Consensus       398 a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  477 (514)
T 2gw1_A          398 AIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLDPRSEQAKIGLAQMKLQQEDIDEAITLFEESAD  477 (514)
T ss_dssp             HHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            7    22232    4489999999999   99999999999999999999999999999999999999999999999987


Q ss_pred             CC
Q 005268          565 RG  566 (705)
Q Consensus       565 ~~  566 (705)
                      ..
T Consensus       478 ~~  479 (514)
T 2gw1_A          478 LA  479 (514)
T ss_dssp             HC
T ss_pred             hc
Confidence            63

>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=1.3e-21  Score=214.49  Aligned_cols=420  Identities=9%  Similarity=-0.018  Sum_probs=231.1

Q ss_pred             cchHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHhHHHHhhcCCChHHHHHHHHHHHHhCCCCchhHHHHHHHH
Q 005268           94 SGSWNAMISGYCQSGNAVEALDILDEMRLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINM  173 (705)
Q Consensus        94 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~  173 (705)
                      ...|..+...+.+.|++++|+..|+++.+.. +.+..++..+..++...|++++|.+.+..+++..+ .+..++..+..+
T Consensus        25 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~la~~  102 (537)
T 3fp2_A           25 AVQLKNRGNHFFTAKNFNEAIKYYQYAIELD-PNEPVFYSNISACYISTGDLEKVIEFTTKALEIKP-DHSKALLRRASA  102 (537)
T ss_dssp             HHHHHHHHHHHHHTTCCC-CHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-chHHHHHHHHHH
Confidence            3457778888888899999999998888753 34667788888888888899999999888888753 367788888889


Q ss_pred             HHccCCHHHHHHHHhccCCCCeehHHHHHHHHHcCCChhhHHHHHHHHHHC------CCCCChhhHHHHHHHHHccCChh
Q 005268          174 YAKFGMMRHALRVFDQMMERDVVSWNSIIAAYEQSNDPITAHGFFTTMQQA------GIQPDLLTLVSLTSIVAQLNDCR  247 (705)
Q Consensus       174 y~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------g~~p~~~t~~~ll~a~~~~~~~~  247 (705)
                      |.+.|++++|...|+.+. .+....+..+..+...+...+|+..++++...      ...|+...+              
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            999999999999887442 22223333344555556667888888887443      112222222              


Q ss_pred             hHHHHHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCCCCChh---HHHHHHHHHHH--------cCChhHH
Q 005268          248 NSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDVI---SWNTLITGYAQ--------NGLASEA  316 (705)
Q Consensus       248 ~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~---~~~~li~~~~~--------~g~~~~A  316 (705)
                                                ..|....+.+.+...+......+..   .+..+...+..        .|++++|
T Consensus       168 --------------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A  221 (537)
T 3fp2_A          168 --------------------------ASFFGIFDSHLEVSSVNTSSNYDTAYALLSDALQRLYSATDEGYLVANDLLTKS  221 (537)
T ss_dssp             --------------------------HHHHHTSCHHHHHHTSCCCCSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHH
T ss_pred             --------------------------HHHHHhcChHHHHHHHhhccccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHH
Confidence                                      2222333333333333333322211   11111111111        1244555


Q ss_pred             HHHHHhhhhcCCCCCCc--------ccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHH
Q 005268          317 IEVFQMMEECNEINPNQ--------GTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAM  388 (705)
Q Consensus       317 ~~~~~~m~~~~~~~p~~--------~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~  388 (705)
                      +.+|+++.+   ..|+.        .++..+...+...|+++.|...+..+++..  |+...+..+...|.+.|++++|.
T Consensus       222 ~~~~~~~l~---~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~  296 (537)
T 3fp2_A          222 TDMYHSLLS---ANTVDDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESINLH--PTPNSYIFLALTLADKENSQEFF  296 (537)
T ss_dssp             HHHHHHHHC-----CCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHTCCSSCCHHHH
T ss_pred             HHHHHHHHH---HCCCcchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHhcCHHHHH
Confidence            555555544   33331        123333334444555555555555555542  22444555555555555555555


Q ss_pred             HHHhhCC---CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhh
Q 005268          389 SLFYQVP---RSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPD-HITFVSLLTACSHSGLVSEGQRYFHMMQEEF  464 (705)
Q Consensus       389 ~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~  464 (705)
                      ..|+++.   +.+...|..+...|...|++++|+..|+++.+.  .|+ ...+..+..++...|++++|.++++.+.+. 
T Consensus       297 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~-  373 (537)
T 3fp2_A          297 KFFQKAVDLNPEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSL--NPENVYPYIQLACLLYKQGKFTESEAFFNETKLK-  373 (537)
T ss_dssp             HHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-
T ss_pred             HHHHHHhccCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-
Confidence            5555443   233444555555555666666666666665553  232 345555555566666666666666555543 


Q ss_pred             CCcCCcchHHHHHHHHHhcCCHHHHHHHHHhCC----CCC----CHHHHHHHHHHHHhc----------CChhHHHHHHH
Q 005268          465 GIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNMP----VRP----DASIWGALLGACRIH----------GNMELGAVASD  526 (705)
Q Consensus       465 ~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~----~~p----~~~~~~~ll~~~~~~----------g~~~~a~~~~~  526 (705)
                       .+.+...+..+...|.+.|++++|...++++-    ..+    ....+..+...+...          |++++|...++
T Consensus       374 -~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~  452 (537)
T 3fp2_A          374 -FPTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLT  452 (537)
T ss_dssp             -CTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHH
T ss_pred             -CCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHH
Confidence             11233455555666666666666666655541    001    112233334445555          66666666666


Q ss_pred             HHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhC
Q 005268          527 RLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       527 ~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      ++++.+|+++..+..++.+|...|++++|.+.++.+.+.
T Consensus       453 ~a~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  491 (537)
T 3fp2_A          453 KACELDPRSEQAKIGLAQLKLQMEKIDEAIELFEDSAIL  491 (537)
T ss_dssp             HHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            666666666666666666666666666666666666554

>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=4.6e-21  Score=205.16  Aligned_cols=342  Identities=10%  Similarity=0.025  Sum_probs=210.6

Q ss_pred             chhHHHHHHHHHHccCCHHHHHHHHhccCC---CCeehHHHHHHHHHcCCChhhHHHHHHHHHHCCCCCChhhHHHHHHH
Q 005268          163 NLFVSNNLINMYAKFGMMRHALRVFDQMME---RDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSI  239 (705)
Q Consensus       163 ~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a  239 (705)
                      +...+..+...|.+.|++++|..+|+.+.+   .+..+|..+...|.+.|++++|+..|+++.+.+ +.+..++..+..+
T Consensus        25 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~  103 (450)
T 2y4t_A           25 DVEKHLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLK-MDFTAARLQRGHL  103 (450)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHH
Confidence            445556666666666666666666665532   245566666666666666666666666665542 2234455566666


Q ss_pred             HHccCChhhHHHHHHHHHHhcCCCchh---HHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHHcCChhHH
Q 005268          240 VAQLNDCRNSRSVHGFIMRRGWFMEDV---IIGNAVVDMYAKLGIINSACAVFEGLPVKDVISWNTLITGYAQNGLASEA  316 (705)
Q Consensus       240 ~~~~~~~~~a~~i~~~~~~~g~~~~~~---~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A  316 (705)
                      +...|+++.|...+..+.+..  +.+.   ..+..++..+...                   .+..+...+...|++++|
T Consensus       104 ~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~-------------------~~~~~a~~~~~~~~~~~A  162 (450)
T 2y4t_A          104 LLKQGKLDEAEDDFKKVLKSN--PSENEEKEAQSQLIKSDEMQ-------------------RLRSQALNAFGSGDYTAA  162 (450)
T ss_dssp             HHHTTCHHHHHHHHHHHHTSC--CCHHHHHHHHHHHHHHHHHH-------------------HHHHHHHHHHHHTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHhcC--CCChhhHHHHHHHHHHHHHH-------------------HHHHHHHHHHHcCCHHHH
Confidence            666666666666666666553  5555   6776665553221                   122223334445555555


Q ss_pred             HHHHHhhhhcCCCCC-CcccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCC
Q 005268          317 IEVFQMMEECNEINP-NQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVP  395 (705)
Q Consensus       317 ~~~~~~m~~~~~~~p-~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~  395 (705)
                      +..|+++.+   ..| +...+..+..++...|++++|...+..+.+.. +.+..++..+...|.+.|++++|...|+++.
T Consensus       163 ~~~~~~~~~---~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  238 (450)
T 2y4t_A          163 IAFLDKILE---VCVWDAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRECL  238 (450)
T ss_dssp             HHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHH---hCCCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            555555544   223 33344445555555555555555555555432 2345556666666666666666666666554


Q ss_pred             ---CCCcchHHHH------------HHHHHhcCChHHHHHHHHHHHHcCCCCC-----HHHHHHHHHHHhccCcHHHHHH
Q 005268          396 ---RSSSVPWNAI------------ISCHGIHGQGDKALNFFRQMLDEGVRPD-----HITFVSLLTACSHSGLVSEGQR  455 (705)
Q Consensus       396 ---~~~~~~~~~l------------i~~~~~~g~~~~A~~~~~~m~~~g~~p~-----~~t~~~ll~a~~~~g~~~~a~~  455 (705)
                         +.+...|..+            ...+...|++++|+..|+++.+  +.|+     ...+..+..++.+.|++++|..
T Consensus       239 ~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~--~~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~  316 (450)
T 2y4t_A          239 KLDQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMK--TEPSIAEYTVRSKERICHCFSKDEKPVEAIR  316 (450)
T ss_dssp             HHCTTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HCCSSHHHHHHHHHHHHHHHHTTTCHHHHHH
T ss_pred             HhCCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--cCCcchHHHHHHHHHHHHHHHHCCCHHHHHH
Confidence               2222233333            7778888888888888888888  4555     3366777778888888888888


Q ss_pred             HHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHH------------HHhcC----
Q 005268          456 YFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRPD-ASIWGALLGA------------CRIHG----  516 (705)
Q Consensus       456 ~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~------------~~~~g----  516 (705)
                      .++.+.+.   .| +...|..+..+|.+.|++++|...++++ ...|+ ..+|..+..+            |...|    
T Consensus       317 ~~~~a~~~---~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~~~y~~lg~~~~  393 (450)
T 2y4t_A          317 VCSEVLQM---EPDNVNALKDRAEAYLIEEMYDEAIQDYETAQEHNENDQQIREGLEKAQRLLKQSQKRDYYKILGVKRN  393 (450)
T ss_dssp             HHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHHHHHHSCCSGGGSCSSTT
T ss_pred             HHHHHHHh---CcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcchHHHHHHHHHHHHHhhcccchhHHHHhCCCcc
Confidence            88887754   34 5678888888888888888888888877 45554 5566666533            33334    


Q ss_pred             -ChhHHHHHHHH-HhccCCCC
Q 005268          517 -NMELGAVASDR-LFEVDSEN  535 (705)
Q Consensus       517 -~~~~a~~~~~~-~~~~~p~~  535 (705)
                       +.+++.+.+++ .++..|++
T Consensus       394 ~~~~~~~~~y~~~~l~~~pd~  414 (450)
T 2y4t_A          394 AKKQEIIKAYRKLALQWHPDN  414 (450)
T ss_dssp             CCTTHHHHHHHHHHHHSCGGG
T ss_pred             CCHHHHHHHHHHHHHHhCCCC
Confidence             56778888886 77788864

>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=99.88  E-value=1.1e-20  Score=207.27  Aligned_cols=438  Identities=8%  Similarity=0.008  Sum_probs=316.9

Q ss_pred             HHHHHHHHHHHHcCCChhHHHHHhccCC---CCCcchHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHhHHHHh
Q 005268           63 VFVAASLLHMYCRFGLANVARKLFDDMP---VRDSGSWNAMISGYCQSGNAVEALDILDEMRLEGVSMDPITVASILPVC  139 (705)
Q Consensus        63 ~~~~~~ll~~y~~~g~~~~A~~~f~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~  139 (705)
                      ...+..+...|.+.|++++|...|+++.   +.+..+|..+...|.+.|++++|++.|+++.+.+ +.+..++..+...+
T Consensus        25 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~  103 (537)
T 3fp2_A           25 AVQLKNRGNHFFTAKNFNEAIKYYQYAIELDPNEPVFYSNISACYISTGDLEKVIEFTTKALEIK-PDHSKALLRRASAN  103 (537)
T ss_dssp             HHHHHHHHHHHHHTTCCC-CHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CchHHHHHHHHHHH
Confidence            4567778889999999999999999875   3577889999999999999999999999998864 34677888889999


Q ss_pred             hcCCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHccCCHHHHHHHHhccCCC------CeehHHHHHHHHHcCCChhh
Q 005268          140 ARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGMMRHALRVFDQMMER------DVVSWNSIIAAYEQSNDPIT  213 (705)
Q Consensus       140 ~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~~------~~~~~~~li~~~~~~g~~~~  213 (705)
                      ...|++++|...+. .+..  .|+  ..+..+..+...+....|...++.+...      ........+..+....+.+.
T Consensus       104 ~~~g~~~~A~~~~~-~~~~--~~~--~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  178 (537)
T 3fp2_A          104 ESLGNFTDAMFDLS-VLSL--NGD--FDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHL  178 (537)
T ss_dssp             HHHTCHHHHHHHHH-HHC---------------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHH
T ss_pred             HHcCCHHHHHHHHH-HHhc--CCC--CChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHH
Confidence            99999999999996 4332  222  2223344555666778899999888652      22233455666666777766


Q ss_pred             HHHHHHHHHHCCCCCChhhHHHHHHHHHccCChhhHHHHHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCC
Q 005268          214 AHGFFTTMQQAGIQPDLLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLP  293 (705)
Q Consensus       214 A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~  293 (705)
                      ++..+.....  ..+....+...+.......                           ........|++++|..+|+++.
T Consensus       179 ~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~---------------------------~~~~~~a~~~~~~A~~~~~~~l  229 (537)
T 3fp2_A          179 EVSSVNTSSN--YDTAYALLSDALQRLYSAT---------------------------DEGYLVANDLLTKSTDMYHSLL  229 (537)
T ss_dssp             HHHTSCCCCS--SCSSHHHHHHHHHHHHTCS---------------------------HHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhhccc--cccHHHHHHHHHHHHHHhh---------------------------hhhhHHHHHHHHHHHHHHHHHH
Confidence            6555443321  1111111111111110000                           0001111245566666666554


Q ss_pred             CC---C-------hhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccccchhHHhhccCchHHHHHHHHHHHHhC
Q 005268          294 VK---D-------VISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNC  363 (705)
Q Consensus       294 ~~---~-------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g  363 (705)
                      ..   +       ..+|..+...+...|++++|+..|++..+   ..|+...+..+...+...|+++.|...+..+.+..
T Consensus       230 ~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  306 (537)
T 3fp2_A          230 SANTVDDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESIN---LHPTPNSYIFLALTLADKENSQEFFKFFQKAVDLN  306 (537)
T ss_dssp             C--CCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC
T ss_pred             HHCCCcchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHh---cCCCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC
Confidence            22   2       22466667788889999999999999988   66777778888888999999999999999998874


Q ss_pred             CCCchhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHH
Q 005268          364 LCFDVFVATCLVDMYGKCGRIDDAMSLFYQVP---RSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSL  440 (705)
Q Consensus       364 ~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~l  440 (705)
                       +.+..++..+...|.+.|++++|...|+++.   +.+...|..+...|...|++++|+..|+++.+.. +.+...+..+
T Consensus       307 -~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l  384 (537)
T 3fp2_A          307 -PEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLNPENVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFF  384 (537)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHH
T ss_pred             -CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHH
Confidence             4467889999999999999999999999876   4556779999999999999999999999999853 3345688888


Q ss_pred             HHHHhccCcHHHHHHHHHHhHHhhCCcCC----cchHHHHHHHHHhc----------CCHHHHHHHHHhC-CCCC-CHHH
Q 005268          441 LTACSHSGLVSEGQRYFHMMQEEFGIKPH----LKHYGCMVDLFGRA----------GHLGMAHNFIQNM-PVRP-DASI  504 (705)
Q Consensus       441 l~a~~~~g~~~~a~~~~~~m~~~~~~~p~----~~~~~~li~~~~~~----------g~~~~A~~~~~~~-~~~p-~~~~  504 (705)
                      ...+...|++++|.+.|+.+.+...-.++    ...+..+...|.+.          |++++|...++++ ...| +..+
T Consensus       385 ~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~  464 (537)
T 3fp2_A          385 AEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELDPRSEQA  464 (537)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHCTTCHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhCCCCHHH
Confidence            99999999999999999998765221221    12244556778888          9999999999987 2334 5788


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhh
Q 005268          505 WGALLGACRIHGNMELGAVASDRLFEVDSENVGYYV  540 (705)
Q Consensus       505 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~  540 (705)
                      |..+...+...|++++|...+++++++.|+++....
T Consensus       465 ~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~  500 (537)
T 3fp2_A          465 KIGLAQLKLQMEKIDEAIELFEDSAILARTMDEKLQ  500 (537)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC--CHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHhCCCcHHHHH
Confidence            999999999999999999999999999998766544

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.82  E-value=4.1e-18  Score=175.86  Aligned_cols=309  Identities=10%  Similarity=0.084  Sum_probs=200.5

Q ss_pred             ehHHHHHHHHHcCCChhhHHHHHHHHHHCCCCCChhhHHHHHHHHHccCChhhHHHHHHHHHHhcCCCchhHHHHHHHHH
Q 005268          196 VSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDM  275 (705)
Q Consensus       196 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~  275 (705)
                      ..|..+...+.+.|++++|+..|+++.+.. +.+..++..+...+...|+++.|...+..+.+..  +.           
T Consensus         4 ~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~-----------   69 (359)
T 3ieg_A            4 EKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALK--MD-----------   69 (359)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TT-----------
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC--CC-----------
Confidence            455666677777777777777777776541 1123334444444444444444444444444432  22           


Q ss_pred             HHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCC---Cc-ccccch------------
Q 005268          276 YAKLGIINSACAVFEGLPVKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINP---NQ-GTYVSI------------  339 (705)
Q Consensus       276 y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p---~~-~t~~~l------------  339 (705)
                                          +...|..+...|...|++++|+..|++..+   ..|   +. ..+..+            
T Consensus        70 --------------------~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~~~~~~~l~~~~~~~~~~~~  126 (359)
T 3ieg_A           70 --------------------FTAARLQRGHLLLKQGKLDEAEDDFKKVLK---SNPSEQEEKEAESQLVKADEMQRLRSQ  126 (359)
T ss_dssp             --------------------CHHHHHHHHHHHHHHTCHHHHHHHHHHHHT---SCCCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             --------------------cchHHHHHHHHHHHcCChHHHHHHHHHHHh---cCCcccChHHHHHHHHHHHHHHHHHHH
Confidence                                344455555555555555555555555544   333   21 111111            


Q ss_pred             hHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCcchHHHHHHHHHhcCChH
Q 005268          340 LPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVP---RSSSVPWNAIISCHGIHGQGD  416 (705)
Q Consensus       340 l~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~  416 (705)
                      ...+...|+++.|...+..+.+.. +.+..++..+...|.+.|++++|...|+++.   +.+...|..+...|...|+++
T Consensus       127 a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~  205 (359)
T 3ieg_A          127 ALDAFDGADYTAAITFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLKSDNTEAFYKISTLYYQLGDHE  205 (359)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCSCCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHccCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHH
Confidence            345566677777777777776653 3456677778888888888888888887765   345556888888888888888


Q ss_pred             HHHHHHHHHHHcCCCCCHH-HHH------------HHHHHHhccCcHHHHHHHHHHhHHhhCCcCCc-----chHHHHHH
Q 005268          417 KALNFFRQMLDEGVRPDHI-TFV------------SLLTACSHSGLVSEGQRYFHMMQEEFGIKPHL-----KHYGCMVD  478 (705)
Q Consensus       417 ~A~~~~~~m~~~g~~p~~~-t~~------------~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~-----~~~~~li~  478 (705)
                      +|+..|++..+.  .|+.. .+.            .+...+...|++++|...++.+.+.   .|+.     ..+..+..
T Consensus       206 ~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~~~~~~~~la~  280 (359)
T 3ieg_A          206 LSLSEVRECLKL--DQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKT---EPSVAEYTVRSKERICH  280 (359)
T ss_dssp             HHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CCSSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhh--CccchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc---CCCchHHHHHHHHHHHH
Confidence            888888888874  44432 222            2255677888888888888888764   3432     23555778


Q ss_pred             HHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhh
Q 005268          479 LFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYA  547 (705)
Q Consensus       479 ~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  547 (705)
                      .|.+.|++++|.+.+++. ...| +..+|..+...+...|++++|...++++++++|+++.....+..++.
T Consensus       281 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~  351 (359)
T 3ieg_A          281 CFSKDEKPVEAIRICSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEHNENDQQIREGLEKAQR  351 (359)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCChHHHHHHHHHHH
Confidence            888888888888888777 2334 57788888888888888888888888888888888777776665543

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.82  E-value=4.6e-18  Score=175.46  Aligned_cols=294  Identities=11%  Similarity=0.029  Sum_probs=244.2

Q ss_pred             hhHHHHHHHHHHHhcCCHHHHHHHHhcCC---CCChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCC-Ccccccchh
Q 005268          265 DVIIGNAVVDMYAKLGIINSACAVFEGLP---VKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINP-NQGTYVSIL  340 (705)
Q Consensus       265 ~~~~~~~li~~y~~~g~~~~A~~~f~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p-~~~t~~~ll  340 (705)
                      |+..+..+...+.+.|++++|...|+++.   +.+..+|..+...+...|++++|+..|+++.+   ..| +...+..+.
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~~~~l~   78 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIA---LKMDFTAARLQRG   78 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH---HCTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHH---hCCCcchHHHHHH
Confidence            45567778888889999999999998764   44678899999999999999999999999988   556 456777888


Q ss_pred             HHhhccCchHHHHHHHHHHHHhCCC--CchhHHHHH------------HHHHHhcCCHHHHHHHHhhCC---CCCcchHH
Q 005268          341 PAYSHVGALRQGIKIHARVIKNCLC--FDVFVATCL------------VDMYGKCGRIDDAMSLFYQVP---RSSSVPWN  403 (705)
Q Consensus       341 ~a~~~~~~~~~a~~~~~~~~~~g~~--~~~~~~~~l------------i~~y~k~g~~~~A~~~~~~~~---~~~~~~~~  403 (705)
                      ..+...|++++|...+..+.+....  .+...+..+            ...+...|++++|...|+++.   +.+...|.
T Consensus        79 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~  158 (359)
T 3ieg_A           79 HLLLKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVCVWDAELRE  158 (359)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             HHHHHcCChHHHHHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCchHHHH
Confidence            8999999999999999999886420  244444444            578899999999999999876   45666799


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCc-chHH--------
Q 005268          404 AIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHL-KHYG--------  474 (705)
Q Consensus       404 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~-~~~~--------  474 (705)
                      .+...+...|++++|+..++++.+.. +.+..++..+...+...|++++|...++...+.   .|+. ..+.        
T Consensus       159 ~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~---~~~~~~~~~~~~~~~~~  234 (359)
T 3ieg_A          159 LRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVRECLKL---DQDHKRCFAHYKQVKKL  234 (359)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh---CccchHHHHHHHHHHHH
Confidence            99999999999999999999999852 335678889999999999999999999998864   4433 2222        


Q ss_pred             ----HHHHHHHhcCCHHHHHHHHHhC-CCCCC-H----HHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhh
Q 005268          475 ----CMVDLFGRAGHLGMAHNFIQNM-PVRPD-A----SIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSN  544 (705)
Q Consensus       475 ----~li~~~~~~g~~~~A~~~~~~~-~~~p~-~----~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~  544 (705)
                          .++..+.+.|++++|...++++ ...|+ .    ..|..+...+...|++++|...++++++.+|+++..+..++.
T Consensus       235 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~  314 (359)
T 3ieg_A          235 NKLIESAEELIRDGRYTDATSKYESVMKTEPSVAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQMEPDNVNALKDRAE  314 (359)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccHHHHHHHHH
Confidence                3367799999999999999887 23344 3    235567789999999999999999999999999999999999


Q ss_pred             hhhhcCCcchHHHHHHHHHhC
Q 005268          545 IYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       545 ~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      +|...|++++|.+.++.+.+.
T Consensus       315 ~~~~~g~~~~A~~~~~~a~~~  335 (359)
T 3ieg_A          315 AYLIEEMYDEAIQDYEAAQEH  335 (359)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHcCCHHHHHHHHHHHHhc
Confidence            999999999999999998875

>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=99.79  E-value=2.4e-17  Score=167.99  Aligned_cols=286  Identities=12%  Similarity=0.077  Sum_probs=218.7

Q ss_pred             CCchhHHHHHHHHHHHhcCCHHHHHHHHhcCC---CCChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCC-Cccccc
Q 005268          262 FMEDVIIGNAVVDMYAKLGIINSACAVFEGLP---VKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINP-NQGTYV  337 (705)
Q Consensus       262 ~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p-~~~t~~  337 (705)
                      .+.+..+...++..+...|++++|.++|+++.   +.+...+..++..+...|++++|...++++.+   ..| +...+.
T Consensus        18 ~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~~~   94 (330)
T 3hym_B           18 LQENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKDPFHASCLPVHIGTLVELNKANELFYLSHKLVD---LYPSNPVSWF   94 (330)
T ss_dssp             --CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHH---HCTTSTHHHH
T ss_pred             chhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCChhhHHHHHHHHHHhhhHHHHHHHHHHHHH---hCcCCHHHHH
Confidence            34555566666777777777777777777654   23455666677777777888888888877776   445 445566


Q ss_pred             chhHHhhccC-chHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCcchHHHHHHHHHhcC
Q 005268          338 SILPAYSHVG-ALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVP---RSSSVPWNAIISCHGIHG  413 (705)
Q Consensus       338 ~ll~a~~~~~-~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g  413 (705)
                      .+...+...| +++.|...+..+++.. +.+...+..+...|...|++++|...|+++.   +.+..+|..+...|...|
T Consensus        95 ~l~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~  173 (330)
T 3hym_B           95 AVGCYYLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKGCHLPMLYIGLEYGLTN  173 (330)
T ss_dssp             HHHHHHHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCSHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHh
Confidence            6667777777 7788888887777653 3356678888888889999999999888775   344566888888999999


Q ss_pred             ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCC-------cCCcchHHHHHHHHHhcCCH
Q 005268          414 QGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGI-------KPHLKHYGCMVDLFGRAGHL  486 (705)
Q Consensus       414 ~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~-------~p~~~~~~~li~~~~~~g~~  486 (705)
                      ++++|++.|++..+.. +.+...+..+...+...|++++|...++.+.+...-       ......+..+...|.+.|++
T Consensus       174 ~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~  252 (330)
T 3hym_B          174 NSKLAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKY  252 (330)
T ss_dssp             CHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCH
T ss_pred             hHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCH
Confidence            9999999999998842 334568888888999999999999999988764211       33456889999999999999


Q ss_pred             HHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhh-hhcCCc
Q 005268          487 GMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIY-ANVGKW  552 (705)
Q Consensus       487 ~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~-~~~g~~  552 (705)
                      ++|...++++ ...| +..+|..+...+...|++++|...++++++++|+++..+..++.++ ...|+.
T Consensus       253 ~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~g~~  321 (330)
T 3hym_B          253 AEALDYHRQALVLIPQNASTYSAIGYIHSLMGNFENAVDYFHTALGLRRDDTFSVTMLGHCIEMYIGDS  321 (330)
T ss_dssp             HHHHHHHHHHHHHSTTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTCSCCHHHHHHHHHHHHTTTTC-
T ss_pred             HHHHHHHHHHHhhCccchHHHHHHHHHHHHhccHHHHHHHHHHHHccCCCchHHHHHHHHHHHHHhCch
Confidence            9999999887 2233 5778999999999999999999999999999999999999999888 455553

>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=99.77  E-value=1.4e-16  Score=162.20  Aligned_cols=343  Identities=14%  Similarity=0.146  Sum_probs=120.7

Q ss_pred             HcCCChhHHHHHhccCCCCCcchHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHhHHHHhhcCCChHHHHHHHH
Q 005268           74 CRFGLANVARKLFDDMPVRDSGSWNAMISGYCQSGNAVEALDILDEMRLEGVSMDPITVASILPVCARSDNILSGLLIHL  153 (705)
Q Consensus        74 ~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~  153 (705)
                      -+.|++++|.+.+++++.|+  +|..|..++.+.|++++|++.|.+.      +|..+|..++.++...|++++|..++.
T Consensus        14 ~~~~~ld~A~~fae~~~~~~--vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~EeAi~yl~   85 (449)
T 1b89_A           14 EHIGNLDRAYEFAERCNEPA--VWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQ   85 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHccCHHHHHHHHHhCCChH--HHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHHHHHH
Confidence            37899999999999997665  8999999999999999999999763      678899999999999999999999888


Q ss_pred             HHHHhCCCCchhHHHHHHHHHHccCCHHHHHHHHhccCCCCeehHHHHHHHHHcCCChhhHHHHHHHHHHCCCCCChhhH
Q 005268          154 YIVKHGLEFNLFVSNNLINMYAKFGMMRHALRVFDQMMERDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTL  233 (705)
Q Consensus       154 ~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~  233 (705)
                      ...+.  .+++.+.+.|+.+|.++|+++++.++|+.   |+..+|+.+...|...|++++|...|..+         ..|
T Consensus        86 ~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~~---pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~  151 (449)
T 1b89_A           86 MARKK--ARESYVETELIFALAKTNRLAELEEFING---PNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNF  151 (449)
T ss_dssp             -------------------------CHHHHTTTTTC---C----------------CTTTHHHHHHHT---------TCH
T ss_pred             HHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHcC---CcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhH
Confidence            87774  45678899999999999999999988863   77789999999999999999999999976         245


Q ss_pred             HHHHHHHHccCChhhHHHHHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHHcCCh
Q 005268          234 VSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDVISWNTLITGYAQNGLA  313 (705)
Q Consensus       234 ~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~  313 (705)
                      ..+..++.+.|+++.                                    |.+.+++.  .++.+|..++.+|...|++
T Consensus       152 ~~LA~~L~~Lg~yq~------------------------------------AVea~~KA--~~~~~Wk~v~~aCv~~~ef  193 (449)
T 1b89_A          152 GRLASTLVHLGEYQA------------------------------------AVDGARKA--NSTRTWKEVCFACVDGKEF  193 (449)
T ss_dssp             HHHHHHHHTTTCHHH------------------------------------HHHHHHHH--TCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHhccHHH------------------------------------HHHHHHHc--CCchhHHHHHHHHHHcCcH
Confidence            555555555555554                                    44444444  2444555555555555555


Q ss_pred             hHHHHHHHhhhhcCCCCCCcccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHh--cCCHHHHHHHH
Q 005268          314 SEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGK--CGRIDDAMSLF  391 (705)
Q Consensus       314 ~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k--~g~~~~A~~~~  391 (705)
                      +.|......+.    +.|+.  ...++..|.+.|.++++..+++..+... +.....++-|.-+|+|  -+++.+..+.|
T Consensus       194 ~lA~~~~l~L~----~~ad~--l~~lv~~Yek~G~~eEai~lLe~aL~le-~ah~~~ftel~il~~ky~p~k~~ehl~~~  266 (449)
T 1b89_A          194 RLAQMCGLHIV----VHADE--LEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFKPQKMREHLELF  266 (449)
T ss_dssp             HHHHHTTTTTT----TCHHH--HHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHH----hCHhh--HHHHHHHHHHCCCHHHHHHHHHHHhCCc-HHHHHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            55533322211    22222  2234444455555555555555444332 2234444445445544  45566666666


Q ss_pred             hhCC---C-----CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC---HHHHHHHHHHHhccCcHHHHHHHHHHh
Q 005268          392 YQVP---R-----SSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPD---HITFVSLLTACSHSGLVSEGQRYFHMM  460 (705)
Q Consensus       392 ~~~~---~-----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~---~~t~~~ll~a~~~~g~~~~a~~~~~~m  460 (705)
                      ..-.   +     .+...|..+.-.|.+.++++.|..   .|.+.  +|+   ...|.-++.--....-+=+|..++-  
T Consensus       267 ~~~ini~k~~~~~~~~~~w~e~~~ly~~~~e~d~A~~---tm~~h--~~~a~~~~~f~~~~~kv~n~elyYkai~fyl--  339 (449)
T 1b89_A          267 WSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAII---TMMNH--PTDAWKEGQFKDIITKVANVELYYRAIQFYL--  339 (449)
T ss_dssp             STTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHH---HHHHS--TTTTCCHHHHHHHHHHCSSTHHHHHHHHHHH--
T ss_pred             HHHhcCcHHHHHHHHHHHHHHHHHHHHhhchHHHHHH---HHHhC--ChhhhhhHHHHHHHhchhHHHHHHHHHHHHH--
Confidence            5333   1     345558888888999999988876   45552  333   3444444432222222333333332  


Q ss_pred             HHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhC
Q 005268          461 QEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNM  496 (705)
Q Consensus       461 ~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~  496 (705)
                       ..   .|.  ..+-|..++...=+...+..+|++.
T Consensus       340 -~~---~p~--~l~~ll~~l~~~ld~~r~v~~~~~~  369 (449)
T 1b89_A          340 -EF---KPL--LLNDLLMVLSPRLDHTRAVNYFSKV  369 (449)
T ss_dssp             -HH---CGG--GHHHHHHHHGGGCCHHHHHHHHHHT
T ss_pred             -hc---CHH--HHHHHHHHHHhccCcHHHHHHHHHc
Confidence             11   232  3444555554444555555555544

>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=2.5e-17  Score=167.61  Aligned_cols=320  Identities=12%  Similarity=0.081  Sum_probs=154.5

Q ss_pred             ccCCHHHHHHHHhccCCCCeehHHHHHHHHHcCCChhhHHHHHHHHHHCCCCCChhhHHHHHHHHHccCChhhHHHHHHH
Q 005268          176 KFGMMRHALRVFDQMMERDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQLNDCRNSRSVHGF  255 (705)
Q Consensus       176 ~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~  255 (705)
                      +.|++++|.++++++..|+  +|..|+.++.+.|++++|++.|.+      .+|..+|..++.++...|+++++...+..
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 HIGNLDRAYEFAERCNEPA--VWSQLAKAQLQKGMVKEAIDSYIK------ADDPSSYMEVVQAANTSGNWEELVKYLQM   86 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhCCChH--HHHHHHHHHHHcCCHHHHHHHHHc------CCCHHHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            6788999999999996664  899999999999999999999975      36778999999999999999999998887


Q ss_pred             HHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCccc
Q 005268          256 IMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGT  335 (705)
Q Consensus       256 ~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t  335 (705)
                      ..+.   .+++.+.+.|+.+|.++|+++++.++++.   |+..+|+.+...|...|++++|...|..+          ..
T Consensus        87 ark~---~~~~~i~~~Li~~Y~Klg~l~e~e~f~~~---pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a----------~n  150 (449)
T 1b89_A           87 ARKK---ARESYVETELIFALAKTNRLAELEEFING---PNNAHIQQVGDRCYDEKMYDAAKLLYNNV----------SN  150 (449)
T ss_dssp             -------------------------CHHHHTTTTTC---C----------------CTTTHHHHHHHT----------TC
T ss_pred             HHHh---CccchhHHHHHHHHHHhCCHHHHHHHHcC---CcHHHHHHHHHHHHHcCCHHHHHHHHHHh----------hh
Confidence            7764   35578899999999999999999988864   67779999999999999999999999977          26


Q ss_pred             ccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCcchHHHHHHHHHhcCCh
Q 005268          336 YVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQG  415 (705)
Q Consensus       336 ~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~  415 (705)
                      |..+..++.+.|+++.|.+.+..+      .++.+|..++.+|...|+++.|......+. .++.....++..|.+.|++
T Consensus       151 ~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~-~~ad~l~~lv~~Yek~G~~  223 (449)
T 1b89_A          151 FGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV-VHADELEELINYYQDRGYF  223 (449)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT-TCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHHH-hCHhhHHHHHHHHHHCCCH
Confidence            889999999999999999999987      378999999999999999999988777655 3444455788999999999


Q ss_pred             HHHHHHHHHHHHcCCCCCH-HHHHHHHHHH--hccCcHHHHHHHHHHhHHhhCCcC------CcchHHHHHHHHHhcCCH
Q 005268          416 DKALNFFRQMLDEGVRPDH-ITFVSLLTAC--SHSGLVSEGQRYFHMMQEEFGIKP------HLKHYGCMVDLFGRAGHL  486 (705)
Q Consensus       416 ~~A~~~~~~m~~~g~~p~~-~t~~~ll~a~--~~~g~~~~a~~~~~~m~~~~~~~p------~~~~~~~li~~~~~~g~~  486 (705)
                      ++|+.+++..+.  ..|.. ..|+.+.-++  .+.+++.+.++.|..-   -+++|      +...|.-++..|...+++
T Consensus       224 eEai~lLe~aL~--le~ah~~~ftel~il~~ky~p~k~~ehl~~~~~~---ini~k~~~~~~~~~~w~e~~~ly~~~~e~  298 (449)
T 1b89_A          224 EELITMLEAALG--LERAHMGMFTELAILYSKFKPQKMREHLELFWSR---VNIPKVLRAAEQAHLWAELVFLYDKYEEY  298 (449)
T ss_dssp             HHHHHHHHHHTT--STTCCHHHHHHHHHHHHTTCHHHHHHHHHHHSTT---SCHHHHHHHHHTTTCHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHhC--CcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH---hcCcHHHHHHHHHHHHHHHHHHHHhhchH
Confidence            999999999986  44543 3555554444  4566777777766532   25555      578899999999999999


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCC
Q 005268          487 GMAHNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDS  533 (705)
Q Consensus       487 ~~A~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p  533 (705)
                      +.|...+-+-+  |+..--..+.....+-.+.|.-.++..-.++..|
T Consensus       299 d~A~~tm~~h~--~~a~~~~~f~~~~~kv~n~elyYkai~fyl~~~p  343 (449)
T 1b89_A          299 DNAIITMMNHP--TDAWKEGQFKDIITKVANVELYYRAIQFYLEFKP  343 (449)
T ss_dssp             HHHHHHHHHST--TTTCCHHHHHHHHHHCSSTHHHHHHHHHHHHHCG
T ss_pred             HHHHHHHHhCC--hhhhhhHHHHHHHhchhHHHHHHHHHHHHHhcCH
Confidence            99987665543  2221122333444555555544444443343334

>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=99.76  E-value=2.5e-14  Score=161.64  Aligned_cols=381  Identities=12%  Similarity=0.051  Sum_probs=296.0

Q ss_pred             hhhHHhHHHHhhcCCChHHHHHHHHHHHHhC--CCCchhHHHHHHHHHHccCCHHHHHHHHhccCCCCeehHHHHHHHHH
Q 005268          129 PITVASILPVCARSDNILSGLLIHLYIVKHG--LEFNLFVSNNLINMYAKFGMMRHALRVFDQMMERDVVSWNSIIAAYE  206 (705)
Q Consensus       129 ~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g--~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~  206 (705)
                      +.-.....+++...|.+.++.++++.++-.+  +..+....+.|+.+..+. +..+.....+....-+   ...+...+.
T Consensus       985 PeeVs~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd~~d---~~eIA~Iai 1060 (1630)
T 1xi4_A          985 PEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLDNYD---APDIANIAI 1060 (1630)
T ss_pred             HHHhHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhhhcc---HHHHHHHHH
Confidence            3334566778889999999999999988432  123556677777777766 4556666655554322   455778888


Q ss_pred             cCCChhhHHHHHHHHHHCCCCCChhhHHHHHHHHHccCChhhHHHHHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHH
Q 005268          207 QSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSAC  286 (705)
Q Consensus       207 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~  286 (705)
                      ..|.+++|..+|++..     -.......++   ...++++.|.++...+       .+..+|..+..++.+.|++++|.
T Consensus      1061 ~lglyEEAf~IYkKa~-----~~~~A~~VLi---e~i~nldrAiE~Aerv-------n~p~vWsqLAKAql~~G~~kEAI 1125 (1630)
T 1xi4_A         1061 SNELFEEAFAIFRKFD-----VNTSAVQVLI---EHIGNLDRAYEFAERC-------NEPAVWSQLAKAQLQKGMVKEAI 1125 (1630)
T ss_pred             hCCCHHHHHHHHHHcC-----CHHHHHHHHH---HHHhhHHHHHHHHHhc-------CCHHHHHHHHHHHHhCCCHHHHH
Confidence            9999999999999952     1111122222   2667888888887743       45778999999999999999999


Q ss_pred             HHHhcCCCCChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccccchhHHhhccCchHHHHHHHHHHHHhCCCC
Q 005268          287 AVFEGLPVKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCF  366 (705)
Q Consensus       287 ~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~  366 (705)
                      ..|.+.  .|...|..++..+.+.|++++|++.|...++   ..+++...+.++.+|++.++++....+.    +   .+
T Consensus      1126 dsYiKA--dD~say~eVa~~~~~lGkyEEAIeyL~mArk---~~~e~~Idt~LafaYAKl~rleele~fI----~---~~ 1193 (1630)
T 1xi4_A         1126 DSYIKA--DDPSSYMEVVQAANTSGNWEELVKYLQMARK---KARESYVETELIFALAKTNRLAELEEFI----N---GP 1193 (1630)
T ss_pred             HHHHhc--CChHHHHHHHHHHHHcCCHHHHHHHHHHHHh---hcccccccHHHHHHHHhhcCHHHHHHHH----h---CC
Confidence            999764  6788899999999999999999999998877   3455555556899999999888644442    2   34


Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc
Q 005268          367 DVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSH  446 (705)
Q Consensus       367 ~~~~~~~li~~y~k~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~  446 (705)
                      +...+..+.+.|...|++++|...|...     ..|..+..+|.+.|++++|++.+++.      .+..+|..+-.+|..
T Consensus      1194 n~ad~~~iGd~le~eg~YeeA~~~Y~kA-----~ny~rLA~tLvkLge~q~AIEaarKA------~n~~aWkev~~acve 1262 (1630)
T 1xi4_A         1194 NNAHIQQVGDRCYDEKMYDAAKLLYNNV-----SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVD 1262 (1630)
T ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHhh-----hHHHHHHHHHHHhCCHHHHHHHHHHh------CCHHHHHHHHHHHhh
Confidence            5566777999999999999999999986     48999999999999999999999977      355889999999999


Q ss_pred             cCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhc--CChhHHH
Q 005268          447 SGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRPD-ASIWGALLGACRIH--GNMELGA  522 (705)
Q Consensus       447 ~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~--g~~~~a~  522 (705)
                      .|.+..|.....      ++..++..+..++..|.+.|.+++|+.+++.. ..+|. ...|.-|...+.+.  +++.++.
T Consensus      1263 ~~Ef~LA~~cgl------~Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~LeraH~gmftELaiLyaKy~peklmEhl 1336 (1630)
T 1xi4_A         1263 GKEFRLAQMCGL------HIVVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFKPQKMREHL 1336 (1630)
T ss_pred             hhHHHHHHHHHH------hhhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccChhHhHHHHHHHHHHHhCCHHHHHHHH
Confidence            999999988654      24446668889999999999999999999776 44443 45776777766655  4677888


Q ss_pred             HHHHHHhccCC-----CCcchhhhhhhhhhhcCCcchHHH
Q 005268          523 VASDRLFEVDS-----ENVGYYVLMSNIYANVGKWEGVDE  557 (705)
Q Consensus       523 ~~~~~~~~~~p-----~~~~~~~~l~~~~~~~g~~~~a~~  557 (705)
                      +.|..-..+.|     .+...|.-+.-+|.+.|+|+.|..
T Consensus      1337 k~f~~rini~k~~r~~e~~~lW~elv~LY~~~~e~dnA~~ 1376 (1630)
T 1xi4_A         1337 ELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAII 1376 (1630)
T ss_pred             HHHHHhcccchHhHHHHHHHHHHHHHHHHHhcccHHHHHH
Confidence            88887777766     677778889999999999999984

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.76  E-value=9e-16  Score=165.79  Aligned_cols=365  Identities=9%  Similarity=0.001  Sum_probs=243.7

Q ss_pred             ChhhHHhHHHHhhc----CCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHc----cCCHHHHHHHHhccCCC-CeehH
Q 005268          128 DPITVASILPVCAR----SDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAK----FGMMRHALRVFDQMMER-DVVSW  198 (705)
Q Consensus       128 ~~~t~~~ll~~~~~----~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~----~g~~~~A~~~f~~m~~~-~~~~~  198 (705)
                      |...+..+...+..    .+++++|...+....+.|   +...+..|..+|..    .++.++|...|++..+. +...+
T Consensus        38 ~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~  114 (490)
T 2xm6_A           38 EAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKGLPQAQ  114 (490)
T ss_dssp             CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             CHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHH
Confidence            44444444444444    455555555555555543   34444555555555    55555555555544322 33344


Q ss_pred             HHHHHHHHc----CCChhhHHHHHHHHHHCCCCCChhhHHHHHHHHHccCChhhHHHHHHHHHHhcCCCchhHHHHHHHH
Q 005268          199 NSIIAAYEQ----SNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVD  274 (705)
Q Consensus       199 ~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~  274 (705)
                      ..|...|..    .+++++|+..|++.                                   .+.|    +...+..|..
T Consensus       115 ~~Lg~~y~~g~g~~~~~~~A~~~~~~a-----------------------------------~~~~----~~~a~~~Lg~  155 (490)
T 2xm6_A          115 QNLGVMYHEGNGVKVDKAESVKWFRLA-----------------------------------AEQG----RDSGQQSMGD  155 (490)
T ss_dssp             HHHHHHHHHTSSSCCCHHHHHHHHHHH-----------------------------------HHTT----CHHHHHHHHH
T ss_pred             HHHHHHHHcCCCCCCCHHHHHHHHHHH-----------------------------------HHCC----CHHHHHHHHH
Confidence            444444444    44455555555544                                   4333    2344455555


Q ss_pred             HHHh----cCCHHHHHHHHhcCC-CCChhHHHHHHHHHHH----cCChhHHHHHHHhhhhcCCCCCCcccccchhHHhhc
Q 005268          275 MYAK----LGIINSACAVFEGLP-VKDVISWNTLITGYAQ----NGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSH  345 (705)
Q Consensus       275 ~y~~----~g~~~~A~~~f~~~~-~~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~  345 (705)
                      +|..    .++.++|...|++.. ..+..++..+...|..    .++.++|++.|++..+ .+   +...+..+...+..
T Consensus       156 ~y~~g~g~~~d~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~-~~---~~~a~~~lg~~y~~  231 (490)
T 2xm6_A          156 AYFEGDGVTRDYVMAREWYSKAAEQGNVWSCNQLGYMYSRGLGVERNDAISAQWYRKSAT-SG---DELGQLHLADMYYF  231 (490)
T ss_dssp             HHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHH-TT---CHHHHHHHHHHHHH
T ss_pred             HHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHH-CC---CHHHHHHHHHHHHc
Confidence            5555    566677776666543 2355666666666666    6777777777777665 32   33344445555543


Q ss_pred             ----cCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHh----cCCHHHHHHHHhhCCC-CCcchHHHHHHHHHhc----
Q 005268          346 ----VGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGK----CGRIDDAMSLFYQVPR-SSSVPWNAIISCHGIH----  412 (705)
Q Consensus       346 ----~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k----~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~~----  412 (705)
                          .++.++|...++...+.|   +...+..+..+|..    .++.++|...|++..+ .+...+..+...|...    
T Consensus       232 g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~~~~g~  308 (490)
T 2xm6_A          232 GIGVTQDYTQSRVLFSQSAEQG---NSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQGNSDGQYYLAHLYDKGAEGV  308 (490)
T ss_dssp             TSSSCCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHCBTTB
T ss_pred             CCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHcCCCCC
Confidence                667778888887777654   44566667777777    7899999999988764 4455677788888877    


Q ss_pred             -CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccC---cHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHh----cC
Q 005268          413 -GQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSG---LVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGR----AG  484 (705)
Q Consensus       413 -g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g---~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~----~g  484 (705)
                       +++++|+..|++..+.|   +...+..+...+...|   +.++|.++|+...+.    .+...+..|..+|..    .+
T Consensus       309 ~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~----~~~~a~~~Lg~~y~~g~g~~~  381 (490)
T 2xm6_A          309 AKNREQAISWYTKSAEQG---DATAQANLGAIYFRLGSEEEHKKAVEWFRKAAAK----GEKAAQFNLGNALLQGKGVKK  381 (490)
T ss_dssp             CCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHTSSSCC
T ss_pred             cCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHC----CCHHHHHHHHHHHHcCCCCCC
Confidence             89999999999999865   4456666666676656   889999999988764    356788889999988    89


Q ss_pred             CHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCChhHHHHHHHHHhccCCC---Ccchhhhhhhhhhh
Q 005268          485 HLGMAHNFIQNMPVRPDASIWGALLGACRI----HGNMELGAVASDRLFEVDSE---NVGYYVLMSNIYAN  548 (705)
Q Consensus       485 ~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~p~---~~~~~~~l~~~~~~  548 (705)
                      ++++|...+++.....+...+..|...|..    .+|.++|...++++.+.+|+   ++.....|+.++..
T Consensus       382 ~~~~A~~~~~~A~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~~a~~~l~~~~~~  452 (490)
T 2xm6_A          382 DEQQAAIWMRKAAEQGLSAAQVQLGEIYYYGLGVERDYVQAWAWFDTASTNDMNLFGTENRNITEKKLTAK  452 (490)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHHHCCHHHHHHHHHHHTTSCHH
T ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCCCcCCHHHHHHHHhcCHh
Confidence            999999999987434568888999999988    89999999999999999844   77777778777654

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.75  E-value=1.1e-15  Score=166.82  Aligned_cols=128  Identities=9%  Similarity=0.052  Sum_probs=81.8

Q ss_pred             CCcchHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHhHHHHhhcCCChHHHHHHHHHHHHhCCCCchhHHHHHH
Q 005268           92 RDSGSWNAMISGYCQSGNAVEALDILDEMRLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLI  171 (705)
Q Consensus        92 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li  171 (705)
                      .|..+|..++. +.+.|++++|..+|+++.+. .+-+...|...+..+.+.|+++.|..+++.+++..  |+...|..++
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            35667888887 47778888888888888764 23345567777777777788888888888877753  4566666665


Q ss_pred             HH-HHccCCHHHHHH----HHhccC-----C-CCeehHHHHHHHHHc---------CCChhhHHHHHHHHHH
Q 005268          172 NM-YAKFGMMRHALR----VFDQMM-----E-RDVVSWNSIIAAYEQ---------SNDPITAHGFFTTMQQ  223 (705)
Q Consensus       172 ~~-y~~~g~~~~A~~----~f~~m~-----~-~~~~~~~~li~~~~~---------~g~~~~A~~~~~~m~~  223 (705)
                      .. ....|+.++|++    +|+...     . ++...|...+....+         .|++++|..+|++...
T Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~  158 (530)
T 2ooe_A           87 SYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCV  158 (530)
T ss_dssp             HHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHh
Confidence            42 234566555544    554431     1 234556666655443         4666777777777655

>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=99.75  E-value=1.5e-16  Score=162.04  Aligned_cols=264  Identities=10%  Similarity=0.057  Sum_probs=226.5

Q ss_pred             CCChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCC-CcccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHH
Q 005268          294 VKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINP-NQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVAT  372 (705)
Q Consensus       294 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p-~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~  372 (705)
                      ..+...+..+...+...|++++|+++|+++.+   ..| +...+..++..+...|++++|...+..+++.. +.+...+.
T Consensus        19 ~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~---~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~   94 (330)
T 3hym_B           19 QENLDVVVSLAERHYYNCDFKMCYKLTSVVME---KDPFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWF   94 (330)
T ss_dssp             -CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHH
T ss_pred             hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---cCCCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHH
Confidence            34666788888999999999999999999987   455 34455567788899999999999999999874 44677888


Q ss_pred             HHHHHHHhcC-CHHHHHHHHhhCC---CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccC
Q 005268          373 CLVDMYGKCG-RIDDAMSLFYQVP---RSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSG  448 (705)
Q Consensus       373 ~li~~y~k~g-~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g  448 (705)
                      .+...|...| ++++|...|++..   +.+...|..+...|...|++++|+..|+++.+.. +.+...+..+...+...|
T Consensus        95 ~l~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~  173 (330)
T 3hym_B           95 AVGCYYLMVGHKNEHARRYLSKATTLEKTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLM-KGCHLPMLYIGLEYGLTN  173 (330)
T ss_dssp             HHHHHHHHSCSCHHHHHHHHHHHHTTCTTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT-TTCSHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhhhhHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHHh
Confidence            9999999999 9999999999875   4456679999999999999999999999999953 334567777888999999


Q ss_pred             cHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhCC-C----------CCCHHHHHHHHHHHHhcC
Q 005268          449 LVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNMP-V----------RPDASIWGALLGACRIHG  516 (705)
Q Consensus       449 ~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~-~----------~p~~~~~~~ll~~~~~~g  516 (705)
                      ++++|.+.++.+.+   ..| +...+..++..|.+.|++++|...++++- .          +.+..+|..+...+...|
T Consensus       174 ~~~~A~~~~~~al~---~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g  250 (330)
T 3hym_B          174 NSKLAERFFSQALS---IAPEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLK  250 (330)
T ss_dssp             CHHHHHHHHHHHHT---TCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTT
T ss_pred             hHHHHHHHHHHHHH---hCCCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhc
Confidence            99999999999874   344 56788999999999999999999998761 1          334678999999999999


Q ss_pred             ChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhC
Q 005268          517 NMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       517 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      ++++|+..+++++++.|+++..+..++.+|...|++++|.+.++++.+.
T Consensus       251 ~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  299 (330)
T 3hym_B          251 KYAEALDYHRQALVLIPQNASTYSAIGYIHSLMGNFENAVDYFHTALGL  299 (330)
T ss_dssp             CHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTT
T ss_pred             CHHHHHHHHHHHHhhCccchHHHHHHHHHHHHhccHHHHHHHHHHHHcc
Confidence            9999999999999999999999999999999999999999999876654

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.75  E-value=2.9e-15  Score=163.58  Aligned_cols=410  Identities=9%  Similarity=0.022  Sum_probs=255.6

Q ss_pred             ChhhHHhHHHHhhcCCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHccCCHHHHHHHHhccCC--CCeehHHHHHHH-
Q 005268          128 DPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGMMRHALRVFDQMME--RDVVSWNSIIAA-  204 (705)
Q Consensus       128 ~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~--~~~~~~~~li~~-  204 (705)
                      |...|..++.. .+.|+++.|+.+++.+++.- +.+...|..++..+.+.|++++|..+|++...  |++..|...+.. 
T Consensus        12 ~~~~w~~l~~~-~~~~~~~~a~~~~e~al~~~-P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~p~~~lw~~~~~~~   89 (530)
T 2ooe_A           12 DLDAWSILIRE-AQNQPIDKARKTYERLVAQF-PSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKVLHIDLWKCYLSYV   89 (530)
T ss_dssp             CHHHHHHHHHH-HHSSCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTCCCHHHHHHHHHHH
T ss_pred             CHHHHHHHHHH-HHhCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCChHHHHHHHHHH
Confidence            45567666663 56777888888887777653 44566777777777777888888888777654  555556655542 


Q ss_pred             HHcCCChhhHHH----HHHHHHH-CCCCCCh-hhHHHHHHHHHc---------cCChhhHHHHHHHHHHhcCCCchhHHH
Q 005268          205 YEQSNDPITAHG----FFTTMQQ-AGIQPDL-LTLVSLTSIVAQ---------LNDCRNSRSVHGFIMRRGWFMEDVIIG  269 (705)
Q Consensus       205 ~~~~g~~~~A~~----~~~~m~~-~g~~p~~-~t~~~ll~a~~~---------~~~~~~a~~i~~~~~~~g~~~~~~~~~  269 (705)
                      ....|+.++|.+    +|++... .|..|+. ..|...+.....         .|+++.++.++...++.. ......+|
T Consensus        90 ~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~P-~~~~~~~~  168 (530)
T 2ooe_A           90 RETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVNP-MINIEQLW  168 (530)
T ss_dssp             HHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTSC-CTTHHHHH
T ss_pred             HHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhch-hhhHHHHH
Confidence            234566666554    4444433 2444332 233333333222         344455555555544411 11111222


Q ss_pred             HHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHHcCChhHHHHHHHhhh------hcCC---CCCCc-------
Q 005268          270 NAVVDMYAKLGIINSACAVFEGLPVKDVISWNTLITGYAQNGLASEAIEVFQMME------ECNE---INPNQ-------  333 (705)
Q Consensus       270 ~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~------~~~~---~~p~~-------  333 (705)
                      ..........|. ..+..++.                 .+.+++.+|..++.++.      + ..   +.|+.       
T Consensus       169 ~~~~~~e~~~~~-~~~~~~l~-----------------~~~~~~~~A~~~~~~~~~~~~~l~-~~~~~~~p~~~~~~~~~  229 (530)
T 2ooe_A          169 RDYNKYEEGINI-HLAKKMIE-----------------DRSRDYMNARRVAKEYETVMKGLD-RNAPSVPPQNTPQEAQQ  229 (530)
T ss_dssp             HHHHHHHHHHCH-HHHHHHHH-----------------TTHHHHHHHHHHHHHHHHHHHHCC-SSSCCCCCC--CCHHHH
T ss_pred             HHHHHHHHhhch-hHHHHHHH-----------------HhhHHHHHHHHHHHHHHHHHHHhc-cccccCCCCCChhHHHH
Confidence            222111100110 00111110                 02344566666555421      1 11   23321       


Q ss_pred             -ccccchhHHhhc----cCch----HHHHHHHHHHHHhCCCCchhHHHHHHHHHHh-------cCCHH-------HHHHH
Q 005268          334 -GTYVSILPAYSH----VGAL----RQGIKIHARVIKNCLCFDVFVATCLVDMYGK-------CGRID-------DAMSL  390 (705)
Q Consensus       334 -~t~~~ll~a~~~----~~~~----~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k-------~g~~~-------~A~~~  390 (705)
                       ..|...+.....    .++.    ..+..+++++++.. +.+..+|..++..+.+       .|+++       +|..+
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             122222211111    1222    36667888888763 4567788888888775       68876       89999


Q ss_pred             HhhCCC----CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHhccCcHHHHHHHHHHhHHhh
Q 005268          391 FYQVPR----SSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDH--ITFVSLLTACSHSGLVSEGQRYFHMMQEEF  464 (705)
Q Consensus       391 ~~~~~~----~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~  464 (705)
                      |++...    .+...|..++..+.+.|++++|..+|+++++  +.|+.  ..|..++..+.+.|++++|+++|+...+  
T Consensus       309 ~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~--  384 (530)
T 2ooe_A          309 YERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLA--IEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARE--  384 (530)
T ss_dssp             HHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--SSSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT--
T ss_pred             HHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhC--ccccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHh--
Confidence            987763    2455699999999999999999999999998  56753  4788888888889999999999998874  


Q ss_pred             CCcCC-cchHHHHHHH-HHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcc---
Q 005268          465 GIKPH-LKHYGCMVDL-FGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVG---  537 (705)
Q Consensus       465 ~~~p~-~~~~~~li~~-~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~---  537 (705)
                       ..|. ...|...+.+ +...|+.++|..+|++. ...| +...|..++..+...|+.++|..+++++++..|.++.   
T Consensus       385 -~~~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~  463 (530)
T 2ooe_A          385 -DARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSG  463 (530)
T ss_dssp             -CTTCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCH
T ss_pred             -ccCCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHCCCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHH
Confidence             3443 2333332222 34689999999999876 3334 5789999999999999999999999999998776655   


Q ss_pred             -hhhhhhhhhhhcCCcchHHHHHHHHHhC
Q 005268          538 -YYVLMSNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       538 -~~~~l~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                       .+...+......|+.+.+..+.+.+.+.
T Consensus       464 ~lw~~~~~~e~~~G~~~~~~~~~~r~~~~  492 (530)
T 2ooe_A          464 EIWARFLAFESNIGDLASILKVEKRRFTA  492 (530)
T ss_dssp             HHHHHHHHHHHHSSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence             5666677777889999999999888765

>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=99.74  E-value=5.7e-17  Score=168.16  Aligned_cols=277  Identities=9%  Similarity=-0.011  Sum_probs=220.4

Q ss_pred             HHhcCCHHHHHH-HHhcCC---CC----ChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCC-CcccccchhHHhhcc
Q 005268          276 YAKLGIINSACA-VFEGLP---VK----DVISWNTLITGYAQNGLASEAIEVFQMMEECNEINP-NQGTYVSILPAYSHV  346 (705)
Q Consensus       276 y~~~g~~~~A~~-~f~~~~---~~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p-~~~t~~~ll~a~~~~  346 (705)
                      |.-.|++++|.. .|++..   +.    +...|..+...+.+.|++++|+..|+++.+   ..| +..++..+...+...
T Consensus        35 ~~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~~~l~~~~~~~  111 (368)
T 1fch_A           35 HPWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQ---QDPKHMEAWQYLGTTQAEN  111 (368)
T ss_dssp             -----------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHH---SCTTCHHHHHHHHHHHHHT
T ss_pred             hHHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHC
Confidence            444578888888 777543   11    346688888999999999999999999987   455 455677788888999


Q ss_pred             CchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCCC---CCcchHHH---------------HHHH
Q 005268          347 GALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPR---SSSVPWNA---------------IISC  408 (705)
Q Consensus       347 ~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~~---~~~~~~~~---------------li~~  408 (705)
                      |+++.|...+..+++.. +.+..++..+...|.+.|++++|...|+++..   .+...+..               .+..
T Consensus       112 g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  190 (368)
T 1fch_A          112 EQELLAISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGS  190 (368)
T ss_dssp             TCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHH
T ss_pred             cCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHhhhhcccHHHHHHHH
Confidence            99999999999998875 45778888999999999999999999987752   22222321               2333


Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCC---HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcC
Q 005268          409 HGIHGQGDKALNFFRQMLDEGVRPD---HITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAG  484 (705)
Q Consensus       409 ~~~~g~~~~A~~~~~~m~~~g~~p~---~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g  484 (705)
                      +...|++++|+..|+++.+.  .|+   ..++..+...+...|++++|...++.+.+.   .| +...+..++..|.+.|
T Consensus       191 ~~~~~~~~~A~~~~~~a~~~--~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~---~~~~~~~~~~l~~~~~~~g  265 (368)
T 1fch_A          191 LLSDSLFLEVKELFLAAVRL--DPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV---RPNDYLLWNKLGATLANGN  265 (368)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH--STTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTT
T ss_pred             HhhcccHHHHHHHHHHHHHh--CcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CcCCHHHHHHHHHHHHHcC
Confidence            44889999999999999995  454   678899999999999999999999998864   44 4678999999999999


Q ss_pred             CHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCC-----------cchhhhhhhhhhhcCC
Q 005268          485 HLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSEN-----------VGYYVLMSNIYANVGK  551 (705)
Q Consensus       485 ~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~-----------~~~~~~l~~~~~~~g~  551 (705)
                      ++++|...++++ ...| +..+|..+...+...|++++|...+++++++.|++           +..+..++.+|...|+
T Consensus       266 ~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  345 (368)
T 1fch_A          266 QSEEAVAAYRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQ  345 (368)
T ss_dssp             CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTC
T ss_pred             CHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCC
Confidence            999999999887 3334 57899999999999999999999999999999887           7889999999999999


Q ss_pred             cchHHHHHHH
Q 005268          552 WEGVDEVRSL  561 (705)
Q Consensus       552 ~~~a~~~~~~  561 (705)
                      +++|..+++.
T Consensus       346 ~~~A~~~~~~  355 (368)
T 1fch_A          346 SDAYGAADAR  355 (368)
T ss_dssp             GGGHHHHHTT
T ss_pred             hHhHHHhHHH
Confidence            9999998764

>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=99.73  E-value=4.5e-16  Score=161.38  Aligned_cols=245  Identities=15%  Similarity=0.080  Sum_probs=131.4

Q ss_pred             HccCCHHHHHH-HHhccCC-----C--CeehHHHHHHHHHcCCChhhHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCh
Q 005268          175 AKFGMMRHALR-VFDQMME-----R--DVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQLNDC  246 (705)
Q Consensus       175 ~~~g~~~~A~~-~f~~m~~-----~--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~  246 (705)
                      .-.|++++|.. .|++...     |  +...|..+...+.+.|++++|+..|+++.+.                      
T Consensus        36 ~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~----------------------   93 (368)
T 1fch_A           36 PWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQ----------------------   93 (368)
T ss_dssp             ----------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHS----------------------
T ss_pred             HHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHh----------------------
Confidence            33466666666 6654422     1  2445666666677777777777777766654                      


Q ss_pred             hhHHHHHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCC---CCChhHHHHHHHHHHHcCChhHHHHHHHhh
Q 005268          247 RNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLP---VKDVISWNTLITGYAQNGLASEAIEVFQMM  323 (705)
Q Consensus       247 ~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  323 (705)
                                     .+.+..++..+...|.+.|++++|...|++..   +.+..+|..+...|...|++++|++.|+++
T Consensus        94 ---------------~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  158 (368)
T 1fch_A           94 ---------------DPKHMEAWQYLGTTQAENEQELLAISALRRCLELKPDNQTALMALAVSFTNESLQRQACEILRDW  158 (368)
T ss_dssp             ---------------CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             ---------------CCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence                           24455666777777777778887777777543   446778888888888999999999999988


Q ss_pred             hhcCCCCCCcccccc----------------hhHHhhccCchHHHHHHHHHHHHhCCCC-chhHHHHHHHHHHhcCCHHH
Q 005268          324 EECNEINPNQGTYVS----------------ILPAYSHVGALRQGIKIHARVIKNCLCF-DVFVATCLVDMYGKCGRIDD  386 (705)
Q Consensus       324 ~~~~~~~p~~~t~~~----------------ll~a~~~~~~~~~a~~~~~~~~~~g~~~-~~~~~~~li~~y~k~g~~~~  386 (705)
                      ..   ..|+......                .+..+...|++++|...+..+++..... +..++..+...|.+.|++++
T Consensus       159 ~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~  235 (368)
T 1fch_A          159 LR---YTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDK  235 (368)
T ss_dssp             HH---TSTTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHH
T ss_pred             HH---hCcCcHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHH
Confidence            87   4454433222                1222335555555555555555543211 34444455555555555555


Q ss_pred             HHHHHhhCC---CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhH
Q 005268          387 AMSLFYQVP---RSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPD-HITFVSLLTACSHSGLVSEGQRYFHMMQ  461 (705)
Q Consensus       387 A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~m~  461 (705)
                      |...|+++.   +.+...|..+...|...|++++|+..|+++.+.  .|+ ..++..+..++...|++++|...|+.+.
T Consensus       236 A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al  312 (368)
T 1fch_A          236 AVDCFTAALSVRPNDYLLWNKLGATLANGNQSEEAVAAYRRALEL--QPGYIRSRYNLGISCINLGAHREAVEHFLEAL  312 (368)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            555544433   222333444444444444444444444444442  222 2344444444444444444444444443

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.71  E-value=6e-16  Score=160.32  Aligned_cols=227  Identities=13%  Similarity=0.045  Sum_probs=142.7

Q ss_pred             CeehHHHHHHHHHcCCChhhHHHHHHHHHHCCCCCChhhHHHHHHHHHccCChhhHHHHHHHHHHhcCCCchhHHHHHHH
Q 005268          194 DVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVV  273 (705)
Q Consensus       194 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li  273 (705)
                      +...|..+...+.+.|++++|+..|+++.+.                                     .+.+..++..+.
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~-------------------------------------~p~~~~~~~~lg  106 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQ-------------------------------------DPGDAEAWQFLG  106 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHH-------------------------------------CTTCHHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHh-------------------------------------CcCCHHHHHHHH
Confidence            4455777777777777777777777777653                                     345566777778


Q ss_pred             HHHHhcCCHHHHHHHHhcCC---CCChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCccc-c----------cch
Q 005268          274 DMYAKLGIINSACAVFEGLP---VKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGT-Y----------VSI  339 (705)
Q Consensus       274 ~~y~~~g~~~~A~~~f~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t-~----------~~l  339 (705)
                      ..|.+.|++++|...|++..   +.+..+|..+...|...|++++|+..|+++.+   +.|+... +          ..+
T Consensus       107 ~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~~~~~~~~~~~~~l  183 (365)
T 4eqf_A          107 ITQAENENEQAAIVALQRCLELQPNNLKALMALAVSYTNTSHQQDACEALKNWIK---QNPKYKYLVKNKKGSPGLTRRM  183 (365)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCHHHHCC--------------
T ss_pred             HHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHccccHHHHHHHHHHHHH---hCccchHHHhhhccchHHHHHH
Confidence            88888888888888887654   34677888889999999999999999999887   4453221 1          223


Q ss_pred             hHHhhccCchHHHHHHHHHHHHhCCC-CchhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCcchHHHHHHHHHhcCCh
Q 005268          340 LPAYSHVGALRQGIKIHARVIKNCLC-FDVFVATCLVDMYGKCGRIDDAMSLFYQVP---RSSSVPWNAIISCHGIHGQG  415 (705)
Q Consensus       340 l~a~~~~~~~~~a~~~~~~~~~~g~~-~~~~~~~~li~~y~k~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~  415 (705)
                      ...+...|++++|...+..+++.... .+..++..+...|.+.|++++|...|+++.   +.+...|+.+...|...|++
T Consensus       184 ~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~  263 (365)
T 4eqf_A          184 SKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVLFHLSGEFNRAIDAFNAALTVRPEDYSLWNRLGATLANGDRS  263 (365)
T ss_dssp             -----CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCH
Confidence            55666667777777777777665322 145566666666666666666666665543   23344466666666666666


Q ss_pred             HHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHH
Q 005268          416 DKALNFFRQMLDEGVRPD-HITFVSLLTACSHSGLVSEGQRYFHMMQE  462 (705)
Q Consensus       416 ~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~m~~  462 (705)
                      ++|+..|+++++.  .|+ ..++..+..+|...|++++|...|+.+.+
T Consensus       264 ~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  309 (365)
T 4eqf_A          264 EEAVEAYTRALEI--QPGFIRSRYNLGISCINLGAYREAVSNFLTALS  309 (365)
T ss_dssp             HHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhc--CCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            6666666666553  333 34555555555566666666665555543

>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=99.71  E-value=4.3e-13  Score=151.78  Aligned_cols=380  Identities=9%  Similarity=0.066  Sum_probs=266.4

Q ss_pred             CHHHHHHHHHHHHcCCChhHHHHHhccCC-CC-----CcchHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHhH
Q 005268           62 DVFVAASLLHMYCRFGLANVARKLFDDMP-VR-----DSGSWNAMISGYCQSGNAVEALDILDEMRLEGVSMDPITVASI  135 (705)
Q Consensus        62 ~~~~~~~ll~~y~~~g~~~~A~~~f~~~~-~~-----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~l  135 (705)
                      |+.--...++.|...|...+|.++++++. .+     +...-|.++.+..+. +..+..+...+...       ....-+
T Consensus       984 ~PeeVs~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd~-------~d~~eI 1055 (1630)
T 1xi4_A          984 DPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLDN-------YDAPDI 1055 (1630)
T ss_pred             CHHHhHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhhh-------ccHHHH
Confidence            34444566778888888888888888776 22     224466677666666 44555555555431       223346


Q ss_pred             HHHhhcCCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHccCCHHHHHHHHhccCCCCeehHHHHHHHHHcCCChhhHH
Q 005268          136 LPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGMMRHALRVFDQMMERDVVSWNSIIAAYEQSNDPITAH  215 (705)
Q Consensus       136 l~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~A~  215 (705)
                      ...|...|.+++|.++|+...     ......+.++   -..+++++|.++.++..  +..+|..+..++.+.|++++|+
T Consensus      1056 A~Iai~lglyEEAf~IYkKa~-----~~~~A~~VLi---e~i~nldrAiE~Aervn--~p~vWsqLAKAql~~G~~kEAI 1125 (1630)
T 1xi4_A         1056 ANIAISNELFEEAFAIFRKFD-----VNTSAVQVLI---EHIGNLDRAYEFAERCN--EPAVWSQLAKAQLQKGMVKEAI 1125 (1630)
T ss_pred             HHHHHhCCCHHHHHHHHHHcC-----CHHHHHHHHH---HHHhhHHHHHHHHHhcC--CHHHHHHHHHHHHhCCCHHHHH
Confidence            667778888888888888741     1222223332   26788888888888774  4567888889999999999999


Q ss_pred             HHHHHHHHCCCCCChhhHHHHHHHHHccCChhhHHHHHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCCCC
Q 005268          216 GFFTTMQQAGIQPDLLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVK  295 (705)
Q Consensus       216 ~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~  295 (705)
                      +.|.+.      -|...|..+..++.+.|+++++.+.+....+..   +++.+.+.++..|+|.+++++.....   ..+
T Consensus      1126 dsYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~---~e~~Idt~LafaYAKl~rleele~fI---~~~ 1193 (1630)
T 1xi4_A         1126 DSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA---RESYVETELIFALAKTNRLAELEEFI---NGP 1193 (1630)
T ss_pred             HHHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc---ccccccHHHHHHHHhhcCHHHHHHHH---hCC
Confidence            988653      466678888888899999999888888777653   44444456888888888888644443   345


Q ss_pred             ChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHH
Q 005268          296 DVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLV  375 (705)
Q Consensus       296 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li  375 (705)
                      +...|..+...|...|++++|..+|....          .|..+...+.+.|+++.|.+.++.+      .+..+|..+.
T Consensus      1194 n~ad~~~iGd~le~eg~YeeA~~~Y~kA~----------ny~rLA~tLvkLge~q~AIEaarKA------~n~~aWkev~ 1257 (1630)
T 1xi4_A         1194 NNAHIQQVGDRCYDEKMYDAAKLLYNNVS----------NFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVC 1257 (1630)
T ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHhhh----------HHHHHHHHHHHhCCHHHHHHHHHHh------CCHHHHHHHH
Confidence            66677778888888899999988888752          5778888888888888888888765      3557777777


Q ss_pred             HHHHhcCCHHHHHHHHhhCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH-HHHHH--HHHHHhccCcHHH
Q 005268          376 DMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDH-ITFVS--LLTACSHSGLVSE  452 (705)
Q Consensus       376 ~~y~k~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~t~~~--ll~a~~~~g~~~~  452 (705)
                      .++...|++..|...... ...+...+..++.-|...|.+++|+.+++..+.  +.|.. ..|.-  .+.+-.+.+++.+
T Consensus      1258 ~acve~~Ef~LA~~cgl~-Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~--LeraH~gmftELaiLyaKy~peklmE 1334 (1630)
T 1xi4_A         1258 FACVDGKEFRLAQMCGLH-IVVHADELEELINYYQDRGYFEELITMLEAALG--LERAHMGMFTELAILYSKFKPQKMRE 1334 (1630)
T ss_pred             HHHhhhhHHHHHHHHHHh-hhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhc--cChhHhHHHHHHHHHHHhCCHHHHHH
Confidence            788888888888887664 333444566888888888999999999887775  44544 24433  3444445566666


Q ss_pred             HHHHHHHhHHhhCCcC------CcchHHHHHHHHHhcCCHHHHHHHH
Q 005268          453 GQRYFHMMQEEFGIKP------HLKHYGCMVDLFGRAGHLGMAHNFI  493 (705)
Q Consensus       453 a~~~~~~m~~~~~~~p------~~~~~~~li~~~~~~g~~~~A~~~~  493 (705)
                      +.++|..-.   .++|      +...|.-++-+|.+.|+++.|...+
T Consensus      1335 hlk~f~~ri---ni~k~~r~~e~~~lW~elv~LY~~~~e~dnA~~tm 1378 (1630)
T 1xi4_A         1335 HLELFWSRV---NIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITM 1378 (1630)
T ss_pred             HHHHHHHhc---ccchHhHHHHHHHHHHHHHHHHHhcccHHHHHHHH
Confidence            666665322   4444      4567888888888889888887443

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.70  E-value=1.1e-15  Score=164.34  Aligned_cols=364  Identities=10%  Similarity=0.015  Sum_probs=188.7

Q ss_pred             hhHHHHHHHHHHccCCHHHHHHHHhccC-----------C-CCeehHHHHHHHHHcCCChhhHHHHHHHHHHCC------
Q 005268          164 LFVSNNLINMYAKFGMMRHALRVFDQMM-----------E-RDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAG------  225 (705)
Q Consensus       164 ~~~~~~Li~~y~~~g~~~~A~~~f~~m~-----------~-~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g------  225 (705)
                      ...||.|...|...|+.++|++.|++..           . ...++|+.+...|...|++++|...+++..+..      
T Consensus        51 a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~~  130 (472)
T 4g1t_A           51 ATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSSP  130 (472)
T ss_dssp             CHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCS
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcccc
Confidence            4556667777777777777776665431           1 234577778888888888888888777764320      


Q ss_pred             CCCC-hhhHHHHHHHHHc--cCChhhHHHHHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHH
Q 005268          226 IQPD-LLTLVSLTSIVAQ--LNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDVISWNT  302 (705)
Q Consensus       226 ~~p~-~~t~~~ll~a~~~--~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~  302 (705)
                      ..++ ..++.....++..  .+++++|...|..+++..  |.++..+..+...+.+                        
T Consensus       131 ~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~--p~~~~~~~~~~~~~~~------------------------  184 (472)
T 4g1t_A          131 YRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKK--PKNPEFTSGLAIASYR------------------------  184 (472)
T ss_dssp             SCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHH------------------------
T ss_pred             cchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHH------------------------
Confidence            0111 1222222222222  233445555555554442  2333333333322211                        


Q ss_pred             HHHHHHHcCChhHHHHHHHhhhhcCCCCCCc-ccccchhHHhh----ccCchHHHHHHHHHHHHhCCCCchhHHHHHHHH
Q 005268          303 LITGYAQNGLASEAIEVFQMMEECNEINPNQ-GTYVSILPAYS----HVGALRQGIKIHARVIKNCLCFDVFVATCLVDM  377 (705)
Q Consensus       303 li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~-~t~~~ll~a~~----~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~  377 (705)
                          +...++.++|++.|++..+   +.|+. .++..+...+.    ..++.++|.+.++.+.+.. +.+..++..+...
T Consensus       185 ----l~~~~~~~~al~~~~~al~---l~p~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~  256 (472)
T 4g1t_A          185 ----LDNWPPSQNAIDPLRQAIR---LNPDNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVTDVLRSAAKF  256 (472)
T ss_dssp             ----HHHSCCCCCTHHHHHHHHH---HCSSCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHC-SSCHHHHHHHHHH
T ss_pred             ----hcCchHHHHHHHHHHHHhh---cCCcchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHH
Confidence                2223444455555555444   33322 12222222221    2234445555555554442 2334445555555


Q ss_pred             HHhcCCHHHHHHHHhhCC---CCCcchHHHHHHHHHh-------------------cCChHHHHHHHHHHHHcCCCCC-H
Q 005268          378 YGKCGRIDDAMSLFYQVP---RSSSVPWNAIISCHGI-------------------HGQGDKALNFFRQMLDEGVRPD-H  434 (705)
Q Consensus       378 y~k~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~-------------------~g~~~~A~~~~~~m~~~g~~p~-~  434 (705)
                      |.+.|++++|...|++..   +.+...|..+...|..                   .+..++|+..|++..+.  .|+ .
T Consensus       257 ~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~~~~~  334 (472)
T 4g1t_A          257 YRRKDEPDKAIELLKKALEYIPNNAYLHCQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEA--NDNLF  334 (472)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHH--CTTTC
T ss_pred             HHHcCchHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhc--CCchh
Confidence            555555555555555443   2222334444333321                   23356788888888774  444 3


Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcc----hHHHHHH-HHHhcCCHHHHHHHHHhC-CCCCCHHHHHHH
Q 005268          435 ITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLK----HYGCMVD-LFGRAGHLGMAHNFIQNM-PVRPDASIWGAL  508 (705)
Q Consensus       435 ~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~----~~~~li~-~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l  508 (705)
                      .++..+...+...|++++|.+.|+...+.   .|+..    .+..+.. .+...|+.++|+..+++. .+.|+...+...
T Consensus       335 ~~~~~lg~~~~~~~~~~~A~~~~~kaL~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~~~~~~~~~~  411 (472)
T 4g1t_A          335 RVCSILASLHALADQYEEAEYYFQKEFSK---ELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKINQKSREKEKM  411 (472)
T ss_dssp             CCHHHHHHHHHHTTCHHHHHHHHHHHHHS---CCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHSCCCCHHHHHH
T ss_pred             hhhhhHHHHHHHhccHHHHHHHHHHHHhc---CCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcccHHHHHH
Confidence            56777888888999999999999887753   33322    2233333 235678999999988776 566665443332


Q ss_pred             HHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhCCCccCCceeE
Q 005268          509 LGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDRGLKKTPGWSS  575 (705)
Q Consensus       509 l~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~s~  575 (705)
                               .+.+..++++.++.+|+++.++..|+.+|...|++++|.+.+++..+.+.......+|
T Consensus       412 ---------~~~l~~~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~a~~~  469 (472)
T 4g1t_A          412 ---------KDKLQKIAKMRLSKNGADSEALHVLAFLQELNEKMQQADEDSERGLESGSLIPSASSW  469 (472)
T ss_dssp             ---------HHHHHHHHHHHHHHCC-CTTHHHHHHHHHHHHHHCC----------------------
T ss_pred             ---------HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcHhhc
Confidence                     3445667888888999999999999999999999999999999998876544444555

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.70  E-value=2.8e-15  Score=149.33  Aligned_cols=264  Identities=10%  Similarity=-0.001  Sum_probs=180.3

Q ss_pred             cCCHHHHHHHHhcCCCCCh----hHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccccchhHHhhccCchHHHHH
Q 005268          279 LGIINSACAVFEGLPVKDV----ISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIK  354 (705)
Q Consensus       279 ~g~~~~A~~~f~~~~~~~~----~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~  354 (705)
                      .|+++.|+..++.....+.    ...-.+..+|...|++++|+..++..     -.|+..++..+...+...++.+.|.+
T Consensus        12 ~g~y~~ai~~~~~~~~~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~~-----~~~~~~a~~~la~~~~~~~~~~~A~~   86 (291)
T 3mkr_A           12 IGSYQQCINEAQRVKPSSPERDVERDVFLYRAYLAQRKYGVVLDEIKPS-----SAPELQAVRMFAEYLASHSRRDAIVA   86 (291)
T ss_dssp             TTCHHHHHHHHHHSCCCSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCTT-----SCHHHHHHHHHHHHHHCSTTHHHHHH
T ss_pred             HHHHHHHHHHHHhcccCCchhhHHHHHHHHHHHHHCCCHHHHHHHhccc-----CChhHHHHHHHHHHHcCCCcHHHHHH
Confidence            4455555555444333221    12233444555555555555433221     22333444444455555555555555


Q ss_pred             HHHHHHHhCC-CCchhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC
Q 005268          355 IHARVIKNCL-CFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPD  433 (705)
Q Consensus       355 ~~~~~~~~g~-~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  433 (705)
                      .++.++..+. +.+...+..+...|.+.|++++|.+.|++  ..+...+..++..|.+.|++++|.+.|+++.+.  .|+
T Consensus        87 ~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~--~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~--~p~  162 (291)
T 3mkr_A           87 ELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ--GDSLECMAMTVQILLKLDRLDLARKELKKMQDQ--DED  162 (291)
T ss_dssp             HHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT--CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTT
T ss_pred             HHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh--CcC
Confidence            5555554443 23455667777889999999999999998  566778999999999999999999999999985  576


Q ss_pred             HHHH---HHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHH
Q 005268          434 HITF---VSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGAL  508 (705)
Q Consensus       434 ~~t~---~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l  508 (705)
                      ....   ..++..+...|++++|..+|+++.+.  .+.+...++.+..++.+.|++++|+..++++ ...| +..+|..+
T Consensus       163 ~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~--~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~p~~~~~l~~l  240 (291)
T 3mkr_A          163 ATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK--CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDSGHPETLINL  240 (291)
T ss_dssp             CHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH--SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHH
Confidence            5422   12334445569999999999999875  3456778999999999999999999999986 3445 57789999


Q ss_pred             HHHHHhcCChhH-HHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHH
Q 005268          509 LGACRIHGNMEL-GAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDE  557 (705)
Q Consensus       509 l~~~~~~g~~~~-a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~  557 (705)
                      +..+...|+.++ +...++++++++|+++...    +...+.+.++++..
T Consensus       241 ~~~~~~~g~~~eaa~~~~~~~~~~~P~~~~~~----d~~~~~~~fd~~~~  286 (291)
T 3mkr_A          241 VVLSQHLGKPPEVTNRYLSQLKDAHRSHPFIK----EYRAKENDFDRLVL  286 (291)
T ss_dssp             HHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHH----HHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCCHHHHHHHHHHHHHhCCCChHHH----HHHHHHHHHHHHHH
Confidence            999999999875 6789999999999887543    34445555555443

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.70  E-value=2.4e-16  Score=163.32  Aligned_cols=258  Identities=8%  Similarity=-0.061  Sum_probs=191.7

Q ss_pred             ChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCC-CcccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHH
Q 005268          296 DVISWNTLITGYAQNGLASEAIEVFQMMEECNEINP-NQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCL  374 (705)
Q Consensus       296 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p-~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~l  374 (705)
                      +...|..+...+.+.|++++|+..|+++.+   ..| +..++..+...+...|++++|...++.+++.. +.+..++..+
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l  139 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAIL---QDPGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMAL  139 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHH---hCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHH
Confidence            344566666667777777777777777665   334 34456666666667777777777777766653 3356677777


Q ss_pred             HHHHHhcCCHHHHHHHHhhCCCC---Cc----------chHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC---CHHHHH
Q 005268          375 VDMYGKCGRIDDAMSLFYQVPRS---SS----------VPWNAIISCHGIHGQGDKALNFFRQMLDEGVRP---DHITFV  438 (705)
Q Consensus       375 i~~y~k~g~~~~A~~~~~~~~~~---~~----------~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p---~~~t~~  438 (705)
                      ...|.+.|++++|...|+++...   +.          ..+..+...+...|++++|++.|+++.+.  .|   +..++.
T Consensus       140 ~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~  217 (365)
T 4eqf_A          140 AVSYTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQ--NGDMIDPDLQT  217 (365)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHH--SCSSCCHHHHH
T ss_pred             HHHHHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHh--CcCccCHHHHH
Confidence            77888888888888887776521   11          12344578889999999999999999995  44   467888


Q ss_pred             HHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcC
Q 005268          439 SLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHG  516 (705)
Q Consensus       439 ~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g  516 (705)
                      .+...+...|++++|.+.|+.+.+.  .+.+...|..++.+|.+.|++++|+..++++ ...| +..+|..+...|...|
T Consensus       218 ~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g  295 (365)
T 4eqf_A          218 GLGVLFHLSGEFNRAIDAFNAALTV--RPEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPGFIRSRYNLGISCINLG  295 (365)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCC
Confidence            9999999999999999999998864  2335678999999999999999999999887 3345 4889999999999999


Q ss_pred             ChhHHHHHHHHHhccCCC------------CcchhhhhhhhhhhcCCcchHHHHHHH
Q 005268          517 NMELGAVASDRLFEVDSE------------NVGYYVLMSNIYANVGKWEGVDEVRSL  561 (705)
Q Consensus       517 ~~~~a~~~~~~~~~~~p~------------~~~~~~~l~~~~~~~g~~~~a~~~~~~  561 (705)
                      ++++|...+++++++.|+            +...+..++.++...|+.+.+.++.+.
T Consensus       296 ~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          296 AYREAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             CCHHHHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             CHHHHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence            999999999999998876            356788899999999999988877654

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.69  E-value=1.4e-13  Score=148.52  Aligned_cols=352  Identities=12%  Similarity=0.060  Sum_probs=193.1

Q ss_pred             CHHHHHHHHHHHHc----CCChhHHHHHhccCCC-CCcchHHHHHHHHHh----CCChhHHHHHHHHHHHCCCCCChhhH
Q 005268           62 DVFVAASLLHMYCR----FGLANVARKLFDDMPV-RDSGSWNAMISGYCQ----SGNAVEALDILDEMRLEGVSMDPITV  132 (705)
Q Consensus        62 ~~~~~~~ll~~y~~----~g~~~~A~~~f~~~~~-~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~t~  132 (705)
                      ++..+..|...|..    .+++++|...|++..+ .+..++..|...|..    .+++++|+..|++..+.|   +...+
T Consensus        38 ~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~  114 (490)
T 2xm6_A           38 EAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQGYTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---LPQAQ  114 (490)
T ss_dssp             CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHH
T ss_pred             CHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHH
Confidence            56666666666766    6777777777775542 455667777777777    777777777777777654   44555


Q ss_pred             HhHHHHhhc----CCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHc----cCCHHHHHHHHhccCC-CCeehHHHHHH
Q 005268          133 ASILPVCAR----SDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAK----FGMMRHALRVFDQMME-RDVVSWNSIIA  203 (705)
Q Consensus       133 ~~ll~~~~~----~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~----~g~~~~A~~~f~~m~~-~~~~~~~~li~  203 (705)
                      ..+...+..    .+++++|...+....+.|   +...+..|..+|..    .++.++|...|++..+ .+..++..|..
T Consensus       115 ~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~~~~a~~~Lg~  191 (490)
T 2xm6_A          115 QNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQGNVWSCNQLGY  191 (490)
T ss_dssp             HHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            555555555    567777777777777665   45556666666665    5667777777765533 34555666666


Q ss_pred             HHHc----CCChhhHHHHHHHHHHCCCCCChhhHHHHHHHHHc----cCChhhHHHHHHHHHHhcCCCchhHHHHHHHHH
Q 005268          204 AYEQ----SNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQ----LNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDM  275 (705)
Q Consensus       204 ~~~~----~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~----~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~  275 (705)
                      .|..    .+++++|+..|++..+.|   +...+..+...+..    .++.+.|...+....+.|    +...+..|..+
T Consensus       192 ~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~----~~~a~~~lg~~  264 (490)
T 2xm6_A          192 MYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG----NSIAQFRLGYI  264 (490)
T ss_dssp             HHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT----CHHHHHHHHHH
T ss_pred             HHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC----CHHHHHHHHHH
Confidence            6665    666677777766665543   23334344444332    445555555555544433    22333344444


Q ss_pred             HHh----cCCHHHHHHHHhcCCC-CChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccccchhHHhhccCchH
Q 005268          276 YAK----LGIINSACAVFEGLPV-KDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALR  350 (705)
Q Consensus       276 y~~----~g~~~~A~~~f~~~~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~  350 (705)
                      |..    .++.++|...|+...+ .+..++..+...|....                               ....++.+
T Consensus       265 y~~g~~~~~d~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~~~-------------------------------~g~~~~~~  313 (490)
T 2xm6_A          265 LEQGLAGAKEPLKALEWYRKSAEQGNSDGQYYLAHLYDKGA-------------------------------EGVAKNRE  313 (490)
T ss_dssp             HHHTTTSSCCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHCB-------------------------------TTBCCCHH
T ss_pred             HHCCCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHcCC-------------------------------CCCcCCHH
Confidence            444    4445555555444322 23334444444444430                               00004455


Q ss_pred             HHHHHHHHHHHhCCCCchhHHHHHHHHHHhcC---CHHHHHHHHhhCC-CCCcchHHHHHHHHHh----cCChHHHHHHH
Q 005268          351 QGIKIHARVIKNCLCFDVFVATCLVDMYGKCG---RIDDAMSLFYQVP-RSSSVPWNAIISCHGI----HGQGDKALNFF  422 (705)
Q Consensus       351 ~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g---~~~~A~~~~~~~~-~~~~~~~~~li~~~~~----~g~~~~A~~~~  422 (705)
                      +|...+..+.+.|   +...+..|..+|.+.|   +.++|.+.|++.. ..+...+..+...|..    .+++++|+..|
T Consensus       314 ~A~~~~~~a~~~~---~~~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~  390 (490)
T 2xm6_A          314 QAISWYTKSAEQG---DATAQANLGAIYFRLGSEEEHKKAVEWFRKAAAKGEKAAQFNLGNALLQGKGVKKDEQQAAIWM  390 (490)
T ss_dssp             HHHHHHHHHHHTT---CHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHH
T ss_pred             HHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHH
Confidence            5555555544443   2334444444554434   4555555555444 2334445555555555    55666666666


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHHhc----cCcHHHHHHHHHHhHHh
Q 005268          423 RQMLDEGVRPDHITFVSLLTACSH----SGLVSEGQRYFHMMQEE  463 (705)
Q Consensus       423 ~~m~~~g~~p~~~t~~~ll~a~~~----~g~~~~a~~~~~~m~~~  463 (705)
                      ++..+.|   +...+..+...|..    .++.++|...|+...+.
T Consensus       391 ~~A~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~  432 (490)
T 2xm6_A          391 RKAAEQG---LSAAQVQLGEIYYYGLGVERDYVQAWAWFDTASTN  432 (490)
T ss_dssp             HHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHH
T ss_pred             HHHHhCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC
Confidence            6665543   34444455555554    55666666666665543

>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=99.67  E-value=1.1e-15  Score=155.36  Aligned_cols=255  Identities=9%  Similarity=-0.033  Sum_probs=179.2

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHhhhhcCCCCC-CcccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHH
Q 005268          300 WNTLITGYAQNGLASEAIEVFQMMEECNEINP-NQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMY  378 (705)
Q Consensus       300 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p-~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y  378 (705)
                      |..+...+...|++++|+.+|+++.+   ..| +..++..+...+...|+++.|...+..+.+.. +.+..++..+...|
T Consensus        24 ~~~~a~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~   99 (327)
T 3cv0_A           24 PMEEGLSMLKLANLAEAALAFEAVCQ---AAPEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSH   99 (327)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHHHH
Confidence            34444444555555555555555444   223 22333444444455555555555555554442 23445556666666


Q ss_pred             HhcCCHHHHHHHHhhCCC---CCcchHHHH--------------HH-HHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHH
Q 005268          379 GKCGRIDDAMSLFYQVPR---SSSVPWNAI--------------IS-CHGIHGQGDKALNFFRQMLDEGVRPDHITFVSL  440 (705)
Q Consensus       379 ~k~g~~~~A~~~~~~~~~---~~~~~~~~l--------------i~-~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~l  440 (705)
                      .+.|++++|...|+++..   .+...+..+              .. .+...|++++|++.++++.+.. +.+...+..+
T Consensus       100 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l  178 (327)
T 3cv0_A          100 TNEHNANAALASLRAWLLSQPQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMN-PNDAQLHASL  178 (327)
T ss_dssp             HHTTCHHHHHHHHHHHHHTSTTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHS-TTCHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhCCccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhC-CCCHHHHHHH
Confidence            666666666666665541   222223222              22 3677889999999999999853 3356788888


Q ss_pred             HHHHhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCC
Q 005268          441 LTACSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGN  517 (705)
Q Consensus       441 l~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~  517 (705)
                      ...+...|++++|.+.++.+.+.   .| +...+..++..|.+.|++++|...++++ ...| +..+|..+...+...|+
T Consensus       179 a~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~g~  255 (327)
T 3cv0_A          179 GVLYNLSNNYDSAAANLRRAVEL---RPDDAQLWNKLGATLANGNRPQEALDAYNRALDINPGYVRVMYNMAVSYSNMSQ  255 (327)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHhccHHHHHHHHHHHHHh---CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcc
Confidence            89999999999999999998764   34 4678899999999999999999999887 3334 57889999999999999


Q ss_pred             hhHHHHHHHHHhccCCC------------CcchhhhhhhhhhhcCCcchHHHHHHHH
Q 005268          518 MELGAVASDRLFEVDSE------------NVGYYVLMSNIYANVGKWEGVDEVRSLA  562 (705)
Q Consensus       518 ~~~a~~~~~~~~~~~p~------------~~~~~~~l~~~~~~~g~~~~a~~~~~~m  562 (705)
                      +++|...+++++++.|+            ++..+..++.+|...|++++|..+++..
T Consensus       256 ~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  312 (327)
T 3cv0_A          256 YDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQN  312 (327)
T ss_dssp             HHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCC
T ss_pred             HHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            99999999999999998            6788899999999999999999988644

>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=99.67  E-value=1.5e-14  Score=146.90  Aligned_cols=226  Identities=12%  Similarity=0.003  Sum_probs=130.8

Q ss_pred             CeehHHHHHHHHHcCCChhhHHHHHHHHHHCCCCCChhhHHHHHHHHHccCChhhHHHHHHHHHHhcCCCchhHHHHHHH
Q 005268          194 DVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVV  273 (705)
Q Consensus       194 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li  273 (705)
                      +...|..+...+...|++++|+.+|+++.+.                                     .+.+..++..+.
T Consensus        20 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~-------------------------------------~~~~~~~~~~l~   62 (327)
T 3cv0_A           20 YHENPMEEGLSMLKLANLAEAALAFEAVCQA-------------------------------------APEREEAWRSLG   62 (327)
T ss_dssp             GSSCHHHHHHHHHHTTCHHHHHHHHHHHHHH-------------------------------------CTTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccHHHHHHHHHHHHHh-------------------------------------CCCCHHHHHHHH
Confidence            3345666677777777777777777777653                                     234455556666


Q ss_pred             HHHHhcCCHHHHHHHHhcCC---CCChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccccchh----------
Q 005268          274 DMYAKLGIINSACAVFEGLP---VKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSIL----------  340 (705)
Q Consensus       274 ~~y~~~g~~~~A~~~f~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll----------  340 (705)
                      ..|.+.|++++|...|+++.   +.+..+|..+...|...|++++|++.|+++.+   ..|+.......+          
T Consensus        63 ~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~  139 (327)
T 3cv0_A           63 LTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEHNANAALASLRAWLL---SQPQYEQLGSVNLQADVDIDDL  139 (327)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---TSTTTTTC--------------
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCCccHHHHHHHhHHHHHHHHH
Confidence            66777777777777766543   34566778888888888888888888888877   445433322222          


Q ss_pred             ----H--HhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCcchHHHHHHHHHh
Q 005268          341 ----P--AYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVP---RSSSVPWNAIISCHGI  411 (705)
Q Consensus       341 ----~--a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~  411 (705)
                          .  .+...|++++|...+..+.+.. +.+..++..+...|.+.|++++|...|+++.   +.+...|..+...|..
T Consensus       140 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~  218 (327)
T 3cv0_A          140 NVQSEDFFFAAPNEYRECRTLLHAALEMN-PNDAQLHASLGVLYNLSNNYDSAAANLRRAVELRPDDAQLWNKLGATLAN  218 (327)
T ss_dssp             ------CCTTSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhHHHHHcccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHH
Confidence                2  2555666667766666666553 2245555555555655565555555555443   2233345555555555


Q ss_pred             cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhH
Q 005268          412 HGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQ  461 (705)
Q Consensus       412 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~  461 (705)
                      .|++++|+..|+++.+.. +.+..++..+..++...|++++|.+.++.+.
T Consensus       219 ~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~  267 (327)
T 3cv0_A          219 GNRPQEALDAYNRALDIN-PGYVRVMYNMAVSYSNMSQYDLAAKQLVRAI  267 (327)
T ss_dssp             TTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            555555555555555421 1123344444445555555555555554444

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.67  E-value=4e-17  Score=178.74  Aligned_cols=148  Identities=14%  Similarity=0.121  Sum_probs=126.6

Q ss_pred             CHHHHHHHHHHHHcCCChhHHHHHhccCC-------CCCcchHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHh
Q 005268           62 DVFVAASLLHMYCRFGLANVARKLFDDMP-------VRDSGSWNAMISGYCQSGNAVEALDILDEMRLEGVSMDPITVAS  134 (705)
Q Consensus        62 ~~~~~~~ll~~y~~~g~~~~A~~~f~~~~-------~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~  134 (705)
                      -..+||+||++|+++|++++|.++|++|.       .||++|||+||.+|++.|++++|.++|++|.+.|+.||.+||++
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            34689999999999999999999997753       68999999999999999999999999999999999999999999


Q ss_pred             HHHHhhcCCCh-HHHHHHHHHHHHhCCCCchhHHHHHHHHHHccCCHHHHHHHHhccCC-----CCeehHHHHHHHHHcC
Q 005268          135 ILPVCARSDNI-LSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGMMRHALRVFDQMME-----RDVVSWNSIIAAYEQS  208 (705)
Q Consensus       135 ll~~~~~~~~~-~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~-----~~~~~~~~li~~~~~~  208 (705)
                      +|.++++.|+. +.|.+++++|.+.|+.||..+|++++..+.+.+-++...+++..+.-     +.+.+.+.|.+.|.+.
T Consensus       206 LI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~vL~~Vrkv~P~f~p~~~~~~~~~t~~LL~dl~s~d  285 (1134)
T 3spa_A          206 ALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKD  285 (1134)
T ss_dssp             HHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHHHHHHHGGGCCCCCCCCCCCCCCCCCTTTHHHHCCC
T ss_pred             HHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHHHHHHHHHhCcccCCCCCCcccccchHHHHHHHccC
Confidence            99999999985 78999999999999999999999999888877666666555544432     1233445566777766


Q ss_pred             C
Q 005268          209 N  209 (705)
Q Consensus       209 g  209 (705)
                      +
T Consensus       286 ~  286 (1134)
T 3spa_A          286 G  286 (1134)
T ss_dssp             S
T ss_pred             C
Confidence            5

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.67  E-value=9.2e-15  Score=145.61  Aligned_cols=226  Identities=7%  Similarity=-0.004  Sum_probs=161.3

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHhccCCCCeehHHHHHHHHHcCCChhhHHHHHHHHHHCCCCCChhhHHHHHHHHHccCC
Q 005268          166 VSNNLINMYAKFGMMRHALRVFDQMMERDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQLND  245 (705)
Q Consensus       166 ~~~~Li~~y~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~  245 (705)
                      ....+..+|...|+++.|...++....|+..++..+...+...++.++|++.++++...+..|                 
T Consensus        36 ~~~~l~r~yi~~g~~~~al~~~~~~~~~~~~a~~~la~~~~~~~~~~~A~~~l~~ll~~~~~P-----------------   98 (291)
T 3mkr_A           36 RDVFLYRAYLAQRKYGVVLDEIKPSSAPELQAVRMFAEYLASHSRRDAIVAELDREMSRSVDV-----------------   98 (291)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHSCTTSCHHHHHHHHHHHHHHCSTTHHHHHHHHHHHHHSCCCC-----------------
T ss_pred             HHHHHHHHHHHCCCHHHHHHHhcccCChhHHHHHHHHHHHcCCCcHHHHHHHHHHHHhcccCC-----------------
Confidence            334456677777777777777766544555666777777777778888888888776654333                 


Q ss_pred             hhhHHHHHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHHcCChhHHHHHHHhhhh
Q 005268          246 CRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDVISWNTLITGYAQNGLASEAIEVFQMMEE  325 (705)
Q Consensus       246 ~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  325 (705)
                                        .+..++..+...|.+.|++++|.+.|++  ..+...+..++..|.+.|++++|.+.|+++.+
T Consensus        99 ------------------~~~~~~~~la~~~~~~g~~~~Al~~l~~--~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~  158 (291)
T 3mkr_A           99 ------------------TNTTFLLMAASIYFYDQNPDAALRTLHQ--GDSLECMAMTVQILLKLDRLDLARKELKKMQD  158 (291)
T ss_dssp             ------------------SCHHHHHHHHHHHHHTTCHHHHHHHHTT--CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ------------------CCHHHHHHHHHHHHHCCCHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence                              3455566777889999999999999998  56788999999999999999999999999988


Q ss_pred             cCCCCCCcccccchh----HHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCC
Q 005268          326 CNEINPNQGTYVSIL----PAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVP---RSS  398 (705)
Q Consensus       326 ~~~~~p~~~t~~~ll----~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~---~~~  398 (705)
                         ..|+.. ...+.    ..+...|++++|..+++.+++. .+.+..+++.+..+|.+.|++++|...|++..   +.+
T Consensus       159 ---~~p~~~-~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~-~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~p~~  233 (291)
T 3mkr_A          159 ---QDEDAT-LTQLATAWVSLAAGGEKLQDAYYIFQEMADK-CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDSGH  233 (291)
T ss_dssp             ---HCTTCH-HHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC
T ss_pred             ---hCcCcH-HHHHHHHHHHHHhCchHHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCC
Confidence               457643 22222    2233447788888888887776 34567777777777777777777777777654   344


Q ss_pred             cchHHHHHHHHHhcCChHH-HHHHHHHHHHcCCCCCHH
Q 005268          399 SVPWNAIISCHGIHGQGDK-ALNFFRQMLDEGVRPDHI  435 (705)
Q Consensus       399 ~~~~~~li~~~~~~g~~~~-A~~~~~~m~~~g~~p~~~  435 (705)
                      ..+|..++..+...|+.++ +.++++++++  +.|+..
T Consensus       234 ~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~--~~P~~~  269 (291)
T 3mkr_A          234 PETLINLVVLSQHLGKPPEVTNRYLSQLKD--AHRSHP  269 (291)
T ss_dssp             HHHHHHHHHHHHHTTCCHHHHHHHHHHHHH--HCTTCH
T ss_pred             HHHHHHHHHHHHHcCCCHHHHHHHHHHHHH--hCCCCh
Confidence            5557777777777777654 4567777776  456554

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.64  E-value=1.4e-16  Score=174.35  Aligned_cols=131  Identities=15%  Similarity=0.134  Sum_probs=110.7

Q ss_pred             CCCchhHHHHHHHHHHhcCCHHHHHHHHhhCC-------CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHH
Q 005268          364 LCFDVFVATCLVDMYGKCGRIDDAMSLFYQVP-------RSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHIT  436 (705)
Q Consensus       364 ~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~-------~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t  436 (705)
                      ...-..+||+||++|+++|++++|.++|++|.       .+|+++||+||.+|++.|+.++|.++|++|.+.|+.||.+|
T Consensus       123 ~~~~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvT  202 (1134)
T 3spa_A          123 LSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLS  202 (1134)
T ss_dssp             CCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHH
T ss_pred             HHhHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHH
Confidence            33456689999999999999999999997653       67999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhccCc-HHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHh
Q 005268          437 FVSLLTACSHSGL-VSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQN  495 (705)
Q Consensus       437 ~~~ll~a~~~~g~-~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~  495 (705)
                      |+++|.++++.|+ .++|.++|++|.+. |+.||..+|++++....|.+-++...++...
T Consensus       203 YntLI~glcK~G~~~e~A~~Ll~EM~~k-G~~PD~vtY~~ll~~~eR~~vL~~Vrkv~P~  261 (1134)
T 3spa_A          203 YAAALQCMGRQDQDAGTIERCLEQMSQE-GLKLQALFTAVLLSEEDRATVLKAVHKVKPT  261 (1134)
T ss_dssp             HHHHHHHHHHHTCCHHHHHHHHHHHHHH-TCCSHHHHHHSCCCHHHHHHHHHHHGGGCCC
T ss_pred             HHHHHHHHHhCCCcHHHHHHHHHHHHHc-CCCCChhhcccccChhhHHHHHHHHHHhCcc
Confidence            9999999999887 57889999999887 9999999999998887777655555554333

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.64  E-value=7.1e-14  Score=150.18  Aligned_cols=387  Identities=11%  Similarity=-0.015  Sum_probs=206.3

Q ss_pred             cchHHHHHHHHHhCCChhHHHHHHHHHHHC-----C--CCC-ChhhHHhHHHHhhcCCChHHHHHHHHHHHHhCCCCchh
Q 005268           94 SGSWNAMISGYCQSGNAVEALDILDEMRLE-----G--VSM-DPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLF  165 (705)
Q Consensus        94 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-----g--~~p-~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~  165 (705)
                      ...||.|...+...|++++|++.|++..+.     +  ..| ...+|..+..++...|++++|...++.+.+..      
T Consensus        51 a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~------  124 (472)
T 4g1t_A           51 ATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVC------  124 (472)
T ss_dssp             CHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH------
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHh------
Confidence            445777777888888888888888776431     0  111 22344555555555555555555554443320      


Q ss_pred             HHHHHHHHHHccCCHHHHHHHHhccCCC----CeehHHHHHHHHHc--CCChhhHHHHHHHHHHCCCCCChh-hHHHHHH
Q 005268          166 VSNNLINMYAKFGMMRHALRVFDQMMER----DVVSWNSIIAAYEQ--SNDPITAHGFFTTMQQAGIQPDLL-TLVSLTS  238 (705)
Q Consensus       166 ~~~~Li~~y~~~g~~~~A~~~f~~m~~~----~~~~~~~li~~~~~--~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~  238 (705)
                                            .....+    ...+++.+..++..  .+++++|++.|++..+.  .|+.. .+..+..
T Consensus       125 ----------------------~~~~~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~--~p~~~~~~~~~~~  180 (472)
T 4g1t_A          125 ----------------------EKFSSPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEK--KPKNPEFTSGLAI  180 (472)
T ss_dssp             ----------------------HHSCCSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH--STTCHHHHHHHHH
T ss_pred             ----------------------HhcccccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHh--CCCCHHHHHHHHH
Confidence                                  000110    11233333333332  34566666666666553  34332 2222222


Q ss_pred             H---HHccCChhhHHHHHHHHHHhcCCCchhHHHHHHHHHHHh----cCCHHHHHHHHhcCC---CCChhHHHHHHHHHH
Q 005268          239 I---VAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAK----LGIINSACAVFEGLP---VKDVISWNTLITGYA  308 (705)
Q Consensus       239 a---~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~----~g~~~~A~~~f~~~~---~~~~~~~~~li~~~~  308 (705)
                      +   +...++.+.+.+.+...++..  +.+..++..+...+..    .|++++|.+.+++..   +.+..+|..+...|.
T Consensus       181 ~~~~l~~~~~~~~al~~~~~al~l~--p~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~lg~~~~  258 (472)
T 4g1t_A          181 ASYRLDNWPPSQNAIDPLRQAIRLN--PDNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKAPGVTDVLRSAAKFYR  258 (472)
T ss_dssp             HHHHHHHSCCCCCTHHHHHHHHHHC--SSCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHCSSCHHHHHHHHHHHH
T ss_pred             HHHHhcCchHHHHHHHHHHHHhhcC--CcchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            2   334455666666666666654  4555555555544444    456778888887543   456778899999999


Q ss_pred             HcCChhHHHHHHHhhhhcCCCCCCcc-cccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHH
Q 005268          309 QNGLASEAIEVFQMMEECNEINPNQG-TYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDA  387 (705)
Q Consensus       309 ~~g~~~~A~~~~~~m~~~~~~~p~~~-t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A  387 (705)
                      ..|++++|+..|++..+   ..|+.. ++..+...+...+..         ....       ............+..+.|
T Consensus       259 ~~~~~~~A~~~~~~al~---~~p~~~~~~~~lg~~y~~~~~~---------~~~~-------~~~~~~~~~~~~~~~~~A  319 (472)
T 4g1t_A          259 RKDEPDKAIELLKKALE---YIPNNAYLHCQIGCCYRAKVFQ---------VMNL-------RENGMYGKRKLLELIGHA  319 (472)
T ss_dssp             HTTCHHHHHHHHHHHHH---HSTTCHHHHHHHHHHHHHHHHH---------HHHC-------------CHHHHHHHHHHH
T ss_pred             HcCchHHHHHHHHHHHH---hCCChHHHHHHHHHHHHHHHHH---------hhhH-------HHHHHHHHHHHHhhHHHH
Confidence            99999999999999987   667543 232232222111100         0000       000111111122345677


Q ss_pred             HHHHhhCC---CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH--HHHHHHH-HHhccCcHHHHHHHHHHhH
Q 005268          388 MSLFYQVP---RSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHI--TFVSLLT-ACSHSGLVSEGQRYFHMMQ  461 (705)
Q Consensus       388 ~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~--t~~~ll~-a~~~~g~~~~a~~~~~~m~  461 (705)
                      ...|++..   +.+...|..+...|...|++++|++.|++.++....|...  .+..+.. ...+.|+.++|+..|....
T Consensus       320 ~~~~~~a~~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal  399 (472)
T 4g1t_A          320 VAHLKKADEANDNLFRVCSILASLHALADQYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGV  399 (472)
T ss_dssp             HHHHHHHHHHCTTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHH
T ss_pred             HHHHHHHhhcCCchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            77777654   5566779999999999999999999999999854333221  2223322 3457899999999998877


Q ss_pred             HhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhC-CC-CCCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchh
Q 005268          462 EEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNM-PV-RPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYY  539 (705)
Q Consensus       462 ~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~  539 (705)
                      +   +.|+........         ..+..++++. .. +.+..+|..|...+...|++++|+..|+++++++|.+|.+.
T Consensus       400 ~---i~~~~~~~~~~~---------~~l~~~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~a~  467 (472)
T 4g1t_A          400 K---INQKSREKEKMK---------DKLQKIAKMRLSKNGADSEALHVLAFLQELNEKMQQADEDSERGLESGSLIPSAS  467 (472)
T ss_dssp             H---SCCCCHHHHHHH---------HHHHHHHHHHHHHCC-CTTHHHHHHHHHHHHHHCC--------------------
T ss_pred             h---cCcccHHHHHHH---------HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcHh
Confidence            4   566643332222         2333344333 22 33577899999999999999999999999999999888776


Q ss_pred             hhhh
Q 005268          540 VLMS  543 (705)
Q Consensus       540 ~~l~  543 (705)
                      .-++
T Consensus       468 ~~~G  471 (472)
T 4g1t_A          468 SWNG  471 (472)
T ss_dssp             ----
T ss_pred             hcCC
Confidence            5554

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.58  E-value=5.6e-14  Score=133.50  Aligned_cols=193  Identities=14%  Similarity=0.069  Sum_probs=155.8

Q ss_pred             CCchhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHH
Q 005268          365 CFDVFVATCLVDMYGKCGRIDDAMSLFYQVP---RSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPD-HITFVSL  440 (705)
Q Consensus       365 ~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~l  440 (705)
                      +++...+..+...+.+.|++++|...|++..   +.+...|..+...+.+.|++++|+..|++.++.  .|+ ...+..+
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~l   79 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKENPQDPEALYWLARTQLKLGLVNPALENGKTLVAR--TPRYLGGYMVL   79 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHH
Confidence            4566778888889999999999999999765   345566889999999999999999999999994  565 4678888


Q ss_pred             HHHHhcc-----------CcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCCCHHHHHH
Q 005268          441 LTACSHS-----------GLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRPDASIWGA  507 (705)
Q Consensus       441 l~a~~~~-----------g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~  507 (705)
                      ..++...           |++++|...++...+.   .| +...+..+..+|...|++++|+..|++. ....+...|..
T Consensus        80 g~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~---~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~  156 (217)
T 2pl2_A           80 SEAYVALYRQAEDRERGKGYLEQALSVLKDAERV---NPRYAPLHLQRGLVYALLGERDKAEASLKQALALEDTPEIRSA  156 (217)
T ss_dssp             HHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHH
T ss_pred             HHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHh---CcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcccchHHHHH
Confidence            8889999           9999999999998854   56 4578889999999999999999999887 22267889999


Q ss_pred             HHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHH
Q 005268          508 LLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLA  562 (705)
Q Consensus       508 ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  562 (705)
                      +...+...|++++|+..++++++++|+++..+..++.++...|++++|.+.+++.
T Consensus       157 la~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~  211 (217)
T 2pl2_A          157 LAELYLSMGRLDEALAQYAKALEQAPKDLDLRVRYASALLLKGKAEEAARAAALE  211 (217)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTC--------------
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999888764

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.57  E-value=6.6e-14  Score=136.72  Aligned_cols=218  Identities=13%  Similarity=0.028  Sum_probs=157.3

Q ss_pred             hHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHH
Q 005268          298 ISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDM  377 (705)
Q Consensus       298 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~  377 (705)
                      ..|..+...+...|++++|+..|++..+                                    ..  .+..++..+...
T Consensus         6 ~~~~~~g~~~~~~~~~~~A~~~~~~a~~------------------------------------~~--~~~~~~~~~~~~   47 (258)
T 3uq3_A            6 DKEKAEGNKFYKARQFDEAIEHYNKAWE------------------------------------LH--KDITYLNNRAAA   47 (258)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHH------------------------------------HS--CCTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHH------------------------------------hh--ccHHHHHHHHHH
Confidence            3455566666666666666666666655                                    32  333444455555


Q ss_pred             HHhcCCHHHHHHHHhhCCC---C---C----cchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcc
Q 005268          378 YGKCGRIDDAMSLFYQVPR---S---S----SVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHS  447 (705)
Q Consensus       378 y~k~g~~~~A~~~~~~~~~---~---~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~  447 (705)
                      |...|++++|...|++...   .   +    ...|..+...|...|++++|+..|++..+  +.|+..       .+...
T Consensus        48 ~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~--~~~~~~-------~~~~~  118 (258)
T 3uq3_A           48 EYEKGEYETAISTLNDAVEQGREMRADYKVISKSFARIGNAYHKLGDLKKTIEYYQKSLT--EHRTAD-------ILTKL  118 (258)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCCCHH-------HHHHH
T ss_pred             HHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHh--cCchhH-------HHHHH
Confidence            5555555555555554431   1   1    34567777778888888888888888887  455532       45566


Q ss_pred             CcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC-CC-CCCHHHHHHHHHHHHhcCChhHHHHH
Q 005268          448 GLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM-PV-RPDASIWGALLGACRIHGNMELGAVA  524 (705)
Q Consensus       448 g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~ll~~~~~~g~~~~a~~~  524 (705)
                      |++++|.+.++.+...   .| +...+..+...+.+.|++++|...++++ .. +.+..+|..+...+...|++++|+..
T Consensus       119 ~~~~~a~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~  195 (258)
T 3uq3_A          119 RNAEKELKKAEAEAYV---NPEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIAD  195 (258)
T ss_dssp             HHHHHHHHHHHHHHHC---CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHc---CcchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHhCCHHHHHHH
Confidence            7888888888887642   33 4567788888888999999999888877 22 33577888999999999999999999


Q ss_pred             HHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhC
Q 005268          525 SDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       525 ~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      ++++++..|+++..+..++.+|...|++++|...++.+.+.
T Consensus       196 ~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  236 (258)
T 3uq3_A          196 CNKAIEKDPNFVRAYIRKATAQIAVKEYASALETLDAARTK  236 (258)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999888765

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.54  E-value=1.4e-13  Score=135.89  Aligned_cols=243  Identities=12%  Similarity=0.019  Sum_probs=123.0

Q ss_pred             HHHHHHHHhcCCHHHHHHHHhcCC---CCChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcc--cccchhHHhh
Q 005268          270 NAVVDMYAKLGIINSACAVFEGLP---VKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQG--TYVSILPAYS  344 (705)
Q Consensus       270 ~~li~~y~~~g~~~~A~~~f~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~--t~~~ll~a~~  344 (705)
                      ......+.+.|++++|...|++..   +.+...|..+...|...|++++|++.|++..+ .+-.|+..  .+..+...+.
T Consensus         7 ~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~-~~~~~~~~~~~~~~lg~~~~   85 (272)
T 3u4t_A            7 FRYADFLFKNNNYAEAIEVFNKLEAKKYNSPYIYNRRAVCYYELAKYDLAQKDIETYFS-KVNATKAKSADFEYYGKILM   85 (272)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHHHHTTCCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHT-TSCTTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHh-ccCchhHHHHHHHHHHHHHH
Confidence            344455555566666665555432   22344555555555555666666655555554 22111110  1334444444


Q ss_pred             ccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCcchHHHHHHHHHhcCChHHHHHHHHH
Q 005268          345 HVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQ  424 (705)
Q Consensus       345 ~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  424 (705)
                      ..|++++|...+..+++.. +.+..+                               |..+...|...|++++|+..|++
T Consensus        86 ~~~~~~~A~~~~~~a~~~~-~~~~~~-------------------------------~~~l~~~~~~~~~~~~A~~~~~~  133 (272)
T 3u4t_A           86 KKGQDSLAIQQYQAAVDRD-TTRLDM-------------------------------YGQIGSYFYNKGNFPLAIQYMEK  133 (272)
T ss_dssp             HTTCHHHHHHHHHHHHHHS-TTCTHH-------------------------------HHHHHHHHHHTTCHHHHHHHHGG
T ss_pred             HcccHHHHHHHHHHHHhcC-cccHHH-------------------------------HHHHHHHHHHccCHHHHHHHHHH
Confidence            4455555555555444432 123334                               44444445555555555555544


Q ss_pred             HHHcCCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCC-cchHHHHHHHHHhcCC---HHHHHHHHHhC---
Q 005268          425 MLDEGVRPDH-ITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPH-LKHYGCMVDLFGRAGH---LGMAHNFIQNM---  496 (705)
Q Consensus       425 m~~~g~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~---~~~A~~~~~~~---  496 (705)
                      .++.  .|+. ..+..+...+...+++++|.+.|+.+.+.   .|+ ...+..+...+...|+   +++|...++++   
T Consensus       134 al~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~---~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~  208 (272)
T 3u4t_A          134 QIRP--TTTDPKVFYELGQAYYYNKEYVKADSSFVKVLEL---KPNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEV  208 (272)
T ss_dssp             GCCS--SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---STTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHH
T ss_pred             Hhhc--CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh---CccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHH
Confidence            4442  2322 23333331222233555555555554432   222 3344444444444444   44444444333   


Q ss_pred             -CCCCC------HHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcC
Q 005268          497 -PVRPD------ASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVG  550 (705)
Q Consensus       497 -~~~p~------~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  550 (705)
                       ...|+      ..+|..+...+...|++++|...++++++++|+++.+...+..+....+
T Consensus       209 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~l~~~~~~~~  269 (272)
T 3u4t_A          209 CAPGGAKYKDELIEANEYIAYYYTINRDKVKADAAWKNILALDPTNKKAIDGLKMKLEHHH  269 (272)
T ss_dssp             HGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHC-------
T ss_pred             HhcccccchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCccHHHHHHHhhhhhcccc
Confidence             11122      2467788888999999999999999999999999988887776665444

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.54  E-value=1.5e-13  Score=134.22  Aligned_cols=241  Identities=11%  Similarity=-0.029  Sum_probs=171.9

Q ss_pred             hhHHHHHHHHHHHhcCCHHHHHHHHhcCCC--CChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccccchhHH
Q 005268          265 DVIIGNAVVDMYAKLGIINSACAVFEGLPV--KDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPA  342 (705)
Q Consensus       265 ~~~~~~~li~~y~~~g~~~~A~~~f~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a  342 (705)
                      ....+..+...|.+.|++++|...|++...  .+...|..+...|...|++++|++.|++..+   +.|+...       
T Consensus         4 ~a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~---~~~~~~~-------   73 (258)
T 3uq3_A            4 MADKEKAEGNKFYKARQFDEAIEHYNKAWELHKDITYLNNRAAAEYEKGEYETAISTLNDAVE---QGREMRA-------   73 (258)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HHHHTTC-------
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhccHHHHHHHHHHHHHcccHHHHHHHHHHHHH---hCccccc-------
Confidence            456788899999999999999999986531  6778899999999999999999999999877   3342100       


Q ss_pred             hhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCcchHHHHHHHHHhcCChHHHHHHH
Q 005268          343 YSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFF  422 (705)
Q Consensus       343 ~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~  422 (705)
                           +               .+....++..+...|.+.|++++|...|++....+..     ...+...|++++|+..+
T Consensus        74 -----~---------------~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~-----~~~~~~~~~~~~a~~~~  128 (258)
T 3uq3_A           74 -----D---------------YKVISKSFARIGNAYHKLGDLKKTIEYYQKSLTEHRT-----ADILTKLRNAEKELKKA  128 (258)
T ss_dssp             -----C---------------HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-----HHHHHHHHHHHHHHHHH
T ss_pred             -----c---------------hHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHhcCch-----hHHHHHHhHHHHHHHHH
Confidence                 0               0001234455555556666666666666554421111     23455567777888888


Q ss_pred             HHHHHcCCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCC
Q 005268          423 RQMLDEGVRPDH-ITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP  500 (705)
Q Consensus       423 ~~m~~~g~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p  500 (705)
                      +++..  ..|+. ..+..+...+...|++++|...++.+.+.  .+.+...+..+...|.+.|++++|...++++ ...|
T Consensus       129 ~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~  204 (258)
T 3uq3_A          129 EAEAY--VNPEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKR--APEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDP  204 (258)
T ss_dssp             HHHHH--CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHH--cCcchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--CcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCH
Confidence            88777  34543 46667777788888888888888887754  1224567788888888888888888888776 2334


Q ss_pred             -CHHHHHHHHHHHHhcCChhHHHHHHHHHhccC------CCCcchhhhhhh
Q 005268          501 -DASIWGALLGACRIHGNMELGAVASDRLFEVD------SENVGYYVLMSN  544 (705)
Q Consensus       501 -~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~------p~~~~~~~~l~~  544 (705)
                       +..+|..+...+...|++++|...+++++++.      |++...+..+..
T Consensus       205 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~p~~~~~~~~l~~  255 (258)
T 3uq3_A          205 NFVRAYIRKATAQIAVKEYASALETLDAARTKDAEVNNGSSAREIDQLYYK  255 (258)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTTTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhChhhcCCCchHHHHHHHHH
Confidence             47788889999999999999999999999988      776666555544

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.53  E-value=1.9e-13  Score=134.98  Aligned_cols=240  Identities=8%  Similarity=-0.102  Sum_probs=181.9

Q ss_pred             cCChhHHHHHHHhhhhcCCC--CC-CcccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHH
Q 005268          310 NGLASEAIEVFQMMEECNEI--NP-NQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDD  386 (705)
Q Consensus       310 ~g~~~~A~~~~~~m~~~~~~--~p-~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~  386 (705)
                      .|++++|+..|+++.+ ...  .| +..++..+...+...|++++|...+..+++.. +.+..++..+...|...|++++
T Consensus        18 ~~~~~~A~~~~~~~~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~   95 (275)
T 1xnf_A           18 TLQQEVILARMEQILA-SRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDA   95 (275)
T ss_dssp             CHHHHHHHHHHHHHHT-SSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHH
T ss_pred             cchHHHHHHHHHHHHh-cccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHHH
Confidence            4667777777777766 211  11 34456666677777777777777777777763 3467788888899999999999


Q ss_pred             HHHHHhhCC---CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHh
Q 005268          387 AMSLFYQVP---RSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEE  463 (705)
Q Consensus       387 A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~  463 (705)
                      |...|++..   +.+...|..+...|...|++++|+..|+++.+  ..|+.......+..+...|++++|...++.....
T Consensus        96 A~~~~~~al~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~--~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~  173 (275)
T 1xnf_A           96 AYEAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQ--DDPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEK  173 (275)
T ss_dssp             HHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCccccHHHHHHHHHHHHhccHHHHHHHHHHHHH--hCCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            999998776   44567799999999999999999999999998  4677665555666667789999999999887764


Q ss_pred             hCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhCC-CCCC-----HHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcc
Q 005268          464 FGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNMP-VRPD-----ASIWGALLGACRIHGNMELGAVASDRLFEVDSENVG  537 (705)
Q Consensus       464 ~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~-~~p~-----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~  537 (705)
                        .+++... ..++..+...++.++|.+.+++.- ..|+     ..+|..+...+...|++++|...++++++++|++..
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              2334334 457788888899999999998773 3332     578899999999999999999999999999997744


Q ss_pred             hhhhhhhhhhhcCCcchHHHHH
Q 005268          538 YYVLMSNIYANVGKWEGVDEVR  559 (705)
Q Consensus       538 ~~~~l~~~~~~~g~~~~a~~~~  559 (705)
                      .   .+.++...|++++|.+.+
T Consensus       251 ~---~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          251 E---HRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             H---HHHHHHHHHHHHHC----
T ss_pred             H---HHHHHHHHHHHHhhHHHH
Confidence            3   356777888888887665

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.47  E-value=5.7e-12  Score=133.88  Aligned_cols=367  Identities=10%  Similarity=0.018  Sum_probs=183.3

Q ss_pred             cCCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHccCCH---HHHHHHHhccCCCCeehHHHHHHHHHcCC-----Chh
Q 005268          141 RSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGMM---RHALRVFDQMMERDVVSWNSIIAAYEQSN-----DPI  212 (705)
Q Consensus       141 ~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~---~~A~~~f~~m~~~~~~~~~~li~~~~~~g-----~~~  212 (705)
                      +.|++++|.+.+....+.|   +...+..|..+|...|+.   ++|...|+...+.+...+..|...+...+     +++
T Consensus        15 ~~g~~~~A~~~~~~aa~~g---~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~~~~A~~~Lg~~~~~~~~~~~~~~~   91 (452)
T 3e4b_A           15 KRGDTVTAQQNYQQLAELG---YSEAQVGLADIQVGTRDPAQIKQAEATYRAAADTSPRAQARLGRLLAAKPGATEAEHH   91 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHT---CCTGGGTCC----------------------------CHHHHHHHHHTC--CCHHHHH
T ss_pred             hCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhCCHHHHHHHHHHHHhCCCCCCcCHH
Confidence            3444455555555444443   222233344444445555   66666666655555555555555444443     566


Q ss_pred             hHHHHHHHHHHCCCCCChhhHHHHHHHHHccCChhh---HHHHHHHHHHhcCCCchhHHHHHHHHHHHhcC----CHHHH
Q 005268          213 TAHGFFTTMQQAGIQPDLLTLVSLTSIVAQLNDCRN---SRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLG----IINSA  285 (705)
Q Consensus       213 ~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~---a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g----~~~~A  285 (705)
                      +|+..|++..+.|...   .+..+...+...+....   +.+.+......|    ++.....|..+|...+    ..+.+
T Consensus        92 ~A~~~~~~Aa~~g~~~---A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g----~~~a~~~Lg~~y~~~~~~~~~~~~a  164 (452)
T 3e4b_A           92 EAESLLKKAFANGEGN---TLIPLAMLYLQYPHSFPNVNAQQQISQWQAAG----YPEAGLAQVLLYRTQGTYDQHLDDV  164 (452)
T ss_dssp             HHHHHHHHHHHTTCSS---CHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHT----CTTHHHHHHHHHHHHTCGGGGHHHH
T ss_pred             HHHHHHHHHHHCCCHH---HHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCC----CHHHHHHHHHHHHcCCCcccCHHHH
Confidence            7777777776654322   44444444444333222   223333333333    3444555566666655    33444


Q ss_pred             HHHHhcCCCCChhHHHHHHHHHHHcC---ChhHHHHHHHhhhhcCCCCCCcccccchhHHhhccCchHHHHHHHHHHHHh
Q 005268          286 CAVFEGLPVKDVISWNTLITGYAQNG---LASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKN  362 (705)
Q Consensus       286 ~~~f~~~~~~~~~~~~~li~~~~~~g---~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~  362 (705)
                      ..+++.....+..++..|...|...|   +.++|++.|++..+                                    .
T Consensus       165 ~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~------------------------------------~  208 (452)
T 3e4b_A          165 ERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVS------------------------------------R  208 (452)
T ss_dssp             HHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH------------------------------------T
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHH------------------------------------C
Confidence            44454444445555555665565555   55555555555544                                    3


Q ss_pred             CCCCchhHHHHHHHHHHhc----CCHHHHHHHHhhCCCCCcchHHHHHHH-H--HhcCChHHHHHHHHHHHHcCCCCCHH
Q 005268          363 CLCFDVFVATCLVDMYGKC----GRIDDAMSLFYQVPRSSSVPWNAIISC-H--GIHGQGDKALNFFRQMLDEGVRPDHI  435 (705)
Q Consensus       363 g~~~~~~~~~~li~~y~k~----g~~~~A~~~~~~~~~~~~~~~~~li~~-~--~~~g~~~~A~~~~~~m~~~g~~p~~~  435 (705)
                      | +++...+..|..+|...    ++.++|...|++..+.+...+..|... |  ...+++++|++.|++..+.|   +..
T Consensus       209 g-~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa~g~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~  284 (452)
T 3e4b_A          209 G-TVTAQRVDSVARVLGDATLGTPDEKTAQALLEKIAPGYPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPR  284 (452)
T ss_dssp             T-CSCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHGGGSTHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHH
T ss_pred             C-CHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHH
Confidence            3 22223233444444433    566667666666553344445555555 3  34677888888888887765   455


Q ss_pred             HHHHHHHHHhccC-----cHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHh----cCCHHHHHHHHHhCCCCCCHHHHH
Q 005268          436 TFVSLLTACSHSG-----LVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGR----AGHLGMAHNFIQNMPVRPDASIWG  506 (705)
Q Consensus       436 t~~~ll~a~~~~g-----~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~p~~~~~~  506 (705)
                      .+..|...|. .|     ++++|.++|+...     .-+...+..|..+|..    ..++++|...|++.-...+.....
T Consensus       285 A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-----~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~~~A~~  358 (452)
T 3e4b_A          285 AELLLGKLYY-EGKWVPADAKAAEAHFEKAV-----GREVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNGQNSADF  358 (452)
T ss_dssp             HHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-----TTCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTCTTHHH
T ss_pred             HHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-----CCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhChHHHHH
Confidence            5555555555 44     7888888877554     2345566667766665    337888888887763333444555


Q ss_pred             HHHHHHHh----cCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHH
Q 005268          507 ALLGACRI----HGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLAR  563 (705)
Q Consensus       507 ~ll~~~~~----~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  563 (705)
                      .|...|..    ..|.++|...++++.+..+.+.......+......++.++|.++.+.-+
T Consensus       359 ~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g~~~a~~~l~~l~~~~~~~~~~~a~~~~~~~~  419 (452)
T 3e4b_A          359 AIAQLFSQGKGTKPDPLNAYVFSQLAKAQDTPEANDLATQLEAPLTPAQRAEGQRLVQQEL  419 (452)
T ss_dssp             HHHHHHHSCTTBCCCHHHHHHHHHHHHTTCCHHHHHHHHHHHTTCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCCHHHHHHHHHHHHHHH
Confidence            66666553    4578888888888887665332222222222223344555655555443

>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=99.47  E-value=9.9e-13  Score=135.46  Aligned_cols=242  Identities=10%  Similarity=0.066  Sum_probs=184.2

Q ss_pred             hhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCC-cccccchhHHhhccCc-hHHHHHHHHHHHHhCCCCchhHHHHH
Q 005268          297 VISWNTLITGYAQNGLASEAIEVFQMMEECNEINPN-QGTYVSILPAYSHVGA-LRQGIKIHARVIKNCLCFDVFVATCL  374 (705)
Q Consensus       297 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~-~~t~~~ll~a~~~~~~-~~~a~~~~~~~~~~g~~~~~~~~~~l  374 (705)
                      ...|+.+...+...|++++|++.|++..+   +.|+ ...|..+..++...|+ +++|...++.+++.. +.+...|+.+
T Consensus        97 ~~a~~~lg~~~~~~g~~~~Al~~~~~al~---l~P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~-P~~~~a~~~~  172 (382)
T 2h6f_A           97 RDVYDYFRAVLQRDERSERAFKLTRDAIE---LNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHR  172 (382)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHH---hCccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHHHH
Confidence            34566667777777777777777777776   5664 3455666666777775 777777777777764 3366778888


Q ss_pred             HHHHHhcCCHHHHHHHHhhCC---CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhc-cCc
Q 005268          375 VDMYGKCGRIDDAMSLFYQVP---RSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPD-HITFVSLLTACSH-SGL  449 (705)
Q Consensus       375 i~~y~k~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~-~g~  449 (705)
                      ..+|.+.|++++|+..|+++.   ..+...|..+..++...|++++|+..|+++++.  .|+ ...|+.+..++.. .|.
T Consensus       173 g~~~~~~g~~~eAl~~~~kal~ldP~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l--~P~~~~a~~~lg~~l~~l~~~  250 (382)
T 2h6f_A          173 RVLVEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKE--DVRNNSVWNQRYFVISNTTGY  250 (382)
T ss_dssp             HHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCS
T ss_pred             HHHHHHccCHHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCc
Confidence            888888888888888888776   456667888999999999999999999999984  554 5688888888888 566


Q ss_pred             HHHH-----HHHHHHhHHhhCCcC-CcchHHHHHHHHHhcC--CHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcC----
Q 005268          450 VSEG-----QRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAG--HLGMAHNFIQNMPVRPD-ASIWGALLGACRIHG----  516 (705)
Q Consensus       450 ~~~a-----~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g--~~~~A~~~~~~~~~~p~-~~~~~~ll~~~~~~g----  516 (705)
                      .++|     ++.++...+   +.| +...|..+..+|.+.|  ++++|++.++++...|+ ...+..|...+...|    
T Consensus       251 ~~eA~~~~el~~~~~Al~---l~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~~~~p~~~~al~~La~~~~~~~~~~~  327 (382)
T 2h6f_A          251 NDRAVLEREVQYTLEMIK---LVPHNESAWNYLKGILQDRGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQC  327 (382)
T ss_dssp             CSHHHHHHHHHHHHHHHH---HSTTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTC
T ss_pred             chHHHHHHHHHHHHHHHH---HCCCCHHHHHHHHHHHHccCccchHHHHHHHHHhccCCCCHHHHHHHHHHHHHHhcccc
Confidence            5666     477777764   356 4568888888898888  68999998888754554 678888888888864    


Q ss_pred             ----C-hhHHHHHHHHH-hccCCCCcchhhhhhhhhh
Q 005268          517 ----N-MELGAVASDRL-FEVDSENVGYYVLMSNIYA  547 (705)
Q Consensus       517 ----~-~~~a~~~~~~~-~~~~p~~~~~~~~l~~~~~  547 (705)
                          + .++|+.+++++ .+++|.....|..++..+.
T Consensus       328 ~~~~~~~~~A~~~~~~l~~~~DP~r~~~w~~~~~~l~  364 (382)
T 2h6f_A          328 DNKEDILNKALELCEILAKEKDTIRKEYWRYIGRSLQ  364 (382)
T ss_dssp             SSHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHHHHhCchhHHHHHHHHHHHH
Confidence                2 58999999999 9999988888887776554

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.45  E-value=1.2e-12  Score=126.39  Aligned_cols=201  Identities=11%  Similarity=0.048  Sum_probs=119.2

Q ss_pred             hhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCcchHHHHHHHHHhcCChHHHH
Q 005268          343 YSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVP---RSSSVPWNAIISCHGIHGQGDKAL  419 (705)
Q Consensus       343 ~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~  419 (705)
                      +...|+++.|...+..+++.. +.+...+..+...|.+.|++++|...|+++.   +.+...|..+...|...|++++|+
T Consensus        33 ~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~  111 (243)
T 2q7f_A           33 GSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELDSSAATAYYGAGNVYVVKEMYKEAK  111 (243)
T ss_dssp             ---------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHhccHHHHH
Confidence            333344444444444433321 2234455555566666666666666666544   234445666666777777777777


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhC-CC
Q 005268          420 NFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNM-PV  498 (705)
Q Consensus       420 ~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~  498 (705)
                      +.|+++.+.. +.+...+..+...+...|++++|..+++.+.+.  .+.+...+..++..+.+.|++++|...++++ ..
T Consensus       112 ~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  188 (243)
T 2q7f_A          112 DMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVEL--NENDTEARFQFGMCLANEGMLDEALSQFAAVTEQ  188 (243)
T ss_dssp             HHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            7777777642 234456666666777777777777777776643  1224556667777777777777777777665 22


Q ss_pred             -CCCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhh
Q 005268          499 -RPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYA  547 (705)
Q Consensus       499 -~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  547 (705)
                       +.+..+|..+...+...|++++|...++++++++|+++..+..++.+..
T Consensus       189 ~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~  238 (243)
T 2q7f_A          189 DPGHADAFYNAGVTYAYKENREKALEMLDKAIDIQPDHMLALHAKKLLGH  238 (243)
T ss_dssp             CTTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHCTTCHHHHHHHTC---
T ss_pred             CcccHHHHHHHHHHHHHccCHHHHHHHHHHHHccCcchHHHHHHHHHHHh
Confidence             2346677777777777777777887777777777777766666555443

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.45  E-value=3e-12  Score=121.89  Aligned_cols=197  Identities=13%  Similarity=0.041  Sum_probs=140.1

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 005268          367 DVFVATCLVDMYGKCGRIDDAMSLFYQVP---RSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTA  443 (705)
Q Consensus       367 ~~~~~~~li~~y~k~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a  443 (705)
                      +...+..+...|...|++++|...|+++.   +.+...|..+...|...|++++|++.|+++.+.. +.+..++..+...
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~   85 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKSDPKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGWF   85 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHHH
Confidence            45556667777777777777777777654   3345557777777777788888888887777742 2345567777777


Q ss_pred             Hhcc-CcHHHHHHHHHHhHHhhCCcCC-cchHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChh
Q 005268          444 CSHS-GLVSEGQRYFHMMQEEFGIKPH-LKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNME  519 (705)
Q Consensus       444 ~~~~-g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~  519 (705)
                      +... |++++|...++.+.+ .+..|+ ...+..+...+.+.|++++|...++++ ...| +...|..+...+...|+++
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~  164 (225)
T 2vq2_A           86 LCGRLNRPAESMAYFDKALA-DPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQPQFPPAFKELARTKMLAGQLG  164 (225)
T ss_dssp             HHTTTCCHHHHHHHHHHHHT-STTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHhcCcHHHHHHHHHHHHc-CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHcCCHH
Confidence            7777 888888888877765 123332 456777777778888888888777766 2233 4667777777888888888


Q ss_pred             HHHHHHHHHhccCC-CCcchhhhhhhhhhhcCCcchHHHHHHHHHhC
Q 005268          520 LGAVASDRLFEVDS-ENVGYYVLMSNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       520 ~a~~~~~~~~~~~p-~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      +|...++++++..| +++..+..++..+...|+.++|..+++.+.+.
T Consensus       165 ~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  211 (225)
T 2vq2_A          165 DADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQAN  211 (225)
T ss_dssp             HHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh
Confidence            88888888888888 77777777777778888888888877777654

>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=99.45  E-value=2.4e-12  Score=125.29  Aligned_cols=196  Identities=9%  Similarity=-0.053  Sum_probs=139.0

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 005268          368 VFVATCLVDMYGKCGRIDDAMSLFYQVP---RSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTAC  444 (705)
Q Consensus       368 ~~~~~~li~~y~k~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~  444 (705)
                      ...+..+...|...|++++|...|+++.   +.+...|..+...|...|++++|++.|+++.+.. +.+...+..+...+
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~  115 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEIDPSSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGFL  115 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHH
Confidence            3455666667777777777777776654   3344557777777777777777887777777742 22455667777777


Q ss_pred             hccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHH
Q 005268          445 SHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELG  521 (705)
Q Consensus       445 ~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a  521 (705)
                      ...|++++|.++++.+.+ .+..| +...+..++..|.+.|++++|.+.++++ ...| +...|..+...+...|++++|
T Consensus       116 ~~~g~~~~A~~~~~~~~~-~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  194 (252)
T 2ho1_A          116 YEQKRYEEAYQRLLEASQ-DTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNRNQPSVALEMADLLYKEREYVPA  194 (252)
T ss_dssp             HHTTCHHHHHHHHHHHTT-CTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhHHHHHHHHHHHHHh-CccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCCHHHH
Confidence            777888888887777654 12344 3456677777777888888888777765 2223 466777777788888888888


Q ss_pred             HHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhC
Q 005268          522 AVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       522 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      ...++++++..|+++..+..++.+|...|++++|.+.++.+.+.
T Consensus       195 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~  238 (252)
T 2ho1_A          195 RQYYDLFAQGGGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRL  238 (252)
T ss_dssp             HHHHHHHHTTSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            88888888888877777777888888888888888888777665

>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=99.44  E-value=1.1e-11  Score=122.27  Aligned_cols=223  Identities=12%  Similarity=-0.019  Sum_probs=133.4

Q ss_pred             ChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHH
Q 005268          296 DVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLV  375 (705)
Q Consensus       296 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li  375 (705)
                      +..++..+...|...|++++|++.|++..+ .+                                      +...+..+.
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~-~~--------------------------------------~~~a~~~lg   45 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACD-LK--------------------------------------ENSGCFNLG   45 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHH-TT--------------------------------------CHHHHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHH-CC--------------------------------------CHHHHHHHH
Confidence            455666666666666777777777666654 11                                      222333344


Q ss_pred             HHHHh----cCCHHHHHHHHhhCCC-CCcchHHHHHHHHHh----cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc
Q 005268          376 DMYGK----CGRIDDAMSLFYQVPR-SSSVPWNAIISCHGI----HGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSH  446 (705)
Q Consensus       376 ~~y~k----~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~  446 (705)
                      ..|..    .|++++|...|++..+ .+...+..+...|..    .+++++|+..|++..+.+   +...+..+...+..
T Consensus        46 ~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~  122 (273)
T 1ouv_A           46 VLYYQGQGVEKNLKKAASFYAKACDLNYSNGCHLLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHD  122 (273)
T ss_dssp             HHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHH
T ss_pred             HHHHcCCCcCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHc
Confidence            44444    5555555555544432 233345555555555    666666666666666643   44555555556665


Q ss_pred             ----cCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHh----cCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----
Q 005268          447 ----SGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGR----AGHLGMAHNFIQNMPVRPDASIWGALLGACRI----  514 (705)
Q Consensus       447 ----~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~----  514 (705)
                          .+++++|.++|+...+. +   +...+..+...|.+    .+++++|...+++.-...+...+..+...+..    
T Consensus       123 ~~~~~~~~~~A~~~~~~a~~~-~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~  198 (273)
T 1ouv_A          123 GKVVTRDFKKAVEYFTKACDL-N---DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLKDSPGCFNAGNMYHHGEGA  198 (273)
T ss_dssp             CSSSCCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSS
T ss_pred             CCCcccCHHHHHHHHHHHHhc-C---cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCC
Confidence                66666666666666543 2   34455556666665    66777777666665222345666667777777    


Q ss_pred             cCChhHHHHHHHHHhccCCCCcchhhhhhhhhhh----cCCcchHHHHHHHHHhCC
Q 005268          515 HGNMELGAVASDRLFEVDSENVGYYVLMSNIYAN----VGKWEGVDEVRSLARDRG  566 (705)
Q Consensus       515 ~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~a~~~~~~m~~~~  566 (705)
                      .+++++|...++++.+.+|  +..+..++.+|..    .|++++|.+.+++..+.|
T Consensus       199 ~~~~~~A~~~~~~a~~~~~--~~a~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          199 TKNFKEALARYSKACELEN--GGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLG  252 (273)
T ss_dssp             CCCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             CccHHHHHHHHHHHHhCCC--HHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHHcC
Confidence            7777777777777777655  4566667777777    777777777777776654

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.44  E-value=3.6e-12  Score=120.98  Aligned_cols=109  Identities=16%  Similarity=0.055  Sum_probs=43.8

Q ss_pred             CCHHHHHHHHhhCC---CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHH
Q 005268          382 GRIDDAMSLFYQVP---RSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFH  458 (705)
Q Consensus       382 g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~  458 (705)
                      |++++|...|++..   +.+...|..+...|...|++++|+..|++.++..  .+...+..+..++...|++++|...|+
T Consensus        98 g~~~~A~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~la~~~~~~g~~~~A~~~~~  175 (217)
T 2pl2_A           98 GYLEQALSVLKDAERVNPRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSALAELYLSMGRLDEALAQYA  175 (217)
T ss_dssp             HHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            44444444444433   2223334444444555555555555555555443  344444444445555555555555555


Q ss_pred             HhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHh
Q 005268          459 MMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQN  495 (705)
Q Consensus       459 ~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~  495 (705)
                      ...+.   .| +...+..+..++.+.|++++|.+.+++
T Consensus       176 ~al~~---~P~~~~~~~~la~~~~~~g~~~~A~~~~~~  210 (217)
T 2pl2_A          176 KALEQ---APKDLDLRVRYASALLLKGKAEEAARAAAL  210 (217)
T ss_dssp             HHHHH---STTCHHHHHHHHHHHTC-------------
T ss_pred             HHHHh---CCCChHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            44432   22 233444444444444555554444443

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.43  E-value=1.3e-12  Score=126.22  Aligned_cols=198  Identities=11%  Similarity=0.085  Sum_probs=155.2

Q ss_pred             CchhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 005268          366 FDVFVATCLVDMYGKCGRIDDAMSLFYQVP---RSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLT  442 (705)
Q Consensus       366 ~~~~~~~~li~~y~k~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~  442 (705)
                      .....+..+...+.+.|++++|...|+++.   +.+...|..+...|...|++++|++.|+++.+.. +.+...+..+..
T Consensus        21 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~   99 (243)
T 2q7f_A           21 MASMTGGQQMGRGSEFGDYEKAAEAFTKAIEENKEDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGN   99 (243)
T ss_dssp             ---------------------CCTTHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHH
Confidence            345667778888999999999999999875   3456678899999999999999999999999853 335678888889


Q ss_pred             HHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhC-CC-CCCHHHHHHHHHHHHhcCChhH
Q 005268          443 ACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNM-PV-RPDASIWGALLGACRIHGNMEL  520 (705)
Q Consensus       443 a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~ll~~~~~~g~~~~  520 (705)
                      .+...|++++|.++++.+.+..  +.+...+..++..+.+.|++++|...++++ .. +.+...|..+...+...|++++
T Consensus       100 ~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  177 (243)
T 2q7f_A          100 VYVVKEMYKEAKDMFEKALRAG--MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELNENDTEARFQFGMCLANEGMLDE  177 (243)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHT--CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHH
T ss_pred             HHHHhccHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHcCCHHH
Confidence            9999999999999999988652  335678889999999999999999999887 22 3467889999999999999999


Q ss_pred             HHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhCC
Q 005268          521 GAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDRG  566 (705)
Q Consensus       521 a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  566 (705)
                      |+..++++++..|+++..+..++.+|...|++++|.+.++++.+..
T Consensus       178 A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  223 (243)
T 2q7f_A          178 ALSQFAAVTEQDPGHADAFYNAGVTYAYKENREKALEMLDKAIDIQ  223 (243)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHccC
Confidence            9999999999999999999999999999999999999999998753

>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=99.42  E-value=9.6e-12  Score=120.96  Aligned_cols=204  Identities=13%  Similarity=0.052  Sum_probs=147.6

Q ss_pred             hhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHH
Q 005268          297 VISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVD  376 (705)
Q Consensus       297 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~  376 (705)
                      ...|..+...+...|++++|++.|+++.+   ..|+                                  +...+..+..
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~---~~~~----------------------------------~~~~~~~la~   79 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALE---IDPS----------------------------------SADAHAALAV   79 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHH---HCTT----------------------------------CHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHh---cCCC----------------------------------hHHHHHHHHH
Confidence            45677777778888888888888887766   2232                                  2334455555


Q ss_pred             HHHhcCCHHHHHHHHhhCC---CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhccCcHHH
Q 005268          377 MYGKCGRIDDAMSLFYQVP---RSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDH-ITFVSLLTACSHSGLVSE  452 (705)
Q Consensus       377 ~y~k~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~a~~~~g~~~~  452 (705)
                      .|.+.|++++|.+.|+++.   +.+...|..+...|...|++++|++.|+++.+.+..|+. ..+..+..++...|++++
T Consensus        80 ~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~  159 (252)
T 2ho1_A           80 VFQTEMEPKLADEEYRKALASDSRNARVLNNYGGFLYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQ  159 (252)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHH
Confidence            5666666666666665543   234445666777777777788888888877764345543 566777778888888888


Q ss_pred             HHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC-CCC-CCHHHHHHHHHHHHhcCChhHHHHHHHHHh
Q 005268          453 GQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVR-PDASIWGALLGACRIHGNMELGAVASDRLF  529 (705)
Q Consensus       453 a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~  529 (705)
                      |.+.++.+.+.   .| +...+..++..|.+.|++++|...++++ ... .+...|..+...+...|+.++|...++++.
T Consensus       160 A~~~~~~~~~~---~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~  236 (252)
T 2ho1_A          160 AKEYFEKSLRL---NRNQPSVALEMADLLYKEREYVPARQYYDLFAQGGGQNARSLLLGIRLAKVFEDRDTAASYGLQLK  236 (252)
T ss_dssp             HHHHHHHHHHH---CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhc---CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            88888887754   33 4567888888888999999998888876 333 456778888889999999999999999999


Q ss_pred             ccCCCCcchhh
Q 005268          530 EVDSENVGYYV  540 (705)
Q Consensus       530 ~~~p~~~~~~~  540 (705)
                      ++.|+++....
T Consensus       237 ~~~p~~~~~~~  247 (252)
T 2ho1_A          237 RLYPGSLEYQE  247 (252)
T ss_dssp             HHCTTSHHHHH
T ss_pred             HHCCCCHHHHH
Confidence            99998876544

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.42  E-value=7.4e-12  Score=123.42  Aligned_cols=213  Identities=10%  Similarity=-0.058  Sum_probs=126.6

Q ss_pred             CCChhhHHHHHHHHHHCCCCC---ChhhHHHHHHHHHccCChhhHHHHHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHH
Q 005268          208 SNDPITAHGFFTTMQQAGIQP---DLLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINS  284 (705)
Q Consensus       208 ~g~~~~A~~~~~~m~~~g~~p---~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~  284 (705)
                      .|++++|+..|+++.+.....   +..++..+...+...|+++.|...+..+++..  +.+..++..+...|.+.|++++
T Consensus        18 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~la~~~~~~~~~~~   95 (275)
T 1xnf_A           18 TLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR--PDMPEVFNYLGIYLTQAGNFDA   95 (275)
T ss_dssp             CHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHTTCHHH
T ss_pred             cchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC--CCcHHHHHHHHHHHHHccCHHH
Confidence            455666666666665542111   23344445555555566666666555555553  5556677777777777777777


Q ss_pred             HHHHHhcCC---CCChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccccchhHHhhccCchHHHHHHHHHHHH
Q 005268          285 ACAVFEGLP---VKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIK  361 (705)
Q Consensus       285 A~~~f~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~  361 (705)
                      |...|++..   +.+..+|..+...|...|++++|+..|+++.+   ..|+.......+..+...|+++.|...+..+..
T Consensus        96 A~~~~~~al~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~---~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  172 (275)
T 1xnf_A           96 AYEAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQ---DDPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFE  172 (275)
T ss_dssp             HHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCccccHHHHHHHHHHHHhccHHHHHHHHHHHHH---hCCCChHHHHHHHHHHHhcCHHHHHHHHHHHHh
Confidence            777776554   33566777777777778888888888877776   556554444444445556677777777766655


Q ss_pred             hCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCCCCC-------cchHHHHHHHHHhcCChHHHHHHHHHHHH
Q 005268          362 NCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSS-------SVPWNAIISCHGIHGQGDKALNFFRQMLD  427 (705)
Q Consensus       362 ~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~~~~-------~~~~~~li~~~~~~g~~~~A~~~~~~m~~  427 (705)
                      .. +++...+ .++..+...++.++|...+++....+       ...|..+...|...|++++|+..|++..+
T Consensus       173 ~~-~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  243 (275)
T 1xnf_A          173 KS-DKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVA  243 (275)
T ss_dssp             HS-CCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             cC-CcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            43 2233333 25555555666666666666554332       23355555556666666666666666555

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.41  E-value=1.6e-11  Score=120.85  Aligned_cols=239  Identities=13%  Similarity=0.061  Sum_probs=165.0

Q ss_pred             hhhHHHHHHHHHccCChhhHHHHHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCCC--CCh----hHHHHH
Q 005268          230 LLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPV--KDV----ISWNTL  303 (705)
Q Consensus       230 ~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~--~~~----~~~~~l  303 (705)
                      ...+......+...|+++.|...+..+++..  +.+..++..+...|.+.|++++|...|++...  ++.    .+|..+
T Consensus         3 ~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~l   80 (272)
T 3u4t_A            3 DDVEFRYADFLFKNNNYAEAIEVFNKLEAKK--YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYY   80 (272)
T ss_dssp             --CHHHHHHHHHTTTCHHHHHHHHHHHHHTT--CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHH
Confidence            3455667778899999999999999999875  66777889999999999999999999987653  222    348899


Q ss_pred             HHHHHHcCChhHHHHHHHhhhhcCCCCCCc-ccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcC
Q 005268          304 ITGYAQNGLASEAIEVFQMMEECNEINPNQ-GTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCG  382 (705)
Q Consensus       304 i~~~~~~g~~~~A~~~~~~m~~~~~~~p~~-~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g  382 (705)
                      ...|...|++++|++.|++..+   ..|+. .++..+..                                   .|.+.|
T Consensus        81 g~~~~~~~~~~~A~~~~~~a~~---~~~~~~~~~~~l~~-----------------------------------~~~~~~  122 (272)
T 3u4t_A           81 GKILMKKGQDSLAIQQYQAAVD---RDTTRLDMYGQIGS-----------------------------------YFYNKG  122 (272)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH---HSTTCTHHHHHHHH-----------------------------------HHHHTT
T ss_pred             HHHHHHcccHHHHHHHHHHHHh---cCcccHHHHHHHHH-----------------------------------HHHHcc
Confidence            9999999999999999999988   55643 23333333                                   344556


Q ss_pred             CHHHHHHHHhhCCC---CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCc---HHHHHH
Q 005268          383 RIDDAMSLFYQVPR---SSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPD-HITFVSLLTACSHSGL---VSEGQR  455 (705)
Q Consensus       383 ~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~---~~~a~~  455 (705)
                      ++++|...|++...   .+...|..+...+...+++++|++.|+++.+.  .|+ ...+..+..++...|+   +++|..
T Consensus       123 ~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~p~~~~~~~~~~~~~~~~~~~~~~~~A~~  200 (272)
T 3u4t_A          123 NFPLAIQYMEKQIRPTTTDPKVFYELGQAYYYNKEYVKADSSFVKVLEL--KPNIYIGYLWRARANAAQDPDTKQGLAKP  200 (272)
T ss_dssp             CHHHHHHHHGGGCCSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHSTTCSSCTTHH
T ss_pred             CHHHHHHHHHHHhhcCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHcCcchhhHHHHH
Confidence            66666666665552   23333555552333344778888888887773  454 4566666666766676   677777


Q ss_pred             HHHHhHHhhCCcCCc------chHHHHHHHHHhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHH
Q 005268          456 YFHMMQEEFGIKPHL------KHYGCMVDLFGRAGHLGMAHNFIQNM-PVRPD-ASIWGALLG  510 (705)
Q Consensus       456 ~~~~m~~~~~~~p~~------~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~  510 (705)
                      .++...+...-.|+.      ..|..+...|.+.|++++|.+.++++ ...|+ ...+..+..
T Consensus       201 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~l~~  263 (272)
T 3u4t_A          201 YYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKADAAWKNILALDPTNKKAIDGLKM  263 (272)
T ss_dssp             HHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHC-
T ss_pred             HHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCccHHHHHHHhhh
Confidence            777776553333442      46777788888888888888888776 33443 444544433

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.41  E-value=5.5e-12  Score=134.01  Aligned_cols=343  Identities=11%  Similarity=0.033  Sum_probs=183.9

Q ss_pred             HHHHHHcCCChhhHHHHHHHHHHCCCCCChhhHHHHHHHHHccCCh---hhHHHHHHHHHHhcCCCchhHHHHHHHHHHH
Q 005268          201 IIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQLNDC---RNSRSVHGFIMRRGWFMEDVIIGNAVVDMYA  277 (705)
Q Consensus       201 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~---~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~  277 (705)
                      +...+.+.|++++|+++|++..+.|-   ...+..+-..+...|..   ++|...+....+.     ++..+..|..++.
T Consensus         9 la~~~~~~g~~~~A~~~~~~aa~~g~---~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~-----~~~A~~~Lg~~~~   80 (452)
T 3e4b_A            9 LANEALKRGDTVTAQQNYQQLAELGY---SEAQVGLADIQVGTRDPAQIKQAEATYRAAADT-----SPRAQARLGRLLA   80 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHTC---CTGGGTCC---------------------------------CHHHHHHHHH
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHCCC---HHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC-----CHHHHHHHHHHHH
Confidence            55667778888888888888877652   22333333334445555   6666666666532     3444555555444


Q ss_pred             hcC-----CHHHHHHHHhcCCCC-ChhHHHHHHHHHHHcCChhH---HHHHHHhhhhcCCCCCCcccccchhHHhhccCc
Q 005268          278 KLG-----IINSACAVFEGLPVK-DVISWNTLITGYAQNGLASE---AIEVFQMMEECNEINPNQGTYVSILPAYSHVGA  348 (705)
Q Consensus       278 ~~g-----~~~~A~~~f~~~~~~-~~~~~~~li~~~~~~g~~~~---A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~  348 (705)
                      ..+     +.++|...|++...+ +...+..|...|...+..++   +.+.+..... .|   +......+...+...+.
T Consensus        81 ~~~~~~~~~~~~A~~~~~~Aa~~g~~~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~-~g---~~~a~~~Lg~~y~~~~~  156 (452)
T 3e4b_A           81 AKPGATEAEHHEAESLLKKAFANGEGNTLIPLAMLYLQYPHSFPNVNAQQQISQWQA-AG---YPEAGLAQVLLYRTQGT  156 (452)
T ss_dssp             TC--CCHHHHHHHHHHHHHHHHTTCSSCHHHHHHHHHHCGGGCTTCCHHHHHHHHHH-HT---CTTHHHHHHHHHHHHTC
T ss_pred             hCCCCCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHH-CC---CHHHHHHHHHHHHcCCC
Confidence            443     566777777654432 44566666666666554433   3333333332 11   23344445555555554


Q ss_pred             hHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcC---CHHHHHHHHhhCCCCCc---chHHHHHHHHHhc----CChHHH
Q 005268          349 LRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCG---RIDDAMSLFYQVPRSSS---VPWNAIISCHGIH----GQGDKA  418 (705)
Q Consensus       349 ~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g---~~~~A~~~~~~~~~~~~---~~~~~li~~~~~~----g~~~~A  418 (705)
                      ++.+........+.-...++..+..|..+|.+.|   +.++|...|++..+.+.   ..+..+...|...    +++++|
T Consensus       157 ~~~~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~~a~~~~~Lg~~y~~g~~~~~d~~~A  236 (452)
T 3e4b_A          157 YDQHLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGTVTAQRVDSVARVLGDATLGTPDEKTA  236 (452)
T ss_dssp             GGGGHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCSCHHHHHHHHHHHTCGGGSSCCHHHH
T ss_pred             cccCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCCCHHHH
Confidence            4433333222222222233346667777777777   77777777776653222   2235566666443    577777


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHH-H--hccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcC-----CHHHHH
Q 005268          419 LNFFRQMLDEGVRPDHITFVSLLTA-C--SHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAG-----HLGMAH  490 (705)
Q Consensus       419 ~~~~~~m~~~g~~p~~~t~~~ll~a-~--~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g-----~~~~A~  490 (705)
                      +..|++.. .|   +...+..+... +  ...+++++|.++|+...+. |   +...+..|..+|. .|     ++++|.
T Consensus       237 ~~~~~~aa-~g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~-g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~  307 (452)
T 3e4b_A          237 QALLEKIA-PG---YPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAA-D---QPRAELLLGKLYY-EGKWVPADAKAAE  307 (452)
T ss_dssp             HHHHHHHG-GG---STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHH-HCSSSCCCHHHHH
T ss_pred             HHHHHHHc-CC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHC-C---CHHHHHHHHHHHH-cCCCCCCCHHHHH
Confidence            77777766 32   33344444443 2  4467777777777776643 3   4456666666665 44     777777


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHh----cCChhHHHHHHHHHhccCCCCcchhhhhhhhhhh----cCCcchHHHHHHHH
Q 005268          491 NFIQNMPVRPDASIWGALLGACRI----HGNMELGAVASDRLFEVDSENVGYYVLMSNIYAN----VGKWEGVDEVRSLA  562 (705)
Q Consensus       491 ~~~~~~~~~p~~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~a~~~~~~m  562 (705)
                      ..|++.- ..+...+..|...|..    ..|.++|...++++.+.  .++.+...|+.+|..    ..+.++|...++..
T Consensus       308 ~~~~~Aa-~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~--g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A  384 (452)
T 3e4b_A          308 AHFEKAV-GREVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARN--GQNSADFAIAQLFSQGKGTKPDPLNAYVFSQLA  384 (452)
T ss_dssp             HHHHTTT-TTCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTT--TCTTHHHHHHHHHHSCTTBCCCHHHHHHHHHHH
T ss_pred             HHHHHHh-CCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhh--ChHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHH
Confidence            7777776 5556666666665554    23777777777776653  345666777777754    34677777777777


Q ss_pred             HhCCC
Q 005268          563 RDRGL  567 (705)
Q Consensus       563 ~~~~~  567 (705)
                      .+.|.
T Consensus       385 ~~~g~  389 (452)
T 3e4b_A          385 KAQDT  389 (452)
T ss_dssp             HTTCC
T ss_pred             HHCCC
Confidence            76654

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.41  E-value=1.9e-12  Score=135.79  Aligned_cols=197  Identities=12%  Similarity=0.048  Sum_probs=130.0

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhhCCC-----CC----cchHHHHHHHHHhcCC--------------------hHHHH
Q 005268          369 FVATCLVDMYGKCGRIDDAMSLFYQVPR-----SS----SVPWNAIISCHGIHGQ--------------------GDKAL  419 (705)
Q Consensus       369 ~~~~~li~~y~k~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~g~--------------------~~~A~  419 (705)
                      .++..+...|...|++++|...|++...     .+    ...+..+...|...|+                    +++|+
T Consensus        88 ~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~  167 (406)
T 3sf4_A           88 KASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAV  167 (406)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHH
Confidence            3455556666666666666666655431     11    2246666667777777                    77777


Q ss_pred             HHHHHHHHc----CCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCC----cchHHHHHHHHHhcCCHHHHH
Q 005268          420 NFFRQMLDE----GVRPD-HITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPH----LKHYGCMVDLFGRAGHLGMAH  490 (705)
Q Consensus       420 ~~~~~m~~~----g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~----~~~~~~li~~~~~~g~~~~A~  490 (705)
                      ..+++..+.    +-.|. ..++..+...+...|++++|...++...+...-.++    ...+..+...|...|++++|.
T Consensus       168 ~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  247 (406)
T 3sf4_A          168 DFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETAS  247 (406)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHH
Confidence            777766542    11122 235666777788888888888888777643211222    236777788888888888888


Q ss_pred             HHHHhCC----CCCC----HHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCC------cchhhhhhhhhhhcCCcchHH
Q 005268          491 NFIQNMP----VRPD----ASIWGALLGACRIHGNMELGAVASDRLFEVDSEN------VGYYVLMSNIYANVGKWEGVD  556 (705)
Q Consensus       491 ~~~~~~~----~~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~------~~~~~~l~~~~~~~g~~~~a~  556 (705)
                      ..+++.-    ..++    ..++..+...+...|++++|...+++++++.+..      ...+..++.+|...|++++|.
T Consensus       248 ~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  327 (406)
T 3sf4_A          248 EYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAM  327 (406)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            8877651    1112    4567778888888888888888888887765432      446677888888888888888


Q ss_pred             HHHHHHHhC
Q 005268          557 EVRSLARDR  565 (705)
Q Consensus       557 ~~~~~m~~~  565 (705)
                      +.+++..+.
T Consensus       328 ~~~~~al~~  336 (406)
T 3sf4_A          328 HFAEKHLEI  336 (406)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            888877653

>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=99.41  E-value=2.2e-11  Score=120.15  Aligned_cols=229  Identities=9%  Similarity=-0.074  Sum_probs=164.9

Q ss_pred             CchhHHHHHHHHHHHhcCCHHHHHHHHhcCCCC-ChhHHHHHHHHHHH----cCChhHHHHHHHhhhhcCCCCCCccccc
Q 005268          263 MEDVIIGNAVVDMYAKLGIINSACAVFEGLPVK-DVISWNTLITGYAQ----NGLASEAIEVFQMMEECNEINPNQGTYV  337 (705)
Q Consensus       263 ~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~-~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~~~~p~~~t~~  337 (705)
                      +.+...+..+...|.+.|++++|...|++..++ +..++..+...|..    .+++++|++.|++..+ .+   +...+ 
T Consensus         3 ~~~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~-~~---~~~a~-   77 (273)
T 1ouv_A            3 EQDPKELVGLGAKSYKEKDFTQAKKYFEKACDLKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACD-LN---YSNGC-   77 (273)
T ss_dssp             --CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHH-TT---CHHHH-
T ss_pred             CCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHH-CC---CHHHH-
Confidence            446778888999999999999999999876544 66788888888888    8888888888888776 32   22333 


Q ss_pred             chhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHh----cCCHHHHHHHHhhCCC-CCcchHHHHHHHHHh-
Q 005268          338 SILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGK----CGRIDDAMSLFYQVPR-SSSVPWNAIISCHGI-  411 (705)
Q Consensus       338 ~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k----~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~-  411 (705)
                                                        ..+..+|..    .+++++|...|++..+ .+...+..+...|.. 
T Consensus        78 ----------------------------------~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~~  123 (273)
T 1ouv_A           78 ----------------------------------HLLGNLYYSGQGVSQNTNKALQYYSKACDLKYAEGCASLGGIYHDG  123 (273)
T ss_dssp             ----------------------------------HHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHC
T ss_pred             ----------------------------------HHHHHHHhCCCCcccCHHHHHHHHHHHHHcCCccHHHHHHHHHHcC
Confidence                                              334444444    5555555555554432 233445566666666 


Q ss_pred             ---cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc----cCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHh--
Q 005268          412 ---HGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSH----SGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGR--  482 (705)
Q Consensus       412 ---~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~----~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~--  482 (705)
                         .+++++|+..|++..+.+   +...+..+...+..    .+++++|...|+...+. +   +...+..+..+|.+  
T Consensus       124 ~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~-~---~~~a~~~lg~~~~~g~  196 (273)
T 1ouv_A          124 KVVTRDFKKAVEYFTKACDLN---DGDGCTILGSLYDAGRGTPKDLKKALASYDKACDL-K---DSPGCFNAGNMYHHGE  196 (273)
T ss_dssp             SSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHTC
T ss_pred             CCcccCHHHHHHHHHHHHhcC---cHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC-C---CHHHHHHHHHHHHcCC
Confidence               777788888888877754   45556666666766    78888888888877653 2   34677778888888  


Q ss_pred             --cCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCChhHHHHHHHHHhccCCCCcc
Q 005268          483 --AGHLGMAHNFIQNMPVRPDASIWGALLGACRI----HGNMELGAVASDRLFEVDSENVG  537 (705)
Q Consensus       483 --~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~p~~~~  537 (705)
                        .+++++|+..+++.....+...+..+...+..    .+++++|...++++.+++|+++.
T Consensus       197 ~~~~~~~~A~~~~~~a~~~~~~~a~~~l~~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~  257 (273)
T 1ouv_A          197 GATKNFKEALARYSKACELENGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGAKGAC  257 (273)
T ss_dssp             SSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTCHHHH
T ss_pred             CCCccHHHHHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHHcCCHHHH
Confidence              88999998888876322346778888888888    89999999999999999886543

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.40  E-value=9.1e-13  Score=138.65  Aligned_cols=259  Identities=12%  Similarity=0.027  Sum_probs=167.4

Q ss_pred             HHHHHHcCChhHHHHHHHhhhhcCCCCCCc-----ccccchhHHhhccCchHHHHHHHHHHHHh----C-CCCchhHHHH
Q 005268          304 ITGYAQNGLASEAIEVFQMMEECNEINPNQ-----GTYVSILPAYSHVGALRQGIKIHARVIKN----C-LCFDVFVATC  373 (705)
Q Consensus       304 i~~~~~~g~~~~A~~~~~~m~~~~~~~p~~-----~t~~~ll~a~~~~~~~~~a~~~~~~~~~~----g-~~~~~~~~~~  373 (705)
                      ...+...|++++|+..|++..+   ..|+.     ..+..+...+...|+++.|...+..+++.    + .+....++..
T Consensus        55 g~~~~~~g~~~~A~~~~~~al~---~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  131 (411)
T 4a1s_A           55 GERLCNAGDCRAGVAFFQAAIQ---AGTEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGN  131 (411)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH---HCCSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHhCcHHHHHHHHHHHHH---hcccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHH
Confidence            3344444555555555555444   22322     13334444444455555555554444332    1 1123345566


Q ss_pred             HHHHHHhcCCHHHHHHHHhhCCCC---------CcchHHHHHHHHHhcCC-----------------hHHHHHHHHHHHH
Q 005268          374 LVDMYGKCGRIDDAMSLFYQVPRS---------SSVPWNAIISCHGIHGQ-----------------GDKALNFFRQMLD  427 (705)
Q Consensus       374 li~~y~k~g~~~~A~~~~~~~~~~---------~~~~~~~li~~~~~~g~-----------------~~~A~~~~~~m~~  427 (705)
                      +...|...|++++|...|++....         ....|..+...|...|+                 +++|++.+++..+
T Consensus       132 l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~  211 (411)
T 4a1s_A          132 LGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLK  211 (411)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHH
Confidence            666777777777777776655411         12246777777777788                 7888888777654


Q ss_pred             c----CCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCC----cchHHHHHHHHHhcCCHHHHHHHHHhCC-
Q 005268          428 E----GVRPD-HITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPH----LKHYGCMVDLFGRAGHLGMAHNFIQNMP-  497 (705)
Q Consensus       428 ~----g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~~~-  497 (705)
                      .    +-.|. ..++..+...+...|++++|.++++...+...-.++    ...+..+...|...|++++|...+++.- 
T Consensus       212 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  291 (411)
T 4a1s_A          212 LMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLA  291 (411)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHH
Confidence            2    11222 236777777888899999999988887654211122    2367888889999999999998887661 


Q ss_pred             ---CCCC----HHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCC------cchhhhhhhhhhhcCCcchHHHHHHHHHh
Q 005268          498 ---VRPD----ASIWGALLGACRIHGNMELGAVASDRLFEVDSEN------VGYYVLMSNIYANVGKWEGVDEVRSLARD  564 (705)
Q Consensus       498 ---~~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~------~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  564 (705)
                         ...+    ..+|..+...+...|++++|...+++++++.+..      ...+..++.+|...|++++|.+.+++..+
T Consensus       292 ~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  371 (411)
T 4a1s_A          292 LAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAEQHLQ  371 (411)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence               1111    4578888889999999999999999998875432      34678899999999999999999998876


Q ss_pred             C
Q 005268          565 R  565 (705)
Q Consensus       565 ~  565 (705)
                      .
T Consensus       372 ~  372 (411)
T 4a1s_A          372 L  372 (411)
T ss_dssp             H
T ss_pred             H
Confidence            4

>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=99.40  E-value=6.9e-12  Score=129.16  Aligned_cols=225  Identities=11%  Similarity=0.101  Sum_probs=190.5

Q ss_pred             ccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCC-HHHHHHHHhhCC---CCCcchHHHHHHHH
Q 005268          334 GTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGR-IDDAMSLFYQVP---RSSSVPWNAIISCH  409 (705)
Q Consensus       334 ~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~-~~~A~~~~~~~~---~~~~~~~~~li~~~  409 (705)
                      ..|..+...+...|++++|...+..+++.. +.+..+++.+...|.+.|+ +++|+..|+++.   ..+...|+.+...+
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 DVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLV  176 (382)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHH
Confidence            345566667788899999999999999874 4467888999999999997 999999999887   45667799999999


Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHh-cCCH
Q 005268          410 GIHGQGDKALNFFRQMLDEGVRPD-HITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGR-AGHL  486 (705)
Q Consensus       410 ~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~-~g~~  486 (705)
                      ...|++++|+..|+++++  +.|+ ...|..+..++...|++++|+..++.+.+.   .| +...|+.+..+|.+ .|..
T Consensus       177 ~~~g~~~eAl~~~~kal~--ldP~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l---~P~~~~a~~~lg~~l~~l~~~~  251 (382)
T 2h6f_A          177 EWLRDPSQELEFIADILN--QDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKE---DVRNNSVWNQRYFVISNTTGYN  251 (382)
T ss_dssp             HHHTCCTTHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCSC
T ss_pred             HHccCHHHHHHHHHHHHH--hCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHhcCcc
Confidence            999999999999999999  4565 568999999999999999999999999864   55 56789999999999 6766


Q ss_pred             HHH-----HHHHHhC-CCCC-CHHHHHHHHHHHHhcC--ChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcC-------
Q 005268          487 GMA-----HNFIQNM-PVRP-DASIWGALLGACRIHG--NMELGAVASDRLFEVDSENVGYYVLMSNIYANVG-------  550 (705)
Q Consensus       487 ~~A-----~~~~~~~-~~~p-~~~~~~~ll~~~~~~g--~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g-------  550 (705)
                      ++|     ++.+++. ...| +...|..+...+...|  ++++|+..++++ +.+|+++..+..|+++|.+.|       
T Consensus       252 ~eA~~~~el~~~~~Al~l~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~~p~~~~al~~La~~~~~~~~~~~~~~  330 (382)
T 2h6f_A          252 DRAVLEREVQYTLEMIKLVPHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QPSHSSPYLIAFLVDIYEDMLENQCDNK  330 (382)
T ss_dssp             SHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TTTCCCHHHHHHHHHHHHHHHHTTCSSH
T ss_pred             hHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHccCccchHHHHHHHHHh-ccCCCCHHHHHHHHHHHHHHhcccccch
Confidence            777     4667665 3455 5779999999999888  689999999998 899999999999999999875       


Q ss_pred             --CcchHHHHHHHH-HhC
Q 005268          551 --KWEGVDEVRSLA-RDR  565 (705)
Q Consensus       551 --~~~~a~~~~~~m-~~~  565 (705)
                        .+++|.++++.+ .+.
T Consensus       331 ~~~~~~A~~~~~~l~~~~  348 (382)
T 2h6f_A          331 EDILNKALELCEILAKEK  348 (382)
T ss_dssp             HHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHHHHHh
Confidence              258999999987 544

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.40  E-value=1.3e-11  Score=117.46  Aligned_cols=207  Identities=13%  Similarity=0.054  Sum_probs=147.3

Q ss_pred             ChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHH
Q 005268          296 DVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLV  375 (705)
Q Consensus       296 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li  375 (705)
                      +...|..+...+...|++++|++.|+++.+   ..|+                                  +...+..+.
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~---~~~~----------------------------------~~~~~~~l~   49 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALK---SDPK----------------------------------NELAWLVRA   49 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTT----------------------------------CHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHH---hCcc----------------------------------chHHHHHHH
Confidence            455666777777777777777777777665   3332                                  233455555


Q ss_pred             HHHHhcCCHHHHHHHHhhCC---CCCcchHHHHHHHHHhc-CChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCcH
Q 005268          376 DMYGKCGRIDDAMSLFYQVP---RSSSVPWNAIISCHGIH-GQGDKALNFFRQMLDEGVRPD-HITFVSLLTACSHSGLV  450 (705)
Q Consensus       376 ~~y~k~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~-g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~  450 (705)
                      ..|...|++++|...|+++.   +.+...|..+...|... |++++|+..|+++.+.+..|+ ...+..+..++...|++
T Consensus        50 ~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  129 (225)
T 2vq2_A           50 EIYQYLKVNDKAQESFRQALSIKPDSAEINNNYGWFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQF  129 (225)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCH
Confidence            66666666666666666554   33445567777777778 888888888888877333444 35677777788888888


Q ss_pred             HHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC-CCC--CCHHHHHHHHHHHHhcCChhHHHHHHH
Q 005268          451 SEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVR--PDASIWGALLGACRIHGNMELGAVASD  526 (705)
Q Consensus       451 ~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~--p~~~~~~~ll~~~~~~g~~~~a~~~~~  526 (705)
                      ++|...++.+.+.   .| +...+..++..+.+.|++++|...++++ ...  .+...|..+...+...|+.+.+...++
T Consensus       130 ~~A~~~~~~~~~~---~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~  206 (225)
T 2vq2_A          130 GLAEAYLKRSLAA---QPQFPPAFKELARTKMLAGQLGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEA  206 (225)
T ss_dssp             HHHHHHHHHHHHH---STTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh---CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHH
Confidence            8888888887754   33 4567788888888889999888888776 222  356677777788889999999999999


Q ss_pred             HHhccCCCCcchhhhh
Q 005268          527 RLFEVDSENVGYYVLM  542 (705)
Q Consensus       527 ~~~~~~p~~~~~~~~l  542 (705)
                      .+.+..|+++.....+
T Consensus       207 ~~~~~~p~~~~~~~~l  222 (225)
T 2vq2_A          207 QLQANFPYSEELQTVL  222 (225)
T ss_dssp             HHHHHCTTCHHHHHHH
T ss_pred             HHHHhCCCCHHHHHHh
Confidence            9999999887766554

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.39  E-value=2.4e-12  Score=130.83  Aligned_cols=258  Identities=11%  Similarity=0.066  Sum_probs=166.6

Q ss_pred             HHHHHcCChhHHHHHHHhhhhcCCCCCCc-----ccccchhHHhhccCchHHHHHHHHHHHHh----CCC-CchhHHHHH
Q 005268          305 TGYAQNGLASEAIEVFQMMEECNEINPNQ-----GTYVSILPAYSHVGALRQGIKIHARVIKN----CLC-FDVFVATCL  374 (705)
Q Consensus       305 ~~~~~~g~~~~A~~~~~~m~~~~~~~p~~-----~t~~~ll~a~~~~~~~~~a~~~~~~~~~~----g~~-~~~~~~~~l  374 (705)
                      ..+...|++++|+..|+++.+   ..|+.     ..+..+...+...|+++.|...+..+.+.    +.. ....++..+
T Consensus        13 ~~~~~~g~~~~A~~~~~~al~---~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l   89 (338)
T 3ro2_A           13 ERLCKSGDCRAGVSFFEAAVQ---VGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNL   89 (338)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH---HCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHhccHHHHHHHHHHHHh---hCcccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHHH
Confidence            344444555555555544444   22321     23333444444445555555544443321    111 124455666


Q ss_pred             HHHHHhcCCHHHHHHHHhhCCC-----CC----cchHHHHHHHHHhcCC--------------------hHHHHHHHHHH
Q 005268          375 VDMYGKCGRIDDAMSLFYQVPR-----SS----SVPWNAIISCHGIHGQ--------------------GDKALNFFRQM  425 (705)
Q Consensus       375 i~~y~k~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~g~--------------------~~~A~~~~~~m  425 (705)
                      ...|...|++++|...|++..+     .+    ...+..+...|...|+                    +++|++.+++.
T Consensus        90 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a  169 (338)
T 3ro2_A           90 GNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEEN  169 (338)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHH
Confidence            7777777777777777766531     11    1246677777777787                    78888888776


Q ss_pred             HHc----CCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCC----cchHHHHHHHHHhcCCHHHHHHHHHhC
Q 005268          426 LDE----GVRPD-HITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPH----LKHYGCMVDLFGRAGHLGMAHNFIQNM  496 (705)
Q Consensus       426 ~~~----g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~~  496 (705)
                      ...    +..|. ..++..+...+...|++++|.+.++...+...-.++    ...+..+...|.+.|++++|...+++.
T Consensus       170 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a  249 (338)
T 3ro2_A          170 LSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKT  249 (338)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            542    11222 236677777888899999999998887653211122    237788888899999999999888776


Q ss_pred             C----CCCC----HHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCC------cchhhhhhhhhhhcCCcchHHHHHHHH
Q 005268          497 P----VRPD----ASIWGALLGACRIHGNMELGAVASDRLFEVDSEN------VGYYVLMSNIYANVGKWEGVDEVRSLA  562 (705)
Q Consensus       497 ~----~~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~------~~~~~~l~~~~~~~g~~~~a~~~~~~m  562 (705)
                      -    ..++    ..++..+...+...|++++|...+++++++.|..      ...+..++.+|...|++++|...++++
T Consensus       250 l~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a  329 (338)
T 3ro2_A          250 LLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKH  329 (338)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHH
Confidence            1    1122    5577888889999999999999999998875432      346778999999999999999999988


Q ss_pred             HhC
Q 005268          563 RDR  565 (705)
Q Consensus       563 ~~~  565 (705)
                      .+.
T Consensus       330 ~~~  332 (338)
T 3ro2_A          330 LEI  332 (338)
T ss_dssp             HHC
T ss_pred             HHH
Confidence            765

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.38  E-value=9.6e-12  Score=114.53  Aligned_cols=162  Identities=13%  Similarity=0.093  Sum_probs=117.1

Q ss_pred             cchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHH
Q 005268          399 SVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPD-HITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCM  476 (705)
Q Consensus       399 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~l  476 (705)
                      ...|..+...|...|++++|++.|++.++  +.|+ ..++..+..++...|++++|...+......   .| +...+..+
T Consensus         5 ~~iy~~lG~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~   79 (184)
T 3vtx_A            5 TTIYMDIGDKKRTKGDFDGAIRAYKKVLK--ADPNNVETLLKLGKTYMDIGLPNDAIESLKKFVVL---DTTSAEAYYIL   79 (184)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc---CchhHHHHHHH
Confidence            34466677777777777777777777777  3454 346667777777777777777777776643   33 34556666


Q ss_pred             HHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcch
Q 005268          477 VDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEG  554 (705)
Q Consensus       477 i~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  554 (705)
                      ...+...+++++|.+.+.+. ...| +...|..+...+...|++++|+..++++++++|+++.++..++.+|...|++++
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            67777777777777777665 2233 466777788888888888888888888888888888888888888888888888


Q ss_pred             HHHHHHHHHhC
Q 005268          555 VDEVRSLARDR  565 (705)
Q Consensus       555 a~~~~~~m~~~  565 (705)
                      |.+.+++..+.
T Consensus       160 A~~~~~~al~~  170 (184)
T 3vtx_A          160 AVKYFKKALEK  170 (184)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHhC
Confidence            88888877664

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.38  E-value=1.6e-12  Score=139.13  Aligned_cols=207  Identities=8%  Similarity=-0.009  Sum_probs=173.9

Q ss_pred             hHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCH-HHHHHHHhhCC---CCCcchHHHHHHHHHhcCChHHHHHHHHH
Q 005268          349 LRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRI-DDAMSLFYQVP---RSSSVPWNAIISCHGIHGQGDKALNFFRQ  424 (705)
Q Consensus       349 ~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~-~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~  424 (705)
                      ++.+.+.+....+. .+.+...+..+...|...|++ ++|...|++..   +.+...|..+...|...|++++|++.|++
T Consensus        84 ~~~al~~l~~~~~~-~~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~  162 (474)
T 4abn_A           84 MEKTLQQMEEVLGS-AQVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEPELVEAWNQLGEVYWKKGDVTSAHTCFSG  162 (474)
T ss_dssp             HHHHHHHHHHHHTT-CCCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcc-CchhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            44555555554433 234677778888888888888 88888888765   34566799999999999999999999999


Q ss_pred             HHHcCCCCCHHHHHHHHHHHhcc---------CcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhc--------CCH
Q 005268          425 MLDEGVRPDHITFVSLLTACSHS---------GLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRA--------GHL  486 (705)
Q Consensus       425 m~~~g~~p~~~t~~~ll~a~~~~---------g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~--------g~~  486 (705)
                      .++  +.|+...+..+..++...         |++++|.+.|++..+.   .| +...|..+..+|.+.        |++
T Consensus       163 al~--~~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~lg~~~~~~~~~~~~~~g~~  237 (474)
T 4abn_A          163 ALT--HCKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQM---DVLDGRSWYILGNAYLSLYFNTGQNPKIS  237 (474)
T ss_dssp             HHT--TCCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHHHHTTCCHHHH
T ss_pred             HHh--hCCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHHHHhhccccchH
Confidence            998  568888888888899999         9999999999998864   45 467888999999998        999


Q ss_pred             HHHHHHHHhC-CCCC----CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHH
Q 005268          487 GMAHNFIQNM-PVRP----DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSL  561 (705)
Q Consensus       487 ~~A~~~~~~~-~~~p----~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~  561 (705)
                      ++|++.|++. ...|    +...|..+...+...|++++|+..++++++++|+++.++..++.++...|++++|.+.+..
T Consensus       238 ~~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~a~~~l~~~~~~lg~~~eAi~~~~~  317 (474)
T 4abn_A          238 QQALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDPAWPEPQQREQQLLEFLSRLTSLLESKGK  317 (474)
T ss_dssp             HHHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            9999999887 3455    6889999999999999999999999999999999999999999999999999999875543

>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=99.37  E-value=9.4e-10  Score=120.91  Aligned_cols=415  Identities=10%  Similarity=0.024  Sum_probs=270.8

Q ss_pred             CCcchHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHhHHHHhhcCCC---hHHHHHHHHHHHHhCC-CCchhHH
Q 005268           92 RDSGSWNAMISGYCQSGNAVEALDILDEMRLEGVSMDPITVASILPVCARSDN---ILSGLLIHLYIVKHGL-EFNLFVS  167 (705)
Q Consensus        92 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~---~~~a~~~~~~~~~~g~-~~~~~~~  167 (705)
                      .|..+|..++..+.+.+.++.+..+|+++... .+.....|..-+..-.+.++   .+.+.++|+..+...+ +|++..|
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            57888999999998899999999999999875 34455567777777777777   9999999999888642 4777788


Q ss_pred             HHHHHHHHccCCH--------HHHHHHHhccC------CC-CeehHHHHHHHHHc---------CCChhhHHHHHHHHHH
Q 005268          168 NNLINMYAKFGMM--------RHALRVFDQMM------ER-DVVSWNSIIAAYEQ---------SNDPITAHGFFTTMQQ  223 (705)
Q Consensus       168 ~~Li~~y~~~g~~--------~~A~~~f~~m~------~~-~~~~~~~li~~~~~---------~g~~~~A~~~~~~m~~  223 (705)
                      ...+....+.++.        +...++|+...      .+ +...|...+.-...         +++.+.+..+|++...
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            8877766555543        33446776532      22 33467777754432         3345677788887764


Q ss_pred             CCCCCChhhHHHHHHHHHccCChhhHHHHHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhc-------CC---
Q 005268          224 AGIQPDLLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEG-------LP---  293 (705)
Q Consensus       224 ~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~-------~~---  293 (705)
                      .....-..+|.....--... +...++.+....                      ...++.|...+.+       +.   
T Consensus       223 iP~~~~~~~w~~Y~~fe~~~-~~~~a~~~~~e~----------------------~~~y~~Ar~~~~e~~~~~~~l~r~~  279 (679)
T 4e6h_A          223 QPMDCLESMWQRYTQWEQDV-NQLTARRHIGEL----------------------SAQYMNARSLYQDWLNITKGLKRNL  279 (679)
T ss_dssp             SCCSSHHHHHHHHHHHHHHH-CTTTHHHHHHHH----------------------HHHHHHHHHHHHHHHHHTTTCCCCC
T ss_pred             CccHHHHHHHHHHHHHHHhc-CcchHHHHHHHh----------------------hHHHHHHHHHHHHHHHHHHhHhhcc
Confidence            21111112222111111111 111122221111                      0112222222221       11   


Q ss_pred             -C----------C--C------hhHHHHHHHHHHHcCC-------hhHHHHHHHhhhhcCCCCC-CcccccchhHHhhcc
Q 005268          294 -V----------K--D------VISWNTLITGYAQNGL-------ASEAIEVFQMMEECNEINP-NQGTYVSILPAYSHV  346 (705)
Q Consensus       294 -~----------~--~------~~~~~~li~~~~~~g~-------~~~A~~~~~~m~~~~~~~p-~~~t~~~ll~a~~~~  346 (705)
                       .          |  +      ...|...+.---.++.       .+.+..+|++...   ..| +...|.....-+...
T Consensus       280 p~~~~~~~~~~~p~~~~~~~~ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~---~~p~~~~lW~~ya~~~~~~  356 (679)
T 4e6h_A          280 PITLNQATESNLPKPNEYDVQQLLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQ---HVCFAPEIWFNMANYQGEK  356 (679)
T ss_dssp             CSSSTTCCTTTSCCTTCCCHHHHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHH---HTTTCHHHHHHHHHHHHHH
T ss_pred             ccccccchhccCCCCchhHHHHHHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHH---HcCCCHHHHHHHHHHHHhc
Confidence             0          0  0      2346666654443331       2345667888776   334 445555666666777


Q ss_pred             CchHHHH-HHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCCC-------------CC------------cc
Q 005268          347 GALRQGI-KIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPR-------------SS------------SV  400 (705)
Q Consensus       347 ~~~~~a~-~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~~-------------~~------------~~  400 (705)
                      |+.+.|. .+++.++.. ++.+...+-.++...-+.|++++|.++|+++..             |+            ..
T Consensus       357 ~~~~~a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~  435 (679)
T 4e6h_A          357 NTDSTVITKYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTY  435 (679)
T ss_dssp             SCCTTHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHH
Confidence            8888896 999999875 456777788889999999999999999998763             21            12


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHhc-cCcHHHHHHHHHHhHHhhCCcCCcchHHHHHH
Q 005268          401 PWNAIISCHGIHGQGDKALNFFRQMLDE-GVRPDHITFVSLLTACSH-SGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVD  478 (705)
Q Consensus       401 ~~~~li~~~~~~g~~~~A~~~~~~m~~~-g~~p~~~t~~~ll~a~~~-~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~  478 (705)
                      .|-..+....+.|..+.|..+|.+.++. + .+....|......-.+ .++.+.|..+|+...+.++  -+...+...++
T Consensus       436 vWi~y~~~erR~~~l~~AR~vf~~A~~~~~-~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~~p--~~~~~w~~y~~  512 (679)
T 4e6h_A          436 VYCVYMNTMKRIQGLAASRKIFGKCRRLKK-LVTPDIYLENAYIEYHISKDTKTACKVLELGLKYFA--TDGEYINKYLD  512 (679)
T ss_dssp             HHHHHHHHHHHHHCHHHHHHHHHHHHHTGG-GSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHT--TCHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCC--CchHHHHHHHH
Confidence            4888888888889999999999999985 2 1223334333222223 3558999999999987643  34456778888


Q ss_pred             HHHhcCCHHHHHHHHHhCC-CCC----CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcc
Q 005268          479 LFGRAGHLGMAHNFIQNMP-VRP----DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVG  537 (705)
Q Consensus       479 ~~~~~g~~~~A~~~~~~~~-~~p----~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~  537 (705)
                      .....|+.+.|..+|++.- ..|    ....|...+.--..+|+.+.+..+.+++.+..|+++.
T Consensus       513 fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~P~~~~  576 (679)
T 4e6h_A          513 FLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEKFPEVNK  576 (679)
T ss_dssp             HHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHSTTCCH
T ss_pred             HHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCcH
Confidence            8899999999999999873 223    3568999999999999999999999999999997753

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.35  E-value=8.7e-12  Score=130.61  Aligned_cols=154  Identities=12%  Similarity=0.042  Sum_probs=106.0

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCC-CCC----HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCC----cc
Q 005268          401 PWNAIISCHGIHGQGDKALNFFRQMLDEGV-RPD----HITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPH----LK  471 (705)
Q Consensus       401 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~----~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~----~~  471 (705)
                      .|..+...|...|++++|+..|++..+... .++    ..++..+...+...|++++|...++...+...-.++    ..
T Consensus       189 ~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  268 (406)
T 3sf4_A          189 AFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQ  268 (406)
T ss_dssp             HHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHH
Confidence            356666677777777777777777665210 112    126667777788888888888888776643211111    45


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHhCC----CCCC----HHHHHHHHHHHHhcCChhHHHHHHHHHhccCC------CCcc
Q 005268          472 HYGCMVDLFGRAGHLGMAHNFIQNMP----VRPD----ASIWGALLGACRIHGNMELGAVASDRLFEVDS------ENVG  537 (705)
Q Consensus       472 ~~~~li~~~~~~g~~~~A~~~~~~~~----~~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p------~~~~  537 (705)
                      .+..+...|.+.|++++|...+++.-    ..++    ..++..+...+...|++++|...+++++++.+      ....
T Consensus       269 ~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  348 (406)
T 3sf4_A          269 SCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISREVGDKSGELT  348 (406)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCcchhH
Confidence            67778888888899888888887651    1122    55778888899999999999999999887633      2345


Q ss_pred             hhhhhhhhhhhcCCcch
Q 005268          538 YYVLMSNIYANVGKWEG  554 (705)
Q Consensus       538 ~~~~l~~~~~~~g~~~~  554 (705)
                      ++..++.+|...|+...
T Consensus       349 ~~~~l~~~~~~~g~~~~  365 (406)
T 3sf4_A          349 ARLNLSDLQMVLGLSYS  365 (406)
T ss_dssp             HHHHHHHHHHHHHTTSC
T ss_pred             HHHHHHHHHHHhhHhHH
Confidence            66778888888887643

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.32  E-value=2.6e-11  Score=111.57  Aligned_cols=166  Identities=10%  Similarity=0.008  Sum_probs=142.6

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHH
Q 005268          367 DVFVATCLVDMYGKCGRIDDAMSLFYQVP---RSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPD-HITFVSLLT  442 (705)
Q Consensus       367 ~~~~~~~li~~y~k~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~  442 (705)
                      +..+|..+...|.+.|++++|...|++..   +.+...|..+...|.+.|++++|+..+.+....  .|+ ...+..+..
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~   81 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPNNVETLLKLGKTYMDIGLPNDAIESLKKFVVL--DTTSAEAYYILGS   81 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CchhHHHHHHHHH
Confidence            56788889999999999999999999876   456667999999999999999999999999885  444 456777777


Q ss_pred             HHhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChh
Q 005268          443 ACSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNME  519 (705)
Q Consensus       443 a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~  519 (705)
                      .+...++++.+.+.+....+.   .| +...+..+...|.+.|++++|++.|++. ...| +..+|..+...+...|+++
T Consensus        82 ~~~~~~~~~~a~~~~~~a~~~---~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~~~  158 (184)
T 3vtx_A           82 ANFMIDEKQAAIDALQRAIAL---NTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGLRD  158 (184)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHh---CccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCCHH
Confidence            889999999999999988754   44 5678888999999999999999999887 3444 5789999999999999999


Q ss_pred             HHHHHHHHHhccCCCCcc
Q 005268          520 LGAVASDRLFEVDSENVG  537 (705)
Q Consensus       520 ~a~~~~~~~~~~~p~~~~  537 (705)
                      +|+..++++++++|+++.
T Consensus       159 ~A~~~~~~al~~~p~~a~  176 (184)
T 3vtx_A          159 EAVKYFKKALEKEEKKAK  176 (184)
T ss_dssp             HHHHHHHHHHHTTHHHHH
T ss_pred             HHHHHHHHHHhCCccCHH
Confidence            999999999999997654

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.30  E-value=1.5e-10  Score=116.39  Aligned_cols=218  Identities=11%  Similarity=0.115  Sum_probs=155.5

Q ss_pred             hHHHHHHHhhhhcCCCCCC-cccccchhHHhh-------ccCch-------HHHHHHHHHHHHhCCCCchhHHHHHHHHH
Q 005268          314 SEAIEVFQMMEECNEINPN-QGTYVSILPAYS-------HVGAL-------RQGIKIHARVIKNCLCFDVFVATCLVDMY  378 (705)
Q Consensus       314 ~~A~~~~~~m~~~~~~~p~-~~t~~~ll~a~~-------~~~~~-------~~a~~~~~~~~~~g~~~~~~~~~~li~~y  378 (705)
                      ++|...|++...   ..|+ ...|......+.       ..|++       ++|..+++++++.-.+.+...+..++..+
T Consensus        33 ~~a~~~~~~al~---~~p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~  109 (308)
T 2ond_A           33 KRVMFAYEQCLL---VLGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYE  109 (308)
T ss_dssp             HHHHHHHHHHHH---HHTTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH---HcCCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHH
Confidence            456666666665   4443 233444444333       24554       77888888877732234566788888888


Q ss_pred             HhcCCHHHHHHHHhhCCC--C-Ccc-hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH-hccCcHHHH
Q 005268          379 GKCGRIDDAMSLFYQVPR--S-SSV-PWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTAC-SHSGLVSEG  453 (705)
Q Consensus       379 ~k~g~~~~A~~~~~~~~~--~-~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~-~~~g~~~~a  453 (705)
                      .+.|++++|..+|++..+  + +.. .|..++..+.+.|++++|..+|++.++.. +++...|....... ...|++++|
T Consensus       110 ~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~a~~~~~~~~~~~~A  188 (308)
T 2ond_A          110 ESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVA  188 (308)
T ss_dssp             HHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHTSCCHHHH
T ss_pred             HhcCCHHHHHHHHHHHHhccccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHcCCHHHH
Confidence            888888889888887652  2 333 68888888888899999999999998843 23334454433332 236899999


Q ss_pred             HHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhCC----CCC--CHHHHHHHHHHHHhcCChhHHHHHHHH
Q 005268          454 QRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNMP----VRP--DASIWGALLGACRIHGNMELGAVASDR  527 (705)
Q Consensus       454 ~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~----~~p--~~~~~~~ll~~~~~~g~~~~a~~~~~~  527 (705)
                      .++|+...+..  +-+...|..+++.+.+.|++++|..+|++.-    ..|  ....|..++......|+.+.|..++++
T Consensus       189 ~~~~~~al~~~--p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~  266 (308)
T 2ond_A          189 FKIFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKR  266 (308)
T ss_dssp             HHHHHHHHHHH--TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHH
T ss_pred             HHHHHHHHHhC--CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            99998887652  2255788888889999999999999998872    244  366888889988999999999999999


Q ss_pred             HhccCCCCcc
Q 005268          528 LFEVDSENVG  537 (705)
Q Consensus       528 ~~~~~p~~~~  537 (705)
                      +++..|+++.
T Consensus       267 a~~~~p~~~~  276 (308)
T 2ond_A          267 RFTAFREEYE  276 (308)
T ss_dssp             HHHHTTTTTS
T ss_pred             HHHHcccccc
Confidence            9999987653

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.30  E-value=1.4e-11  Score=129.62  Aligned_cols=196  Identities=10%  Similarity=0.027  Sum_probs=129.7

Q ss_pred             chhHHhhccCchHHHHHHHHHHHHh----C-CCCchhHHHHHHHHHHhcCC-----------------HHHHHHHHhhCC
Q 005268          338 SILPAYSHVGALRQGIKIHARVIKN----C-LCFDVFVATCLVDMYGKCGR-----------------IDDAMSLFYQVP  395 (705)
Q Consensus       338 ~ll~a~~~~~~~~~a~~~~~~~~~~----g-~~~~~~~~~~li~~y~k~g~-----------------~~~A~~~~~~~~  395 (705)
                      .+...+...|+++.|...+..+++.    + .+....++..+...|...|+                 +++|...|++..
T Consensus       131 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al  210 (411)
T 4a1s_A          131 NLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENL  210 (411)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHH
Confidence            3334444444444444444443332    1 01123455566666667777                 677766665543


Q ss_pred             C-----C----CcchHHHHHHHHHhcCChHHHHHHHHHHHHcCC-CCC----HHHHHHHHHHHhccCcHHHHHHHHHHhH
Q 005268          396 R-----S----SSVPWNAIISCHGIHGQGDKALNFFRQMLDEGV-RPD----HITFVSLLTACSHSGLVSEGQRYFHMMQ  461 (705)
Q Consensus       396 ~-----~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~----~~t~~~ll~a~~~~g~~~~a~~~~~~m~  461 (705)
                      .     .    ....|..+...|...|++++|+..|++..+... .++    ..++..+...+...|++++|.+.++...
T Consensus       211 ~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al  290 (411)
T 4a1s_A          211 KLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTL  290 (411)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHH
Confidence            1     1    123477788888888888888888888876311 012    1267778888999999999999998876


Q ss_pred             HhhCCcC----CcchHHHHHHHHHhcCCHHHHHHHHHhCC-C---CCC----HHHHHHHHHHHHhcCChhHHHHHHHHHh
Q 005268          462 EEFGIKP----HLKHYGCMVDLFGRAGHLGMAHNFIQNMP-V---RPD----ASIWGALLGACRIHGNMELGAVASDRLF  529 (705)
Q Consensus       462 ~~~~~~p----~~~~~~~li~~~~~~g~~~~A~~~~~~~~-~---~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~  529 (705)
                      +...-..    ....+..+...|.+.|++++|...+++.- .   .++    ..++..+...+...|++++|...+++++
T Consensus       291 ~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al  370 (411)
T 4a1s_A          291 ALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAEQHL  370 (411)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence            5421111    14577888899999999999999988762 1   112    4477888899999999999999999998


Q ss_pred             ccCC
Q 005268          530 EVDS  533 (705)
Q Consensus       530 ~~~p  533 (705)
                      ++.+
T Consensus       371 ~~~~  374 (411)
T 4a1s_A          371 QLAX  374 (411)
T ss_dssp             HHCC
T ss_pred             HHHh
Confidence            8765

>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=99.30  E-value=2.4e-11  Score=135.24  Aligned_cols=159  Identities=15%  Similarity=0.219  Sum_probs=110.5

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCC-cchHHHHHH
Q 005268          401 PWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDH-ITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPH-LKHYGCMVD  478 (705)
Q Consensus       401 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~  478 (705)
                      .|+.|...|.+.|++++|++.|++.++  +.|+. .++..+..++.+.|++++|++.|++..+.   .|+ ...|..+..
T Consensus        11 al~nLG~~~~~~G~~~eAi~~~~kAl~--l~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l---~P~~~~a~~nLg~   85 (723)
T 4gyw_A           11 SLNNLANIKREQGNIEEAVRLYRKALE--VFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI---SPTFADAYSNMGN   85 (723)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH--HCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHH
Confidence            466666666667777777777777766  45553 46666667777777777777777766643   443 456777777


Q ss_pred             HHHhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHH
Q 005268          479 LFGRAGHLGMAHNFIQNM-PVRPD-ASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVD  556 (705)
Q Consensus       479 ~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~  556 (705)
                      +|.+.|++++|++.|++. .+.|+ ...|..+...+...|++++|+..++++++++|+++.++..|+.+|...|+|++|.
T Consensus        86 ~l~~~g~~~~A~~~~~kAl~l~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~~~~a~~~L~~~l~~~g~~~~A~  165 (723)
T 4gyw_A           86 TLKEMQDVQGALQCYTRAIQINPAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPDFPDAYCNLAHCLQIVCDWTDYD  165 (723)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCCTTHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHhhhhhHHHhcccHHHHH
Confidence            777777777777777665 33443 5677777777777777777777777777777777777777777777777777777


Q ss_pred             HHHHHHHh
Q 005268          557 EVRSLARD  564 (705)
Q Consensus       557 ~~~~~m~~  564 (705)
                      +.++++.+
T Consensus       166 ~~~~kal~  173 (723)
T 4gyw_A          166 ERMKKLVS  173 (723)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            77766544

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.28  E-value=4.1e-11  Score=121.61  Aligned_cols=133  Identities=14%  Similarity=0.052  Sum_probs=82.7

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCC-CCC----HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCC----cch
Q 005268          402 WNAIISCHGIHGQGDKALNFFRQMLDEGV-RPD----HITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPH----LKH  472 (705)
Q Consensus       402 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~----~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~----~~~  472 (705)
                      +..+...|...|++++|++.+++..+... .++    ..++..+...+...|++++|..+++...+...-.++    ...
T Consensus       186 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  265 (338)
T 3ro2_A          186 FGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQS  265 (338)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHH
Confidence            45555555666666666666665554210 011    125566666777777777777777766543111111    346


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhCC----CCCC----HHHHHHHHHHHHhcCChhHHHHHHHHHhccCCC
Q 005268          473 YGCMVDLFGRAGHLGMAHNFIQNMP----VRPD----ASIWGALLGACRIHGNMELGAVASDRLFEVDSE  534 (705)
Q Consensus       473 ~~~li~~~~~~g~~~~A~~~~~~~~----~~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~  534 (705)
                      +..+...|...|++++|...++++-    ..++    ..+|..+...+...|++++|...+++++++.+.
T Consensus       266 ~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~  335 (338)
T 3ro2_A          266 CYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISRE  335 (338)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC---
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHh
Confidence            6777778888888888877776651    1112    446778888889999999999999998887663

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.25  E-value=3.5e-10  Score=117.59  Aligned_cols=164  Identities=11%  Similarity=0.134  Sum_probs=109.2

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhhCCC-----CCc----chHHHHHHHHHhcCChHHHHHHHHHHHHc----CCCCC-H
Q 005268          369 FVATCLVDMYGKCGRIDDAMSLFYQVPR-----SSS----VPWNAIISCHGIHGQGDKALNFFRQMLDE----GVRPD-H  434 (705)
Q Consensus       369 ~~~~~li~~y~k~g~~~~A~~~~~~~~~-----~~~----~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p~-~  434 (705)
                      .+++.+...|...|++++|...|++..+     .+.    .+|+.+...|...|++++|++.|++..+.    +..|+ .
T Consensus       185 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  264 (383)
T 3ulq_A          185 QCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLP  264 (383)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHH
Confidence            3556666777777777777777765541     111    24677778888888888888888877762    22243 3


Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCC---cchHHHHHHHHHhcCC---HHHHHHHHHhCCCCCC-HHHHHH
Q 005268          435 ITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPH---LKHYGCMVDLFGRAGH---LGMAHNFIQNMPVRPD-ASIWGA  507 (705)
Q Consensus       435 ~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~---~~~~~~li~~~~~~g~---~~~A~~~~~~~~~~p~-~~~~~~  507 (705)
                      .++..+..++...|++++|...++...+...-.++   ...+..+...|...|+   +++|+.++++....|+ ...+..
T Consensus       265 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~~~~~~~~~~~~~  344 (383)
T 3ulq_A          265 QAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESKMLYADLEDFAID  344 (383)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCcCHHHHHHHHHH
Confidence            56777778888888888888888876643211112   2235567777777787   7788888877754443 335666


Q ss_pred             HHHHHHhcCChhHHHHHHHHHhccC
Q 005268          508 LLGACRIHGNMELGAVASDRLFEVD  532 (705)
Q Consensus       508 ll~~~~~~g~~~~a~~~~~~~~~~~  532 (705)
                      +...|...|++++|...+++++++.
T Consensus       345 la~~y~~~g~~~~A~~~~~~al~~~  369 (383)
T 3ulq_A          345 VAKYYHERKNFQKASAYFLKVEQVR  369 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHH
Confidence            7777777777777777777776643

>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=99.24  E-value=6.3e-09  Score=114.37  Aligned_cols=436  Identities=9%  Similarity=-0.018  Sum_probs=269.7

Q ss_pred             ChhHHHHHHHHHHHCCCCCChhhHHhHHHHhhcCCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHccCC---HHHHHH
Q 005268          109 NAVEALDILDEMRLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGM---MRHALR  185 (705)
Q Consensus       109 ~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~---~~~A~~  185 (705)
                      ...+.+..|++.+..+ +-|..+|..++..+.+.+.++.++.+++.+++. ++.....|...+..-.+.|.   ++.+..
T Consensus        47 ~~~d~i~~lE~~l~~n-p~d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~-fP~~~~lW~~Yi~~E~~~~~~~~~~~v~~  124 (679)
T 4e6h_A           47 DESDVIGKLNDMIEEQ-PTDIFLYVKLLKHHVSLKQWKQVYETFDKLHDR-FPLMANIWCMRLSLEFDKMEELDAAVIEP  124 (679)
T ss_dssp             CCSCHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTC--CCCHHHHHH
T ss_pred             CCHHHHHHHHHHHHHC-cCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHhhCCcchHHHHHH
Confidence            3455666666666554 457888999999988888999999999999887 45677788888888888888   999999


Q ss_pred             HHhccCC-----CCeehHHHHHHHHHcCCCh----hh----HHHHHHHHHH-CCC-CCCh-hhHHHHHHHHHc-------
Q 005268          186 VFDQMME-----RDVVSWNSIIAAYEQSNDP----IT----AHGFFTTMQQ-AGI-QPDL-LTLVSLTSIVAQ-------  242 (705)
Q Consensus       186 ~f~~m~~-----~~~~~~~~li~~~~~~g~~----~~----A~~~~~~m~~-~g~-~p~~-~t~~~ll~a~~~-------  242 (705)
                      +|++...     |++..|..-+.-..+.++.    ++    ..++|+.... .|. .|+. ..|...+.-...       
T Consensus       125 lfeRal~~~~~~~sv~LW~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~  204 (679)
T 4e6h_A          125 VLARCLSKELGNNDLSLWLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKF  204 (679)
T ss_dssp             HHHHHTCSSSCCCCHHHHHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHH
T ss_pred             HHHHHHHhcCCCCCHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcH
Confidence            9987754     5666777766554444432    22    3355555432 355 4543 234333333221       


Q ss_pred             --cCChhhHHHHHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHHcCChhHHHHHH
Q 005268          243 --LNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDVISWNTLITGYAQNGLASEAIEVF  320 (705)
Q Consensus       243 --~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~  320 (705)
                        .+..+.++.+|..++... ...-..+|......-...+. ..+.++               +.-  ...+++.|...+
T Consensus       205 eeq~~~~~~R~iy~raL~iP-~~~~~~~w~~Y~~fe~~~~~-~~a~~~---------------~~e--~~~~y~~Ar~~~  265 (679)
T 4e6h_A          205 EEQQRVQYIRKLYKTLLCQP-MDCLESMWQRYTQWEQDVNQ-LTARRH---------------IGE--LSAQYMNARSLY  265 (679)
T ss_dssp             HHHHHHHHHHHHHHHHTTSC-CSSHHHHHHHHHHHHHHHCT-TTHHHH---------------HHH--HHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHhCc-cHHHHHHHHHHHHHHHhcCc-chHHHH---------------HHH--hhHHHHHHHHHH
Confidence              123444555555554321 11111222221111100000 001111               110  011233344444


Q ss_pred             Hhhhhc-CCC---CCCc--------------------ccccchhHHhhccC-------chHHHHHHHHHHHHhCCCCchh
Q 005268          321 QMMEEC-NEI---NPNQ--------------------GTYVSILPAYSHVG-------ALRQGIKIHARVIKNCLCFDVF  369 (705)
Q Consensus       321 ~~m~~~-~~~---~p~~--------------------~t~~~ll~a~~~~~-------~~~~a~~~~~~~~~~g~~~~~~  369 (705)
                      .++... .++   -|..                    ..|...+.---..+       ..+....+|++++.. ++.+..
T Consensus       266 ~e~~~~~~~l~r~~p~~~~~~~~~~~p~~~~~~~~ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~-~p~~~~  344 (679)
T 4e6h_A          266 QDWLNITKGLKRNLPITLNQATESNLPKPNEYDVQQLLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQH-VCFAPE  344 (679)
T ss_dssp             HHHHHHTTTCCCCCCSSSTTCCTTTSCCTTCCCHHHHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHH-TTTCHH
T ss_pred             HHHHHHHHhHhhccccccccchhccCCCCchhHHHHHHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHH-cCCCHH
Confidence            443210 011   1110                    00111111111111       123455678888776 455778


Q ss_pred             HHHHHHHHHHhcCCHHHHH-HHHhhCC---CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCC---------CCC---
Q 005268          370 VATCLVDMYGKCGRIDDAM-SLFYQVP---RSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGV---------RPD---  433 (705)
Q Consensus       370 ~~~~li~~y~k~g~~~~A~-~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~---------~p~---  433 (705)
                      +|-..+..+.+.|+.++|. .+|++..   +.+...|-..+....+.|++++|.++|++++....         .|+   
T Consensus       345 lW~~ya~~~~~~~~~~~a~r~il~rAi~~~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~  424 (679)
T 4e6h_A          345 IWFNMANYQGEKNTDSTVITKYLKLGQQCIPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNES  424 (679)
T ss_dssp             HHHHHHHHHHHHSCCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHH
T ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchh
Confidence            8888888888899999996 9998776   34445588888889999999999999999987410         142   


Q ss_pred             ---------HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcC-CHHHHHHHHHhC--CCCCC
Q 005268          434 ---------HITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAG-HLGMAHNFIQNM--PVRPD  501 (705)
Q Consensus       434 ---------~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g-~~~~A~~~~~~~--~~~p~  501 (705)
                               ...|...+....+.|.++.|+.+|....+.. -.+....|...+.+-.+.| +.+.|..+|+..  ..+.+
T Consensus       425 ~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~-~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~~p~~  503 (679)
T 4e6h_A          425 AINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLK-KLVTPDIYLENAYIEYHISKDTKTACKVLELGLKYFATD  503 (679)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTG-GGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTTC
T ss_pred             hhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhc-CCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCCCc
Confidence                     2357777777788899999999999987641 1223345554444445555 589999999877  23346


Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHHhccCCC---CcchhhhhhhhhhhcCCcchHHHHHHHHHhCCC
Q 005268          502 ASIWGALLGACRIHGNMELGAVASDRLFEVDSE---NVGYYVLMSNIYANVGKWEGVDEVRSLARDRGL  567 (705)
Q Consensus       502 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~---~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  567 (705)
                      ...|...+......|+.+.|..+|++++...|+   ....+...+..-...|..+.+.++.+++.+.-.
T Consensus       504 ~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~P  572 (679)
T 4e6h_A          504 GEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEKFP  572 (679)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHST
T ss_pred             hHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            778889999888999999999999999998873   334566677777788999999999999987643

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.24  E-value=3e-11  Score=125.72  Aligned_cols=224  Identities=9%  Similarity=-0.016  Sum_probs=164.1

Q ss_pred             HHhhccCchHHHHHHHHHHHHh--CCCC---chhHHHHHHHHHHhcCCHHHHHHHHhhCC----C-CC-----cchHHHH
Q 005268          341 PAYSHVGALRQGIKIHARVIKN--CLCF---DVFVATCLVDMYGKCGRIDDAMSLFYQVP----R-SS-----SVPWNAI  405 (705)
Q Consensus       341 ~a~~~~~~~~~a~~~~~~~~~~--g~~~---~~~~~~~li~~y~k~g~~~~A~~~~~~~~----~-~~-----~~~~~~l  405 (705)
                      ..+...|+++.|...+..+.+.  ..+.   ...++..+...|...|++++|...+++..    + .+     ..+++.+
T Consensus       111 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~l  190 (383)
T 3ulq_A          111 MYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHSLF  190 (383)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHHHH
Confidence            3445566777777777666553  1111   24567778888888899888888877654    1 11     2348888


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCC-CCCH----HHHHHHHHHHhccCcHHHHHHHHHHhHHhh---CCcC-CcchHHHH
Q 005268          406 ISCHGIHGQGDKALNFFRQMLDEGV-RPDH----ITFVSLLTACSHSGLVSEGQRYFHMMQEEF---GIKP-HLKHYGCM  476 (705)
Q Consensus       406 i~~~~~~g~~~~A~~~~~~m~~~g~-~p~~----~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~---~~~p-~~~~~~~l  476 (705)
                      ...|...|++++|++.|++.++... .++.    .++..+...|...|++++|.+.++...+..   +..| ...++..+
T Consensus       191 g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l  270 (383)
T 3ulq_A          191 ATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFLI  270 (383)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHHH
Confidence            9999999999999999999886311 1221    378888889999999999999999887521   2213 34678889


Q ss_pred             HHHHHhcCCHHHHHHHHHhCC-C-----CCC-HHHHHHHHHHHHhcCC---hhHHHHHHHHHhccCCCCcchhhhhhhhh
Q 005268          477 VDLFGRAGHLGMAHNFIQNMP-V-----RPD-ASIWGALLGACRIHGN---MELGAVASDRLFEVDSENVGYYVLMSNIY  546 (705)
Q Consensus       477 i~~~~~~g~~~~A~~~~~~~~-~-----~p~-~~~~~~ll~~~~~~g~---~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  546 (705)
                      ...|.+.|++++|...+++.- .     .|. ...+..+...+...|+   +++|...+++. ...|.....+..++.+|
T Consensus       271 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~-~~~~~~~~~~~~la~~y  349 (383)
T 3ulq_A          271 TQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK-MLYADLEDFAIDVAKYY  349 (383)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC-cCHHHHHHHHHHHHHHH
Confidence            999999999999999998762 1     222 2235667778888888   77888888776 33444556788899999


Q ss_pred             hhcCCcchHHHHHHHHHhC
Q 005268          547 ANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       547 ~~~g~~~~a~~~~~~m~~~  565 (705)
                      ...|++++|...+++..+.
T Consensus       350 ~~~g~~~~A~~~~~~al~~  368 (383)
T 3ulq_A          350 HERKNFQKASAYFLKVEQV  368 (383)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHH
Confidence            9999999999999998753

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.22  E-value=9.9e-12  Score=124.90  Aligned_cols=238  Identities=15%  Similarity=0.144  Sum_probs=113.7

Q ss_pred             ChhHHHHHHHHHHHcCChhHHHHHHHhhhhcC------CCCCCcccccchhHHhhccCchHHHHHHHHHHHHh------C
Q 005268          296 DVISWNTLITGYAQNGLASEAIEVFQMMEECN------EINPNQGTYVSILPAYSHVGALRQGIKIHARVIKN------C  363 (705)
Q Consensus       296 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~------~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~------g  363 (705)
                      +..+|..+...|...|++++|+..|+++.+..      ........+..+...+...|++++|...+..+++.      +
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            34678888889999999999999998887610      01112233444555555566666666665555443      1


Q ss_pred             C-CCchhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHc------CCCCC-HH
Q 005268          364 L-CFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQMLDE------GVRPD-HI  435 (705)
Q Consensus       364 ~-~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------g~~p~-~~  435 (705)
                      - +....++..+...|...|++++|...|                               +++.+.      +-.|+ ..
T Consensus       106 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~-------------------------------~~a~~~~~~~~~~~~~~~~~  154 (311)
T 3nf1_A          106 DHPAVAATLNNLAVLYGKRGKYKEAEPLC-------------------------------KRALEIREKVLGKDHPDVAK  154 (311)
T ss_dssp             TCHHHHHHHHHHHHHHHTTTCHHHHHHHH-------------------------------HHHHHHHHHHHCTTCHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHcCcHHHHHHHH-------------------------------HHHHHHHHHhcCCCChHHHH
Confidence            1 112334444445555555555555544                               444432      11121 12


Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHhHHhh-----CCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhCC----------CC
Q 005268          436 TFVSLLTACSHSGLVSEGQRYFHMMQEEF-----GIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNMP----------VR  499 (705)
Q Consensus       436 t~~~ll~a~~~~g~~~~a~~~~~~m~~~~-----~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~----------~~  499 (705)
                      .+..+...+...|++++|.++++.+.+..     +..| ....+..+...|.+.|++++|.+.++++.          ..
T Consensus       155 ~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  234 (311)
T 3nf1_A          155 QLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVD  234 (311)
T ss_dssp             HHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC---
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCC
Confidence            34444444555555555555555443321     0011 12344445555555555555555554431          00


Q ss_pred             CC-------HHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHh
Q 005268          500 PD-------ASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARD  564 (705)
Q Consensus       500 p~-------~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  564 (705)
                      |.       ...+..+...+...+.+.++...+++.....|..+..+..++.+|...|++++|.+++++..+
T Consensus       235 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          235 DENKPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             ---CCHHHHHHHHHHC-------CCSCCCC---------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            11       111122222333444555556666666666666666677777777777777777777766654

>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=99.21  E-value=6.9e-10  Score=101.61  Aligned_cols=167  Identities=11%  Similarity=-0.043  Sum_probs=113.2

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhhCCC---CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHh
Q 005268          369 FVATCLVDMYGKCGRIDDAMSLFYQVPR---SSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACS  445 (705)
Q Consensus       369 ~~~~~li~~y~k~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~  445 (705)
                      ..+..+...|...|++++|...|+++..   .+...|..+...+...|++++|...++++.+.. +.+...+..+...+.
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            4556677778888888888888888763   344557777788888888888888888887742 334556677777777


Q ss_pred             ccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhC-CC-CCCHHHHHHHHHHHHhcCChhHHHH
Q 005268          446 HSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNM-PV-RPDASIWGALLGACRIHGNMELGAV  523 (705)
Q Consensus       446 ~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~ll~~~~~~g~~~~a~~  523 (705)
                      ..|++++|.++++.+.+.  .+.+...+..+...+.+.|++++|.+.++++ .. +.+..+|..+...+...|++++|..
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            788888888888777653  1224455666666667777777777666655 11 2245566666666666777777777


Q ss_pred             HHHHHhccCCCCcch
Q 005268          524 ASDRLFEVDSENVGY  538 (705)
Q Consensus       524 ~~~~~~~~~p~~~~~  538 (705)
                      .++++++..|+++..
T Consensus       166 ~~~~~~~~~~~~~~~  180 (186)
T 3as5_A          166 HFKKANELDEGASVE  180 (186)
T ss_dssp             HHHHHHHHHHCCCGG
T ss_pred             HHHHHHHcCCCchhh
Confidence            777766666655443

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.20  E-value=1.7e-10  Score=123.33  Aligned_cols=178  Identities=11%  Similarity=-0.009  Sum_probs=155.6

Q ss_pred             HHHHHHHHhhCC---CCCcchHHHHHHHHHhcCCh-HHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCcHHHHHHHHH
Q 005268          384 IDDAMSLFYQVP---RSSSVPWNAIISCHGIHGQG-DKALNFFRQMLDEGVRPD-HITFVSLLTACSHSGLVSEGQRYFH  458 (705)
Q Consensus       384 ~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~-~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~  458 (705)
                      ++++...++...   ..+...|..+...|...|++ ++|++.|++.++.  .|+ ...+..+..+|...|++++|.+.|+
T Consensus        84 ~~~al~~l~~~~~~~~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~g~~~~A~~~~~  161 (474)
T 4abn_A           84 MEKTLQQMEEVLGSAQVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKL--EPELVEAWNQLGEVYWKKGDVTSAHTCFS  161 (474)
T ss_dssp             HHHHHHHHHHHHTTCCCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccCchhHHHHHHHHHHHHhccccHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            555666665543   34556689999999999999 9999999999994  565 5789999999999999999999999


Q ss_pred             HhHHhhCCcCCcchHHHHHHHHHhc---------CCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhc--------CChh
Q 005268          459 MMQEEFGIKPHLKHYGCMVDLFGRA---------GHLGMAHNFIQNM-PVRP-DASIWGALLGACRIH--------GNME  519 (705)
Q Consensus       459 ~m~~~~~~~p~~~~~~~li~~~~~~---------g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~--------g~~~  519 (705)
                      ...   .+.|+...+..+...|.+.         |++++|++.+++. ...| +...|..+..++...        |+++
T Consensus       162 ~al---~~~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~~~~g~~~  238 (474)
T 4abn_A          162 GAL---THCKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMDVLDGRSWYILGNAYLSLYFNTGQNPKISQ  238 (474)
T ss_dssp             HHH---TTCCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHTTCCHHHHH
T ss_pred             HHH---hhCCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHhhccccchHH
Confidence            887   4578888899999999999         9999999999987 3344 588999999999998        9999


Q ss_pred             HHHHHHHHHhccCC---CCcchhhhhhhhhhhcCCcchHHHHHHHHHhCC
Q 005268          520 LGAVASDRLFEVDS---ENVGYYVLMSNIYANVGKWEGVDEVRSLARDRG  566 (705)
Q Consensus       520 ~a~~~~~~~~~~~p---~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  566 (705)
                      +|+..++++++++|   +++..+..++.+|...|++++|.+.++++.+..
T Consensus       239 ~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~  288 (474)
T 4abn_A          239 QALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALD  288 (474)
T ss_dssp             HHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            99999999999999   999999999999999999999999999988753

>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=99.20  E-value=4.1e-10  Score=107.55  Aligned_cols=202  Identities=6%  Similarity=-0.010  Sum_probs=114.5

Q ss_pred             cccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCcchHHHHHHHH
Q 005268          333 QGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVP---RSSSVPWNAIISCH  409 (705)
Q Consensus       333 ~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~---~~~~~~~~~li~~~  409 (705)
                      +..+......+...|++++|...+..+++...+++...+..+...|.+.|++++|...|++..   +.+...|..+...|
T Consensus         7 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~   86 (228)
T 4i17_A            7 PNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYNLANAYIGKSAAY   86 (228)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcchHHHHHHHHHHH
Confidence            344555555666666777777777666665433455555556666666666666666666554   22333466666666


Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCC-H-------HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCC---cchHHHHHH
Q 005268          410 GIHGQGDKALNFFRQMLDEGVRPD-H-------ITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPH---LKHYGCMVD  478 (705)
Q Consensus       410 ~~~g~~~~A~~~~~~m~~~g~~p~-~-------~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~---~~~~~~li~  478 (705)
                      ...|++++|+..|++.++.  .|+ .       ..|..+...+...|++++|.+.|+...   .+.|+   ...|..+..
T Consensus        87 ~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al---~~~p~~~~~~~~~~l~~  161 (228)
T 4i17_A           87 RDMKNNQEYIATLTEGIKA--VPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHAT---DVTSKKWKTDALYSLGV  161 (228)
T ss_dssp             HHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT---TSSCHHHHHHHHHHHHH
T ss_pred             HHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHH---hcCCCcccHHHHHHHHH
Confidence            6666666666666666663  343 2       234445555566666666666666554   23443   344555555


Q ss_pred             HHHhcCCH--HHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhh
Q 005268          479 LFGRAGHL--GMAHNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIY  546 (705)
Q Consensus       479 ~~~~~g~~--~~A~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  546 (705)
                      .|...|+.  ++|..+.     ..+...+..+.  ....+++++|+..++++++++|+++.....+..+.
T Consensus       162 ~~~~~~~~~~~~a~~~~-----~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l~p~~~~~~~~l~~i~  224 (228)
T 4i17_A          162 LFYNNGADVLRKATPLA-----SSNKEKYASEK--AKADAAFKKAVDYLGEAVTLSPNRTEIKQMQDQVK  224 (228)
T ss_dssp             HHHHHHHHHHHHHGGGT-----TTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcc-----cCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhcCCCCHHHHHHHHHHH
Confidence            55444432  2221111     11222222222  23344568899999999999998887776666543

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.19  E-value=5.5e-09  Score=104.84  Aligned_cols=209  Identities=11%  Similarity=0.035  Sum_probs=112.1

Q ss_pred             hHHHHHHHHHHhcCCCchhHHHHHHHHHHHh-------cCCH-------HHHHHHHhcCC----CCChhHHHHHHHHHHH
Q 005268          248 NSRSVHGFIMRRGWFMEDVIIGNAVVDMYAK-------LGII-------NSACAVFEGLP----VKDVISWNTLITGYAQ  309 (705)
Q Consensus       248 ~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~-------~g~~-------~~A~~~f~~~~----~~~~~~~~~li~~~~~  309 (705)
                      .+..+++.+++.  .+.++.+|..++..+..       .|++       ++|..+|++..    +.+...|..++..+.+
T Consensus        34 ~a~~~~~~al~~--~p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~  111 (308)
T 2ond_A           34 RVMFAYEQCLLV--LGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  111 (308)
T ss_dssp             HHHHHHHHHHHH--HTTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH--cCCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHh
Confidence            344455555554  35666667666666653       4664       67777776532    2355577777777777


Q ss_pred             cCChhHHHHHHHhhhhcCCCCCCcc--cccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHH-hcCCHHH
Q 005268          310 NGLASEAIEVFQMMEECNEINPNQG--TYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYG-KCGRIDD  386 (705)
Q Consensus       310 ~g~~~~A~~~~~~m~~~~~~~p~~~--t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~-k~g~~~~  386 (705)
                      .|++++|.++|++..+   +.|+..  .|..+...+.+.|+++.|..+++.+++... .+..++........ ..|+.++
T Consensus       112 ~~~~~~A~~~~~~al~---~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p-~~~~~~~~~a~~~~~~~~~~~~  187 (308)
T 2ond_A          112 RMKYEKVHSIYNRLLA---IEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDAR-TRHHVYVTAALMEYYCSKDKSV  187 (308)
T ss_dssp             TTCHHHHHHHHHHHHT---SSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTT-CCTHHHHHHHHHHHHTSCCHHH
T ss_pred             cCCHHHHHHHHHHHHh---ccccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHcCCHHH
Confidence            7777777777777776   555432  455555555556666666666666655421 22233322222211 2355555


Q ss_pred             HHHHHhhCC---CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcC-CCCC--HHHHHHHHHHHhccCcHHHHHHHHHHh
Q 005268          387 AMSLFYQVP---RSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEG-VRPD--HITFVSLLTACSHSGLVSEGQRYFHMM  460 (705)
Q Consensus       387 A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~--~~t~~~ll~a~~~~g~~~~a~~~~~~m  460 (705)
                      |..+|++..   +.+...|..++..+.+.|++++|..+|++.+... +.|+  ...|..++......|+.++|..+++++
T Consensus       188 A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a  267 (308)
T 2ond_A          188 AFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRR  267 (308)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            555555443   2233345555555555555555555555555532 2332  234444444455555555555555555


Q ss_pred             HH
Q 005268          461 QE  462 (705)
Q Consensus       461 ~~  462 (705)
                      .+
T Consensus       268 ~~  269 (308)
T 2ond_A          268 FT  269 (308)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>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=99.19  E-value=2.3e-10  Score=104.84  Aligned_cols=163  Identities=12%  Similarity=0.050  Sum_probs=142.2

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHH
Q 005268          401 PWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLF  480 (705)
Q Consensus       401 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~  480 (705)
                      .|..+...+...|++++|+..|+++.+.. +.+...+..+...+...|++++|..+++.+.+.  .+.+...+..++..+
T Consensus        10 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~   86 (186)
T 3as5_A           10 YYRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLAD--APDNVKVATVLGLTY   86 (186)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHH
Confidence            36778888999999999999999998742 335678888888999999999999999998864  233567888899999


Q ss_pred             HhcCCHHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHH
Q 005268          481 GRAGHLGMAHNFIQNM-P-VRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEV  558 (705)
Q Consensus       481 ~~~g~~~~A~~~~~~~-~-~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~  558 (705)
                      ...|++++|.+.++++ . .+.+...|..+...+...|++++|...++++++..|+++..+..++.+|...|++++|...
T Consensus        87 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~  166 (186)
T 3as5_A           87 VQVQKYDLAVPLLIKVAEANPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPNEGKVHRAIAFSYEQMGRHEEALPH  166 (186)
T ss_dssp             HHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHhcCcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCHHHHHHH
Confidence            9999999999999887 2 3346788999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhCC
Q 005268          559 RSLARDRG  566 (705)
Q Consensus       559 ~~~m~~~~  566 (705)
                      ++.+.+..
T Consensus       167 ~~~~~~~~  174 (186)
T 3as5_A          167 FKKANELD  174 (186)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHcC
Confidence            99987653

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.19  E-value=2.3e-11  Score=122.20  Aligned_cols=242  Identities=11%  Similarity=0.081  Sum_probs=151.0

Q ss_pred             CCchhHHHHHHHHHHHhcCCHHHHHHHHhcCCC--------C---ChhHHHHHHHHHHHcCChhHHHHHHHhhhhcC---
Q 005268          262 FMEDVIIGNAVVDMYAKLGIINSACAVFEGLPV--------K---DVISWNTLITGYAQNGLASEAIEVFQMMEECN---  327 (705)
Q Consensus       262 ~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~--------~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~---  327 (705)
                      .+.+..++..+...|...|++++|..+|++...        .   ...++..+...|...|++++|+..|++.....   
T Consensus        23 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~  102 (311)
T 3nf1_A           23 IPARLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKT  102 (311)
T ss_dssp             SCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHH
Confidence            345677889999999999999999999987653        2   34578889999999999999999999987611   


Q ss_pred             --CCCC-CcccccchhHHhhccCchHHHHHHHHHHHHhC------CCC-chhHHHHHHHHHHhcCCHHHHHHHHhhCCCC
Q 005268          328 --EINP-NQGTYVSILPAYSHVGALRQGIKIHARVIKNC------LCF-DVFVATCLVDMYGKCGRIDDAMSLFYQVPRS  397 (705)
Q Consensus       328 --~~~p-~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g------~~~-~~~~~~~li~~y~k~g~~~~A~~~~~~~~~~  397 (705)
                        +-.| ...++..+...+...|++++|...+..+++..      ..| ...++..+...|.+.|++             
T Consensus       103 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~-------------  169 (311)
T 3nf1_A          103 LGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKY-------------  169 (311)
T ss_dssp             HCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCH-------------
T ss_pred             hCCCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCH-------------
Confidence              1223 34567788888999999999999999887641      111 223344444445455554             


Q ss_pred             CcchHHHHHHHHHhcCChHHHHHHHHHHHHc------CCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHhHHhh------
Q 005268          398 SSVPWNAIISCHGIHGQGDKALNFFRQMLDE------GVRPDH-ITFVSLLTACSHSGLVSEGQRYFHMMQEEF------  464 (705)
Q Consensus       398 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------g~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~------  464 (705)
                                        ++|++.|+++.+.      +-.|+. .++..+..++...|++++|.++++.+.+..      
T Consensus       170 ------------------~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~  231 (311)
T 3nf1_A          170 ------------------EEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFG  231 (311)
T ss_dssp             ------------------HHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC
T ss_pred             ------------------HHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCC
Confidence                              4455444444442      112222 345555566666666666666666655321      


Q ss_pred             CCcCCc-ch------HHHHHHHHHhcCCHHHHHHHHHhCC-CCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCC
Q 005268          465 GIKPHL-KH------YGCMVDLFGRAGHLGMAHNFIQNMP-VRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSE  534 (705)
Q Consensus       465 ~~~p~~-~~------~~~li~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~  534 (705)
                      ...+.. ..      +..+...+...+.+.+|...++... ..| +..+|..+...|...|++++|...+++++++.|+
T Consensus       232 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~~~  310 (311)
T 3nf1_A          232 SVDDENKPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMRSRKQ  310 (311)
T ss_dssp             ------CCHHHHHHHHHHC-------CCSCCCC---------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHC-
T ss_pred             CCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhc
Confidence            111111 11      2222333444555556666666653 233 3568899999999999999999999999988774

>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=99.17  E-value=4.7e-10  Score=107.16  Aligned_cols=187  Identities=12%  Similarity=-0.036  Sum_probs=102.7

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhhCC---C-CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH-HHHHHHH
Q 005268          367 DVFVATCLVDMYGKCGRIDDAMSLFYQVP---R-SSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDH-ITFVSLL  441 (705)
Q Consensus       367 ~~~~~~~li~~y~k~g~~~~A~~~~~~~~---~-~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~t~~~ll  441 (705)
                      |+..+..+...|.+.|++++|...|++..   + ++...|..+..++...|++++|+..|++.++  ..|+. ..+..+.
T Consensus         6 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~l~   83 (228)
T 4i17_A            6 DPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIK--KNYNLANAYIGKS   83 (228)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--TTCSHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHH--hCcchHHHHHHHH
Confidence            44555556666666666666666666544   2 4444455566666666666666666666665  34443 3555555


Q ss_pred             HHHhccCcHHHHHHHHHHhHHhhCCcCC-c-------chHHHHHHHHHhcCCHHHHHHHHHhC-CCCCC---HHHHHHHH
Q 005268          442 TACSHSGLVSEGQRYFHMMQEEFGIKPH-L-------KHYGCMVDLFGRAGHLGMAHNFIQNM-PVRPD---ASIWGALL  509 (705)
Q Consensus       442 ~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~-------~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~---~~~~~~ll  509 (705)
                      .++...|++++|.+.++...+.   .|+ .       ..|..+...+.+.|++++|++.++++ ...|+   ...|..+.
T Consensus        84 ~~~~~~~~~~~A~~~~~~al~~---~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~l~  160 (228)
T 4i17_A           84 AAYRDMKNNQEYIATLTEGIKA---VPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVTSKKWKTDALYSLG  160 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH---STTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSSCHHHHHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHH---CCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcCCCcccHHHHHHHH
Confidence            5666666666666666665543   332 2       23555555556666666666666554 33444   23444454


Q ss_pred             HHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhC
Q 005268          510 GACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       510 ~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      ..+..     .+...++++..+.+.++..|..+  .....+.+++|...+++..+.
T Consensus       161 ~~~~~-----~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~~~~A~~~~~~a~~l  209 (228)
T 4i17_A          161 VLFYN-----NGADVLRKATPLASSNKEKYASE--KAKADAAFKKAVDYLGEAVTL  209 (228)
T ss_dssp             HHHHH-----HHHHHHHHHGGGTTTCHHHHHHH--HHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHH-----HHHHHHHHHHhcccCCHHHHHHH--HHHHHHHHHHHHHHHHHHhhc
Confidence            44433     23334455555544443333222  223345558888888887765

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.16  E-value=5.4e-09  Score=108.07  Aligned_cols=195  Identities=12%  Similarity=0.076  Sum_probs=130.2

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhCCC-------C----CcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCC--C--CHH
Q 005268          371 ATCLVDMYGKCGRIDDAMSLFYQVPR-------S----SSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVR--P--DHI  435 (705)
Q Consensus       371 ~~~li~~y~k~g~~~~A~~~~~~~~~-------~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~--p--~~~  435 (705)
                      +..+...|...|++++|...+++...       +    ....+..+...+...|++++|...+++.......  |  ...
T Consensus        96 ~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  175 (373)
T 1hz4_A           96 LIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQ  175 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHH
Confidence            45566667777777777777765531       1    1123556677778888888888888887764221  1  124


Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHH-----HHHHHHHhcCCHHHHHHHHHhCC-CCCC-----HHH
Q 005268          436 TFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYG-----CMVDLFGRAGHLGMAHNFIQNMP-VRPD-----ASI  504 (705)
Q Consensus       436 t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~-----~li~~~~~~g~~~~A~~~~~~~~-~~p~-----~~~  504 (705)
                      ++..+...+...|++++|...++.......-......+.     ..+..+...|++++|...+++.. ..|.     ...
T Consensus       176 ~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~  255 (373)
T 1hz4_A          176 CLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQ  255 (373)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHH
Confidence            566677778888888888888887765422111111222     23344778899999999888873 2221     235


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHhccCCCC------cchhhhhhhhhhhcCCcchHHHHHHHHHhC
Q 005268          505 WGALLGACRIHGNMELGAVASDRLFEVDSEN------VGYYVLMSNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       505 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~------~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      +..+...+...|++++|...++++++..+..      ...+..++.+|...|+.++|...++.....
T Consensus       256 ~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~~  322 (373)
T 1hz4_A          256 WRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKL  322 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            6677788888899999999998887654321      135667788889999999999888877653

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.06  E-value=2.2e-09  Score=111.32  Aligned_cols=221  Identities=10%  Similarity=-0.028  Sum_probs=134.0

Q ss_pred             hhccCchHHHHHHHHHHHHhC--CC---CchhHHHHHHHHHHhcCCHHHHHHHHhhCCC-----CC-----cchHHHHHH
Q 005268          343 YSHVGALRQGIKIHARVIKNC--LC---FDVFVATCLVDMYGKCGRIDDAMSLFYQVPR-----SS-----SVPWNAIIS  407 (705)
Q Consensus       343 ~~~~~~~~~a~~~~~~~~~~g--~~---~~~~~~~~li~~y~k~g~~~~A~~~~~~~~~-----~~-----~~~~~~li~  407 (705)
                      +...|+++.|...+..+.+..  ..   ....++..+...|...|+++.|...+++...     .+     ..+++.+..
T Consensus       111 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~  190 (378)
T 3q15_A          111 EFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVIAG  190 (378)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHHH
T ss_pred             HHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHHH
Confidence            345566666666666555431  11   1234556666677777777777666655431     11     223667777


Q ss_pred             HHHhcCChHHHHHHHHHHHHc----CCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhh---CCcCCcchHHHHHHH
Q 005268          408 CHGIHGQGDKALNFFRQMLDE----GVRPD-HITFVSLLTACSHSGLVSEGQRYFHMMQEEF---GIKPHLKHYGCMVDL  479 (705)
Q Consensus       408 ~~~~~g~~~~A~~~~~~m~~~----g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~---~~~p~~~~~~~li~~  479 (705)
                      .|...|++++|++.|++.++.    +-.+. ..++..+..++...|++++|.+.++...+..   +.+.....+..+...
T Consensus       191 ~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~  270 (378)
T 3q15_A          191 NYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFGLSWT  270 (378)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHHHHHH
Confidence            777778888888777776652    11111 2356667777778888888888887766511   112224566777778


Q ss_pred             HHhcCCHHHHHHHHHhC----CC--CCC-HHHHHHHHHHHHhcCC---hhHHHHHHHHHhccCCCCcchhhhhhhhhhhc
Q 005268          480 FGRAGHLGMAHNFIQNM----PV--RPD-ASIWGALLGACRIHGN---MELGAVASDRLFEVDSENVGYYVLMSNIYANV  549 (705)
Q Consensus       480 ~~~~g~~~~A~~~~~~~----~~--~p~-~~~~~~ll~~~~~~g~---~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~  549 (705)
                      |.+.|++++|...+++.    +.  .|. ...+..+...+...++   +++|...+++. ...|+....+..++..|...
T Consensus       271 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~-~~~~~~~~~~~~la~~y~~~  349 (378)
T 3q15_A          271 LCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKK-NLHAYIEACARSAAAVFESS  349 (378)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHT
T ss_pred             HHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhC-CChhHHHHHHHHHHHHHHHC
Confidence            88888888888877665    11  122 2344555555556666   66666666652 22233445566788888888


Q ss_pred             CCcchHHHHHHHHHh
Q 005268          550 GKWEGVDEVRSLARD  564 (705)
Q Consensus       550 g~~~~a~~~~~~m~~  564 (705)
                      |++++|.+.+++..+
T Consensus       350 g~~~~A~~~~~~al~  364 (378)
T 3q15_A          350 CHFEQAAAFYRKVLK  364 (378)
T ss_dssp             TCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHH
Confidence            888888888877654

>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=99.06  E-value=8.2e-10  Score=122.90  Aligned_cols=163  Identities=12%  Similarity=0.172  Sum_probs=141.7

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHH
Q 005268          367 DVFVATCLVDMYGKCGRIDDAMSLFYQVP---RSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPD-HITFVSLLT  442 (705)
Q Consensus       367 ~~~~~~~li~~y~k~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~  442 (705)
                      +...++.|...|.+.|++++|++.|++..   ..+...|+.+...|.+.|++++|++.|++.++  +.|+ ...+..+..
T Consensus         8 ~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~--l~P~~~~a~~nLg~   85 (723)
T 4gyw_A            8 HADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIR--ISPTFADAYSNMGN   85 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHH
Confidence            56778889999999999999999998876   44566799999999999999999999999999  5676 468999999


Q ss_pred             HHhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCChh
Q 005268          443 ACSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRPD-ASIWGALLGACRIHGNME  519 (705)
Q Consensus       443 a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~g~~~  519 (705)
                      ++...|++++|++.|++..+.   .| +...|..+..+|.+.|++++|++.|++. .+.|+ ...|..|...+...|+++
T Consensus        86 ~l~~~g~~~~A~~~~~kAl~l---~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~~~~a~~~L~~~l~~~g~~~  162 (723)
T 4gyw_A           86 TLKEMQDVQGALQCYTRAIQI---NPAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPDFPDAYCNLAHCLQIVCDWT  162 (723)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCCT
T ss_pred             HHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHhhhhhHHHhcccHH
Confidence            999999999999999988754   56 4578999999999999999999999887 45564 778999999999999999


Q ss_pred             HHHHHHHHHhccCCC
Q 005268          520 LGAVASDRLFEVDSE  534 (705)
Q Consensus       520 ~a~~~~~~~~~~~p~  534 (705)
                      +|.+.+++++++.|+
T Consensus       163 ~A~~~~~kal~l~~~  177 (723)
T 4gyw_A          163 DYDERMKKLVSIVAD  177 (723)
T ss_dssp             THHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhChh
Confidence            999999999887553

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.05  E-value=1.1e-09  Score=109.13  Aligned_cols=200  Identities=8%  Similarity=-0.020  Sum_probs=137.1

Q ss_pred             chHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCCC-----CC----cchHHHHHHHHHhcCChHHH
Q 005268          348 ALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPR-----SS----SVPWNAIISCHGIHGQGDKA  418 (705)
Q Consensus       348 ~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~g~~~~A  418 (705)
                      ++++|...+..+               ...|...|++++|...|++...     .+    ..+|+.+...|...|++++|
T Consensus        32 ~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A   96 (292)
T 1qqe_A           32 KFEEAADLCVQA---------------ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNA   96 (292)
T ss_dssp             HHHHHHHHHHHH---------------HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             cHHHHHHHHHHH---------------HHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHH
Confidence            366666666654               3356677887777777765541     11    34578888888888999999


Q ss_pred             HHHHHHHHHcCC---CCC--HHHHHHHHHHHhcc-CcHHHHHHHHHHhHHhhCCcCC----cchHHHHHHHHHhcCCHHH
Q 005268          419 LNFFRQMLDEGV---RPD--HITFVSLLTACSHS-GLVSEGQRYFHMMQEEFGIKPH----LKHYGCMVDLFGRAGHLGM  488 (705)
Q Consensus       419 ~~~~~~m~~~g~---~p~--~~t~~~ll~a~~~~-g~~~~a~~~~~~m~~~~~~~p~----~~~~~~li~~~~~~g~~~~  488 (705)
                      +..|++.++...   .+.  ..++..+..+|... |++++|+..|++..+...-..+    ...+..+...|.+.|++++
T Consensus        97 ~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~  176 (292)
T 1qqe_A           97 VDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIE  176 (292)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHH
Confidence            988888876311   111  24778888889886 9999999999988754211111    3468888999999999999


Q ss_pred             HHHHHHhC-CCCCC---H-----HHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcch-----hhhhhhhhh--hcCCc
Q 005268          489 AHNFIQNM-PVRPD---A-----SIWGALLGACRIHGNMELGAVASDRLFEVDSENVGY-----YVLMSNIYA--NVGKW  552 (705)
Q Consensus       489 A~~~~~~~-~~~p~---~-----~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~-----~~~l~~~~~--~~g~~  552 (705)
                      |+..+++. ...|+   .     ..|..+...+...|++++|+..+++.++++|+....     +..++..|.  ..+++
T Consensus       177 A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~l~~l~~~~~~~~~~~~  256 (292)
T 1qqe_A          177 ASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQL  256 (292)
T ss_dssp             HHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTH
T ss_pred             HHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHcCCHHHH
Confidence            99999886 22232   1     156778888999999999999999999999976543     233555553  45677


Q ss_pred             chHHHHHHHH
Q 005268          553 EGVDEVRSLA  562 (705)
Q Consensus       553 ~~a~~~~~~m  562 (705)
                      ++|...++.+
T Consensus       257 ~~A~~~~~~~  266 (292)
T 1qqe_A          257 SEHCKEFDNF  266 (292)
T ss_dssp             HHHHHHHTTS
T ss_pred             HHHHHHhccC
Confidence            7777776543

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.04  E-value=5.1e-08  Score=100.94  Aligned_cols=229  Identities=8%  Similarity=0.049  Sum_probs=159.2

Q ss_pred             HHHHHHcCChhHHHHHHHhhhhcCCCCCC----cccccchhHHhhccCchHHHHHHHHHHHHhC--C---C-CchhHHHH
Q 005268          304 ITGYAQNGLASEAIEVFQMMEECNEINPN----QGTYVSILPAYSHVGALRQGIKIHARVIKNC--L---C-FDVFVATC  373 (705)
Q Consensus       304 i~~~~~~g~~~~A~~~~~~m~~~~~~~p~----~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g--~---~-~~~~~~~~  373 (705)
                      ...+...|++++|+..|++..+...-.++    ..++..+...+...|+++.|...+..+++..  .   . ....+++.
T Consensus       108 g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~  187 (378)
T 3q15_A          108 GMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFV  187 (378)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHH
T ss_pred             HHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHH
Confidence            33455667777777777666541111122    2344555566666777777777766665431  1   1 12446677


Q ss_pred             HHHHHHhcCCHHHHHHHHhhCCC-----CC----cchHHHHHHHHHhcCChHHHHHHHHHHHHc----CCCCCHHHHHHH
Q 005268          374 LVDMYGKCGRIDDAMSLFYQVPR-----SS----SVPWNAIISCHGIHGQGDKALNFFRQMLDE----GVRPDHITFVSL  440 (705)
Q Consensus       374 li~~y~k~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p~~~t~~~l  440 (705)
                      +...|...|++++|...|++..+     .+    ..+++.+...|...|++++|++.|++..+.    +.+....++..+
T Consensus       188 lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l  267 (378)
T 3q15_A          188 IAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFGL  267 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHHH
Confidence            88888888998888888876542     12    234778888999999999999999988871    222225678888


Q ss_pred             HHHHhccCcHHHHHHHHHHhHHhhCCcCC---cchHHHHHHHHHhcCC---HHHHHHHHHhCCCCCC-HHHHHHHHHHHH
Q 005268          441 LTACSHSGLVSEGQRYFHMMQEEFGIKPH---LKHYGCMVDLFGRAGH---LGMAHNFIQNMPVRPD-ASIWGALLGACR  513 (705)
Q Consensus       441 l~a~~~~g~~~~a~~~~~~m~~~~~~~p~---~~~~~~li~~~~~~g~---~~~A~~~~~~~~~~p~-~~~~~~ll~~~~  513 (705)
                      ..++.+.|++++|..+++...+...-.++   ...+..+...|...|+   +++|+..+++....|+ ...+..+...|.
T Consensus       268 a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~~~~~~~~~~~~~la~~y~  347 (378)
T 3q15_A          268 SWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKKNLHAYIEACARSAAAVFE  347 (378)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHH
Confidence            88999999999999999988765322222   2346667777888888   9999999998764444 346678889999


Q ss_pred             hcCChhHHHHHHHHHhccC
Q 005268          514 IHGNMELGAVASDRLFEVD  532 (705)
Q Consensus       514 ~~g~~~~a~~~~~~~~~~~  532 (705)
                      ..|++++|...++++++..
T Consensus       348 ~~g~~~~A~~~~~~al~~~  366 (378)
T 3q15_A          348 SSCHFEQAAAFYRKVLKAQ  366 (378)
T ss_dssp             HTTCHHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHHH
Confidence            9999999999999987643

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.00  E-value=1e-07  Score=98.31  Aligned_cols=192  Identities=12%  Similarity=-0.001  Sum_probs=96.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhcCC-------CC----ChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCC--C--Cc
Q 005268          269 GNAVVDMYAKLGIINSACAVFEGLP-------VK----DVISWNTLITGYAQNGLASEAIEVFQMMEECNEIN--P--NQ  333 (705)
Q Consensus       269 ~~~li~~y~~~g~~~~A~~~f~~~~-------~~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~--p--~~  333 (705)
                      ...+...|...|++++|...+++..       .+    ....+..+...+...|++++|...+++... ....  |  ..
T Consensus        96 ~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~-~~~~~~~~~~~  174 (373)
T 1hz4_A           96 LIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIE-VLSSYQPQQQL  174 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH-HTTTSCGGGGH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH-HhhccCcHHHH
Confidence            4455666666677766666665432       11    123445566666777777777777776654 1110  1  01


Q ss_pred             ccccchhHHhhccCchHHHHHHHHHHHHhCCCCch-hHHH-----HHHHHHHhcCCHHHHHHHHhhCCCCCcc-------
Q 005268          334 GTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDV-FVAT-----CLVDMYGKCGRIDDAMSLFYQVPRSSSV-------  400 (705)
Q Consensus       334 ~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~-~~~~-----~li~~y~k~g~~~~A~~~~~~~~~~~~~-------  400 (705)
                      .++..+...+...|++++|...++........++. ..+.     ..+..+...|++++|...+++....+..       
T Consensus       175 ~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~  254 (373)
T 1hz4_A          175 QCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQG  254 (373)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHH
Confidence            22334444555666666666666665543111110 1111     2233455667777777766666532211       


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHc----CCCCCHH-HHHHHHHHHhccCcHHHHHHHHHHhH
Q 005268          401 PWNAIISCHGIHGQGDKALNFFRQMLDE----GVRPDHI-TFVSLLTACSHSGLVSEGQRYFHMMQ  461 (705)
Q Consensus       401 ~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~m~  461 (705)
                      .+..+...+...|++++|...+++....    |..++.. .+..+..++...|+.++|...++...
T Consensus       255 ~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al  320 (373)
T 1hz4_A          255 QWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDAL  320 (373)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            2344555566666666666666655442    1111111 33333444555555555555555443

>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=98.98  E-value=1.5e-09  Score=106.95  Aligned_cols=198  Identities=15%  Similarity=0.161  Sum_probs=117.5

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhhCCC-------C----CcchHHHHHHHHHhcCChHHHHHHHHHHHHc------C
Q 005268          367 DVFVATCLVDMYGKCGRIDDAMSLFYQVPR-------S----SSVPWNAIISCHGIHGQGDKALNFFRQMLDE------G  429 (705)
Q Consensus       367 ~~~~~~~li~~y~k~g~~~~A~~~~~~~~~-------~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------g  429 (705)
                      ...++..+...|...|++++|...|++...       +    ....|..+...|...|++++|++.|++..+.      .
T Consensus        42 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~  121 (283)
T 3edt_B           42 VATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGK  121 (283)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCC
Confidence            345566666777777777777776665441       1    1233666777777777777777777777653      1


Q ss_pred             CCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhh-----CCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhCC-----
Q 005268          430 VRPD-HITFVSLLTACSHSGLVSEGQRYFHMMQEEF-----GIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNMP-----  497 (705)
Q Consensus       430 ~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~-----~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~-----  497 (705)
                      -.|+ ..++..+...+...|++++|..+++.+.+..     +-.| ....+..+...|.+.|++++|...++++-     
T Consensus       122 ~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~  201 (283)
T 3edt_B          122 FHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEILTRAHE  201 (283)
T ss_dssp             TCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHH
Confidence            1232 3466667777777888888888777766431     0022 23566777777888888888877776551     


Q ss_pred             -----CCCC-HHHHHHHHHHHHhcCC------hhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHh
Q 005268          498 -----VRPD-ASIWGALLGACRIHGN------MELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARD  564 (705)
Q Consensus       498 -----~~p~-~~~~~~ll~~~~~~g~------~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  564 (705)
                           ..|. ...|..+.......+.      +..+...++......|..+..+..++.+|...|++++|..++++..+
T Consensus       202 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          202 KEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPTVNTTLRSLGALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             HHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             hcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence                 1222 2334444433333332      22333333333334455566777888888888998888888887765

>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=5.2e-09  Score=104.06  Aligned_cols=212  Identities=10%  Similarity=-0.036  Sum_probs=133.6

Q ss_pred             CHHHHHHHHhcCCCCChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccccchhHHhhccCchHHHHHHHHHHH
Q 005268          281 IINSACAVFEGLPVKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVI  360 (705)
Q Consensus       281 ~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~  360 (705)
                      ++++|...|++           ....|...|++++|++.|.+..+   +.+             +.|+..          
T Consensus        32 ~~~~A~~~~~~-----------a~~~~~~~g~~~~A~~~~~~al~---~~~-------------~~~~~~----------   74 (292)
T 1qqe_A           32 KFEEAADLCVQ-----------AATIYRLRKELNLAGDSFLKAAD---YQK-------------KAGNED----------   74 (292)
T ss_dssp             HHHHHHHHHHH-----------HHHHHHHTTCTHHHHHHHHHHHH---HHH-------------HTTCHH----------
T ss_pred             cHHHHHHHHHH-----------HHHHHHHcCCHHHHHHHHHHHHH---HHH-------------HhCCHH----------
Confidence            46777666544           36667777888888877777655   110             000000          


Q ss_pred             HhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCCC-----CC----cchHHHHHHHHHhc-CChHHHHHHHHHHHHcCC
Q 005268          361 KNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPR-----SS----SVPWNAIISCHGIH-GQGDKALNFFRQMLDEGV  430 (705)
Q Consensus       361 ~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~-g~~~~A~~~~~~m~~~g~  430 (705)
                           ....+++.+..+|.+.|++++|...|++...     .+    ...|+.+...|... |++++|+..|++.++.  
T Consensus        75 -----~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~--  147 (292)
T 1qqe_A           75 -----EAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEW--  147 (292)
T ss_dssp             -----HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH--
T ss_pred             -----HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHH--
Confidence                 0123444455555555555555555544431     11    23467788888886 8999999998888773  


Q ss_pred             CCC-------HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCc-----chHHHHHHHHHhcCCHHHHHHHHHhC-C
Q 005268          431 RPD-------HITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHL-----KHYGCMVDLFGRAGHLGMAHNFIQNM-P  497 (705)
Q Consensus       431 ~p~-------~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~-----~~~~~li~~~~~~g~~~~A~~~~~~~-~  497 (705)
                      .|+       ..++..+...+...|++++|...|+...+...-.+..     ..|..++.++...|++++|...+++. .
T Consensus       148 ~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~  227 (292)
T 1qqe_A          148 YAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQS  227 (292)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGC
T ss_pred             HHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            221       2467788888999999999999999887642111121     14677788888999999999999887 4


Q ss_pred             CCCCHH------HHHHHHHHHH--hcCChhHHHHHHHHHhccCCCCc
Q 005268          498 VRPDAS------IWGALLGACR--IHGNMELGAVASDRLFEVDSENV  536 (705)
Q Consensus       498 ~~p~~~------~~~~ll~~~~--~~g~~~~a~~~~~~~~~~~p~~~  536 (705)
                      +.|+..      .+..++.++.  ..+++++|+..|+++..++|.+.
T Consensus       228 l~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~~l~~~~~  274 (292)
T 1qqe_A          228 EDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMRLDKWKI  274 (292)
T ss_dssp             C---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSCCCHHHH
T ss_pred             hCCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCCccHHHHH
Confidence            455422      3445556664  34668888888888888888553

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=98.98  E-value=8.1e-09  Score=100.80  Aligned_cols=204  Identities=10%  Similarity=-0.025  Sum_probs=134.7

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhhCCCC---C---cchHHHHHHHHHhcCChHHHHHHHHHHHHcCC-CCC-HHHHH
Q 005268          367 DVFVATCLVDMYGKCGRIDDAMSLFYQVPRS---S---SVPWNAIISCHGIHGQGDKALNFFRQMLDEGV-RPD-HITFV  438 (705)
Q Consensus       367 ~~~~~~~li~~y~k~g~~~~A~~~~~~~~~~---~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~-~~t~~  438 (705)
                      +...+-.+...+.+.|++++|...|+++...   +   ...|..+..+|.+.|++++|+..|++.++... .|. ...+.
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            4555566667777778888888888776532   2   33466677777778888888888888777421 112 23455


Q ss_pred             HHHHHHhc--------cCcHHHHHHHHHHhHHhhCCcCCc-chHHHHHHHHHhcCCHHHHHHHHHhCCCCCCHHHHHHHH
Q 005268          439 SLLTACSH--------SGLVSEGQRYFHMMQEEFGIKPHL-KHYGCMVDLFGRAGHLGMAHNFIQNMPVRPDASIWGALL  509 (705)
Q Consensus       439 ~ll~a~~~--------~g~~~~a~~~~~~m~~~~~~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll  509 (705)
                      .+..++..        .|++++|...|+.+.+.   .|+. .....+.......+.+               ...+..+.
T Consensus        94 ~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~---~p~~~~~~~a~~~~~~~~~~~---------------~~~~~~la  155 (261)
T 3qky_A           94 ERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDR---YPNHELVDDATQKIRELRAKL---------------ARKQYEAA  155 (261)
T ss_dssp             HHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHH---CTTCTTHHHHHHHHHHHHHHH---------------HHHHHHHH
T ss_pred             HHHHHHHHhcccccccchhHHHHHHHHHHHHHH---CcCchhHHHHHHHHHHHHHHH---------------HHHHHHHH
Confidence            55566666        77777777777777654   3432 2222221111110011               11246678


Q ss_pred             HHHHhcCChhHHHHHHHHHhccCCCCc---chhhhhhhhhhhc----------CCcchHHHHHHHHHhCCCccCCceeEE
Q 005268          510 GACRIHGNMELGAVASDRLFEVDSENV---GYYVLMSNIYANV----------GKWEGVDEVRSLARDRGLKKTPGWSSI  576 (705)
Q Consensus       510 ~~~~~~g~~~~a~~~~~~~~~~~p~~~---~~~~~l~~~~~~~----------g~~~~a~~~~~~m~~~~~~~~~~~s~~  576 (705)
                      ..+...|++++|+..++++++..|+++   ..+..++.+|...          |++++|...++.+.+...         
T Consensus       156 ~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~p---------  226 (261)
T 3qky_A          156 RLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFP---------  226 (261)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHCT---------
T ss_pred             HHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHCC---------
Confidence            889999999999999999999999854   4678899999877          899999999999887532         


Q ss_pred             EECCEEEEEEeCCCCCCCcHHHHHHHHHHHHHHHh
Q 005268          577 EVNNKVDIFYTGNRTHPKYEKIYDELRNLTAKMKS  611 (705)
Q Consensus       577 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~m~~  611 (705)
                                    .+|...+....+.++...+.+
T Consensus       227 --------------~~~~~~~a~~~l~~~~~~~~~  247 (261)
T 3qky_A          227 --------------DSPLLRTAEELYTRARQRLTE  247 (261)
T ss_dssp             --------------TCTHHHHHHHHHHHHHHHHHH
T ss_pred             --------------CChHHHHHHHHHHHHHHHHHH
Confidence                          245556666666666666654

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=98.94  E-value=8.4e-10  Score=97.50  Aligned_cols=138  Identities=8%  Similarity=-0.000  Sum_probs=93.2

Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCH
Q 005268          409 HGIHGQGDKALNFFRQMLDEGVRPDH-ITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHL  486 (705)
Q Consensus       409 ~~~~g~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~  486 (705)
                      +...|++++|++.+++...  ..|+. ..+..+...|...|++++|++.|+...+.   .| +...|..+..+|.+.|++
T Consensus         7 ~~~~~~~e~ai~~~~~a~~--~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~---~p~~~~a~~~lg~~~~~~~~~   81 (150)
T 4ga2_A            7 RRSKADVERYIASVQGSTP--SPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINV---QERDPKAHRFLGLLYELEENT   81 (150)
T ss_dssp             CCCHHHHHHHHHHHHHHSC--SHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHcChHHHHHHHHHHhcc--cCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCch
Confidence            3445556666666665544  23332 24445556666666666666666666543   44 345666677777777777


Q ss_pred             HHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHH-HHHHhccCCCCcchhhhhhhhhhhcCC
Q 005268          487 GMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVA-SDRLFEVDSENVGYYVLMSNIYANVGK  551 (705)
Q Consensus       487 ~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~-~~~~~~~~p~~~~~~~~l~~~~~~~g~  551 (705)
                      ++|+..|++. .+.| +..+|..+...+...|+.++|.+. ++++++++|+++.+|.....++...|+
T Consensus        82 ~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A           82 DKAVECYRRSVELNPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFPGSPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTTCHHHHHHHHHHHHTCCC
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCc
Confidence            7777777665 3345 467888888889999988766554 589999999999998888888877775

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=98.91  E-value=1.3e-08  Score=99.31  Aligned_cols=200  Identities=12%  Similarity=0.053  Sum_probs=141.4

Q ss_pred             CcccccchhHHhhccCchHHHHHHHHHHHHhCCCCc---hhHHHHHHHHHHhcCCHHHHHHHHhhCCC--C-C---cchH
Q 005268          332 NQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFD---VFVATCLVDMYGKCGRIDDAMSLFYQVPR--S-S---SVPW  402 (705)
Q Consensus       332 ~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~---~~~~~~li~~y~k~g~~~~A~~~~~~~~~--~-~---~~~~  402 (705)
                      +...+......+...|++++|...++.+++... .+   ...+..+..+|.+.|++++|...|++...  | +   ...+
T Consensus        14 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p-~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~   92 (261)
T 3qky_A           14 SPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGR-THEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAE   92 (261)
T ss_dssp             SHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCS-CSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCC-CCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHH
Confidence            344556667778899999999999999988642 23   56778889999999999999999998863  2 2   2347


Q ss_pred             HHHHHHHHh--------cCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchH
Q 005268          403 NAIISCHGI--------HGQGDKALNFFRQMLDEGVRPDHI-TFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHY  473 (705)
Q Consensus       403 ~~li~~~~~--------~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~  473 (705)
                      ..+..++..        .|++++|+..|++.++.  .|+.. ....+              ..+......     ....+
T Consensus        93 ~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~a~--------------~~~~~~~~~-----~~~~~  151 (261)
T 3qky_A           93 YERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDR--YPNHELVDDAT--------------QKIRELRAK-----LARKQ  151 (261)
T ss_dssp             HHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHH--CTTCTTHHHHH--------------HHHHHHHHH-----HHHHH
T ss_pred             HHHHHHHHHhcccccccchhHHHHHHHHHHHHHH--CcCchhHHHHH--------------HHHHHHHHH-----HHHHH
Confidence            778888888        99999999999999984  46542 22111              111111110     01135


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhC-CCCCC----HHHHHHHHHHHHhc----------CChhHHHHHHHHHhccCCCCcch
Q 005268          474 GCMVDLFGRAGHLGMAHNFIQNM-PVRPD----ASIWGALLGACRIH----------GNMELGAVASDRLFEVDSENVGY  538 (705)
Q Consensus       474 ~~li~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~ll~~~~~~----------g~~~~a~~~~~~~~~~~p~~~~~  538 (705)
                      ..+...|.+.|++++|+..|+++ ...|+    ...+..+..++...          |++++|+..++++++..|+++..
T Consensus       152 ~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~  231 (261)
T 3qky_A          152 YEAARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFPDSPLL  231 (261)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHCTTCTHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHCCCChHH
Confidence            56778888999999999888876 22333    44677777777765          88899999999999999988643


Q ss_pred             ---hhhhhhhhhhcCCcc
Q 005268          539 ---YVLMSNIYANVGKWE  553 (705)
Q Consensus       539 ---~~~l~~~~~~~g~~~  553 (705)
                         ...+..++...|+++
T Consensus       232 ~~a~~~l~~~~~~~~~~~  249 (261)
T 3qky_A          232 RTAEELYTRARQRLTELE  249 (261)
T ss_dssp             HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhh
Confidence               334555554444443

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.89  E-value=6.2e-08  Score=94.51  Aligned_cols=175  Identities=9%  Similarity=0.015  Sum_probs=126.9

Q ss_pred             HHHHHhhCCC---CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHhHH
Q 005268          387 AMSLFYQVPR---SSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDH-ITFVSLLTACSHSGLVSEGQRYFHMMQE  462 (705)
Q Consensus       387 A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~m~~  462 (705)
                      |...|++...   ++..++..+..++...|++++|++++.+.+..|..++. ..+..++..+.+.|+.+.|.+.++.|.+
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            5666666552   34445667778888889999999999888775532343 4667777888899999999999988875


Q ss_pred             hhCCcC-----CcchHHHHHHH--HHhcC--CHHHHHHHHHhCC-CCCCHHHHHHHHHHHHhcCChhHHHHHHHHHhcc-
Q 005268          463 EFGIKP-----HLKHYGCMVDL--FGRAG--HLGMAHNFIQNMP-VRPDASIWGALLGACRIHGNMELGAVASDRLFEV-  531 (705)
Q Consensus       463 ~~~~~p-----~~~~~~~li~~--~~~~g--~~~~A~~~~~~~~-~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~-  531 (705)
                      .   .|     +..+...|+.+  ....|  +.++|..+|+++. ..|+..+-..|++++.+.|++++|+..++.+.+. 
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            4   56     24455555555  33334  8999999998883 3355333344555888999999999999988776 


Q ss_pred             ---------CCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhCC
Q 005268          532 ---------DSENVGYYVLMSNIYANVGKWEGVDEVRSLARDRG  566 (705)
Q Consensus       532 ---------~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  566 (705)
                               +|+|+.++..++.+....|+  +|.++++++.+..
T Consensus       242 p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~  283 (310)
T 3mv2_B          242 YSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLD  283 (310)
T ss_dssp             HHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTT
T ss_pred             ccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhC
Confidence                     48888888777777777886  8889999888763

>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=98.88  E-value=4.4e-08  Score=83.91  Aligned_cols=130  Identities=16%  Similarity=0.245  Sum_probs=74.1

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHH
Q 005268          401 PWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLF  480 (705)
Q Consensus       401 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~  480 (705)
                      .|..+...+...|++++|+.+|+++.+.+ +.+...+..+...+...|++++|..+++.+.+. . +.+...+..++..+
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            35566667777777777777777777642 224455666666667777777777777766543 1 12233445555555


Q ss_pred             HhcCCHHHHHHHHHhC-CC-CCCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCC
Q 005268          481 GRAGHLGMAHNFIQNM-PV-RPDASIWGALLGACRIHGNMELGAVASDRLFEVDS  533 (705)
Q Consensus       481 ~~~g~~~~A~~~~~~~-~~-~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p  533 (705)
                      .+.|++++|.+.++++ .. +.+..+|..+...+...|++++|...++++++.+|
T Consensus        80 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~  134 (136)
T 2fo7_A           80 YKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDP  134 (136)
T ss_dssp             HTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHST
T ss_pred             HHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHHHHccCC
Confidence            5555555555555444 11 12344555555555555555555555555555554

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.86  E-value=5e-08  Score=92.71  Aligned_cols=179  Identities=9%  Similarity=-0.045  Sum_probs=113.3

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhhCCC--CC-c---chHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH----HHH
Q 005268          369 FVATCLVDMYGKCGRIDDAMSLFYQVPR--SS-S---VPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHI----TFV  438 (705)
Q Consensus       369 ~~~~~li~~y~k~g~~~~A~~~~~~~~~--~~-~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~----t~~  438 (705)
                      ..+..+...+.+.|++++|...|+++..  |+ .   ..+..+..+|.+.|++++|+..|++.++.  .|+..    .+.
T Consensus         5 ~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~--~P~~~~~~~a~~   82 (225)
T 2yhc_A            5 NEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRL--NPTHPNIDYVMY   82 (225)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCTTHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--CcCCCcHHHHHH
Confidence            3444556667777888888888877652  22 1   24666777788888888888888888774  34321    333


Q ss_pred             HHHHHHhc------------------cCcHHHHHHHHHHhHHhhCCcCCcc-hHHHHHHHHHhcCCHHHHHHHHHhCCCC
Q 005268          439 SLLTACSH------------------SGLVSEGQRYFHMMQEEFGIKPHLK-HYGCMVDLFGRAGHLGMAHNFIQNMPVR  499 (705)
Q Consensus       439 ~ll~a~~~------------------~g~~~~a~~~~~~m~~~~~~~p~~~-~~~~li~~~~~~g~~~~A~~~~~~~~~~  499 (705)
                      .+..++..                  .|+.++|...|+.+.+.   .|+.. .+..+..    .+.+.+..         
T Consensus        83 ~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~---~P~~~~a~~a~~~----l~~~~~~~---------  146 (225)
T 2yhc_A           83 MRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRG---YPNSQYTTDATKR----LVFLKDRL---------  146 (225)
T ss_dssp             HHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTT---CTTCTTHHHHHHH----HHHHHHHH---------
T ss_pred             HHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHH---CcCChhHHHHHHH----HHHHHHHH---------
Confidence            33333332                  34555555555555432   33221 1111100    00000000         


Q ss_pred             CCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCc---chhhhhhhhhhhcCCcchHHHHHHHHHhCCC
Q 005268          500 PDASIWGALLGACRIHGNMELGAVASDRLFEVDSENV---GYYVLMSNIYANVGKWEGVDEVRSLARDRGL  567 (705)
Q Consensus       500 p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  567 (705)
                        ......+...+...|++++|+..++++++..|+++   .++..++.+|.+.|++++|.+.++.+...+.
T Consensus       147 --~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~  215 (225)
T 2yhc_A          147 --AKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSS  215 (225)
T ss_dssp             --HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCS
T ss_pred             --HHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCC
Confidence              00113456678899999999999999999999876   5688899999999999999999999887754

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=98.85  E-value=8.3e-09  Score=91.03  Aligned_cols=123  Identities=11%  Similarity=0.017  Sum_probs=102.5

Q ss_pred             HHHHHhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcC
Q 005268          440 LLTACSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHG  516 (705)
Q Consensus       440 ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g  516 (705)
                      |...+...|++++|+..++...   ...| +...+-.+...|.+.|++++|++.|++. ...| +..+|..+...+...|
T Consensus         3 LG~~~~~~~~~e~ai~~~~~a~---~~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~   79 (150)
T 4ga2_A            3 LGSMRRSKADVERYIASVQGST---PSPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQERDPKAHRFLGLLYELEE   79 (150)
T ss_dssp             ----CCCHHHHHHHHHHHHHHS---CSHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             hHHHHHHcChHHHHHHHHHHhc---ccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcC
Confidence            3445677889999999888765   3445 3456678899999999999999999987 4455 5789999999999999


Q ss_pred             ChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHH-HHHHHhC
Q 005268          517 NMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEV-RSLARDR  565 (705)
Q Consensus       517 ~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~-~~~m~~~  565 (705)
                      ++++|+..++++++++|+++.++..++.+|.+.|++++|.+. ++++.+.
T Consensus        80 ~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l  129 (150)
T 4ga2_A           80 NTDKAVECYRRSVELNPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKL  129 (150)
T ss_dssp             CHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHh
Confidence            999999999999999999999999999999999999988765 4777664

>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=98.85  E-value=1.1e-08  Score=114.50  Aligned_cols=169  Identities=11%  Similarity=-0.066  Sum_probs=137.6

Q ss_pred             HhcCCHHHHHHHHhhCC-----------CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhc
Q 005268          379 GKCGRIDDAMSLFYQVP-----------RSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPD-HITFVSLLTACSH  446 (705)
Q Consensus       379 ~k~g~~~~A~~~~~~~~-----------~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~  446 (705)
                      ...|++++|.+.|++..           ..+...|..+...|.+.|++++|++.|++.++.  .|+ ...+..+..++..
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDFSESVELPLMEVRALLDLGDVAKATRKLDDLAER--VGWRWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--HCCCHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhcc--CcchHHHHHHHHHHHHH
Confidence            66788999998888765           445566888889999999999999999999984  454 4678888888999


Q ss_pred             cCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHH
Q 005268          447 SGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAV  523 (705)
Q Consensus       447 ~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~  523 (705)
                      .|++++|.+.|++..+.   .| +...|..+..+|.+.|++++ ++.|++. ...| +...|..+..++...|++++|+.
T Consensus       480 ~g~~~~A~~~~~~al~l---~P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~  555 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDT---FPGELAPKLALAATAELAGNTDE-HKFYQTVWSTNDGVISAAFGLARARSAEGDRVGAVR  555 (681)
T ss_dssp             HTCHHHHHHHHHHHHHH---STTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHh---CCCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCCchHHHHHHHHHHHHHcCCHHHHHH
Confidence            99999999999988754   55 45788889999999999999 8888877 3444 57789999999999999999999


Q ss_pred             HHHHHhccCCCCcchhhhhhhhhhhcCCcc
Q 005268          524 ASDRLFEVDSENVGYYVLMSNIYANVGKWE  553 (705)
Q Consensus       524 ~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~  553 (705)
                      .++++++++|++..++..++.+|...|+.+
T Consensus       556 ~~~~al~l~P~~~~a~~~~~~~~~~~~~~~  585 (681)
T 2pzi_A          556 TLDEVPPTSRHFTTARLTSAVTLLSGRSTS  585 (681)
T ss_dssp             HHHTSCTTSTTHHHHHHHHHHHTC------
T ss_pred             HHHhhcccCcccHHHHHHHHHHHHccCCCC
Confidence            999999999999999999999988777633

>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=98.85  E-value=6.3e-08  Score=95.15  Aligned_cols=164  Identities=13%  Similarity=0.152  Sum_probs=103.2

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhhCCC-------C----CcchHHHHHHHHHhcCChHHHHHHHHHHHHc------CC
Q 005268          368 VFVATCLVDMYGKCGRIDDAMSLFYQVPR-------S----SSVPWNAIISCHGIHGQGDKALNFFRQMLDE------GV  430 (705)
Q Consensus       368 ~~~~~~li~~y~k~g~~~~A~~~~~~~~~-------~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------g~  430 (705)
                      ..++..+...|...|++++|...|++...       +    ....|..+...|...|++++|+..|+++.+.      +-
T Consensus        85 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  164 (283)
T 3edt_B           85 AATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPD  164 (283)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTT
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCC
Confidence            34556666666677777777666665531       1    1233677777888888888888888888764      11


Q ss_pred             CCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhh------CCcCC-cchHHHHHHHHHhcC------CHHHHHHHHHhC
Q 005268          431 RPD-HITFVSLLTACSHSGLVSEGQRYFHMMQEEF------GIKPH-LKHYGCMVDLFGRAG------HLGMAHNFIQNM  496 (705)
Q Consensus       431 ~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~------~~~p~-~~~~~~li~~~~~~g------~~~~A~~~~~~~  496 (705)
                      .|+ ..++..+..++...|++++|.++++...+..      ...+. ...+..+...+...+      .+.++...++..
T Consensus       165 ~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  244 (283)
T 3edt_B          165 DPNVAKTKNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKAC  244 (283)
T ss_dssp             CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CC
T ss_pred             CHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhc
Confidence            333 3477788888999999999999998877531      11222 234444444443333      345555555555


Q ss_pred             C-CCCC-HHHHHHHHHHHHhcCChhHHHHHHHHHhcc
Q 005268          497 P-VRPD-ASIWGALLGACRIHGNMELGAVASDRLFEV  531 (705)
Q Consensus       497 ~-~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  531 (705)
                      . ..|+ ..+|..+...+...|++++|...++++++.
T Consensus       245 ~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  281 (283)
T 3edt_B          245 KVDSPTVNTTLRSLGALYRRQGKLEAAHTLEDCASRN  281 (283)
T ss_dssp             CCCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             CCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            3 2233 457888999999999999999999998875

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.84  E-value=3e-08  Score=98.22  Aligned_cols=162  Identities=9%  Similarity=-0.061  Sum_probs=124.5

Q ss_pred             CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHH
Q 005268          397 SSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPD-HITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGC  475 (705)
Q Consensus       397 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~  475 (705)
                      .+...+..+...+.+.|++++|+..|++.++  ..|+ ...+..+..++...|++++|...++.+..   ..|+......
T Consensus       115 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~--~~P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~---~~p~~~~~~~  189 (287)
T 3qou_A          115 REEELXAQQAMQLMQESNYTDALPLLXDAWQ--LSNQNGEIGLLLAETLIALNRSEDAEAVLXTIPL---QDQDTRYQGL  189 (287)
T ss_dssp             CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HTTSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCG---GGCSHHHHHH
T ss_pred             CchhhHHHHHHHHHhCCCHHHHHHHHHHHHH--hCCcchhHHHHHHHHHHHCCCHHHHHHHHHhCch---hhcchHHHHH
Confidence            3344455666777788888888888888888  4564 45777777888888999999888887753   3555433322


Q ss_pred             HH-HHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCC--cchhhhhhhhhhhcC
Q 005268          476 MV-DLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSEN--VGYYVLMSNIYANVG  550 (705)
Q Consensus       476 li-~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~--~~~~~~l~~~~~~~g  550 (705)
                      .. ..+.+.|+.++|...+++. ...| +...+..+...+...|++++|+..++++++.+|++  +..+..|+.+|...|
T Consensus       190 ~~~~~l~~~~~~~~a~~~l~~al~~~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g  269 (287)
T 3qou_A          190 VAQIELLXQAADTPEIQQLQQQVAENPEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALG  269 (287)
T ss_dssp             HHHHHHHHHHTSCHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHC
T ss_pred             HHHHHHHhhcccCccHHHHHHHHhcCCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcC
Confidence            22 2366777788888877766 2344 57789999999999999999999999999999987  778999999999999


Q ss_pred             CcchHHHHHHHHH
Q 005268          551 KWEGVDEVRSLAR  563 (705)
Q Consensus       551 ~~~~a~~~~~~m~  563 (705)
                      +.++|...+++..
T Consensus       270 ~~~~a~~~~r~al  282 (287)
T 3qou_A          270 TGDALASXYRRQL  282 (287)
T ss_dssp             TTCHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHH
Confidence            9999998877654

>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=98.84  E-value=2.8e-08  Score=85.15  Aligned_cols=129  Identities=16%  Similarity=0.198  Sum_probs=112.3

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhC-C-CCCCHHHHHHHHHHHH
Q 005268          436 TFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNM-P-VRPDASIWGALLGACR  513 (705)
Q Consensus       436 t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~ll~~~~  513 (705)
                      .+..+...+...|++++|..+++.+.+. . +.+...+..++..+.+.|++++|...++++ . .+.+...|..+...+.
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~   80 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALEL-D-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYY   80 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHH-C-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHc-C-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCCCchHHHHHHHHHHH
Confidence            4567778889999999999999998764 1 235667888999999999999999999887 2 2345778999999999


Q ss_pred             hcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhCC
Q 005268          514 IHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDRG  566 (705)
Q Consensus       514 ~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  566 (705)
                      ..|++++|...++++++..|+++..+..++.+|...|++++|...++.+.+..
T Consensus        81 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  133 (136)
T 2fo7_A           81 KQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD  133 (136)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHS
T ss_pred             HhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHHHHccC
Confidence            99999999999999999999999999999999999999999999999987653

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.78  E-value=2.2e-07  Score=90.65  Aligned_cols=179  Identities=11%  Similarity=0.098  Sum_probs=130.7

Q ss_pred             HHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCCCC-----CcchHHHHHHHHHhcCChHHHHHHHHHHH
Q 005268          352 GIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRS-----SSVPWNAIISCHGIHGQGDKALNFFRQML  426 (705)
Q Consensus       352 a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~~~-----~~~~~~~li~~~~~~g~~~~A~~~~~~m~  426 (705)
                      +...++..+..+ .++......+..+|...|++++|++++.+....     +...+-.++..+.+.|+.+.|.+.+++|.
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            455666665554 344555567888899999999999999887433     34447778889999999999999999998


Q ss_pred             HcCCCC-----CHHHHHHHHHH--HhccC--cHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhCC
Q 005268          427 DEGVRP-----DHITFVSLLTA--CSHSG--LVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNMP  497 (705)
Q Consensus       427 ~~g~~p-----~~~t~~~ll~a--~~~~g--~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~  497 (705)
                      +  ..|     +..+...+..+  ....|  ++++|..+|+++.+.   .|+......+..++.+.|++++|.+.++.+.
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            8  577     35666666665  33334  899999999998754   4543333444558889999999999987652


Q ss_pred             -C----------CC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcch
Q 005268          498 -V----------RP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGY  538 (705)
Q Consensus       498 -~----------~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~  538 (705)
                       .          .| |+.+.-.++......|+  +|.++++++.+..|++|..
T Consensus       239 ~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~P~hp~i  289 (310)
T 3mv2_B          239 SDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLDHEHAFI  289 (310)
T ss_dssp             SHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTTCCCHHH
T ss_pred             HhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhCCCChHH
Confidence             1          24 45566566666667786  8899999999999988754

>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=98.77  E-value=3.6e-08  Score=89.59  Aligned_cols=76  Identities=9%  Similarity=-0.006  Sum_probs=59.5

Q ss_pred             HHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCC--cchhhhhhhhhhhcCCcchHHHHHHHHHh
Q 005268          489 AHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSEN--VGYYVLMSNIYANVGKWEGVDEVRSLARD  564 (705)
Q Consensus       489 A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~--~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  564 (705)
                      |...+++. ...| +...|..+...+...|++++|+..++++++.+|+.  +..+..++.+|...|+.++|...++....
T Consensus        93 a~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~~y~~al~  172 (176)
T 2r5s_A           93 ELKRLEQELAANPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIASKYRRQLY  172 (176)
T ss_dssp             HHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHHHHHHHHH
Confidence            44445444 2344 47788888889999999999999999999999864  45788899999999999999988877654

>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=98.76  E-value=2.1e-07  Score=87.34  Aligned_cols=162  Identities=9%  Similarity=-0.069  Sum_probs=124.6

Q ss_pred             CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccC----cHHHHHHHHHHhHHhhCCcCCcch
Q 005268          397 SSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSG----LVSEGQRYFHMMQEEFGIKPHLKH  472 (705)
Q Consensus       397 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g----~~~~a~~~~~~m~~~~~~~p~~~~  472 (705)
                      .+...+..+...|...+++++|++.|++..+.|   +...+..|...|.. +    +.++|.++|+...+. |   +...
T Consensus        16 g~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~~-g---~~~a   87 (212)
T 3rjv_A           16 GDRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAEKAVEA-G---SKSG   87 (212)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHHT-T---CHHH
T ss_pred             CCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHC-C---CHHH
Confidence            344556666666777778888888888887755   45566666666766 6    788888888877643 2   4557


Q ss_pred             HHHHHHHHHh----cCCHHHHHHHHHhCC-CCCC---HHHHHHHHHHHHh----cCChhHHHHHHHHHhccCCCCcchhh
Q 005268          473 YGCMVDLFGR----AGHLGMAHNFIQNMP-VRPD---ASIWGALLGACRI----HGNMELGAVASDRLFEVDSENVGYYV  540 (705)
Q Consensus       473 ~~~li~~~~~----~g~~~~A~~~~~~~~-~~p~---~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~p~~~~~~~  540 (705)
                      +..|..+|..    .+++++|++.|++.- ..|+   +..+..|...|..    .++.++|...++++.++ |+++.++.
T Consensus        88 ~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~-~~~~~a~~  166 (212)
T 3rjv_A           88 EIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSL-SRTGYAEY  166 (212)
T ss_dssp             HHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHT-SCTTHHHH
T ss_pred             HHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHc-CCCHHHHH
Confidence            7778888876    789999999998874 3342   7788888888888    78999999999999988 66778889


Q ss_pred             hhhhhhhhc-C-----CcchHHHHHHHHHhCCC
Q 005268          541 LMSNIYANV-G-----KWEGVDEVRSLARDRGL  567 (705)
Q Consensus       541 ~l~~~~~~~-g-----~~~~a~~~~~~m~~~~~  567 (705)
                      .|+.+|... |     ++++|.+.+++..+.|.
T Consensus       167 ~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          167 WAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             HHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCC
Confidence            999998764 3     89999999999988764

>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=98.76  E-value=1.2e-07  Score=95.01  Aligned_cols=219  Identities=11%  Similarity=0.007  Sum_probs=152.0

Q ss_pred             cCChhHHHHHHHhhhhcCCCCCCcccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHH
Q 005268          310 NGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMS  389 (705)
Q Consensus       310 ~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~  389 (705)
                      .|++++|.+++++..+   ..+..  +      +...++++.|...+..+               ...|...|++++|..
T Consensus         4 ~~~~~eA~~~~~~a~k---~~~~~--~------~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~   57 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEK---YLKTS--F------MKWKPDYDSAASEYAKA---------------AVAFKNAKQLEQAKD   57 (307)
T ss_dssp             HHHHHHHHHHHHHHHH---HHCCC--S------SSCSCCHHHHHHHHHHH---------------HHHHHHTTCHHHHHH
T ss_pred             cchHHHHHHHHHHHHH---Hcccc--c------cCCCCCHHHHHHHHHHH---------------HHHHHHcCCHHHHHH
Confidence            4667788888887765   22211  1      11146777777776654               446777888888888


Q ss_pred             HHhhCCC-----CC----cchHHHHHHHHHhcCChHHHHHHHHHHHHcCC---CCC--HHHHHHHHHHHhccCcHHHHHH
Q 005268          390 LFYQVPR-----SS----SVPWNAIISCHGIHGQGDKALNFFRQMLDEGV---RPD--HITFVSLLTACSHSGLVSEGQR  455 (705)
Q Consensus       390 ~~~~~~~-----~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~---~p~--~~t~~~ll~a~~~~g~~~~a~~  455 (705)
                      .|.+...     .+    ...|+.+...|...|++++|+..|++.++.-.   .|.  ..++..+...|.. |++++|+.
T Consensus        58 ~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~  136 (307)
T 2ifu_A           58 AYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVH  136 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHH
Confidence            8776541     11    23488888999999999999999998876311   122  2467788888888 99999999


Q ss_pred             HHHHhHHhhCCcCC----cchHHHHHHHHHhcCCHHHHHHHHHhCC----CCCC----HHHHHHHHHHHHhcCChhHHHH
Q 005268          456 YFHMMQEEFGIKPH----LKHYGCMVDLFGRAGHLGMAHNFIQNMP----VRPD----ASIWGALLGACRIHGNMELGAV  523 (705)
Q Consensus       456 ~~~~m~~~~~~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~~~----~~p~----~~~~~~ll~~~~~~g~~~~a~~  523 (705)
                      .|++..+.+.-..+    ...+..+...|.+.|++++|+..+++.-    ..++    ...|..++..+...|++++|..
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    3578888999999999999999998762    1122    2366677777888899999999


Q ss_pred             HHHHHhccCCCCcch-----hhhhhhhhhhcCCcchHHH
Q 005268          524 ASDRLFEVDSENVGY-----YVLMSNIYANVGKWEGVDE  557 (705)
Q Consensus       524 ~~~~~~~~~p~~~~~-----~~~l~~~~~~~g~~~~a~~  557 (705)
                      .+++.+ ++|+....     ...++..| ..|+.+.+.+
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 99975543     23344444 4566555544

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.71  E-value=1.6e-07  Score=87.90  Aligned_cols=125  Identities=9%  Similarity=0.014  Sum_probs=94.8

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHh
Q 005268          405 IISCHGIHGQGDKALNFFRQMLDEGVRPD-HITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGR  482 (705)
Q Consensus       405 li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~  482 (705)
                      +...|.+.|++++|+..|++.++  +.|+ ...+..+..++...|++++|...|+...+.   .| +...+..+...|..
T Consensus        60 lg~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~---~P~~~~a~~~lg~~~~~  134 (208)
T 3urz_A           60 LALAYKKNRNYDKAYLFYKELLQ--KAPNNVDCLEACAEMQVCRGQEKDALRMYEKILQL---EADNLAANIFLGNYYYL  134 (208)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc---CCCCHHHHHHHHHHHHH
Confidence            88888899999999999999998  4565 467888888899999999999999988754   55 45678888888766


Q ss_pred             cCC--HHHHHHHHHhCCCCCCH--HHHHHHHHHHHhcCChhHHHHHHHHHhccCCCC
Q 005268          483 AGH--LGMAHNFIQNMPVRPDA--SIWGALLGACRIHGNMELGAVASDRLFEVDSEN  535 (705)
Q Consensus       483 ~g~--~~~A~~~~~~~~~~p~~--~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  535 (705)
                      .|.  .+++...+++.. .|+.  ..|..+..++...|++++|+..+++++++.|++
T Consensus       135 ~~~~~~~~~~~~~~~~~-~~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~P~~  190 (208)
T 3urz_A          135 TAEQEKKKLETDYKKLS-SPTKMQYARYRDGLSKLFTTRYEKARNSLQKVILRFPST  190 (208)
T ss_dssp             HHHHHHHHHHHHHC----CCCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTTSCCH
T ss_pred             HhHHHHHHHHHHHHHHh-CCCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCH
Confidence            654  445566666653 3443  345556667778899999999999999999953

>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=98.71  E-value=1.6e-07  Score=105.06  Aligned_cols=188  Identities=11%  Similarity=0.014  Sum_probs=145.3

Q ss_pred             hccCchHHHHHHHHHHH--------HhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCcchHHHHHHHHHhc
Q 005268          344 SHVGALRQGIKIHARVI--------KNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVP---RSSSVPWNAIISCHGIH  412 (705)
Q Consensus       344 ~~~~~~~~a~~~~~~~~--------~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~  412 (705)
                      ...|++++|.+.++.++        +. .+.+...+..+...|.+.|++++|...|++..   ..+...|..+..+|...
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~-~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~  480 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVD-FSESVELPLMEVRALLDLGDVAKATRKLDDLAERVGWRWRLVWYRAVAELLT  480 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------C-CTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccc-cccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcchHHHHHHHHHHHHHc
Confidence            67788888988888887        32 24466778888899999999999999999877   45666789999999999


Q ss_pred             CChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHH
Q 005268          413 GQGDKALNFFRQMLDEGVRPD-HITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAH  490 (705)
Q Consensus       413 g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~  490 (705)
                      |++++|++.|++.++  +.|+ ...+..+..++...|++++ .+.|+...+.   .| +...|..+..+|.+.|++++|+
T Consensus       481 g~~~~A~~~~~~al~--l~P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~---~P~~~~a~~~lg~~~~~~g~~~~A~  554 (681)
T 2pzi_A          481 GDYDSATKHFTEVLD--TFPGELAPKLALAATAELAGNTDE-HKFYQTVWST---NDGVISAAFGLARARSAEGDRVGAV  554 (681)
T ss_dssp             TCHHHHHHHHHHHHH--HSTTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             CCHHHHHHHHHHHHH--hCCCChHHHHHHHHHHHHcCChHH-HHHHHHHHHh---CCchHHHHHHHHHHHHHcCCHHHHH
Confidence            999999999999998  4565 4688888889999999999 9999988754   55 4568889999999999999999


Q ss_pred             HHHHhC-CCCCC-HHHHHHHHHHHHhcCC-----hhHHHHHHHHHhccCCCCcch
Q 005268          491 NFIQNM-PVRPD-ASIWGALLGACRIHGN-----MELGAVASDRLFEVDSENVGY  538 (705)
Q Consensus       491 ~~~~~~-~~~p~-~~~~~~ll~~~~~~g~-----~~~a~~~~~~~~~~~p~~~~~  538 (705)
                      +.|+++ ...|+ ...|..+..++...++     .+...++.+.+..+.++++..
T Consensus       555 ~~~~~al~l~P~~~~a~~~~~~~~~~~~~~~~~~~~~~~~A~~~l~~~~~~~~~~  609 (681)
T 2pzi_A          555 RTLDEVPPTSRHFTTARLTSAVTLLSGRSTSEVTEEQIRDAARRVEALPPTEPRV  609 (681)
T ss_dssp             HHHHTSCTTSTTHHHHHHHHHHHTC-------CCHHHHHHHHHHHHTSCTTSTTH
T ss_pred             HHHHhhcccCcccHHHHHHHHHHHHccCCCCCCCHHHHHHHHHHHhhCCCCcHHH
Confidence            999998 46676 5678778777766555     244444445555555544443

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.71  E-value=3.7e-08  Score=86.55  Aligned_cols=102  Identities=11%  Similarity=0.014  Sum_probs=88.3

Q ss_pred             CCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhh
Q 005268          465 GIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVL  541 (705)
Q Consensus       465 ~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~  541 (705)
                      .+.| +...+..+...+.+.|++++|+..|++. ...| +...|..+..++...|++++|+..|+++++++|+++.++..
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            3445 3456777788888889999999888877 3345 58899999999999999999999999999999999999999


Q ss_pred             hhhhhhhcCCcchHHHHHHHHHhCC
Q 005268          542 MSNIYANVGKWEGVDEVRSLARDRG  566 (705)
Q Consensus       542 l~~~~~~~g~~~~a~~~~~~m~~~~  566 (705)
                      ++.+|...|++++|...+++..+..
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            9999999999999999999998763

>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=98.71  E-value=9.3e-08  Score=104.89  Aligned_cols=158  Identities=13%  Similarity=0.069  Sum_probs=124.1

Q ss_pred             cCCHHHHHHHHhhCCC---CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCcHHHHHHH
Q 005268          381 CGRIDDAMSLFYQVPR---SSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPD-HITFVSLLTACSHSGLVSEGQRY  456 (705)
Q Consensus       381 ~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~  456 (705)
                      .|++++|...|++..+   .+...|..+...|.+.|++++|++.|++..+  ..|+ ...+..+..++...|++++|.+.
T Consensus         2 ~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~lg~~~~~~g~~~~A~~~   79 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHRPQDFVAWLMLADAELGMGDTTAGEMAVQRGLA--LHPGHPEAVARLGRVRWTQQRHAEAAVL   79 (568)
T ss_dssp             -------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHT--TSTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            4789999999998873   3456699999999999999999999999998  4565 56888888999999999999999


Q ss_pred             HHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhc---CChhHHHHHHHHHhc
Q 005268          457 FHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIH---GNMELGAVASDRLFE  530 (705)
Q Consensus       457 ~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~---g~~~~a~~~~~~~~~  530 (705)
                      +++..+.   .| +...+..+..+|.+.|++++|.+.+++. ...| +...|..+...+...   |+.++|...++++++
T Consensus        80 ~~~al~~---~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~  156 (568)
T 2vsy_A           80 LQQASDA---APEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVA  156 (568)
T ss_dssp             HHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHH
T ss_pred             HHHHHhc---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHh
Confidence            9998864   45 4678899999999999999999999887 3344 577899999999999   999999999999999


Q ss_pred             cCCCCcchhhhhh
Q 005268          531 VDSENVGYYVLMS  543 (705)
Q Consensus       531 ~~p~~~~~~~~l~  543 (705)
                      .+|++...+..++
T Consensus       157 ~~p~~~~~~~~l~  169 (568)
T 2vsy_A          157 QGVGAVEPFAFLS  169 (568)
T ss_dssp             HTCCCSCHHHHTT
T ss_pred             cCCcccChHHHhC
Confidence            9999888887776

>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=98.68  E-value=3.4e-08  Score=86.77  Aligned_cols=100  Identities=14%  Similarity=0.104  Sum_probs=84.7

Q ss_pred             CcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhh
Q 005268          466 IKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLM  542 (705)
Q Consensus       466 ~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l  542 (705)
                      +.| +...+..+...+.+.|++++|...|++. ...| +...|..+..++...|++++|+..++++++++|+++..+..+
T Consensus        16 ~~p~~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~l   95 (148)
T 2vgx_A           16 ISSDTLEQLYSLAFNQYQSGXYEDAHXVFQALCVLDHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIXEPRFPFHA   95 (148)
T ss_dssp             CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHH
T ss_pred             CCHhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHcCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHH
Confidence            344 3456667778888888888888888876 2334 678899999999999999999999999999999999999999


Q ss_pred             hhhhhhcCCcchHHHHHHHHHhC
Q 005268          543 SNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       543 ~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      +.+|...|++++|.+.++...+.
T Consensus        96 g~~~~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A           96 AECLLQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHH
Confidence            99999999999999999988765

>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=98.67  E-value=2.1e-07  Score=102.00  Aligned_cols=145  Identities=10%  Similarity=-0.011  Sum_probs=107.4

Q ss_pred             cCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCcchHHHHHHHHHhcCChHHHHHHH
Q 005268          346 VGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVP---RSSSVPWNAIISCHGIHGQGDKALNFF  422 (705)
Q Consensus       346 ~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~  422 (705)
                      .|++++|...++++++.. +.+...+..+...|.+.|++++|.+.|++..   +.+...|..+...|...|++++|++.|
T Consensus         2 ~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~   80 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALHPGHPEAVARLGRVRWTQQRHAEAAVLL   80 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTSTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            477889999999887753 3457788889999999999999999998876   344566888999999999999999999


Q ss_pred             HHHHHcCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhc---CCHHHHHHHHHhC
Q 005268          423 RQMLDEGVRPD-HITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRA---GHLGMAHNFIQNM  496 (705)
Q Consensus       423 ~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~---g~~~~A~~~~~~~  496 (705)
                      ++..+.  .|+ ...+..+..++...|++++|.+.++...+.   .| +...+..+...+...   |+.++|.+.+++.
T Consensus        81 ~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~a  154 (568)
T 2vsy_A           81 QQASDA--APEHPGIALWLGHALEDAGQAEAAAAAYTRAHQL---LPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAA  154 (568)
T ss_dssp             HHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHH
T ss_pred             HHHHhc--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHH
Confidence            999984  454 568888889999999999999999988764   44 456788899999999   9999999999877

>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=98.66  E-value=5.3e-08  Score=97.49  Aligned_cols=197  Identities=11%  Similarity=-0.006  Sum_probs=150.1

Q ss_pred             ccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCcchHHHHHHHHHhcCChHHHHHHHHH
Q 005268          345 HVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQ  424 (705)
Q Consensus       345 ~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  424 (705)
                      ..|++++|.++++++.+.... .         .+...+++++|...|.+           ....|...|++++|+..|.+
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            357888999999888765221 1         11115889999888765           36778899999999999998


Q ss_pred             HHHcCC---CC-C-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCc--C--CcchHHHHHHHHHhcCCHHHHHHHHHh
Q 005268          425 MLDEGV---RP-D-HITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIK--P--HLKHYGCMVDLFGRAGHLGMAHNFIQN  495 (705)
Q Consensus       425 m~~~g~---~p-~-~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~--p--~~~~~~~li~~~~~~g~~~~A~~~~~~  495 (705)
                      ..+...   .| . ..+|..+...|...|++++|...|+...+.+.-.  |  ...++..+..+|.+ |++++|+..+++
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            876311   11 1 2478888889999999999999999876542111  1  13577888899988 999999999987


Q ss_pred             CC-CC---CC----HHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcc------hhhhhhhhhhhcCCcchHHHHHHH
Q 005268          496 MP-VR---PD----ASIWGALLGACRIHGNMELGAVASDRLFEVDSENVG------YYVLMSNIYANVGKWEGVDEVRSL  561 (705)
Q Consensus       496 ~~-~~---p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~------~~~~l~~~~~~~g~~~~a~~~~~~  561 (705)
                      .- +.   .+    ..++..+...+...|++++|+..+++++++.|++..      .+..++.++...|++++|...+++
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            61 11   11    457888999999999999999999999998765432      566678888889999999999998


Q ss_pred             HH
Q 005268          562 AR  563 (705)
Q Consensus       562 m~  563 (705)
                      ..
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=98.66  E-value=2.3e-07  Score=84.22  Aligned_cols=155  Identities=12%  Similarity=0.025  Sum_probs=109.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhCC---CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH-Hhc
Q 005268          371 ATCLVDMYGKCGRIDDAMSLFYQVP---RSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTA-CSH  446 (705)
Q Consensus       371 ~~~li~~y~k~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a-~~~  446 (705)
                      ...+...+.+.|++++|...|++..   +.+...|..+...+...|++++|+..|++....  .|+......+... +..
T Consensus         9 ~~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~--~p~~~~~~~~~~~~~~~   86 (176)
T 2r5s_A            9 LLKQVSELLQQGEHAQALNVIQTLSDELQSRGDVKLAKADCLLETKQFELAQELLATIPLE--YQDNSYKSLIAKLELHQ   86 (176)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSCHHHHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGG--GCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhc--cCChHHHHHHHHHHHHh
Confidence            4455667778888888888888877   345566888888888888888888888887763  4443322221111 112


Q ss_pred             cCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCCC---HHHHHHHHHHHHhcCChhHH
Q 005268          447 SGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRPD---ASIWGALLGACRIHGNMELG  521 (705)
Q Consensus       447 ~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~---~~~~~~ll~~~~~~g~~~~a  521 (705)
                      .+...++...++...+.   .| +...+..+...|.+.|++++|...++++ ...|+   ...|..+...+...|+.++|
T Consensus        87 ~~~~~~a~~~~~~al~~---~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A  163 (176)
T 2r5s_A           87 QAAESPELKRLEQELAA---NPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAI  163 (176)
T ss_dssp             HHTSCHHHHHHHHHHHH---STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHH
T ss_pred             hcccchHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcH
Confidence            22223467777777643   55 4677888888999999999999988876 44554   55788889999999999999


Q ss_pred             HHHHHHHhc
Q 005268          522 AVASDRLFE  530 (705)
Q Consensus       522 ~~~~~~~~~  530 (705)
                      ...|++.+.
T Consensus       164 ~~~y~~al~  172 (176)
T 2r5s_A          164 ASKYRRQLY  172 (176)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999887653

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.65  E-value=1.2e-07  Score=80.64  Aligned_cols=92  Identities=11%  Similarity=0.099  Sum_probs=43.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcC
Q 005268          473 YGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVG  550 (705)
Q Consensus       473 ~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  550 (705)
                      +......|.+.|++++|++.|++. ...| +..+|..+..++...|++++|+..++++++++|+++.+|..++.+|...|
T Consensus        16 ~~~~G~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~   95 (126)
T 4gco_A           16 EKNKGNEYFKKGDYPTAMRHYNEAVKRDPENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGYIRKAACLVAMR   95 (126)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHCC
Confidence            333444444444444444444443 1222 34444444455555555555555555555555555555555555555555


Q ss_pred             CcchHHHHHHHHHh
Q 005268          551 KWEGVDEVRSLARD  564 (705)
Q Consensus       551 ~~~~a~~~~~~m~~  564 (705)
                      ++++|.+.+++..+
T Consensus        96 ~~~~A~~~~~~al~  109 (126)
T 4gco_A           96 EWSKAQRAYEDALQ  109 (126)
T ss_dssp             CHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHH
Confidence            55555555544443

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.64  E-value=4e-07  Score=86.36  Aligned_cols=183  Identities=13%  Similarity=-0.006  Sum_probs=130.4

Q ss_pred             cccchhHHhhccCchHHHHHHHHHHHHhCCCC--chhHHHHHHHHHHhcCCHHHHHHHHhhCCC--CC-cc---hHHHHH
Q 005268          335 TYVSILPAYSHVGALRQGIKIHARVIKNCLCF--DVFVATCLVDMYGKCGRIDDAMSLFYQVPR--SS-SV---PWNAII  406 (705)
Q Consensus       335 t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~--~~~~~~~li~~y~k~g~~~~A~~~~~~~~~--~~-~~---~~~~li  406 (705)
                      .+......+...|++++|...++.+++.....  ....+..+..+|.+.|++++|...|++..+  |+ ..   .|..+.
T Consensus         6 ~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~~g   85 (225)
T 2yhc_A            6 EIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYMRG   85 (225)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHHHH
Confidence            34445667888999999999999999864322  235677889999999999999999998762  22 22   355555


Q ss_pred             HHHHh------------------cCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHhccCcHHHHHHHHHHhHHhhCCc
Q 005268          407 SCHGI------------------HGQGDKALNFFRQMLDEGVRPDHI-TFVSLLTACSHSGLVSEGQRYFHMMQEEFGIK  467 (705)
Q Consensus       407 ~~~~~------------------~g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~  467 (705)
                      .++..                  .|++++|+..|+++++  ..|+.. .......    .      ..+...+.      
T Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~--~~P~~~~a~~a~~~----l------~~~~~~~~------  147 (225)
T 2yhc_A           86 LTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVR--GYPNSQYTTDATKR----L------VFLKDRLA------  147 (225)
T ss_dssp             HHHHHHHC--------------CCHHHHHHHHHHHHHHT--TCTTCTTHHHHHHH----H------HHHHHHHH------
T ss_pred             HHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHH--HCcCChhHHHHHHH----H------HHHHHHHH------
Confidence            55554                  5789999999999998  467653 2221111    0      01111111      


Q ss_pred             CCcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCCC----HHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcch
Q 005268          468 PHLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRPD----ASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGY  538 (705)
Q Consensus       468 p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~  538 (705)
                         .....+...|.+.|++++|+..|+++ ...|+    ...+..+..++.+.|+.++|+..++++....|++...
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               12235678899999999999999887 23344    2468889999999999999999999999999976543

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.63  E-value=2.2e-07  Score=78.88  Aligned_cols=114  Identities=10%  Similarity=-0.015  Sum_probs=88.0

Q ss_pred             CCCCH-HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHH
Q 005268          430 VRPDH-ITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIW  505 (705)
Q Consensus       430 ~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~  505 (705)
                      +.|+. ..+......+.+.|++++|++.|+...+.   .| +...|..+..+|.+.|++++|++.+++. .+.| +...|
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            45553 35666677777778888888887777643   34 4567777778888888888888887776 3344 57789


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhh
Q 005268          506 GALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIY  546 (705)
Q Consensus       506 ~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  546 (705)
                      ..+..++...|++++|+..++++++++|+++.++..|.+++
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            99999999999999999999999999999998887776643

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.62  E-value=6.8e-06  Score=87.54  Aligned_cols=366  Identities=13%  Similarity=0.056  Sum_probs=192.4

Q ss_pred             hCC-ChhHHHHHHHHHHHCCCCCChhhHHhHHHHhhcCCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHccCC-HHHH
Q 005268          106 QSG-NAVEALDILDEMRLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGM-MRHA  183 (705)
Q Consensus       106 ~~g-~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~-~~~A  183 (705)
                      +.| ++..|..+|+.+...  -|.              ++.+.+.++|+..+..  .|++..|...+..-.+.+. .+..
T Consensus         6 ~~~~~i~~aR~vyer~l~~--~P~--------------~~~e~~~~iferal~~--~ps~~LW~~Y~~f~~~~~~~~~~i   67 (493)
T 2uy1_A            6 KMGVELSSPSAIMEHARRL--YMS--------------KDYRSLESLFGRCLKK--SYNLDLWMLYIEYVRKVSQKKFKL   67 (493)
T ss_dssp             ------CCHHHHHHHHHHH--HHT--------------TCHHHHHHHHHHHSTT--CCCHHHHHHHHHHHHHHC----CT
T ss_pred             HcCcchHHHHHHHHHHHHH--CCC--------------CCHHHHHHHHHHHhcc--CCCHHHHHHHHHHHHHhCchHHHH
Confidence            346 377888888887753  233              8899999999999884  4688899888887777663 3445


Q ss_pred             HHHHhccCC------CCeehHHHHHHHHHc----CCChhhHHHHHHHHHHCCCCCChhhHHHHHHHHHc---cCChhhHH
Q 005268          184 LRVFDQMME------RDVVSWNSIIAAYEQ----SNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQ---LNDCRNSR  250 (705)
Q Consensus       184 ~~~f~~m~~------~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~---~~~~~~a~  250 (705)
                      ..+|+....      .+...|...+.-+..    +++.+.+..+|++....  ++.  .+..+-..+..   ..+...+.
T Consensus        68 ~~~fe~al~~vg~d~~s~~iW~~Yi~f~~~~~~~~~~~~~vR~iy~rAL~~--P~~--~~~~lw~~Y~~fE~~~~~~~~~  143 (493)
T 2uy1_A           68 YEVYEFTLGQFENYWDSYGLYKEYIEEEGKIEDEQTRIEKIRNGYMRALQT--PMG--SLSELWKDFENFELELNKITGK  143 (493)
T ss_dssp             HHHHHHHHHHSTTCTTCHHHHHHHHHHTSSCSSHHHHHHHHHHHHHHHHTS--CCT--THHHHHHHHHHHHHHHCHHHHH
T ss_pred             HHHHHHHHHHcCCCcccHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHHhC--hhh--hHHHHHHHHHHHHHHhccccHH
Confidence            566665421      345677777765442    35677888888888763  221  11222222211   11111111


Q ss_pred             HHHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCC----CCChhHHHHHHHHHHHcCC-------hhHHHHH
Q 005268          251 SVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLP----VKDVISWNTLITGYAQNGL-------ASEAIEV  319 (705)
Q Consensus       251 ~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~----~~~~~~~~~li~~~~~~g~-------~~~A~~~  319 (705)
                      .+...                    +.  +.+..|+.+++.+.    ..+...|...+.--..++.       .+.+..+
T Consensus       144 ~~~~~--------------------~~--~~y~~ar~~y~~~~~~~~~~s~~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~  201 (493)
T 2uy1_A          144 KIVGD--------------------TL--PIFQSSFQRYQQIQPLIRGWSVKNAARLIDLEMENGMKLGGRPHESRMHFI  201 (493)
T ss_dssp             HHHHH--------------------HH--HHHHHHHHHHHHHHHHHHTCSHHHHHHHHHHHHTCTTCCCHHHHHHHHHHH
T ss_pred             HHHHH--------------------Hh--HHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhcCCccCcchhhHHHHHHH
Confidence            11111                    00  11222222221111    1133355554443322211       2345566


Q ss_pred             HHhhhhcCCCCC-CcccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHH-HHHHhhCC--
Q 005268          320 FQMMEECNEINP-NQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDA-MSLFYQVP--  395 (705)
Q Consensus       320 ~~~m~~~~~~~p-~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A-~~~~~~~~--  395 (705)
                      |+++..   ..| +...|...+.-+...|+++.|..+++++++.  +.+...+..    |+...+.++. ..+.+...  
T Consensus       202 ye~al~---~~p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l~~~----y~~~~e~~~~~~~l~~~~~~~  272 (493)
T 2uy1_A          202 HNYILD---SFYYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFLSLY----YGLVMDEEAVYGDLKRKYSMG  272 (493)
T ss_dssp             HHHHHH---HTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHHH----HHHHTTCTHHHHHHHHHTC--
T ss_pred             HHHHHH---cCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHHHHH----HHhhcchhHHHHHHHHHHHhh
Confidence            666665   223 3344444555556667777777777777776  333332222    2221111111 11111110  


Q ss_pred             ----------CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH-hccCcHHHHHHHHHHhHHhh
Q 005268          396 ----------RSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTAC-SHSGLVSEGQRYFHMMQEEF  464 (705)
Q Consensus       396 ----------~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~-~~~g~~~~a~~~~~~m~~~~  464 (705)
                                ......|-..+....+.+..+.|..+|++. .. ..++...|......- ...++.+.|+.+|+...+.+
T Consensus       273 ~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~-~~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~  350 (493)
T 2uy1_A          273 EAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GN-EGVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKH  350 (493)
T ss_dssp             --------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TT-SCCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHC
T ss_pred             ccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hC-CCCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC
Confidence                      001123666666666677788888888877 31 112333333222111 12235788888888777653


Q ss_pred             CCcCCcchHHHHHHHHHhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHhc
Q 005268          465 GIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFE  530 (705)
Q Consensus       465 ~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~  530 (705)
                      +-  ++..+...++...+.|+.+.|..+|+++.  .....|...+.--..+|+.+.+..++++..+
T Consensus       351 ~~--~~~~~~~yid~e~~~~~~~~aR~l~er~~--k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          351 PD--STLLKEEFFLFLLRIGDEENARALFKRLE--KTSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             TT--CHHHHHHHHHHHHHHTCHHHHHHHHHHSC--CBHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             CC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHH--HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            22  23345666777777888888888888873  2566777777777777777777777776653

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.58  E-value=2e-06  Score=85.00  Aligned_cols=124  Identities=10%  Similarity=0.043  Sum_probs=86.0

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCcch---HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHH
Q 005268          367 DVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVP---WNAIISCHGIHGQGDKALNFFRQMLDEGVRPD-HITFVSLLT  442 (705)
Q Consensus       367 ~~~~~~~li~~y~k~g~~~~A~~~~~~~~~~~~~~---~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~  442 (705)
                      +...+..+...|.+.|++++|...|+++...+...   +......+...++.++|+..|++..+.  .|+ ...+..+..
T Consensus       150 ~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~~~~~~~l~~~~~~~~a~~~l~~al~~--~P~~~~~~~~la~  227 (287)
T 3qou_A          150 NGEIGLLLAETLIALNRSEDAEAVLXTIPLQDQDTRYQGLVAQIELLXQAADTPEIQQLQQQVAE--NPEDAALATQLAL  227 (287)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGGCSHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHhCchhhcchHHHHHHHHHHHHhhcccCccHHHHHHHHhc--CCccHHHHHHHHH
Confidence            45566778888888888888888888887433322   222233356677788888888888884  454 457777778


Q ss_pred             HHhccCcHHHHHHHHHHhHHhhCCcCC---cchHHHHHHHHHhcCCHHHHHHHHHh
Q 005268          443 ACSHSGLVSEGQRYFHMMQEEFGIKPH---LKHYGCMVDLFGRAGHLGMAHNFIQN  495 (705)
Q Consensus       443 a~~~~g~~~~a~~~~~~m~~~~~~~p~---~~~~~~li~~~~~~g~~~~A~~~~~~  495 (705)
                      ++...|++++|...|..+.+.   .|+   ...+..++.+|...|+.++|...+++
T Consensus       228 ~l~~~g~~~~A~~~l~~~l~~---~p~~~~~~a~~~l~~~~~~~g~~~~a~~~~r~  280 (287)
T 3qou_A          228 QLHQVGRNEEALELLFGHLRX---DLTAADGQTRXTFQEILAALGTGDALASXYRR  280 (287)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH---CTTGGGGHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHhc---ccccccchHHHHHHHHHHHcCCCCcHHHHHHH
Confidence            888888888888888888765   343   44566666666666766666665543

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.57  E-value=4.4e-06  Score=82.33  Aligned_cols=178  Identities=12%  Similarity=0.135  Sum_probs=100.0

Q ss_pred             CHHHHHHHHhhCC---CCCcchHHHHHHHH----Hhc---CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHH-
Q 005268          383 RIDDAMSLFYQVP---RSSSVPWNAIISCH----GIH---GQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVS-  451 (705)
Q Consensus       383 ~~~~A~~~~~~~~---~~~~~~~~~li~~~----~~~---g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~-  451 (705)
                      +++++++.++.+.   +++...|+.-...+    ...   +++++++++++++.+.. +-|...|..-...+.+.|.++ 
T Consensus        84 ~~~eeL~~~~~~L~~nPk~y~aW~~R~~iL~~~~~~l~~~~~~~~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~~~  162 (306)
T 3dra_A           84 NLYDELDWCEEIALDNEKNYQIWNYRQLIIGQIMELNNNDFDPYREFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLHND  162 (306)
T ss_dssp             CHHHHHHHHHHHHHHCTTCCHHHHHHHHHHHHHHHHTTTCCCTHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTC
T ss_pred             cHHHHHHHHHHHHHHCcccHHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccCh
Confidence            5555555555443   23333344433333    333   55666666666666632 223445555555555555555 


Q ss_pred             -HHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCC------HHHHHHHHHhC-CCC-CCHHHHHHHHHHHHhcCChh-H
Q 005268          452 -EGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGH------LGMAHNFIQNM-PVR-PDASIWGALLGACRIHGNME-L  520 (705)
Q Consensus       452 -~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~------~~~A~~~~~~~-~~~-p~~~~~~~ll~~~~~~g~~~-~  520 (705)
                       +++++++.+.+.   .| +...|+.-..++.+.|+      ++++++.++++ ... -|...|+.+...+.+.|+.. .
T Consensus       163 ~~EL~~~~~~i~~---d~~N~sAW~~R~~ll~~l~~~~~~~~~~eEl~~~~~aI~~~p~n~SaW~y~~~ll~~~~~~~~~  239 (306)
T 3dra_A          163 AKELSFVDKVIDT---DLKNNSAWSHRFFLLFSKKHLATDNTIDEELNYVKDKIVKCPQNPSTWNYLLGIHERFDRSITQ  239 (306)
T ss_dssp             HHHHHHHHHHHHH---CTTCHHHHHHHHHHHHSSGGGCCHHHHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCCGGG
T ss_pred             HHHHHHHHHHHHh---CCCCHHHHHHHHHHHHhccccchhhhHHHHHHHHHHHHHhCCCCccHHHHHHHHHHhcCCChHH
Confidence             666666666543   33 33445555555555554      66666666554 222 35667777766666666533 3


Q ss_pred             HHHHHHHHhccC---CCCcchhhhhhhhhhhcCCcchHHHHHHHHHh
Q 005268          521 GAVASDRLFEVD---SENVGYYVLMSNIYANVGKWEGVDEVRSLARD  564 (705)
Q Consensus       521 a~~~~~~~~~~~---p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  564 (705)
                      ...+++++++++   |.++.++..++.+|.+.|+.++|.++++.+.+
T Consensus       240 ~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~~l~~  286 (306)
T 3dra_A          240 LEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYDLLKS  286 (306)
T ss_dssp             GHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHh
Confidence            445666666655   66666666777777777777777777777654

>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=98.57  E-value=6.6e-07  Score=83.88  Aligned_cols=126  Identities=12%  Similarity=0.009  Sum_probs=63.7

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHH
Q 005268          402 WNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFG  481 (705)
Q Consensus       402 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~  481 (705)
                      +..+...+...|++++|+..|++.    +.|+...+..+..++...|++++|.+.|+...+.   .|             
T Consensus         9 ~~~~g~~~~~~~~~~~A~~~~~~a----~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~---~~-------------   68 (213)
T 1hh8_A            9 LWNEGVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINR---DK-------------   68 (213)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CT-------------
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHH----cCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---Cc-------------
Confidence            334444455555555555555544    2344445555555555555555555555544432   12             


Q ss_pred             hcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCc----------------chhhhhhhh
Q 005268          482 RAGHLGMAHNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENV----------------GYYVLMSNI  545 (705)
Q Consensus       482 ~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~----------------~~~~~l~~~  545 (705)
                                        .+...|..+...+...|++++|+..+++++++.|++.                ..+..++.+
T Consensus        69 ------------------~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~  130 (213)
T 1hh8_A           69 ------------------HLAVAYFQRGMLYYQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFM  130 (213)
T ss_dssp             ------------------TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHH
T ss_pred             ------------------cchHHHHHHHHHHHHcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHH
Confidence                              2344455555555555555555555555555554444                445555555


Q ss_pred             hhhcCCcchHHHHHHHHHhC
Q 005268          546 YANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       546 ~~~~g~~~~a~~~~~~m~~~  565 (705)
                      |...|++++|.+.++.+.+.
T Consensus       131 ~~~~g~~~~A~~~~~~al~~  150 (213)
T 1hh8_A          131 YAKKEEWKKAEEQLALATSM  150 (213)
T ss_dssp             HHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHccCHHHHHHHHHHHHHc
Confidence            55555555555555555443

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.57  E-value=8.9e-06  Score=80.12  Aligned_cols=227  Identities=7%  Similarity=0.021  Sum_probs=162.4

Q ss_pred             CChhHHHHHHHhhhhcCCCCCCccc-ccchhHHhhccC--chHHHHHHHHHHHHhCCCCchhHHHHHHHHH----Hhc--
Q 005268          311 GLASEAIEVFQMMEECNEINPNQGT-YVSILPAYSHVG--ALRQGIKIHARVIKNCLCFDVFVATCLVDMY----GKC--  381 (705)
Q Consensus       311 g~~~~A~~~~~~m~~~~~~~p~~~t-~~~ll~a~~~~~--~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y----~k~--  381 (705)
                      ...++|++++..+..   +.|+..| ++.--..+...+  +++++...++.++.... -+..+++---..+    .+.  
T Consensus        47 e~s~~aL~~t~~~L~---~nP~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nP-k~y~aW~~R~~iL~~~~~~l~~  122 (306)
T 3dra_A           47 EYSERALHITELGIN---ELASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNE-KNYQIWNYRQLIIGQIMELNNN  122 (306)
T ss_dssp             CCSHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCT-TCCHHHHHHHHHHHHHHHHTTT
T ss_pred             CCCHHHHHHHHHHHH---HCcHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCc-ccHHHHHHHHHHHHHHHHhccc
Confidence            344577777777776   6665443 344444445555  77777777777776542 2333443333333    444  


Q ss_pred             -CCHHHHHHHHhhCC---CCCcchHHHHHHHHHhcCChH--HHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCc------
Q 005268          382 -GRIDDAMSLFYQVP---RSSSVPWNAIISCHGIHGQGD--KALNFFRQMLDEGVRPDHITFVSLLTACSHSGL------  449 (705)
Q Consensus       382 -g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~--~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~------  449 (705)
                       +++++++.+++.+.   +++...|+--.-.+.+.|.++  ++++.++++++.. .-|...|+.-.....+.+.      
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             78889999988876   566677888888888888888  9999999999964 3355677666666666666      


Q ss_pred             HHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHH-HHHHHHhCC-C----CCCHHHHHHHHHHHHhcCChhHHH
Q 005268          450 VSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGM-AHNFIQNMP-V----RPDASIWGALLGACRIHGNMELGA  522 (705)
Q Consensus       450 ~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~-A~~~~~~~~-~----~p~~~~~~~ll~~~~~~g~~~~a~  522 (705)
                      +++++++++.+...   .| |...|+.+..++.+.|+..+ +.++..+.- .    ..+...+..+...+.+.|+.++|.
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            89999999888754   45 66788888889999988554 556777652 1    246788999999999999999999


Q ss_pred             HHHHHHhc-cCCCCcchhhhhhhh
Q 005268          523 VASDRLFE-VDSENVGYYVLMSNI  545 (705)
Q Consensus       523 ~~~~~~~~-~~p~~~~~~~~l~~~  545 (705)
                      ++++.+.+ .+|.....+...++.
T Consensus       279 ~~~~~l~~~~Dpir~~yW~~~~~~  302 (306)
T 3dra_A          279 TVYDLLKSKYNPIRSNFWDYQISK  302 (306)
T ss_dssp             HHHHHHHHTTCGGGHHHHHHHHHT
T ss_pred             HHHHHHHhccChHHHHHHHHHHhh
Confidence            99999996 899877766655443

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.56  E-value=3.2e-07  Score=79.88  Aligned_cols=95  Identities=15%  Similarity=0.041  Sum_probs=80.4

Q ss_pred             chHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhh
Q 005268          471 KHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYAN  548 (705)
Q Consensus       471 ~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  548 (705)
                      ..+..+...+.+.|++++|...|++. ...| +...|..+...+...|++++|+..++++++++|+++..+..++.+|..
T Consensus        19 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~   98 (142)
T 2xcb_A           19 EQLYALGFNQYQAGKWDDAQKIFQALCMLDHYDARYFLGLGACRQSLGLYEQALQSYSYGALMDINEPRFPFHAAECHLQ   98 (142)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHH
Confidence            45556667778888888888888776 2334 677888999999999999999999999999999999999999999999


Q ss_pred             cCCcchHHHHHHHHHhC
Q 005268          549 VGKWEGVDEVRSLARDR  565 (705)
Q Consensus       549 ~g~~~~a~~~~~~m~~~  565 (705)
                      .|++++|.+.++...+.
T Consensus        99 ~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           99 LGDLDGAESGFYSARAL  115 (142)
T ss_dssp             TTCHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHh
Confidence            99999999999988765

>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=98.56  E-value=2.7e-06  Score=84.27  Aligned_cols=161  Identities=6%  Similarity=-0.038  Sum_probs=120.4

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCC-CCCHH----HHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCc----chHH
Q 005268          404 AIISCHGIHGQGDKALNFFRQMLDEGV-RPDHI----TFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHL----KHYG  474 (705)
Q Consensus       404 ~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~~----t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~----~~~~  474 (705)
                      ..+..+...|++++|..++++..+... .|+..    .+..+...+...|++++|...|+...+...-.++.    ..++
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            346677888999999999999887321 22211    23345666777889999999999888632222232    2688


Q ss_pred             HHHHHHHhcCCHHHHHHHHHhCC-----C--C-CC-HHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCC------cchh
Q 005268          475 CMVDLFGRAGHLGMAHNFIQNMP-----V--R-PD-ASIWGALLGACRIHGNMELGAVASDRLFEVDSEN------VGYY  539 (705)
Q Consensus       475 ~li~~~~~~g~~~~A~~~~~~~~-----~--~-p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~------~~~~  539 (705)
                      .+...|...|++++|+..++++-     .  . |. ..++..+...|...|++++|...+++++++.+..      +..|
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            89999999999999998887762     1  1 22 3478899999999999999999999999875433      4567


Q ss_pred             hhhhhhhhhcCC-cchHHHHHHHHHh
Q 005268          540 VLMSNIYANVGK-WEGVDEVRSLARD  564 (705)
Q Consensus       540 ~~l~~~~~~~g~-~~~a~~~~~~m~~  564 (705)
                      ..++.+|...|+ +++|.+.++++..
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            889999999995 5999999988764

>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=98.55  E-value=1.4e-07  Score=92.98  Aligned_cols=191  Identities=12%  Similarity=0.000  Sum_probs=126.7

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHH
Q 005268          367 DVFVATCLVDMYGKCGRIDDAMSLFYQVP---RSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPD-HITFVSLLT  442 (705)
Q Consensus       367 ~~~~~~~li~~y~k~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~  442 (705)
                      +...+..+...|.+.|++++|...|++..   +.+...|..+..+|...|++++|+..+++.++  +.|+ ...+..+..
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~lg~   80 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALE--LDGQSVKAHFFLGQ   80 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTT--SCTTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHH--hCCCCHHHHHHHHH
Confidence            34556667777788888888888887665   34556688888888888888888888888887  4554 457777778


Q ss_pred             HHhccCcHHHHHHHHHHhHHhhCCcCCc-chHHHHHHHHHhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHH
Q 005268          443 ACSHSGLVSEGQRYFHMMQEEFGIKPHL-KHYGCMVDLFGRAGHLGMAHNFIQNMPVRPDASIWGALLGACRIHGNMELG  521 (705)
Q Consensus       443 a~~~~g~~~~a~~~~~~m~~~~~~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a  521 (705)
                      ++...|++++|...|+...+.   .|+. ..+...+....+.++...... .......++..+...+. .+ ..|+.++|
T Consensus        81 ~~~~~g~~~~A~~~~~~al~l---~p~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~i~~~l~-~l-~~~~~~~A  154 (281)
T 2c2l_A           81 CQLEMESYDEAIANLQRAYSL---AKEQRLNFGDDIPSALRIAKKKRWNS-IEERRIHQESELHSYLT-RL-IAAERERE  154 (281)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH---HHHTTCCCCSHHHHHHHHHHHHHHHH-HHHTCCCCCCHHHHHHH-HH-HHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHh---CccchhhHHHHHHHHHHHHHHHHHHH-HHHHHHhhhHHHHHHHH-HH-HHHHHHHH
Confidence            888888899988888877653   2321 111112222222221111111 22223334444444442 22 36888999


Q ss_pred             HHHHHHHhccCCCCcchhhhhhhhhhhc-CCcchHHHHHHHHHhC
Q 005268          522 AVASDRLFEVDSENVGYYVLMSNIYANV-GKWEGVDEVRSLARDR  565 (705)
Q Consensus       522 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~-g~~~~a~~~~~~m~~~  565 (705)
                      .+.++++++++|++......+...+... +++++|.++|.++.+.
T Consensus       155 ~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~~  199 (281)
T 2c2l_A          155 LEECQRNHEGHEDDGHIRAQQACIEAKHDKYMADMDELFSQVDEK  199 (281)
T ss_dssp             HTTTSGGGTTTSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSCT
T ss_pred             HHHHHhhhccccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence            9999999999998877777777777766 7788999999887653

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.55  E-value=8.3e-07  Score=88.06  Aligned_cols=163  Identities=7%  Similarity=-0.044  Sum_probs=118.9

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH-----HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCC----cch
Q 005268          402 WNAIISCHGIHGQGDKALNFFRQMLDEGVRPDH-----ITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPH----LKH  472 (705)
Q Consensus       402 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-----~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~----~~~  472 (705)
                      +...+..+...|++++|++.+++..+.....+.     ..+..+...+...|++++|...++...+...-..+    ...
T Consensus        78 l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~  157 (293)
T 2qfc_A           78 FKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYI  157 (293)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHHH
Confidence            455667778888999999998888874321111     12334455667788999999998877643111112    347


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhCC----CCCC-----HHHHHHHHHHHHhcCChhHHHHHHHHHhccCCC------Ccc
Q 005268          473 YGCMVDLFGRAGHLGMAHNFIQNMP----VRPD-----ASIWGALLGACRIHGNMELGAVASDRLFEVDSE------NVG  537 (705)
Q Consensus       473 ~~~li~~~~~~g~~~~A~~~~~~~~----~~p~-----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~------~~~  537 (705)
                      |+.+...|...|++++|...++++-    ..|+     ..++..+...|...|++++|...+++++++.++      -..
T Consensus       158 ~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~~  237 (293)
T 2qfc_A          158 ENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQ  237 (293)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHHH
Confidence            8888899999999999998887752    1222     258889999999999999999999999876532      145


Q ss_pred             hhhhhhhhhhhcCCcchH-HHHHHHHHh
Q 005268          538 YYVLMSNIYANVGKWEGV-DEVRSLARD  564 (705)
Q Consensus       538 ~~~~l~~~~~~~g~~~~a-~~~~~~m~~  564 (705)
                      +|..++.+|...|++++| ...+++...
T Consensus       238 ~~~~lg~~y~~~g~~~~Ai~~~~~~Al~  265 (293)
T 2qfc_A          238 LYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCcHHHHHHHHHHHHH
Confidence            678899999999999999 777777654

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.55  E-value=7.2e-07  Score=83.41  Aligned_cols=185  Identities=14%  Similarity=0.027  Sum_probs=120.4

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHH
Q 005268          300 WNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYG  379 (705)
Q Consensus       300 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~  379 (705)
                      +-.....+...|++++|+..|++..+   ..|+........ .   ...              .........+.+...|.
T Consensus         7 ~~~~g~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~~~~-~---~~~--------------~~~~~~~~~~~lg~~~~   65 (208)
T 3urz_A            7 MLQKVSAAIEAGQNGQAVSYFRQTIA---LNIDRTEMYYWT-N---VDK--------------NSEISSKLATELALAYK   65 (208)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH---HCHHHHHHHHHH-H---SCT--------------TSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHH---hCCCChHHHHHh-h---hcc--------------hhhhhHHHHHHHHHHHH
Confidence            33445566778888888888888877   555432110000 0   000              00112223445778888


Q ss_pred             hcCCHHHHHHHHhhCC---CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCc--HHHH
Q 005268          380 KCGRIDDAMSLFYQVP---RSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPD-HITFVSLLTACSHSGL--VSEG  453 (705)
Q Consensus       380 k~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~--~~~a  453 (705)
                      +.|++++|...|++..   +.+...|..+...|...|++++|+..|++.++  +.|+ ..++..+..++...|.  .+.+
T Consensus        66 ~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~--~~P~~~~a~~~lg~~~~~~~~~~~~~~  143 (208)
T 3urz_A           66 KNRNYDKAYLFYKELLQKAPNNVDCLEACAEMQVCRGQEKDALRMYEKILQ--LEADNLAANIFLGNYYYLTAEQEKKKL  143 (208)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--cCCCCHHHHHHHHHHHHHHhHHHHHHH
Confidence            9999999999998776   45566788899999999999999999999998  4565 4577777777765554  3444


Q ss_pred             HHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCCCHHHHHHHHH
Q 005268          454 QRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRPDASIWGALLG  510 (705)
Q Consensus       454 ~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~ll~  510 (705)
                      ...++...   ...|....+..+...+...|++++|...|++. ...|+......+..
T Consensus       144 ~~~~~~~~---~~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~P~~~~~~~l~~  198 (208)
T 3urz_A          144 ETDYKKLS---SPTKMQYARYRDGLSKLFTTRYEKARNSLQKVILRFPSTEAQKTLDK  198 (208)
T ss_dssp             HHHHC------CCCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTTSCCHHHHHHHHH
T ss_pred             HHHHHHHh---CCCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCHHHHHHHHH
Confidence            55554432   22232234445566777789999999999887 67788776665554

>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=98.53  E-value=2.7e-06  Score=79.55  Aligned_cols=145  Identities=8%  Similarity=-0.080  Sum_probs=109.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcH
Q 005268          371 ATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLV  450 (705)
Q Consensus       371 ~~~li~~y~k~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~  450 (705)
                      +..+...|.+.|++++|...|++...++...|..+...|...|++++|+..|++.++.. +.+...+..+..++...|++
T Consensus         9 ~~~~g~~~~~~~~~~~A~~~~~~a~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~   87 (213)
T 1hh8_A            9 LWNEGVLAADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKY   87 (213)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHcCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcccH
Confidence            44567778899999999999999988888889999999999999999999999999853 33456888888899999999


Q ss_pred             HHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCChhHHHHHHHHHh
Q 005268          451 SEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNMPVRPD-ASIWGALLGACRIHGNMELGAVASDRLF  529 (705)
Q Consensus       451 ~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~  529 (705)
                      ++|.+.|+...+.   .|+.....     +...|           +...|+ ...|..+...+...|++++|...+++++
T Consensus        88 ~~A~~~~~~al~~---~~~~~~~~-----~~~~~-----------~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al  148 (213)
T 1hh8_A           88 DLAIKDLKEALIQ---LRGNQLID-----YKILG-----------LQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALAT  148 (213)
T ss_dssp             HHHHHHHHHHHHT---TTTCSEEE-----CGGGT-----------BCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh---CCCccHHH-----HHHhc-----------cccCccchHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            9999999988764   23211000     00000           012333 4567777778888888888888888888


Q ss_pred             ccCCCC
Q 005268          530 EVDSEN  535 (705)
Q Consensus       530 ~~~p~~  535 (705)
                      ++.|++
T Consensus       149 ~~~p~~  154 (213)
T 1hh8_A          149 SMKSEP  154 (213)
T ss_dssp             TTCCSG
T ss_pred             HcCccc
Confidence            888765

>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=98.47  E-value=3.3e-06  Score=79.15  Aligned_cols=173  Identities=6%  Similarity=-0.096  Sum_probs=131.2

Q ss_pred             HHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCCC-CCcchHHHHHHHHHhcC----ChHHHHHHHHHH
Q 005268          351 QGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPR-SSSVPWNAIISCHGIHG----QGDKALNFFRQM  425 (705)
Q Consensus       351 ~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~~g----~~~~A~~~~~~m  425 (705)
                      +|.+.+....+.|   ++..+..|..+|...+++++|...|++..+ .+...+..|...|.. +    ++++|+++|++.
T Consensus         4 eA~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A   79 (212)
T 3rjv_A            4 EPGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQGDGDALALLAQLKIR-NPQQADYPQARQLAEKA   79 (212)
T ss_dssp             CTTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCHHHHHHHHHHTTS-STTSCCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHH
Confidence            3455666666654   666777788888888899999888887763 455567777777777 6    889999999999


Q ss_pred             HHcCCCCCHHHHHHHHHHHhc----cCcHHHHHHHHHHhHHhhCCcCC---cchHHHHHHHHHh----cCCHHHHHHHHH
Q 005268          426 LDEGVRPDHITFVSLLTACSH----SGLVSEGQRYFHMMQEEFGIKPH---LKHYGCMVDLFGR----AGHLGMAHNFIQ  494 (705)
Q Consensus       426 ~~~g~~p~~~t~~~ll~a~~~----~g~~~~a~~~~~~m~~~~~~~p~---~~~~~~li~~~~~----~g~~~~A~~~~~  494 (705)
                      .+.|   +...+..|...|..    .+++++|.++|+...+   ..|.   +..+..|..+|..    .+++++|+..|+
T Consensus        80 ~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~---~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~  153 (212)
T 3rjv_A           80 VEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAAR---DSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFK  153 (212)
T ss_dssp             HHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTS---STTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHH
T ss_pred             HHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHH---cCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHH
Confidence            8755   55667777777776    7899999999988763   3442   6788888888888    789999999998


Q ss_pred             hCC-CCCCHHHHHHHHHHHHhc-C-----ChhHHHHHHHHHhccCC
Q 005268          495 NMP-VRPDASIWGALLGACRIH-G-----NMELGAVASDRLFEVDS  533 (705)
Q Consensus       495 ~~~-~~p~~~~~~~ll~~~~~~-g-----~~~~a~~~~~~~~~~~p  533 (705)
                      +.- ..++...+..|...|... |     |.++|...++++.+..+
T Consensus       154 ~A~~~~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          154 GSSSLSRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             HHHHTSCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTC
T ss_pred             HHHHcCCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCC
Confidence            873 334666777787777653 3     89999999999888754

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.47  E-value=1.6e-05  Score=84.61  Aligned_cols=98  Identities=7%  Similarity=-0.061  Sum_probs=51.6

Q ss_pred             hHHHHHHHHHHHHhCCCCchhHHHHHHHHHHccCCHHHHHHHHhccCC--CCeehHHHHHHHHHcCCC-hhhHHHHHHHH
Q 005268          145 ILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGMMRHALRVFDQMME--RDVVSWNSIIAAYEQSND-PITAHGFFTTM  221 (705)
Q Consensus       145 ~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~--~~~~~~~~li~~~~~~g~-~~~A~~~~~~m  221 (705)
                      +..|+.+++.++..-  |.              |+.+.+..+|++...  |++..|...+.-..+.+. .+....+|+..
T Consensus        11 i~~aR~vyer~l~~~--P~--------------~~~e~~~~iferal~~~ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~a   74 (493)
T 2uy1_A           11 LSSPSAIMEHARRLY--MS--------------KDYRSLESLFGRCLKKSYNLDLWMLYIEYVRKVSQKKFKLYEVYEFT   74 (493)
T ss_dssp             -CCHHHHHHHHHHHH--HT--------------TCHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHC----CTHHHHHHH
T ss_pred             hHHHHHHHHHHHHHC--CC--------------CCHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCchHHHHHHHHHHH
Confidence            666777777766542  11              788888888887755  677777777666555442 34455566555


Q ss_pred             HHC-CCCC-ChhhHHHHHHHHH----ccCChhhHHHHHHHHHH
Q 005268          222 QQA-GIQP-DLLTLVSLTSIVA----QLNDCRNSRSVHGFIMR  258 (705)
Q Consensus       222 ~~~-g~~p-~~~t~~~ll~a~~----~~~~~~~a~~i~~~~~~  258 (705)
                      ... |..| +...|...+.-+.    ..++.+.++.+++.++.
T Consensus        75 l~~vg~d~~s~~iW~~Yi~f~~~~~~~~~~~~~vR~iy~rAL~  117 (493)
T 2uy1_A           75 LGQFENYWDSYGLYKEYIEEEGKIEDEQTRIEKIRNGYMRALQ  117 (493)
T ss_dssp             HHHSTTCTTCHHHHHHHHHHTSSCSSHHHHHHHHHHHHHHHHT
T ss_pred             HHHcCCCcccHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHHh
Confidence            432 3333 2223333333222    12334455555555554

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.45  E-value=1.4e-06  Score=73.16  Aligned_cols=114  Identities=17%  Similarity=0.174  Sum_probs=76.9

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhC-C-CCCCHHHHHHHHHHH
Q 005268          435 ITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNM-P-VRPDASIWGALLGAC  512 (705)
Q Consensus       435 ~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~ll~~~  512 (705)
                      ..+..+...+...|++++|.++++.+.+.  .+.+...+..++..+.+.|++++|...++++ . .+.+..+|..+...+
T Consensus        10 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~   87 (125)
T 1na0_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALEL--DPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAY   87 (125)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHH
Confidence            34455555556666666666666655543  1123445566666666667777776666655 1 223567788888888


Q ss_pred             HhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcC
Q 005268          513 RIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVG  550 (705)
Q Consensus       513 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  550 (705)
                      ...|++++|...++++++..|+++..+..++.++...|
T Consensus        88 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  125 (125)
T 1na0_A           88 YKQGDYDEAIEYYQKALELDPNNAEAKQNLGNAKQKQG  125 (125)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHC
T ss_pred             HHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhcc
Confidence            89999999999999999999988888888877765543

>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=98.43  E-value=9.5e-07  Score=74.87  Aligned_cols=94  Identities=15%  Similarity=0.061  Sum_probs=77.0

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhc
Q 005268          472 HYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANV  549 (705)
Q Consensus       472 ~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~  549 (705)
                      .+..+...+.+.|++++|+..|++. ...| +...|..+..++...|++++|+..++++++++|+++..+..++.+|...
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~   85 (126)
T 3upv_A            6 EARLEGKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQIAV   85 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHH
Confidence            4556667777888888888887766 2333 5778888888899999999999999999999999888899999999999


Q ss_pred             CCcchHHHHHHHHHhC
Q 005268          550 GKWEGVDEVRSLARDR  565 (705)
Q Consensus       550 g~~~~a~~~~~~m~~~  565 (705)
                      |++++|...+++..+.
T Consensus        86 ~~~~~A~~~~~~al~~  101 (126)
T 3upv_A           86 KEYASALETLDAARTK  101 (126)
T ss_dssp             TCHHHHHHHHHHHHHH
T ss_pred             hCHHHHHHHHHHHHHh
Confidence            9999999988888765

>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=98.43  E-value=1.5e-06  Score=77.51  Aligned_cols=125  Identities=10%  Similarity=0.028  Sum_probs=82.1

Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC-CCC-CCHHHHHHHHHHHH
Q 005268          437 FVSLLTACSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVR-PDASIWGALLGACR  513 (705)
Q Consensus       437 ~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~ll~~~~  513 (705)
                      +..+...+...|++++|...|+...+.   .| +...+..+...+.+.|++++|...+++. ... .+...|..+...+.
T Consensus        16 ~~~~a~~~~~~~~~~~A~~~~~~al~~---~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~   92 (166)
T 1a17_A           16 LKTQANDYFKAKDYENAIKFYSQAIEL---NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNM   92 (166)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH---STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHh---CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence            344444555555555555555555432   22 3445555666666666666666666554 222 34667888888888


Q ss_pred             hcCChhHHHHHHHHHhccCCCCcchhhhh--hhhhhhcCCcchHHHHHHHHHh
Q 005268          514 IHGNMELGAVASDRLFEVDSENVGYYVLM--SNIYANVGKWEGVDEVRSLARD  564 (705)
Q Consensus       514 ~~g~~~~a~~~~~~~~~~~p~~~~~~~~l--~~~~~~~g~~~~a~~~~~~m~~  564 (705)
                      ..|++++|...+++++++.|+++..+..+  +..+...|++++|.+.+.....
T Consensus        93 ~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  145 (166)
T 1a17_A           93 ALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHKRS  145 (166)
T ss_dssp             HTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHcccchHH
Confidence            88889999999999888888887777444  4447778888888888876643

>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=98.43  E-value=8.8e-07  Score=89.70  Aligned_cols=94  Identities=5%  Similarity=-0.063  Sum_probs=80.9

Q ss_pred             chHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhh
Q 005268          471 KHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYAN  548 (705)
Q Consensus       471 ~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  548 (705)
                      ..|..+..+|.+.|++++|+..+++. ...| +...|..+..++...|++++|+..++++++++|+++.++..++.++..
T Consensus       197 ~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~  276 (336)
T 1p5q_A          197 ASHLNLAMCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQR  276 (336)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHH
Confidence            57788888888899999998888877 3334 578899999999999999999999999999999999999999999999


Q ss_pred             cCCcchH-HHHHHHHHh
Q 005268          549 VGKWEGV-DEVRSLARD  564 (705)
Q Consensus       549 ~g~~~~a-~~~~~~m~~  564 (705)
                      .|++++| ...++.|..
T Consensus       277 ~~~~~~a~~~~~~~~~~  293 (336)
T 1p5q_A          277 IRRQLAREKKLYANMFE  293 (336)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHH
Confidence            9999999 456666643

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.42  E-value=1.5e-06  Score=73.71  Aligned_cols=116  Identities=9%  Similarity=0.013  Sum_probs=81.5

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHH
Q 005268          436 TFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACR  513 (705)
Q Consensus       436 t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~  513 (705)
                      .+..+...+...|++++|...++...+.  .+.+...+..+...+...|++++|...+++. ...| +...|..+...+.
T Consensus        14 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (131)
T 2vyi_A           14 RLKTEGNEQMKVENFEAAVHFYGKAIEL--NPANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPAYSKAYGRMGLALS   91 (131)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCccCHHHHHHHHHHHH
Confidence            4455555566666666666666665543  1123455666666666777777777666655 2223 4677888888899


Q ss_pred             hcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcc
Q 005268          514 IHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWE  553 (705)
Q Consensus       514 ~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~  553 (705)
                      ..|++++|...+++++++.|+++..+..++.++...|+++
T Consensus        92 ~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~  131 (131)
T 2vyi_A           92 SLNKHVEAVAYYKKALELDPDNETYKSNLKIAELKLREAP  131 (131)
T ss_dssp             HTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTTCC
T ss_pred             HhCCHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHhcCC
Confidence            9999999999999999999988888888888888887753

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.40  E-value=3.7e-06  Score=83.34  Aligned_cols=162  Identities=7%  Similarity=-0.063  Sum_probs=120.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhhCCC---CCc------chHHHHHHHHHhcCChHHHHHHHHHHHHcCC---CCC--HH
Q 005268          370 VATCLVDMYGKCGRIDDAMSLFYQVPR---SSS------VPWNAIISCHGIHGQGDKALNFFRQMLDEGV---RPD--HI  435 (705)
Q Consensus       370 ~~~~li~~y~k~g~~~~A~~~~~~~~~---~~~------~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~---~p~--~~  435 (705)
                      .+...+..+...|++++|.+.+++..+   ...      ..+..+...+...|++++|+..|++..+...   .+.  ..
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            444567778889999999988875431   111      1134456667788999999999999886321   122  34


Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCC-----cchHHHHHHHHHhcCCHHHHHHHHHhCC-CCC-------CH
Q 005268          436 TFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPH-----LKHYGCMVDLFGRAGHLGMAHNFIQNMP-VRP-------DA  502 (705)
Q Consensus       436 t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-----~~~~~~li~~~~~~g~~~~A~~~~~~~~-~~p-------~~  502 (705)
                      +++.+...|...|++++|..+|+...+.....|+     ...+..+...|.+.|++++|+..+++.- ..+       -.
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            7888888999999999999999988743222333     2578889999999999999999998761 111       16


Q ss_pred             HHHHHHHHHHHhcCChhHH-HHHHHHHhcc
Q 005268          503 SIWGALLGACRIHGNMELG-AVASDRLFEV  531 (705)
Q Consensus       503 ~~~~~ll~~~~~~g~~~~a-~~~~~~~~~~  531 (705)
                      .+|..+...+...|++++| ...+++++.+
T Consensus       237 ~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~~  266 (293)
T 2qfc_A          237 QLYYQRGECLRKLEYEEAEIEDAYKKASFF  266 (293)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCcHHHHHHHHHHHHHH
Confidence            6888999999999999999 7778887764

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.40  E-value=5.4e-07  Score=86.67  Aligned_cols=138  Identities=9%  Similarity=-0.044  Sum_probs=99.5

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCC--cchHHHHHHHH
Q 005268          403 NAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPH--LKHYGCMVDLF  480 (705)
Q Consensus       403 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~--~~~~~~li~~~  480 (705)
                      -.....+...|++++|.++|+.+...  .|+......+...+.+.+++++|+..|+...+. . .|.  ...+..+..++
T Consensus       106 LayA~~L~~~g~y~eA~~~l~~~~~~--~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~-~-d~~~~~~a~~~LG~al  181 (282)
T 4f3v_A          106 MGFAACEAAQGNYADAMEALEAAPVA--GSEHLVAWMKAVVYGAAERWTDVIDQVKSAGKW-P-DKFLAGAAGVAHGVAA  181 (282)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHTSSCCT--TCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGC-S-CHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHcCCHHHHHHHHHHhhcc-C-CcccHHHHHHHHHHHH
Confidence            34566677788888888888877763  465544444555788888999999888744321 0 111  23677788889


Q ss_pred             HhcCCHHHHHHHHHhCC---CCCC--HHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhh
Q 005268          481 GRAGHLGMAHNFIQNMP---VRPD--ASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNI  545 (705)
Q Consensus       481 ~~~g~~~~A~~~~~~~~---~~p~--~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  545 (705)
                      .+.|++++|++.|++..   ..|.  ...+..+..++...|+.++|...|+++...+|+ +.....|.+.
T Consensus       182 ~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~P~-~~~~~aL~~~  250 (282)
T 4f3v_A          182 ANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTHPE-PKVAAALKDP  250 (282)
T ss_dssp             HHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSCC-HHHHHHHHCT
T ss_pred             HHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc-HHHHHHHhCC
Confidence            99999999999998772   2243  336777888899999999999999999999997 6666666543

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.39  E-value=1.4e-06  Score=76.37  Aligned_cols=104  Identities=7%  Similarity=-0.024  Sum_probs=85.7

Q ss_pred             CCCCH-HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHH
Q 005268          430 VRPDH-ITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIW  505 (705)
Q Consensus       430 ~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~  505 (705)
                      +.|+. ..+..+...+.+.|++++|...|+...+.   .| +...|..+..+|.+.|++++|+..|+++ ...| ++..|
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            45654 36777777888999999999999988754   55 5678888999999999999999999887 3444 46788


Q ss_pred             HHHHHHHHhcCChhHHHHHHHHHhccCCCCc
Q 005268          506 GALLGACRIHGNMELGAVASDRLFEVDSENV  536 (705)
Q Consensus       506 ~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  536 (705)
                      ..+..++...|++++|+..|++++++.|+++
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            9999999999999999999999999998653

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.38  E-value=1.5e-06  Score=74.13  Aligned_cols=80  Identities=6%  Similarity=-0.077  Sum_probs=53.3

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHhC-CC-CCCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhc
Q 005268          472 HYGCMVDLFGRAGHLGMAHNFIQNM-PV-RPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANV  549 (705)
Q Consensus       472 ~~~~li~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~  549 (705)
                      .+..+...|...|++++|...+++. .. +.+...|..+...+...|++++|...++++++++|++...+..++.++...
T Consensus        52 ~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~  131 (133)
T 2lni_A           52 LYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKAAALEAMKDYTKAMDVYQKALDLDSSCKEAADGYQRCMMAQ  131 (133)
T ss_dssp             HHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCGGGTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHh
Confidence            3444444444444444444444443 11 224667778888888888888888888888888888888888888777665


Q ss_pred             CC
Q 005268          550 GK  551 (705)
Q Consensus       550 g~  551 (705)
                      |+
T Consensus       132 ~~  133 (133)
T 2lni_A          132 YN  133 (133)
T ss_dssp             TC
T ss_pred             cC
Confidence            53

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.36  E-value=1.8e-06  Score=70.84  Aligned_cols=98  Identities=12%  Similarity=0.045  Sum_probs=79.7

Q ss_pred             cchHHHHHHHHHhcCCHHHHHHHHHhC-CC-CCCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCC--Ccchhhhhhhh
Q 005268          470 LKHYGCMVDLFGRAGHLGMAHNFIQNM-PV-RPDASIWGALLGACRIHGNMELGAVASDRLFEVDSE--NVGYYVLMSNI  545 (705)
Q Consensus       470 ~~~~~~li~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~--~~~~~~~l~~~  545 (705)
                      ...+..+...+.+.|++++|...+++. .. +.+..+|..+...+...|++++|...++++++..|+  ++..+..++.+
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            456667777788888888888888766 22 235678888888899999999999999999999998  88888889999


Q ss_pred             hhhc-CCcchHHHHHHHHHhCCC
Q 005268          546 YANV-GKWEGVDEVRSLARDRGL  567 (705)
Q Consensus       546 ~~~~-g~~~~a~~~~~~m~~~~~  567 (705)
                      |... |++++|.+.++...+...
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~~p  108 (112)
T 2kck_A           86 LRYIEGKEVEAEIAEARAKLEHH  108 (112)
T ss_dssp             HTTCSSCSHHHHHHHHHHGGGCC
T ss_pred             HHHHhCCHHHHHHHHHHHhhccc
Confidence            9999 999999999988876543

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.36  E-value=6.8e-07  Score=86.01  Aligned_cols=181  Identities=7%  Similarity=-0.050  Sum_probs=136.9

Q ss_pred             hcCCHHHHHHHHhhCC---CCCcchHHHH-------HHHHHhcCChHHHHHHHHHHHHcCCCCCHH--------------
Q 005268          380 KCGRIDDAMSLFYQVP---RSSSVPWNAI-------ISCHGIHGQGDKALNFFRQMLDEGVRPDHI--------------  435 (705)
Q Consensus       380 k~g~~~~A~~~~~~~~---~~~~~~~~~l-------i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~--------------  435 (705)
                      ..++...|.+.|.++.   +.....|+.+       ...+...++..+++..+.+-.+  +.|+..              
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            5788999999998877   3344558877       4566666666666666665555  444321              


Q ss_pred             --------HHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhCCCCCCH----H
Q 005268          436 --------TFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNMPVRPDA----S  503 (705)
Q Consensus       436 --------t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~----~  503 (705)
                              ....+..++...|++++|.++|+.+..   ..|+......+...+.+.|++++|+..|+.....|+.    .
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                    223355678889999999999987763   2454336667778899999999999999877544433    3


Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHhccC--CC-CcchhhhhhhhhhhcCCcchHHHHHHHHHhC
Q 005268          504 IWGALLGACRIHGNMELGAVASDRLFEVD--SE-NVGYYVLMSNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       504 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~--p~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      ++..+..++...|++++|+..++++..-.  |. .+.....++.++.+.|+.++|..+++.+...
T Consensus       173 a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~  237 (282)
T 4f3v_A          173 AGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTT  237 (282)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            67888999999999999999999998543  54 4456778999999999999999999999876

>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=98.33  E-value=8.8e-07  Score=77.62  Aligned_cols=113  Identities=9%  Similarity=-0.005  Sum_probs=82.1

Q ss_pred             HHHHHHcCCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC-CC
Q 005268          422 FRQMLDEGVRPDH-ITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM-PV  498 (705)
Q Consensus       422 ~~~m~~~g~~p~~-~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~  498 (705)
                      |++++.  +.|+. ..+..+...+...|++++|...|+.....   .| +...|..+..+|.+.|++++|+..|++. ..
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  44543 35556666777778888888888777643   44 4566777777888888888888888776 23


Q ss_pred             CC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchh
Q 005268          499 RP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYY  539 (705)
Q Consensus       499 ~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~  539 (705)
                      .| +...|..+..++...|++++|+..+++++++.|+++...
T Consensus        85 ~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~  126 (148)
T 2vgx_A           85 DIXEPRFPFHAAECLLQXGELAEAESGLFLAQELIANXPEFX  126 (148)
T ss_dssp             STTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCGGGH
T ss_pred             CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCCcch
Confidence            34 467788889999999999999999999999999877553

>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=98.33  E-value=2.8e-06  Score=90.40  Aligned_cols=116  Identities=9%  Similarity=0.012  Sum_probs=83.0

Q ss_pred             HHhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChh
Q 005268          443 ACSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNME  519 (705)
Q Consensus       443 a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~  519 (705)
                      .+...|++++|.+.+++..+.   .| +...|..+..+|.+.|++++|++.+++. ...| +..+|..+..++...|+++
T Consensus        15 ~~~~~g~~~~A~~~~~~Al~~---~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~~g~~~   91 (477)
T 1wao_1           15 DYFKAKDYENAIKFYSQAIEL---NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKFR   91 (477)
T ss_dssp             STTTTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHhCCHHHHHHHHHHHHHh---CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHH
Confidence            344556666666666665543   33 3456666677777777777777777665 2344 4678889999999999999


Q ss_pred             HHHHHHHHHhccCCCCcchhhhhhhh--hhhcCCcchHHHHHHH
Q 005268          520 LGAVASDRLFEVDSENVGYYVLMSNI--YANVGKWEGVDEVRSL  561 (705)
Q Consensus       520 ~a~~~~~~~~~~~p~~~~~~~~l~~~--~~~~g~~~~a~~~~~~  561 (705)
                      +|+..++++++++|+++..+..++.+  +.+.|++++|.+.+++
T Consensus        92 eA~~~~~~al~~~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~~  135 (477)
T 1wao_1           92 AALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEH  135 (477)
T ss_dssp             HHHHHHHHHHHHSTTCTTHHHHHHHHHHHHHHHHHCCC------
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHhccccc
Confidence            99999999999999999888888887  8888999999998874

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.33  E-value=9.3e-07  Score=74.38  Aligned_cols=95  Identities=9%  Similarity=-0.055  Sum_probs=82.2

Q ss_pred             chHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhh
Q 005268          471 KHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYAN  548 (705)
Q Consensus       471 ~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  548 (705)
                      ..+..+...+.+.|++++|+..+++. ...| +...|..+..++...|++++|+..++++++++|+++..+..++.+|..
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            34566777888999999999999887 3344 578899999999999999999999999999999999999999999999


Q ss_pred             cCCcchHHHHHHHHHhC
Q 005268          549 VGKWEGVDEVRSLARDR  565 (705)
Q Consensus       549 ~g~~~~a~~~~~~m~~~  565 (705)
                      .|++++|...++...+.
T Consensus        98 ~g~~~~A~~~~~~al~~  114 (121)
T 1hxi_A           98 EHNANAALASLRAWLLS  114 (121)
T ss_dssp             HHHHHHHHHHHHHHHC-
T ss_pred             cCCHHHHHHHHHHHHHh
Confidence            99999999999988765

>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=98.32  E-value=3.5e-05  Score=76.17  Aligned_cols=158  Identities=8%  Similarity=-0.053  Sum_probs=119.4

Q ss_pred             HHHHHHhcCCHHHHHHHHhhCCCCCc---c------hHHHHHHHHHhcCChHHHHHHHHHHHHcCCC-CC----HHHHHH
Q 005268          374 LVDMYGKCGRIDDAMSLFYQVPRSSS---V------PWNAIISCHGIHGQGDKALNFFRQMLDEGVR-PD----HITFVS  439 (705)
Q Consensus       374 li~~y~k~g~~~~A~~~~~~~~~~~~---~------~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~----~~t~~~  439 (705)
                      .+..+...|++++|...+++......   .      .+..+...+...|++++|+..|++..+.... ++    ..+++.
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            46678889999999999987653211   1      1334666677778999999999999984322 22    226888


Q ss_pred             HHHHHhccCcHHHHHHHHHHhHHhhC----CcCC-cchHHHHHHHHHhcCCHHHHHHHHHhCC-------CCCC-HHHHH
Q 005268          440 LLTACSHSGLVSEGQRYFHMMQEEFG----IKPH-LKHYGCMVDLFGRAGHLGMAHNFIQNMP-------VRPD-ASIWG  506 (705)
Q Consensus       440 ll~a~~~~g~~~~a~~~~~~m~~~~~----~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~-------~~p~-~~~~~  506 (705)
                      +..+|...|++++|..+|+.+.+...    ..+. ..+|..+...|.+.|++++|...+++.-       ..+. ..+|.
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            88899999999999999998875321    1121 2478889999999999999999987761       1222 66889


Q ss_pred             HHHHHHHhcCC-hhHHHHHHHHHhcc
Q 005268          507 ALLGACRIHGN-MELGAVASDRLFEV  531 (705)
Q Consensus       507 ~ll~~~~~~g~-~~~a~~~~~~~~~~  531 (705)
                      .+...+...|+ +++|...+++++++
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 69999999998875

>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=98.32  E-value=8.3e-07  Score=80.48  Aligned_cols=95  Identities=11%  Similarity=0.111  Sum_probs=55.4

Q ss_pred             chHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHH-HHhcCCh--hHHHHHHHHHhccCCCCcchhhhhhhh
Q 005268          471 KHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGA-CRIHGNM--ELGAVASDRLFEVDSENVGYYVLMSNI  545 (705)
Q Consensus       471 ~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~-~~~~g~~--~~a~~~~~~~~~~~p~~~~~~~~l~~~  545 (705)
                      ..|..+...|...|++++|...+++. ...| +...|..+... +...|++  ++|+..++++++.+|+++..+..++.+
T Consensus        45 ~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~l~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~  124 (177)
T 2e2e_A           45 EQWALLGEYYLWQNDYSNSLLAYRQALQLRGENAELYAALATVLYYQASQHMTAQTRAMIDKALALDSNEITALMLLASD  124 (177)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhCCCcHHHHHHHHHH
Confidence            34444444444444444444444443 1112 34455555555 5566666  667777777776667666666666777


Q ss_pred             hhhcCCcchHHHHHHHHHhC
Q 005268          546 YANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       546 ~~~~g~~~~a~~~~~~m~~~  565 (705)
                      |...|++++|...++.+.+.
T Consensus       125 ~~~~g~~~~A~~~~~~al~~  144 (177)
T 2e2e_A          125 AFMQANYAQAIELWQKVMDL  144 (177)
T ss_dssp             HHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHcccHHHHHHHHHHHHhh
Confidence            77777777777766666654

>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=98.29  E-value=4e-06  Score=75.86  Aligned_cols=126  Identities=7%  Similarity=0.099  Sum_probs=98.7

Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHH-HHhcCCH-
Q 005268          410 GIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDL-FGRAGHL-  486 (705)
Q Consensus       410 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~-~~~~g~~-  486 (705)
                      ...|++++|+..|++..+.. +.+...+..+...+...|++++|...|+...+.   .| +...+..+..+ +.+.|++ 
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            45678889999999888853 335568888888999999999999999988764   34 55677778888 7788998 


Q ss_pred             -HHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchh
Q 005268          487 -GMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYY  539 (705)
Q Consensus       487 -~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~  539 (705)
                       ++|...++++ ...| +...|..+...+...|++++|...+++++++.|+++...
T Consensus        97 ~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~  152 (177)
T 2e2e_A           97 TAQTRAMIDKALALDSNEITALMLLASDAFMQANYAQAIELWQKVMDLNSPRINRT  152 (177)
T ss_dssp             CHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTSCHH
T ss_pred             hHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhCCCCccHH
Confidence             9999999877 3344 477889999999999999999999999999999876544

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.28  E-value=7.4e-06  Score=75.76  Aligned_cols=151  Identities=14%  Similarity=0.030  Sum_probs=70.3

Q ss_pred             hcCCHHHHHH---HHhhCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHc----CCCCC-HHHHHHHHHHHhccCcHH
Q 005268          380 KCGRIDDAMS---LFYQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQMLDE----GVRPD-HITFVSLLTACSHSGLVS  451 (705)
Q Consensus       380 k~g~~~~A~~---~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~p~-~~t~~~ll~a~~~~g~~~  451 (705)
                      ..|++++|.+   .+..-+......++.+...+...|++++|+..+++..+.    |..|. ..++..+...+...|+++
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            3455666666   443322233344566666666666666666666665541    11111 234555555566666666


Q ss_pred             HHHHHHHHhHHhhCCcC-C----cchHHHHHHHHHhcCCHHHHHHHHHhCC----CCCC----HHHHHHHHHHHHhcCCh
Q 005268          452 EGQRYFHMMQEEFGIKP-H----LKHYGCMVDLFGRAGHLGMAHNFIQNMP----VRPD----ASIWGALLGACRIHGNM  518 (705)
Q Consensus       452 ~a~~~~~~m~~~~~~~p-~----~~~~~~li~~~~~~g~~~~A~~~~~~~~----~~p~----~~~~~~ll~~~~~~g~~  518 (705)
                      +|.+.++...+...-.+ +    ...+..+...+...|++++|...+++.-    ..++    ..++..+...+...|++
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            66666655543311111 1    1234444455555555555555544331    0011    11234444444555555


Q ss_pred             hHHHHHHHHHhc
Q 005268          519 ELGAVASDRLFE  530 (705)
Q Consensus       519 ~~a~~~~~~~~~  530 (705)
                      ++|...++++++
T Consensus       164 ~~A~~~~~~al~  175 (203)
T 3gw4_A          164 LEAQQHWLRARD  175 (203)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            555555554444

>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=98.27  E-value=3.1e-06  Score=72.69  Aligned_cols=97  Identities=9%  Similarity=-0.038  Sum_probs=75.8

Q ss_pred             CcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhh
Q 005268          469 HLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIY  546 (705)
Q Consensus       469 ~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  546 (705)
                      +...+..+...+.+.|++++|...|++. ...| +...|..+...+...|++++|...++++++++|+++..+..++.+|
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            4456666777777777777777777665 2233 4677888888888888888888888888888888888888888888


Q ss_pred             hhcCCcchHHHHHHHHHhC
Q 005268          547 ANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       547 ~~~g~~~~a~~~~~~m~~~  565 (705)
                      ...|++++|...++...+.
T Consensus        88 ~~~~~~~~A~~~~~~a~~~  106 (137)
T 3q49_B           88 LEMESYDEAIANLQRAYSL  106 (137)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhhHHHHHHHHHHHHHH
Confidence            8888888888888887764

>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=98.25  E-value=9.4e-06  Score=86.28  Aligned_cols=113  Identities=13%  Similarity=0.035  Sum_probs=58.4

Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCH
Q 005268          409 HGIHGQGDKALNFFRQMLDEGVRPD-HITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHL  486 (705)
Q Consensus       409 ~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~  486 (705)
                      +.+.|++++|++.|++.++.  .|+ ...+..+..++...|++++|.+.+++..+.   .| +...|..+..+|.+.|++
T Consensus        16 ~~~~g~~~~A~~~~~~Al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l---~p~~~~~~~~lg~~~~~~g~~   90 (477)
T 1wao_1           16 YFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIEL---DKKYIKGYYRRAASNMALGKF   90 (477)
T ss_dssp             TTTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS---CTTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHhCCHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCH
Confidence            34455666666666666553  333 345555555666666666666666655532   33 334555566666666666


Q ss_pred             HHHHHHHHhC-CCCC-CHHHHHHHHHH--HHhcCChhHHHHHHH
Q 005268          487 GMAHNFIQNM-PVRP-DASIWGALLGA--CRIHGNMELGAVASD  526 (705)
Q Consensus       487 ~~A~~~~~~~-~~~p-~~~~~~~ll~~--~~~~g~~~~a~~~~~  526 (705)
                      ++|++.++++ ...| +...|..+..+  +...|++++|+..++
T Consensus        91 ~eA~~~~~~al~~~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           91 RAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHHHSTTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            6666666554 1222 22334444333  555666666666666

>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=98.25  E-value=6.8e-06  Score=68.03  Aligned_cols=89  Identities=8%  Similarity=0.042  Sum_probs=41.2

Q ss_pred             HHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCc
Q 005268          475 CMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKW  552 (705)
Q Consensus       475 ~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  552 (705)
                      .++..+...|++++|...+++. ...| +...|..+...+...|++++|...++++++..|+++..+..++.+|...|++
T Consensus         9 ~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~   88 (118)
T 1elw_A            9 EKGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRF   88 (118)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhH
Confidence            3334444444444444444433 1111 3444444444444555555555555555555554444444555555555555


Q ss_pred             chHHHHHHHHH
Q 005268          553 EGVDEVRSLAR  563 (705)
Q Consensus       553 ~~a~~~~~~m~  563 (705)
                      ++|.+.++...
T Consensus        89 ~~A~~~~~~~~   99 (118)
T 1elw_A           89 EEAKRTYEEGL   99 (118)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            55555544444

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.25  E-value=2.1e-06  Score=76.61  Aligned_cols=94  Identities=11%  Similarity=0.074  Sum_probs=54.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhc
Q 005268          472 HYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANV  549 (705)
Q Consensus       472 ~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~  549 (705)
                      .+..+...+.+.|++++|++.|++. ...| +...|..+...+...|++++|+..++++++++|+++..+..++.+|...
T Consensus        13 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~   92 (164)
T 3sz7_A           13 KLKSEGNAAMARKEYSKAIDLYTQALSIAPANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPKYSKAWSRLGLARFDM   92 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHc
Confidence            3444455555555555555555544 1222 4555666666666666666666666666666666666666666666666


Q ss_pred             CCcchHHHHHHHHHhC
Q 005268          550 GKWEGVDEVRSLARDR  565 (705)
Q Consensus       550 g~~~~a~~~~~~m~~~  565 (705)
                      |++++|.+.+++..+.
T Consensus        93 g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           93 ADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             TCHHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHh
Confidence            6666666666665543

>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=98.25  E-value=1.8e-06  Score=73.35  Aligned_cols=94  Identities=7%  Similarity=-0.008  Sum_probs=78.6

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcc-------hhhhh
Q 005268          472 HYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVG-------YYVLM  542 (705)
Q Consensus       472 ~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~-------~~~~l  542 (705)
                      .+..+...+.+.|++++|++.|++. .+.| +...|..+..+|...|++++|+..++++++++|+++.       +|..+
T Consensus        10 a~~~lG~~~~~~~~~~~A~~~y~~Al~~~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~l   89 (127)
T 4gcn_A           10 AEKDLGNAAYKQKDFEKAHVHYDKAIELDPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSRA   89 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHHH
Confidence            4566788888888888888888876 3444 4778999999999999999999999999999887654       56678


Q ss_pred             hhhhhhcCCcchHHHHHHHHHhC
Q 005268          543 SNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       543 ~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      +.+|...|++++|.+.+++..+.
T Consensus        90 g~~~~~~~~~~~A~~~~~kal~~  112 (127)
T 4gcn_A           90 GNAFQKQNDLSLAVQWFHRSLSE  112 (127)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhh
Confidence            88899999999999999987754

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.23  E-value=1.3e-05  Score=73.96  Aligned_cols=154  Identities=10%  Similarity=-0.014  Sum_probs=114.9

Q ss_pred             HhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhh---CCcC-CcchHHHHHHHHHhcC
Q 005268          410 GIHGQGDKALNFFRQMLDEGVRP-DHITFVSLLTACSHSGLVSEGQRYFHMMQEEF---GIKP-HLKHYGCMVDLFGRAG  484 (705)
Q Consensus       410 ~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~---~~~p-~~~~~~~li~~~~~~g  484 (705)
                      ...|++++|.++++.+..  .++ ...++..+...+...|++++|...+++..+..   +..| ....+..+...|...|
T Consensus         3 ~~~g~~~~A~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g   80 (203)
T 3gw4_A            3 FEAHDYALAERQAQALLA--HPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAG   80 (203)
T ss_dssp             ----CHHHHHHHHHHHHT--STTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTT
T ss_pred             cccccHHHHHHHHHHhcC--ChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcC
Confidence            457999999996655543  222 34578888889999999999999999887632   1222 3457888899999999


Q ss_pred             CHHHHHHHHHhCC----CCC-C----HHHHHHHHHHHHhcCChhHHHHHHHHHhccCC--CCc----chhhhhhhhhhhc
Q 005268          485 HLGMAHNFIQNMP----VRP-D----ASIWGALLGACRIHGNMELGAVASDRLFEVDS--ENV----GYYVLMSNIYANV  549 (705)
Q Consensus       485 ~~~~A~~~~~~~~----~~p-~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p--~~~----~~~~~l~~~~~~~  549 (705)
                      ++++|.+.+++.-    ..+ +    ..++..+...+...|++++|...+++++++.+  +++    ..+..++.+|...
T Consensus        81 ~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~  160 (203)
T 3gw4_A           81 NWDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQE  160 (203)
T ss_dssp             CHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHC
Confidence            9999999887761    122 2    34678888899999999999999999987532  222    2356899999999


Q ss_pred             CCcchHHHHHHHHHhC
Q 005268          550 GKWEGVDEVRSLARDR  565 (705)
Q Consensus       550 g~~~~a~~~~~~m~~~  565 (705)
                      |++++|.+.+++..+.
T Consensus       161 g~~~~A~~~~~~al~~  176 (203)
T 3gw4_A          161 KNLLEAQQHWLRARDI  176 (203)
T ss_dssp             TCHHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHH
Confidence            9999999999887653

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.23  E-value=1e-05  Score=67.76  Aligned_cols=96  Identities=17%  Similarity=0.233  Sum_probs=86.6

Q ss_pred             cchHHHHHHHHHhcCCHHHHHHHHHhC-CC-CCCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhh
Q 005268          470 LKHYGCMVDLFGRAGHLGMAHNFIQNM-PV-RPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYA  547 (705)
Q Consensus       470 ~~~~~~li~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  547 (705)
                      ...+..+...+.+.|++++|.+.++++ .. +.+..+|..+...+...|++++|...++++++..|+++..+..++.+|.
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            457788889999999999999999887 22 3467889999999999999999999999999999999999999999999


Q ss_pred             hcCCcchHHHHHHHHHhC
Q 005268          548 NVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       548 ~~g~~~~a~~~~~~m~~~  565 (705)
                      ..|++++|...++.+.+.
T Consensus        89 ~~~~~~~A~~~~~~~~~~  106 (125)
T 1na0_A           89 KQGDYDEAIEYYQKALEL  106 (125)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHh
Confidence            999999999999998765

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.22  E-value=1e-05  Score=70.36  Aligned_cols=103  Identities=8%  Similarity=-0.046  Sum_probs=46.4

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCC----cchHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHH
Q 005268          435 ITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPH----LKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGAL  508 (705)
Q Consensus       435 ~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l  508 (705)
                      ..+..+...+...|++++|.+.|+...   ...|+    ...+..+...|.+.|++++|+..+++. ...| +...|..+
T Consensus        29 ~~~~~~a~~~~~~~~~~~A~~~~~~a~---~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~  105 (148)
T 2dba_A           29 EQLRKEGNELFKCGDYGGALAAYTQAL---GLDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALYRR  105 (148)
T ss_dssp             HHHHHHHHHHHTTTCHHHHHHHHHHHH---TSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHH---HHcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHHHH
Confidence            344444445555555555555555444   22333    234444444444444444444444433 1112 23344444


Q ss_pred             HHHHHhcCChhHHHHHHHHHhccCCCCcchhh
Q 005268          509 LGACRIHGNMELGAVASDRLFEVDSENVGYYV  540 (705)
Q Consensus       509 l~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~  540 (705)
                      ...+...|++++|...++++++++|+++..+.
T Consensus       106 a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~  137 (148)
T 2dba_A          106 SQALEKLGRLDQAVLDLQRCVSLEPKNKVFQE  137 (148)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHCSSCHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHH
Confidence            44444444444444444444444444443333

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.22  E-value=6.8e-06  Score=69.87  Aligned_cols=97  Identities=10%  Similarity=0.046  Sum_probs=86.2

Q ss_pred             CcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhh
Q 005268          469 HLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIY  546 (705)
Q Consensus       469 ~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  546 (705)
                      +...+..+...+.+.|++++|...+++. ...| +..+|..+...+...|++++|+..++++++.+|+++..+..++.+|
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~   94 (133)
T 2lni_A           15 LALMVKNKGNECFQKGDYPQAMKHYTEAIKRNPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKAAAL   94 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHHHHH
Confidence            3456777888889999999999998876 3444 6788999999999999999999999999999999999999999999


Q ss_pred             hhcCCcchHHHHHHHHHhC
Q 005268          547 ANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       547 ~~~g~~~~a~~~~~~m~~~  565 (705)
                      ...|++++|.+.+++..+.
T Consensus        95 ~~~~~~~~A~~~~~~~~~~  113 (133)
T 2lni_A           95 EAMKDYTKAMDVYQKALDL  113 (133)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhhHHHHHHHHHHHHHh
Confidence            9999999999999998765

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.21  E-value=1.4e-05  Score=69.47  Aligned_cols=93  Identities=12%  Similarity=-0.046  Sum_probs=59.7

Q ss_pred             cchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC----HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcC-CcchH
Q 005268          399 SVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPD----HITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKP-HLKHY  473 (705)
Q Consensus       399 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~----~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~  473 (705)
                      ...|..+...+...|++++|++.|++..+  ..|+    ...+..+..++...|++++|...++...+.   .| +...+
T Consensus        28 ~~~~~~~a~~~~~~~~~~~A~~~~~~a~~--~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~~  102 (148)
T 2dba_A           28 VEQLRKEGNELFKCGDYGGALAAYTQALG--LDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEK---DGGDVKAL  102 (148)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHT--SCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---TSCCHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHH--HcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhh---CccCHHHH
Confidence            34466666667777777777777777766  4455    345566666666777777777777666543   33 34556


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhC
Q 005268          474 GCMVDLFGRAGHLGMAHNFIQNM  496 (705)
Q Consensus       474 ~~li~~~~~~g~~~~A~~~~~~~  496 (705)
                      ..+..+|.+.|++++|...+++.
T Consensus       103 ~~~a~~~~~~~~~~~A~~~~~~a  125 (148)
T 2dba_A          103 YRRSQALEKLGRLDQAVLDLQRC  125 (148)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHH
Confidence            66666777777777777776655

>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=98.20  E-value=1.2e-05  Score=66.43  Aligned_cols=106  Identities=9%  Similarity=0.060  Sum_probs=65.8

Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHH
Q 005268          437 FVSLLTACSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACR  513 (705)
Q Consensus       437 ~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~  513 (705)
                      +..+...+...|++++|...++.....   .| +...+..+...+.+.|++++|...+++. ...| +...|..+...+.
T Consensus         7 ~~~~~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~   83 (118)
T 1elw_A            7 LKEKGNKALSVGNIDDALQCYSEAIKL---DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALE   83 (118)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHH---CCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence            344444455555555555555554432   22 3344555555555666666666655554 1223 4667778888888


Q ss_pred             hcCChhHHHHHHHHHhccCCCCcchhhhhhhh
Q 005268          514 IHGNMELGAVASDRLFEVDSENVGYYVLMSNI  545 (705)
Q Consensus       514 ~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  545 (705)
                      ..|++++|...++++++.+|+++..+..++.+
T Consensus        84 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~  115 (118)
T 1elw_A           84 FLNRFEEAKRTYEEGLKHEANNPQLKEGLQNM  115 (118)
T ss_dssp             HTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHH
T ss_pred             HHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHh
Confidence            88888888888888888888887766665544

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.19  E-value=2.3e-06  Score=74.26  Aligned_cols=104  Identities=8%  Similarity=-0.075  Sum_probs=73.7

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHH
Q 005268          436 TFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGAC  512 (705)
Q Consensus       436 t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~  512 (705)
                      .+..+...+...|++++|...|+.....   .| +...|..+..+|.+.|++++|+..|++. ...| +...|..+..++
T Consensus        20 ~~~~~a~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~   96 (142)
T 2xcb_A           20 QLYALGFNQYQAGKWDDAQKIFQALCML---DHYDARYFLGLGACRQSLGLYEQALQSYSYGALMDINEPRFPFHAAECH   96 (142)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccHHHHHHHHHHHHHh---CCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHH
Confidence            4445555666777777777777766643   34 4456666777777777777777777665 2233 456778888889


Q ss_pred             HhcCChhHHHHHHHHHhccCCCCcchhhhh
Q 005268          513 RIHGNMELGAVASDRLFEVDSENVGYYVLM  542 (705)
Q Consensus       513 ~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l  542 (705)
                      ...|++++|+..+++++++.|+++......
T Consensus        97 ~~~g~~~~A~~~~~~al~~~p~~~~~~~~~  126 (142)
T 2xcb_A           97 LQLGDLDGAESGFYSARALAAAQPAHEALA  126 (142)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHTCGGGHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhCCCCcchHHHH
Confidence            999999999999999999999877654443

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.18  E-value=5.5e-06  Score=73.74  Aligned_cols=64  Identities=9%  Similarity=0.065  Sum_probs=57.4

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhC
Q 005268          502 ASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       502 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      ...|..+..++...|++++|+..++++++++|+++.+|..++.+|...|++++|...++...+.
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            4578888888999999999999999999999999999999999999999999999999888765

>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=98.18  E-value=1.7e-05  Score=70.51  Aligned_cols=125  Identities=11%  Similarity=-0.008  Sum_probs=78.2

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHH
Q 005268          402 WNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLF  480 (705)
Q Consensus       402 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~  480 (705)
                      |..+...+...|++++|+..|++..+.. +.+...+..+..++...|++++|...++...+.   .| +...+..+...+
T Consensus        16 ~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~---~~~~~~~~~~~a~~~   91 (166)
T 1a17_A           16 LKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIEL---DKKYIKGYYRRAASN   91 (166)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CcccHHHHHHHHHHH
Confidence            4555566666677777777777766632 223456666666677777777777777766643   23 345666777777


Q ss_pred             HhcCCHHHHHHHHHhC-CCCC-CHHHHHHH--HHHHHhcCChhHHHHHHHHHhc
Q 005268          481 GRAGHLGMAHNFIQNM-PVRP-DASIWGAL--LGACRIHGNMELGAVASDRLFE  530 (705)
Q Consensus       481 ~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l--l~~~~~~g~~~~a~~~~~~~~~  530 (705)
                      .+.|++++|...++++ ...| +...|..+  +..+...|++++|...+++..+
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            7777777777777665 2223 34444333  3336667778888887776654

>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=98.17  E-value=7.8e-06  Score=75.53  Aligned_cols=169  Identities=8%  Similarity=-0.053  Sum_probs=102.6

Q ss_pred             HHHHHhcCCHHHHHHHHhhCCC---CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHH
Q 005268          375 VDMYGKCGRIDDAMSLFYQVPR---SSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVS  451 (705)
Q Consensus       375 i~~y~k~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~  451 (705)
                      +......|++++|.+.++.-..   .....|..+...+...|++++|+..|++.++.  .|+...+...        ..+
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~--------~~~   80 (198)
T 2fbn_A           11 SSGRENLYFQGAKKSIYDYTDEEKVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDF--FIHTEEWDDQ--------ILL   80 (198)
T ss_dssp             -----------CCCSGGGCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--TTTCTTCCCH--------HHH
T ss_pred             hhhhhhhhhccccCchhhCCHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--Hhcccccchh--------hHH
Confidence            3344455677777766654432   12334777777788888888888888888873  3332111000        000


Q ss_pred             HHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHh
Q 005268          452 EGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVASDRLF  529 (705)
Q Consensus       452 ~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~  529 (705)
                      .-.   ..+        ....|..+..+|.+.|++++|+..+++. ...| +...|..+..++...|++++|+..+++++
T Consensus        81 ~~~---~~~--------~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al  149 (198)
T 2fbn_A           81 DKK---KNI--------EISCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAA  149 (198)
T ss_dssp             HHH---HHH--------HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHH---HHH--------HHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            000   000        1235666777788888888888887766 2233 57788899999999999999999999999


Q ss_pred             ccCCCCcchhhhhhhhhhhcCCcchHH-HHHHHHHh
Q 005268          530 EVDSENVGYYVLMSNIYANVGKWEGVD-EVRSLARD  564 (705)
Q Consensus       530 ~~~p~~~~~~~~l~~~~~~~g~~~~a~-~~~~~m~~  564 (705)
                      +++|+++..+..++.++...|+.+++. ..++.|..
T Consensus       150 ~~~p~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~f~  185 (198)
T 2fbn_A          150 SLNPNNLDIRNSYELCVNKLKEARKKDKLTFGGMFD  185 (198)
T ss_dssp             HHSTTCHHHHHHHHHHHHHHHHHHC-----------
T ss_pred             HHCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            999999999999999998888877776 44444443

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.17  E-value=8.3e-06  Score=68.93  Aligned_cols=97  Identities=13%  Similarity=0.064  Sum_probs=87.0

Q ss_pred             CcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhh
Q 005268          469 HLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIY  546 (705)
Q Consensus       469 ~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  546 (705)
                      +...+..+...+...|++++|...+++. ...| +...|..+...+...|++++|...++++++..|+++..+..++.+|
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~   90 (131)
T 2vyi_A           11 EAERLKTEGNEQMKVENFEAAVHFYGKAIELNPANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPAYSKAYGRMGLAL   90 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHccCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCccCHHHHHHHHHHH
Confidence            3457778889999999999999999887 2333 6788999999999999999999999999999999999999999999


Q ss_pred             hhcCCcchHHHHHHHHHhC
Q 005268          547 ANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       547 ~~~g~~~~a~~~~~~m~~~  565 (705)
                      ...|++++|...++...+.
T Consensus        91 ~~~~~~~~A~~~~~~~~~~  109 (131)
T 2vyi_A           91 SSLNKHVEAVAYYKKALEL  109 (131)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHhc
Confidence            9999999999999998875

>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=98.15  E-value=3.4e-06  Score=73.15  Aligned_cols=62  Identities=6%  Similarity=-0.016  Sum_probs=50.8

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHhcc-------CCCCcchh----hhhhhhhhhcCCcchHHHHHHHHHhC
Q 005268          504 IWGALLGACRIHGNMELGAVASDRLFEV-------DSENVGYY----VLMSNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       504 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~-------~p~~~~~~----~~l~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      .|..+..++...|++++|+..+++++++       +|+++..|    ...+.++...|++++|...+++..+.
T Consensus        59 a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel  131 (159)
T 2hr2_A           59 CHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEM  131 (159)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            7777888888888888888888888887       88888888    88888888888888888888887654

>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=98.14  E-value=0.00013  Score=72.18  Aligned_cols=225  Identities=10%  Similarity=0.028  Sum_probs=121.2

Q ss_pred             HcCChh-HHHHHHHhhhhcCCCCCCccc-ccchhHHhhccCc----------hHHHHHHHHHHHHhCCCCchhHHHHHHH
Q 005268          309 QNGLAS-EAIEVFQMMEECNEINPNQGT-YVSILPAYSHVGA----------LRQGIKIHARVIKNCLCFDVFVATCLVD  376 (705)
Q Consensus       309 ~~g~~~-~A~~~~~~m~~~~~~~p~~~t-~~~ll~a~~~~~~----------~~~a~~~~~~~~~~g~~~~~~~~~~li~  376 (705)
                      +.|.++ +|++++..+..   +.|+..| ++.--..+...+.          ++.+..+++.++... +-+..+++--..
T Consensus        41 ~~~e~s~eaL~~t~~~L~---~nP~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~-PKny~aW~hR~w  116 (331)
T 3dss_A           41 QAGELDESVLELTSQILG---ANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCW  116 (331)
T ss_dssp             HTTCCSHHHHHHHHHHHT---TCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HcCCCCHHHHHHHHHHHH---HCchhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            444444 67777777776   6665544 2211111111111          455666666666543 335555555555


Q ss_pred             HHHhcC--CHHHHHHHHhhCC---CCCcchHHHHHHHHHhcCC-hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcc---
Q 005268          377 MYGKCG--RIDDAMSLFYQVP---RSSSVPWNAIISCHGIHGQ-GDKALNFFRQMLDEGVRPDHITFVSLLTACSHS---  447 (705)
Q Consensus       377 ~y~k~g--~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~-~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~---  447 (705)
                      .+.+.|  .++++..+++.+.   .+|...|+--.-.+...|. ++++++.++++++.. +-|...|+.....+.+.   
T Consensus       117 lL~~l~~~~~~~EL~~~~k~l~~dprNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~-p~N~SAW~~R~~ll~~l~~~  195 (331)
T 3dss_A          117 LLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQ  195 (331)
T ss_dssp             HHHHCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHHSCC
T ss_pred             HHhccCcccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhhhc
Confidence            555666  3677777777665   4455556666666666666 477777777777743 22344555444433333   


Q ss_pred             -----------CcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhc-----------CCHHHHHHHHHhC-CCCCCHH
Q 005268          448 -----------GLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRA-----------GHLGMAHNFIQNM-PVRPDAS  503 (705)
Q Consensus       448 -----------g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~-----------g~~~~A~~~~~~~-~~~p~~~  503 (705)
                                 +.++++++++......   .| |...|+.+-..+.+.           +.++++++.++++ ...||. 
T Consensus       196 ~~~~~~~~~~~~~~~eEle~~~~ai~~---~P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle~~pd~-  271 (331)
T 3dss_A          196 PDSGPQGRLPENVLLKELELVQNAFFT---DPNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQELEPEN-  271 (331)
T ss_dssp             C------CCCHHHHHHHHHHHHHHHHH---STTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHHHCTTC-
T ss_pred             cccccccccchHHHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHhhCccc-
Confidence                       4466666666666543   44 344555454444444           3456666666655 344543 


Q ss_pred             HHHHHHHHH-----HhcCChhHHHHHHHHHhccCCCCcchhhhh
Q 005268          504 IWGALLGAC-----RIHGNMELGAVASDRLFEVDSENVGYYVLM  542 (705)
Q Consensus       504 ~~~~ll~~~-----~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l  542 (705)
                      .|..+..+.     ...|..++....+.++.+++|...+.|..+
T Consensus       272 ~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~Dp~r~~~y~d~  315 (331)
T 3dss_A          272 KWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDDL  315 (331)
T ss_dssp             HHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHHCGGGHHHHHHH
T ss_pred             chHHHHHHHHHHhhcccccHHHHHHHHHHHHHhCcchhhHHHHH
Confidence            343222221     123455566666777777777555444444

>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=98.11  E-value=2.9e-05  Score=76.19  Aligned_cols=88  Identities=14%  Similarity=-0.065  Sum_probs=61.0

Q ss_pred             HHccCChhhHHHHHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCC---CCChhHHHHHHHHHHHcCChhHH
Q 005268          240 VAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLP---VKDVISWNTLITGYAQNGLASEA  316 (705)
Q Consensus       240 ~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~---~~~~~~~~~li~~~~~~g~~~~A  316 (705)
                      +...|+++.|...+..+++.  .+.+...+..+...|.+.|++++|...|++..   ..+...|..+..+|...|++++|
T Consensus        14 ~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A   91 (281)
T 2c2l_A           14 LFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQCQLEMESYDEA   91 (281)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHH
Confidence            33334444444444444433  35567777888888888888888888887654   33667788888888889999999


Q ss_pred             HHHHHhhhhcCCCCCC
Q 005268          317 IEVFQMMEECNEINPN  332 (705)
Q Consensus       317 ~~~~~~m~~~~~~~p~  332 (705)
                      +..|++..+   +.|+
T Consensus        92 ~~~~~~al~---l~p~  104 (281)
T 2c2l_A           92 IANLQRAYS---LAKE  104 (281)
T ss_dssp             HHHHHHHHH---HHHH
T ss_pred             HHHHHHHHH---hCcc
Confidence            998888876   4553

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.09  E-value=1.6e-05  Score=70.73  Aligned_cols=106  Identities=12%  Similarity=-0.008  Sum_probs=75.8

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHH
Q 005268          435 ITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGA  511 (705)
Q Consensus       435 ~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~  511 (705)
                      ..+..+...+...|++++|.+.|+...+.   .| +...|..+...|.+.|++++|+..+++. ...| +...|..+...
T Consensus        12 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~   88 (164)
T 3sz7_A           12 DKLKSEGNAAMARKEYSKAIDLYTQALSI---APANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPKYSKAWSRLGLA   88 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH---STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            34555555666666666666666666543   33 4456666777777777777777777665 2334 47788999999


Q ss_pred             HHhcCChhHHHHHHHHHhccCCCCcchhhhhh
Q 005268          512 CRIHGNMELGAVASDRLFEVDSENVGYYVLMS  543 (705)
Q Consensus       512 ~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~  543 (705)
                      +...|++++|+..++++++++|+++..+...+
T Consensus        89 ~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~  120 (164)
T 3sz7_A           89 RFDMADYKGAKEAYEKGIEAEGNGGSDAMKRG  120 (164)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHSSSCCHHHHHH
T ss_pred             HHHccCHHHHHHHHHHHHHhCCCchHHHHHHH
Confidence            99999999999999999999999887655443

>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=98.08  E-value=1.4e-05  Score=67.55  Aligned_cols=105  Identities=10%  Similarity=-0.088  Sum_probs=63.5

Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHH
Q 005268          437 FVSLLTACSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACR  513 (705)
Q Consensus       437 ~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~  513 (705)
                      +..+...+...|++++|...|+...+.   .| +...|..+..+|.+.|++++|+..+++. ...| +...|..+..++.
T Consensus         7 ~~~~g~~~~~~~~~~~A~~~~~~al~~---~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~   83 (126)
T 3upv_A            7 ARLEGKEYFTKSDWPNAVKAYTEMIKR---APEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQI   83 (126)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHh---CCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHH
Confidence            334444455555555555555554432   22 3345555555666666666666665554 2233 4667777888888


Q ss_pred             hcCChhHHHHHHHHHhccC------CCCcchhhhhhh
Q 005268          514 IHGNMELGAVASDRLFEVD------SENVGYYVLMSN  544 (705)
Q Consensus       514 ~~g~~~~a~~~~~~~~~~~------p~~~~~~~~l~~  544 (705)
                      ..|++++|+..++++++++      |+++.....+..
T Consensus        84 ~~~~~~~A~~~~~~al~~~p~~~~~p~~~~~~~~l~~  120 (126)
T 3upv_A           84 AVKEYASALETLDAARTKDAEVNNGSSAREIDQLYYK  120 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHHHTTTTHHHHHHHHHH
T ss_pred             HHhCHHHHHHHHHHHHHhCcccCCchhHHHHHHHHHH
Confidence            8888888888888888888      666555555443

>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=98.08  E-value=0.00053  Score=68.23  Aligned_cols=151  Identities=9%  Similarity=0.030  Sum_probs=71.1

Q ss_pred             HHHHcCChhHHHHHHHhhhhcCCCCCCccc-ccchhHHhhccC-chHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhc-C
Q 005268          306 GYAQNGLASEAIEVFQMMEECNEINPNQGT-YVSILPAYSHVG-ALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKC-G  382 (705)
Q Consensus       306 ~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t-~~~ll~a~~~~~-~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~-g  382 (705)
                      .....+..++|++++.++..   +.|+..| ++.--..+...+ .++++...++.++... +-+..+++--...+.+. +
T Consensus        63 ~~~~~e~se~AL~lt~~~L~---~nP~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wlL~~l~~  138 (349)
T 3q7a_A           63 IAAKEEKSERALELTEIIVR---MNPAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLLLDRISP  138 (349)
T ss_dssp             HHHTTCCSHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHHHCC
T ss_pred             HHHhCCCCHHHHHHHHHHHH---hCchhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhcC
Confidence            33444555677777777776   6665433 333333333344 3555666665555542 22334444444444443 4


Q ss_pred             -CHHHHHHHHhhCCCC---CcchHHHHHHHHHhcCChH--------HHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCc-
Q 005268          383 -RIDDAMSLFYQVPRS---SSVPWNAIISCHGIHGQGD--------KALNFFRQMLDEGVRPDHITFVSLLTACSHSGL-  449 (705)
Q Consensus       383 -~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g~~~--------~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~-  449 (705)
                       ++++++++++++.+.   |...|+--.-.+.+.|.++        ++++.++++++.. .-|...|+.-...+.+.+. 
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             555555555555532   2333444333333333333        5555555555532 2233444444444444433 


Q ss_pred             ------HHHHHHHHHHhH
Q 005268          450 ------VSEGQRYFHMMQ  461 (705)
Q Consensus       450 ------~~~a~~~~~~m~  461 (705)
                            +++++++++.+.
T Consensus       218 ~~~~~~~~eELe~~~~aI  235 (349)
T 3q7a_A          218 ETSSRSLQDELIYILKSI  235 (349)
T ss_dssp             CCCHHHHHHHHHHHHHHH
T ss_pred             ccchHHHHHHHHHHHHHH
Confidence                  344444444444

>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=98.07  E-value=0.00013  Score=72.48  Aligned_cols=212  Identities=11%  Similarity=0.055  Sum_probs=153.7

Q ss_pred             chHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcC-CHHHHHHHHhhCC---CCCcchHHHHHHHHHhc-C-ChHHHHHH
Q 005268          348 ALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCG-RIDDAMSLFYQVP---RSSSVPWNAIISCHGIH-G-QGDKALNF  421 (705)
Q Consensus       348 ~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g-~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~-g-~~~~A~~~  421 (705)
                      ..++|.++.+.++... +-+..+++.--..+...| .+++++..++.+.   .++...|+.-...+... + ++++++++
T Consensus        69 ~se~AL~lt~~~L~~n-P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPKny~aW~hR~wlL~~l~~~~~~~EL~~  147 (349)
T 3q7a_A           69 KSERALELTEIIVRMN-PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLKSYQVWHHRLLLLDRISPQDPVSEIEY  147 (349)
T ss_dssp             CSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHCCSCCHHHHHH
T ss_pred             CCHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhcCCChHHHHHH
Confidence            3467888999988874 335566777667777788 5999999999887   45556688877777776 7 89999999


Q ss_pred             HHHHHHcCCCC-CHHHHHHHHHHHhccCcHH--------HHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCC------
Q 005268          422 FRQMLDEGVRP-DHITFVSLLTACSHSGLVS--------EGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGH------  485 (705)
Q Consensus       422 ~~~m~~~g~~p-~~~t~~~ll~a~~~~g~~~--------~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~------  485 (705)
                      ++++++.  .| |...|..-.....+.|.++        +++++++.+.+.   .| |...|+....++.+.|+      
T Consensus       148 ~~k~L~~--dpkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~---dp~N~SAW~~R~~lL~~l~~~~~~~~  222 (349)
T 3q7a_A          148 IHGSLLP--DPKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRV---DGRNNSAWGWRWYLRVSRPGAETSSR  222 (349)
T ss_dssp             HHHHTSS--CTTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHTTSTTCCCCHH
T ss_pred             HHHHHHh--CCCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHhccccccchH
Confidence            9999984  44 4567766655666655555        899999988864   44 56678888888888886      


Q ss_pred             -HHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCh--------------------hHHHHHHHHHhccC------CCCc
Q 005268          486 -LGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNM--------------------ELGAVASDRLFEVD------SENV  536 (705)
Q Consensus       486 -~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~--------------------~~a~~~~~~~~~~~------p~~~  536 (705)
                       ++++++.++++ ...| |...|+-+-..+.+.|+.                    .........+....      +.++
T Consensus       223 ~~~eELe~~~~aI~~~P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~  302 (349)
T 3q7a_A          223 SLQDELIYILKSIHLIPHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTPLPVP  302 (349)
T ss_dssp             HHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCSSCCSCCH
T ss_pred             HHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcccccccCCCcH
Confidence             78899988776 3344 688999888888777654                    22222333333222      3455


Q ss_pred             chhhhhhhhhhhcCCcchHHHHHHHHHhC
Q 005268          537 GYYVLMSNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       537 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      .+...|+++|...|+.++|.++++.+.++
T Consensus       303 ~al~~l~d~~~~~~~~~~a~~~~~~l~~~  331 (349)
T 3q7a_A          303 LALEYLADSFIEQNRVDDAAKVFEKLSSE  331 (349)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhh
Confidence            56678999999999999999999998643

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.05  E-value=7.5e-06  Score=69.37  Aligned_cols=91  Identities=11%  Similarity=0.020  Sum_probs=60.6

Q ss_pred             HHHHHHHhcCCHHHHHHHHHhC-CCCCC-H---HHHHHHHHHHHhcCChhHHHHHHHHHhccCCCC---cchhhhhhhhh
Q 005268          475 CMVDLFGRAGHLGMAHNFIQNM-PVRPD-A---SIWGALLGACRIHGNMELGAVASDRLFEVDSEN---VGYYVLMSNIY  546 (705)
Q Consensus       475 ~li~~~~~~g~~~~A~~~~~~~-~~~p~-~---~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~---~~~~~~l~~~~  546 (705)
                      .+...+.+.|++++|...|++. ...|+ .   ..|..+...+...|++++|...++++++..|++   +..+..++.+|
T Consensus         7 ~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~~~   86 (129)
T 2xev_A            7 NVAFDALKNGKYDDASQLFLSFLELYPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGLSQ   86 (129)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHH
Confidence            3455566666666666666654 11232 2   356666677777777777777777777777776   55577777777


Q ss_pred             hhcCCcchHHHHHHHHHhC
Q 005268          547 ANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       547 ~~~g~~~~a~~~~~~m~~~  565 (705)
                      ...|++++|...++.+.+.
T Consensus        87 ~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           87 YGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHH
Confidence            7777777777777776654

>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=98.04  E-value=2e-05  Score=66.49  Aligned_cols=95  Identities=11%  Similarity=0.032  Sum_probs=76.8

Q ss_pred             chHHHHHHHHHhcCCHHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCC-------cchhhh
Q 005268          471 KHYGCMVDLFGRAGHLGMAHNFIQNM-P-VRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSEN-------VGYYVL  541 (705)
Q Consensus       471 ~~~~~li~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~-------~~~~~~  541 (705)
                      ..+..+...+...|++++|...+++. . .+.+...|..+...+...|++++|...++++++..|++       +..+..
T Consensus         5 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (131)
T 1elr_A            5 LKEKELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYAR   84 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHH
Confidence            35566677777788888888877766 2 23357788888888999999999999999999888766       677888


Q ss_pred             hhhhhhhcCCcchHHHHHHHHHhC
Q 005268          542 MSNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       542 l~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      ++.+|...|++++|.+.++.+.+.
T Consensus        85 la~~~~~~~~~~~A~~~~~~~~~~  108 (131)
T 1elr_A           85 IGNSYFKEEKYKDAIHFYNKSLAE  108 (131)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHh
Confidence            999999999999999999988775

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.01  E-value=2.2e-06  Score=71.57  Aligned_cols=83  Identities=14%  Similarity=0.095  Sum_probs=53.0

Q ss_pred             cCCHHHHHHHHHhC-CC---CCC-HHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHH
Q 005268          483 AGHLGMAHNFIQNM-PV---RPD-ASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDE  557 (705)
Q Consensus       483 ~g~~~~A~~~~~~~-~~---~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~  557 (705)
                      .|++++|+..|++. ..   .|+ ..+|..+...+...|++++|+..++++++++|+++..+..++.+|...|++++|..
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            45566666666555 22   132 44666677777777777777777777777777777777777777777777777777


Q ss_pred             HHHHHHhC
Q 005268          558 VRSLARDR  565 (705)
Q Consensus       558 ~~~~m~~~  565 (705)
                      .+++..+.
T Consensus        83 ~~~~al~~   90 (117)
T 3k9i_A           83 LLLKIIAE   90 (117)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            77766554

>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=98.01  E-value=1.3e-05  Score=69.58  Aligned_cols=71  Identities=11%  Similarity=0.021  Sum_probs=53.6

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHhC--------CCCCC-HHHH----HHHHHHHHhcCChhHHHHHHHHHhccCCCCcch
Q 005268          472 HYGCMVDLFGRAGHLGMAHNFIQNM--------PVRPD-ASIW----GALLGACRIHGNMELGAVASDRLFEVDSENVGY  538 (705)
Q Consensus       472 ~~~~li~~~~~~g~~~~A~~~~~~~--------~~~p~-~~~~----~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~  538 (705)
                      .|..+..++.+.|++++|+..+++.        ++.|+ ...|    .....++...|++++|+..|+++++++|++...
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            5555666666666666666555444        33776 5588    999999999999999999999999999988766


Q ss_pred             hhhh
Q 005268          539 YVLM  542 (705)
Q Consensus       539 ~~~l  542 (705)
                      +.-+
T Consensus       139 ~~~~  142 (159)
T 2hr2_A          139 TPGK  142 (159)
T ss_dssp             CTTH
T ss_pred             HHHH
Confidence            5443

>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=98.00  E-value=3e-05  Score=82.00  Aligned_cols=94  Identities=9%  Similarity=-0.010  Sum_probs=75.5

Q ss_pred             chHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhh
Q 005268          471 KHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYAN  548 (705)
Q Consensus       471 ~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  548 (705)
                      ..|..+..+|.+.|++++|+..++++ ...| +...|..+..++...|++++|+..|+++++++|++..++..++.++..
T Consensus       318 ~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~  397 (457)
T 1kt0_A          318 AAFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQISMCQKK  397 (457)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC----CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            57778888888999999999888877 3334 577899999999999999999999999999999999999999999999


Q ss_pred             cCCcchHHH-HHHHHHh
Q 005268          549 VGKWEGVDE-VRSLARD  564 (705)
Q Consensus       549 ~g~~~~a~~-~~~~m~~  564 (705)
                      .|+++++.+ .++.|..
T Consensus       398 ~~~~~~a~~~~~~~~f~  414 (457)
T 1kt0_A          398 AKEHNERDRRIYANMFK  414 (457)
T ss_dssp             HHHHHHHHHHHHHHC--
T ss_pred             HHHHHHHHHHHHHHHHh
Confidence            999988874 4555443

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.00  E-value=2.5e-05  Score=63.83  Aligned_cols=96  Identities=14%  Similarity=0.010  Sum_probs=55.5

Q ss_pred             HHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCC---CHHHHHHHHHHHHh
Q 005268          439 SLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP---DASIWGALLGACRI  514 (705)
Q Consensus       439 ~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p---~~~~~~~ll~~~~~  514 (705)
                      .+...+...|++++|...++...+.  .+.+...+..+...+.+.|++++|...+++. ...|   +..+|..+...+..
T Consensus        11 ~~~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~~~~~~   88 (112)
T 2kck_A           11 LEGVLQYDAGNYTESIDLFEKAIQL--DPEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKADALRY   88 (112)
T ss_dssp             GHHHHHHSSCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHHHHHHH
Confidence            3333444444444444444444432  0112334445555555555666665555544 2223   46677778888888


Q ss_pred             c-CChhHHHHHHHHHhccCCCCc
Q 005268          515 H-GNMELGAVASDRLFEVDSENV  536 (705)
Q Consensus       515 ~-g~~~~a~~~~~~~~~~~p~~~  536 (705)
                      . |++++|.+.++++++..|+++
T Consensus        89 ~~~~~~~A~~~~~~~~~~~p~~~  111 (112)
T 2kck_A           89 IEGKEVEAEIAEARAKLEHHHHH  111 (112)
T ss_dssp             CSSCSHHHHHHHHHHGGGCCCCC
T ss_pred             HhCCHHHHHHHHHHHhhcccCCC
Confidence            8 888888888888888887654

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=97.98  E-value=2.5e-05  Score=65.44  Aligned_cols=92  Identities=11%  Similarity=0.076  Sum_probs=51.5

Q ss_pred             HHHhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCh
Q 005268          442 TACSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNM  518 (705)
Q Consensus       442 ~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~  518 (705)
                      ..+...|++++|...|+...+.   .| +...|..+..++.+.|++++|+..+++. ...| +...|..+...+...|++
T Consensus        25 ~~~~~~g~~~~A~~~~~~al~~---~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~~~~g~~  101 (121)
T 1hxi_A           25 LSMLKLANLAEAALAFEAVCQK---EPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEHNA  101 (121)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH---STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHH---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCH
Confidence            3444455555555555554432   23 3344555555555555555555555554 2234 456777777788888888


Q ss_pred             hHHHHHHHHHhccCCCCc
Q 005268          519 ELGAVASDRLFEVDSENV  536 (705)
Q Consensus       519 ~~a~~~~~~~~~~~p~~~  536 (705)
                      ++|+..++++++++|+++
T Consensus       102 ~~A~~~~~~al~~~P~~~  119 (121)
T 1hxi_A          102 NAALASLRAWLLSQPQYE  119 (121)
T ss_dssp             HHHHHHHHHHHC------
T ss_pred             HHHHHHHHHHHHhCcCCC
Confidence            888888888888887653

>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C, TPR-containing domain, structural genomics; 1.63A {Plasmodium falciparum} SCOP: a.118.8.1

Probab=97.98  E-value=4.7e-05  Score=70.19  Aligned_cols=94  Identities=12%  Similarity=-0.035  Sum_probs=77.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-C----------------HHHHHHHHHHHHhcCChhHHHHHHHHHhccCC
Q 005268          472 HYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-D----------------ASIWGALLGACRIHGNMELGAVASDRLFEVDS  533 (705)
Q Consensus       472 ~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~----------------~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p  533 (705)
                      .+..+...+.+.|++++|...|++. ...| +                ..+|..+...+...|++++|+..++++++++|
T Consensus        40 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p  119 (198)
T 2fbn_A           40 DIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKIDK  119 (198)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCc
Confidence            4555566666777777777766654 1111 1                26888899999999999999999999999999


Q ss_pred             CCcchhhhhhhhhhhcCCcchHHHHHHHHHhC
Q 005268          534 ENVGYYVLMSNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       534 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      +++.++..++.+|...|++++|.+.++...+.
T Consensus       120 ~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~  151 (198)
T 2fbn_A          120 NNVKALYKLGVANMYFGFLEEAKENLYKAASL  151 (198)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHH
Confidence            99999999999999999999999999998765

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A

Probab=97.97  E-value=4.6e-05  Score=76.93  Aligned_cols=125  Identities=10%  Similarity=-0.033  Sum_probs=88.1

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC----------------HHHHHHHHHHHhccCcHHHHHHHHHHhHHhh
Q 005268          401 PWNAIISCHGIHGQGDKALNFFRQMLDEGVRPD----------------HITFVSLLTACSHSGLVSEGQRYFHMMQEEF  464 (705)
Q Consensus       401 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~----------------~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~  464 (705)
                      .|..+...|.+.|++++|+..|++.++.  .|+                ...+..+..++...|++++|+..++...+. 
T Consensus       149 ~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~-  225 (336)
T 1p5q_A          149 IVKERGTVYFKEGKYKQALLQYKKIVSW--LEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALEL-  225 (336)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHH--TTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHH--hhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-
Confidence            3555666666667777777777777663  343                256777777788888888888888777653 


Q ss_pred             CCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHH-HHHHHHHhc
Q 005268          465 GIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELG-AVASDRLFE  530 (705)
Q Consensus       465 ~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a-~~~~~~~~~  530 (705)
                        .| +...|..+..+|...|++++|+..|+++ ...| +..+|..+...+...|+.++| ...++++++
T Consensus       226 --~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~~~  293 (336)
T 1p5q_A          226 --DSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRIRRQLAREKKLYANMFE  293 (336)
T ss_dssp             --CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             --CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence              34 4567777788888888888888888776 3344 466788888888888888887 446666664

>3dss_A Geranylgeranyl transferase type-2 subunit alpha; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} PDB: 3dst_A* 3dsu_A* 3dsv_A* 3dsw_A* 3dsx_A* 3hxb_A* 3hxc_A* 3hxd_A* 3hxe_A* 3hxf_A* 3pz1_A* 3pz2_A* 3pz3_A* 3c72_A* 4gtv_A* 4gts_A* 4ehm_A* 4gtt_A*

Probab=97.97  E-value=0.00033  Score=69.33  Aligned_cols=211  Identities=9%  Similarity=0.035  Sum_probs=148.7

Q ss_pred             HHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCC----------HHHHHHHHhhCC---CCCcchHHHHHHHHHhcCC--
Q 005268          350 RQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGR----------IDDAMSLFYQVP---RSSSVPWNAIISCHGIHGQ--  414 (705)
Q Consensus       350 ~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~----------~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~--  414 (705)
                      ++|....+.++.... -+..+++.--..+...|.          ++++...++.+.   +++...|+.-.-.+...|+  
T Consensus        47 ~eaL~~t~~~L~~nP-~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~PKny~aW~hR~wlL~~l~~~~  125 (331)
T 3dss_A           47 ESVLELTSQILGANP-DFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLSRLPEPN  125 (331)
T ss_dssp             HHHHHHHHHHHTTCT-TCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHCSSCC
T ss_pred             HHHHHHHHHHHHHCc-hhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHhccCccc
Confidence            467888888877542 233444443333333332          678888888776   5667778888888888884  


Q ss_pred             hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCc-HHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhc---------
Q 005268          415 GDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGL-VSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRA---------  483 (705)
Q Consensus       415 ~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~-~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~---------  483 (705)
                      +++++.+++++.+.. +-|...|+.-..++...|. +++++++++.+.+.   .| |...|+....++.+.         
T Consensus       126 ~~~EL~~~~k~l~~d-prNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~---~p~N~SAW~~R~~ll~~l~~~~~~~~~  201 (331)
T 3dss_A          126 WARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITR---NFSNYSSWHYRSCLLPQLHPQPDSGPQ  201 (331)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH---CSCCHHHHHHHHHHHHHHSCCC-----
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHH---CCCCHHHHHHHHHHHHHhhhccccccc
Confidence            799999999999953 3355677777667777787 69999999999865   44 556777776666655         


Q ss_pred             -----CCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhc-----------CChhHHHHHHHHHhccCCCCcchhhhhhhh
Q 005268          484 -----GHLGMAHNFIQNM-PVRP-DASIWGALLGACRIH-----------GNMELGAVASDRLFEVDSENVGYYVLMSNI  545 (705)
Q Consensus       484 -----g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~-----------g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  545 (705)
                           +.++++++.+.+. ...| |...|+-+-..+.+.           +.++++++.++++++++|++.-.+..++..
T Consensus       202 ~~~~~~~~~eEle~~~~ai~~~P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle~~pd~~w~l~~~~~~  281 (331)
T 3dss_A          202 GRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQELEPENKWCLLTIILL  281 (331)
T ss_dssp             -CCCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             cccchHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHhhCcccchHHHHHHHH
Confidence                 5688899988877 2334 688998776666655           457899999999999999986554443322


Q ss_pred             ---hhhcCCcchHHHHHHHHHhC
Q 005268          546 ---YANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       546 ---~~~~g~~~~a~~~~~~m~~~  565 (705)
                         ....|..++....+.++++.
T Consensus       282 ~~~~~~~~~~~~~~~~l~~l~~~  304 (331)
T 3dss_A          282 MRALDPLLYEKETLQYFSTLKAV  304 (331)
T ss_dssp             HHHHCTTTTHHHHHHHHHHHHHH
T ss_pred             HHhhcccccHHHHHHHHHHHHHh
Confidence               22457777888888888764

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=97.95  E-value=6.3e-05  Score=63.49  Aligned_cols=95  Identities=11%  Similarity=0.011  Sum_probs=55.2

Q ss_pred             HHhccCcHHHHHHHHHHhHHhhCCcCCc----chHHHHHHHHHhcCCHHHHHHHHHhC-CCCCC----HHHHHHHHHHHH
Q 005268          443 ACSHSGLVSEGQRYFHMMQEEFGIKPHL----KHYGCMVDLFGRAGHLGMAHNFIQNM-PVRPD----ASIWGALLGACR  513 (705)
Q Consensus       443 a~~~~g~~~~a~~~~~~m~~~~~~~p~~----~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~ll~~~~  513 (705)
                      .+...|++++|...|+.+.+.   .|+.    ..+..+...+.+.|++++|...+++. ...|+    ...+..+...+.
T Consensus        11 ~~~~~~~~~~A~~~~~~~~~~---~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~~~~   87 (129)
T 2xev_A           11 DALKNGKYDDASQLFLSFLEL---YPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGLSQY   87 (129)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH---CSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHHH---CCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHH
Confidence            344445555555555544432   2221    24444555555556666665555544 11222    455667777788


Q ss_pred             hcCChhHHHHHHHHHhccCCCCcchhh
Q 005268          514 IHGNMELGAVASDRLFEVDSENVGYYV  540 (705)
Q Consensus       514 ~~g~~~~a~~~~~~~~~~~p~~~~~~~  540 (705)
                      ..|++++|...++++++..|+++....
T Consensus        88 ~~g~~~~A~~~~~~~~~~~p~~~~~~~  114 (129)
T 2xev_A           88 GEGKNTEAQQTLQQVATQYPGSDAARV  114 (129)
T ss_dssp             HTTCHHHHHHHHHHHHHHSTTSHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHHCCCChHHHH
Confidence            888888888888888888887655443

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*

Probab=97.95  E-value=2.5e-05  Score=66.82  Aligned_cols=100  Identities=7%  Similarity=-0.088  Sum_probs=68.3

Q ss_pred             CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHH
Q 005268          433 DHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALL  509 (705)
Q Consensus       433 ~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll  509 (705)
                      +...+..+...+...|++++|...|+...+.   .| +...|..+...|.+.|++++|...+++. ...| +...|..+.
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~---~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~   84 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITR---NPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLG   84 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhh---CcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHHHHHHHH
Confidence            3445556666666666666666666665543   23 3456666666777777777777766655 2233 466788888


Q ss_pred             HHHHhcCChhHHHHHHHHHhccCCCC
Q 005268          510 GACRIHGNMELGAVASDRLFEVDSEN  535 (705)
Q Consensus       510 ~~~~~~g~~~~a~~~~~~~~~~~p~~  535 (705)
                      ..+...|++++|+..+++++++.|++
T Consensus        85 ~~~~~~~~~~~A~~~~~~a~~~~p~~  110 (137)
T 3q49_B           85 QCQLEMESYDEAIANLQRAYSLAKEQ  110 (137)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHhhHHHHHHHHHHHHHHChhH
Confidence            88888899999999999888888863

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.95  E-value=6.4e-05  Score=78.88  Aligned_cols=163  Identities=6%  Similarity=-0.147  Sum_probs=106.6

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcC-CCCCHH----HHHHHHHHHhccCcHHHHHHHHHHhHHhh---CCcCC-cch
Q 005268          402 WNAIISCHGIHGQGDKALNFFRQMLDEG-VRPDHI----TFVSLLTACSHSGLVSEGQRYFHMMQEEF---GIKPH-LKH  472 (705)
Q Consensus       402 ~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~----t~~~ll~a~~~~g~~~~a~~~~~~m~~~~---~~~p~-~~~  472 (705)
                      +..+...|...|++++|.+.+.++...- -.++..    ..+.+-..+...|..+++.+++.......   +..+. ...
T Consensus        58 l~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  137 (434)
T 4b4t_Q           58 ILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSL  137 (434)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHH
Confidence            4566777777777777777777765521 111211    22223334456678888888877665421   11221 346


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhCC-------CCCC-HHHHHHHHHHHHhcCChhHHHHHHHHHhccCC---CC----cc
Q 005268          473 YGCMVDLFGRAGHLGMAHNFIQNMP-------VRPD-ASIWGALLGACRIHGNMELGAVASDRLFEVDS---EN----VG  537 (705)
Q Consensus       473 ~~~li~~~~~~g~~~~A~~~~~~~~-------~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p---~~----~~  537 (705)
                      +..++..|...|++++|..++++..       .+|. ..++..++..|...|++++|...+++++...|   ++    ..
T Consensus       138 ~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~  217 (434)
T 4b4t_Q          138 SIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAE  217 (434)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHH
T ss_pred             HHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHH
Confidence            6778888888888888888877651       1222 44777888888899999999999888876532   22    23


Q ss_pred             hhhhhhhhhhhcCCcchHHHHHHHHHh
Q 005268          538 YYVLMSNIYANVGKWEGVDEVRSLARD  564 (705)
Q Consensus       538 ~~~~l~~~~~~~g~~~~a~~~~~~m~~  564 (705)
                      .+..++.++...|++++|...+....+
T Consensus       218 ~~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          218 LDLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             HHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            456677888888999999887766643

>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=97.93  E-value=0.00026  Score=76.55  Aligned_cols=168  Identities=10%  Similarity=0.006  Sum_probs=136.8

Q ss_pred             CCHHHHHHHHhhCC---CCCcchHHHHHHHHHhcCC----------hHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhcc
Q 005268          382 GRIDDAMSLFYQVP---RSSSVPWNAIISCHGIHGQ----------GDKALNFFRQMLDEGVRPD-HITFVSLLTACSHS  447 (705)
Q Consensus       382 g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~----------~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~  447 (705)
                      ..-++|.+.++.+.   +.+...|+.--..+...|+          ++++++.++++.+.  .|. ...|..-..++.+.
T Consensus        43 ~~~eeal~~~~~~l~~nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~--~pK~y~aW~hR~w~l~~l  120 (567)
T 1dce_A           43 ELDESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRV--NPKSYGTWHHRCWLLSRL  120 (567)
T ss_dssp             CCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTC
T ss_pred             CCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHc
Confidence            34567788888776   4445568887777777777          89999999999994  454 56888888888888


Q ss_pred             C--cHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcC-CHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhc------
Q 005268          448 G--LVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAG-HLGMAHNFIQNM-PVRP-DASIWGALLGACRIH------  515 (705)
Q Consensus       448 g--~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g-~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~------  515 (705)
                      +  ++++++++++.+.+.   .| +...|+.-..++.+.| ..+++++.++++ ...| |...|+.....+...      
T Consensus       121 ~~~~~~~el~~~~k~l~~---d~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~saW~~r~~ll~~l~~~~~~  197 (567)
T 1dce_A          121 PEPNWARELELCARFLEA---DERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDS  197 (567)
T ss_dssp             SSCCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCS
T ss_pred             ccccHHHHHHHHHHHHhh---ccccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCccHHHHHHHHHHhhcccccc
Confidence            9  779999999999865   45 5567888888888899 899999999888 4445 688999888887763      


Q ss_pred             --------CChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcch
Q 005268          516 --------GNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEG  554 (705)
Q Consensus       516 --------g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  554 (705)
                              +.++++.+.+.+++.++|++.++|..+..++.+.++.++
T Consensus       198 ~~~~~~~~~~~~eel~~~~~ai~~~P~~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          198 GPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             SSCCSSCHHHHHHHHHHHHHHHHHCSSCSHHHHHHHHHHSCCCCCSC
T ss_pred             cccccccHHHHHHHHHHHHHHHhhCCCCccHHHHHHHHHhcCCCccc
Confidence                    457899999999999999999999999999999998666

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=97.92  E-value=3.6e-05  Score=67.70  Aligned_cols=93  Identities=12%  Similarity=0.094  Sum_probs=54.1

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHhCC----CCCC----HHHHHHHHHHHHhcCChhHHHHHHHHHhccCCC------Ccc
Q 005268          472 HYGCMVDLFGRAGHLGMAHNFIQNMP----VRPD----ASIWGALLGACRIHGNMELGAVASDRLFEVDSE------NVG  537 (705)
Q Consensus       472 ~~~~li~~~~~~g~~~~A~~~~~~~~----~~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~------~~~  537 (705)
                      .+..+...+...|++++|.+.+++.-    ..++    ..++..+...+...|++++|...+++++++.+.      .+.
T Consensus        51 ~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~  130 (164)
T 3ro3_A           51 AYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGR  130 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHH
Confidence            33444444455555555544444330    0011    335556666677777777777777776654221      134


Q ss_pred             hhhhhhhhhhhcCCcchHHHHHHHHHh
Q 005268          538 YYVLMSNIYANVGKWEGVDEVRSLARD  564 (705)
Q Consensus       538 ~~~~l~~~~~~~g~~~~a~~~~~~m~~  564 (705)
                      .+..++.+|...|++++|.+.+++..+
T Consensus       131 ~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A          131 ACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            466777888888888888888777654

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans}

Probab=97.92  E-value=4.4e-05  Score=64.53  Aligned_cols=100  Identities=10%  Similarity=0.073  Sum_probs=58.5

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCC--------cch
Q 005268          402 WNAIISCHGIHGQGDKALNFFRQMLDEGVRPD-HITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPH--------LKH  472 (705)
Q Consensus       402 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~--------~~~  472 (705)
                      |..+...+.+.|++++|++.|++.++  +.|+ ...|..+..+|...|++++|++.++...+.   .|+        ...
T Consensus        11 ~~~lG~~~~~~~~~~~A~~~y~~Al~--~~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~---~~~~~~~~~~~a~~   85 (127)
T 4gcn_A           11 EKDLGNAAYKQKDFEKAHVHYDKAIE--LDPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEV---GRETRADYKLIAKA   85 (127)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---HHHTTCCHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHh---CcccchhhHHHHHH
Confidence            44555666666666666666666666  3444 345566666666666666666666665532   221        124


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhC-CCCCCHHHHH
Q 005268          473 YGCMVDLFGRAGHLGMAHNFIQNM-PVRPDASIWG  506 (705)
Q Consensus       473 ~~~li~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~  506 (705)
                      |..+...+...|++++|++.|++. ...||..+..
T Consensus        86 ~~~lg~~~~~~~~~~~A~~~~~kal~~~~~~~~~~  120 (127)
T 4gcn_A           86 MSRAGNAFQKQNDLSLAVQWFHRSLSEFRDPELVK  120 (127)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSCCHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhhCcCHHHHH
Confidence            555666677777777777776654 3345554443

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.92  E-value=2.2e-05  Score=79.42  Aligned_cols=146  Identities=5%  Similarity=-0.118  Sum_probs=86.5

Q ss_pred             chHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHH
Q 005268          400 VPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDL  479 (705)
Q Consensus       400 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~  479 (705)
                      ..|..+...+.+.|++++|+..|++.+.  +.|+...       +...|+.+++...+.           ...|..+..+
T Consensus       180 ~~~~~~g~~~~~~g~~~~A~~~y~~Al~--~~p~~~~-------~~~~~~~~~~~~~l~-----------~~~~~nla~~  239 (338)
T 2if4_A          180 DRRKMDGNSLFKEEKLEEAMQQYEMAIA--YMGDDFM-------FQLYGKYQDMALAVK-----------NPCHLNIAAC  239 (338)
T ss_dssp             HHHHHHHHHTCSSSCCHHHHHHHHHHHH--HSCHHHH-------HTCCHHHHHHHHHHH-----------THHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHH--Hhccchh-------hhhcccHHHHHHHHH-----------HHHHHHHHHH
Confidence            3477788888889999999999999888  4565542       234455555443321           1277888999


Q ss_pred             HHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhh-hhcCCcchHH
Q 005268          480 FGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIY-ANVGKWEGVD  556 (705)
Q Consensus       480 ~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~-~~~g~~~~a~  556 (705)
                      |.+.|++++|+..+++. ...| +...|..+..++...|++++|+..++++++++|+++.++..|..+. ...+..+++.
T Consensus       240 ~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~~~a~~~L~~l~~~~~~~~~~a~  319 (338)
T 2if4_A          240 LIKLKRYDEAIGHCNIVLTEEEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDDKAIRRELRALAEQEKALYQKQK  319 (338)
T ss_dssp             HHTTTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC---------------------------
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999877 3344 5788999999999999999999999999999999999988888774 4456777888


Q ss_pred             HHHHHHHhC
Q 005268          557 EVRSLARDR  565 (705)
Q Consensus       557 ~~~~~m~~~  565 (705)
                      +.++.|...
T Consensus       320 ~~~~~~l~~  328 (338)
T 2if4_A          320 EMYKGIFKG  328 (338)
T ss_dssp             ---------
T ss_pred             HHHHHhhCC
Confidence            888877654

>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A

Probab=97.90  E-value=2.1e-05  Score=66.47  Aligned_cols=112  Identities=7%  Similarity=-0.060  Sum_probs=62.4

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHH
Q 005268          401 PWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLF  480 (705)
Q Consensus       401 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~  480 (705)
                      .|..+...+...|++++|+..|++..+.. +.+...+..+...+...|++++|...++...+..   |+           
T Consensus         6 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~---~~-----------   70 (131)
T 1elr_A            6 KEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVG---RE-----------   70 (131)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH---HH-----------
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhc---cc-----------
Confidence            35555666666666666666666666532 2233455555555556666666666655554321   10           


Q ss_pred             HhcCCHHHHHHHHHhCCCCCC----HHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhh
Q 005268          481 GRAGHLGMAHNFIQNMPVRPD----ASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNI  545 (705)
Q Consensus       481 ~~~g~~~~A~~~~~~~~~~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~  545 (705)
                                       ..++    ..+|..+...+...|++++|...++++++..| ++.....+..+
T Consensus        71 -----------------~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~l~~~  121 (131)
T 1elr_A           71 -----------------NREDYRQIAKAYARIGNSYFKEEKYKDAIHFYNKSLAEHR-TPDVLKKCQQA  121 (131)
T ss_dssp             -----------------STTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-CHHHHHHHHHH
T ss_pred             -----------------cchhHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC-CHHHHHHHHHH
Confidence                             0111    44566666667777777777777777777666 44444444433

>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=97.88  E-value=4.1e-05  Score=78.30  Aligned_cols=134  Identities=7%  Similarity=-0.005  Sum_probs=98.2

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHH
Q 005268          402 WNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLF  480 (705)
Q Consensus       402 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~  480 (705)
                      |..+...+.+.|++++|++.|++.++.  .|+..          .....+++.          ...| +...|..+..+|
T Consensus       226 ~~~~g~~~~~~g~~~~Ai~~y~kAl~~--~~~~~----------~~~~~~~~~----------~~~~~~~~~~~nla~~~  283 (370)
T 1ihg_A          226 LKNIGNTFFKSQNWEMAIKKYTKVLRY--VEGSR----------AAAEDADGA----------KLQPVALSCVLNIGACK  283 (370)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--HHHHH----------HHSCHHHHG----------GGHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHH--hhcCc----------cccChHHHH----------HHHHHHHHHHHHHHHHH
Confidence            666667777777777777777776652  11100          000011110          1222 345788888999


Q ss_pred             HhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHH
Q 005268          481 GRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDE  557 (705)
Q Consensus       481 ~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~  557 (705)
                      .+.|++++|++.+++. ...| +...|..+..++...|++++|+..++++++++|++...+..+..++...++.+++.+
T Consensus       284 ~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P~~~~~~~~l~~~~~~~~~~~~a~k  362 (370)
T 1ihg_A          284 LKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVKQKIKAQKDKEK  362 (370)
T ss_dssp             HHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhccCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999887 4555 477899999999999999999999999999999999999999998888887776654

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.86  E-value=5e-05  Score=80.15  Aligned_cols=125  Identities=10%  Similarity=0.027  Sum_probs=93.1

Q ss_pred             HhccCcHHHHHHHHHHhHHhhC--CcC----CcchHHHHHHHHHhcCCHHHHHHHHHhC---------CCCCC-HHHHHH
Q 005268          444 CSHSGLVSEGQRYFHMMQEEFG--IKP----HLKHYGCMVDLFGRAGHLGMAHNFIQNM---------PVRPD-ASIWGA  507 (705)
Q Consensus       444 ~~~~g~~~~a~~~~~~m~~~~~--~~p----~~~~~~~li~~~~~~g~~~~A~~~~~~~---------~~~p~-~~~~~~  507 (705)
                      +...|++++|..++++..+...  +.|    ...+++.|..+|...|++++|+.++++.         +..|+ ..+++.
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            4567777888777776654321  112    1346777888888888888888877665         23354 457899


Q ss_pred             HHHHHHhcCChhHHHHHHHHHhc-----cCCCCcchh---hhhhhhhhhcCCcchHHHHHHHHHhCCCc
Q 005268          508 LLGACRIHGNMELGAVASDRLFE-----VDSENVGYY---VLMSNIYANVGKWEGVDEVRSLARDRGLK  568 (705)
Q Consensus       508 ll~~~~~~g~~~~a~~~~~~~~~-----~~p~~~~~~---~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  568 (705)
                      |...|...|++++|+.+++++++     +.|+.|.+-   ..|...+..+|++++|..++..+++...+
T Consensus       399 La~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~~~~  467 (490)
T 3n71_A          399 AGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREAALN  467 (490)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            99999999999999999999886     467776553   56788889999999999999999876443

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.85  E-value=3.1e-05  Score=78.29  Aligned_cols=151  Identities=10%  Similarity=-0.000  Sum_probs=79.1

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcc
Q 005268          368 VFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHS  447 (705)
Q Consensus       368 ~~~~~~li~~y~k~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~  447 (705)
                      ...+..+...|.+.|++++|...|++....+....     .+...|+.+++...+.          ...|..+..++.+.
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~-----~~~~~~~~~~~~~~l~----------~~~~~nla~~~~~~  243 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAYMGDDF-----MFQLYGKYQDMALAVK----------NPCHLNIAACLIKL  243 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHHSCHHH-----HHTCCHHHHHHHHHHH----------THHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhccch-----hhhhcccHHHHHHHHH----------HHHHHHHHHHHHHc
Confidence            34567788889999999999999988653221111     1222333344333221          13677777888889


Q ss_pred             CcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHH-HHhcCChhHHHH
Q 005268          448 GLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRPD-ASIWGALLGA-CRIHGNMELGAV  523 (705)
Q Consensus       448 g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~-~~~~g~~~~a~~  523 (705)
                      |++++|+..++...+.   .| +...|..+..+|...|++++|...|++. .+.|+ ...+..|... ....+..+.+..
T Consensus       244 g~~~~A~~~~~~al~~---~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~~~a~~~L~~l~~~~~~~~~~a~~  320 (338)
T 2if4_A          244 KRYDEAIGHCNIVLTE---EEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDDKAIRRELRALAEQEKALYQKQKE  320 (338)
T ss_dssp             TCCHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC----------------------------
T ss_pred             CCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999888754   45 5678888889999999999999999887 45564 4455555554 334566788889


Q ss_pred             HHHHHhccCCCCc
Q 005268          524 ASDRLFEVDSENV  536 (705)
Q Consensus       524 ~~~~~~~~~p~~~  536 (705)
                      .++++++..|+++
T Consensus       321 ~~~~~l~~~p~~~  333 (338)
T 2if4_A          321 MYKGIFKGKDEGG  333 (338)
T ss_dssp             -------------
T ss_pred             HHHHhhCCCCCCC
Confidence            9999999998764

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=97.79  E-value=2.3e-05  Score=65.18  Aligned_cols=69  Identities=14%  Similarity=0.069  Sum_probs=44.8

Q ss_pred             chHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchh
Q 005268          471 KHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYY  539 (705)
Q Consensus       471 ~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~  539 (705)
                      ..+..+...|.+.|++++|+..+++. ...| +..+|..+..++...|++++|+..++++++..|+++...
T Consensus        28 ~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~   98 (117)
T 3k9i_A           28 ECYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQALRVFYAMVLYNLGRYEQGVELLLKIIAETSDDETIQ   98 (117)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCCCHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHH
Confidence            34445555555555555555555554 2223 356777777788888888888888888888888776543

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.79  E-value=0.00041  Score=72.61  Aligned_cols=121  Identities=8%  Similarity=-0.028  Sum_probs=74.8

Q ss_pred             HHHHhcCCHHHHHHHHhhCC-----CCC----cchHHHHHHHHHhcCChHHHHHHHHHHHHc--CC--CCCH-HHHHHHH
Q 005268          376 DMYGKCGRIDDAMSLFYQVP-----RSS----SVPWNAIISCHGIHGQGDKALNFFRQMLDE--GV--RPDH-ITFVSLL  441 (705)
Q Consensus       376 ~~y~k~g~~~~A~~~~~~~~-----~~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--g~--~p~~-~t~~~ll  441 (705)
                      ..+...|+.+.|..+++...     ..+    ...+..+...|...|++++|..++++....  +.  +|.. .++..++
T Consensus       103 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~  182 (434)
T 4b4t_Q          103 KFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPSLVDVHLLES  182 (434)
T ss_dssp             HHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHH
T ss_pred             HHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchhHHHHHHHHH
Confidence            34444566666666665443     111    123566777777888888888888777653  11  2222 3666777


Q ss_pred             HHHhccCcHHHHHHHHHHhHHhhCCcCC-----cchHHHHHHHHHhcCCHHHHHHHHHhC
Q 005268          442 TACSHSGLVSEGQRYFHMMQEEFGIKPH-----LKHYGCMVDLFGRAGHLGMAHNFIQNM  496 (705)
Q Consensus       442 ~a~~~~g~~~~a~~~~~~m~~~~~~~p~-----~~~~~~li~~~~~~g~~~~A~~~~~~~  496 (705)
                      ..|...|++++|..+++.......-.++     ...+..++..+...|++++|...|.+.
T Consensus       183 ~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a  242 (434)
T 4b4t_Q          183 KVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFES  242 (434)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHH
T ss_pred             HHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence            7888888888888888776543211122     245666677777888888887766544

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=97.79  E-value=7.8e-05  Score=65.49  Aligned_cols=131  Identities=14%  Similarity=0.070  Sum_probs=75.1

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCC-CC----HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCC----cch
Q 005268          402 WNAIISCHGIHGQGDKALNFFRQMLDEGVR-PD----HITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPH----LKH  472 (705)
Q Consensus       402 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~----~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~----~~~  472 (705)
                      +..+...|...|++++|+..+++..+.... ++    ..++..+...+...|++++|.+.++...+...-.++    ...
T Consensus        12 ~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~   91 (164)
T 3ro3_A           12 FGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQS   91 (164)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHH
Confidence            344444555555555555555555442100 11    124555555666666777776666665442111111    335


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhCC----CCCC----HHHHHHHHHHHHhcCChhHHHHHHHHHhccC
Q 005268          473 YGCMVDLFGRAGHLGMAHNFIQNMP----VRPD----ASIWGALLGACRIHGNMELGAVASDRLFEVD  532 (705)
Q Consensus       473 ~~~li~~~~~~g~~~~A~~~~~~~~----~~p~----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~  532 (705)
                      +..+...+...|++++|.+.+++.-    ..++    ..++..+...+...|++++|...+++++++.
T Consensus        92 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~  159 (164)
T 3ro3_A           92 CYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEIS  159 (164)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHH
Confidence            5666677777777777777665541    0111    3456777788888899999988888877654

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.78  E-value=3.2e-05  Score=63.25  Aligned_cols=90  Identities=9%  Similarity=-0.047  Sum_probs=72.7

Q ss_pred             cchHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCC------cchhhh
Q 005268          470 LKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSEN------VGYYVL  541 (705)
Q Consensus       470 ~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~------~~~~~~  541 (705)
                      ...+..+...+.+.|++++|.+.+++. ...| +...|..+...+...|++++|+..++++++++|++      ...+..
T Consensus         4 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~   83 (111)
T 2l6j_A            4 FEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTSTAEHVAIRSKLQYR   83 (111)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSSTTSHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCccHHHHHHHHHHH
Confidence            345667778888888888888888776 2334 57789999999999999999999999999999988      667778


Q ss_pred             hhhhhhhcCCcchHHHHH
Q 005268          542 MSNIYANVGKWEGVDEVR  559 (705)
Q Consensus       542 l~~~~~~~g~~~~a~~~~  559 (705)
                      ++.++...|++++|...+
T Consensus        84 ~~~~~~~~~~~~~a~~~~  101 (111)
T 2l6j_A           84 LELAQGAVGSVQIPVVEV  101 (111)
T ss_dssp             HHHHHHHHHCCCCCSSSS
T ss_pred             HHHHHHHHHhHhhhHhHH
Confidence            888888888877775544

>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=97.75  E-value=8.2e-05  Score=76.04  Aligned_cols=112  Identities=7%  Similarity=-0.056  Sum_probs=82.8

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhCCCCC-CHHHHHHHHHHHH
Q 005268          435 ITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNMPVRP-DASIWGALLGACR  513 (705)
Q Consensus       435 ~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p-~~~~~~~ll~~~~  513 (705)
                      ..+..+...+...|++++|.+.|+...+..   |..          ...-..+++..      ..| +..+|..+...+.
T Consensus       224 ~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~---~~~----------~~~~~~~~~~~------~~~~~~~~~~nla~~~~  284 (370)
T 1ihg_A          224 EDLKNIGNTFFKSQNWEMAIKKYTKVLRYV---EGS----------RAAAEDADGAK------LQPVALSCVLNIGACKL  284 (370)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHH---HHH----------HHHSCHHHHGG------GHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHh---hcC----------ccccChHHHHH------HHHHHHHHHHHHHHHHH
Confidence            345666666777777777777777665421   100          00001111111      223 4568899999999


Q ss_pred             hcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhC
Q 005268          514 IHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       514 ~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      +.|++++|+..++++++++|+++.++..++.+|...|++++|.+.++++.+.
T Consensus       285 ~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l  336 (370)
T 1ihg_A          285 KMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEI  336 (370)
T ss_dssp             HTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence            9999999999999999999999999999999999999999999999998875

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.73  E-value=6.3e-05  Score=60.44  Aligned_cols=65  Identities=18%  Similarity=0.215  Sum_probs=60.9

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhC
Q 005268          501 DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       501 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      +...|..+...+...|++++|+..++++++++|+++.+|..++.+|...|++++|.+.+++..+.
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l   70 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETDPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIEV   70 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            57789999999999999999999999999999999999999999999999999999999988764

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=97.72  E-value=0.00016  Score=76.33  Aligned_cols=65  Identities=9%  Similarity=-0.038  Sum_probs=61.3

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhCC
Q 005268          502 ASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDRG  566 (705)
Q Consensus       502 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  566 (705)
                      ...|..+..++.+.|++++|+..++++++++|+++.+|..++.+|...|++++|...++++.+..
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            56888999999999999999999999999999999999999999999999999999999988753

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=97.72  E-value=6.2e-05  Score=66.75  Aligned_cols=74  Identities=11%  Similarity=-0.043  Sum_probs=59.1

Q ss_pred             chHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCc-chhhhhhh
Q 005268          471 KHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSENV-GYYVLMSN  544 (705)
Q Consensus       471 ~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~-~~~~~l~~  544 (705)
                      ..|..+..+|.+.|++++|+..+++. ...| +...|..+..++...|++++|...++++++++|+++ .....+..
T Consensus        64 ~~~~nla~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~l~~  140 (162)
T 3rkv_A           64 PLYANMSQCYLNIGDLHEAEETSSEVLKREETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNHPAAASVVAREMKI  140 (162)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCGGGHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCcHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcCCCCHHHHHHHHHH
Confidence            46777888888888888888888776 3344 577899999999999999999999999999999887 43444433

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.64  E-value=0.00012  Score=57.16  Aligned_cols=80  Identities=18%  Similarity=0.252  Sum_probs=62.5

Q ss_pred             chHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhh
Q 005268          471 KHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYAN  548 (705)
Q Consensus       471 ~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  548 (705)
                      ..+..+...+.+.|++++|...+++. ...| +..+|..+...+...|++++|...++++++++|+++..+..++.++..
T Consensus        10 ~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~   89 (91)
T 1na3_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAKQNLGNAKQK   89 (91)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHh
Confidence            45666677777777888777777665 2233 567888888899999999999999999999999988888888887765


Q ss_pred             cC
Q 005268          549 VG  550 (705)
Q Consensus       549 ~g  550 (705)
                      .|
T Consensus        90 ~g   91 (91)
T 1na3_A           90 QG   91 (91)
T ss_dssp             HC
T ss_pred             cC
Confidence            44

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.59  E-value=7.5e-05  Score=61.71  Aligned_cols=77  Identities=8%  Similarity=0.042  Sum_probs=63.6

Q ss_pred             HHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhC
Q 005268          489 AHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       489 A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      |++.+++. ...| +...|..+...+...|++++|+..++++++++|+++..+..++.+|...|++++|...++...+.
T Consensus         4 a~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~   82 (115)
T 2kat_A            4 ITERLEAMLAQGTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESGLAA   82 (115)
T ss_dssp             HHHHHHHHHTTTCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            44555544 3334 57788888899999999999999999999999999889999999999999999999999888764

>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=97.54  E-value=3.3e-05  Score=66.77  Aligned_cols=85  Identities=13%  Similarity=0.078  Sum_probs=64.5

Q ss_pred             hcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCC----------hhHHHHHHHHHhccCCCCcchhhhhhhhhhhc
Q 005268          482 RAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGN----------MELGAVASDRLFEVDSENVGYYVLMSNIYANV  549 (705)
Q Consensus       482 ~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~----------~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~  549 (705)
                      |.+.+++|.+.+++. ...| +...|..+..++...++          +++|+..++++++++|+++.+|..++++|...
T Consensus        14 r~~~feeA~~~~~~Ai~l~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~~~~A~~~LG~ay~~l   93 (158)
T 1zu2_A           14 RILLFEQIRQDAENTYKSNPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYTSF   93 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             HHhHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHh
Confidence            444556666555554 2233 45566666666665554          56999999999999999999999999999987


Q ss_pred             C-----------CcchHHHHHHHHHhCC
Q 005268          550 G-----------KWEGVDEVRSLARDRG  566 (705)
Q Consensus       550 g-----------~~~~a~~~~~~m~~~~  566 (705)
                      |           ++++|.+.++++.+..
T Consensus        94 g~l~P~~~~a~g~~~eA~~~~~kAl~l~  121 (158)
T 1zu2_A           94 AFLTPDETEAKHNFDLATQFFQQAVDEQ  121 (158)
T ss_dssp             HHHCCCHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             cccCcchhhhhccHHHHHHHHHHHHHhC
Confidence            5           8999999999998764

>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=97.46  E-value=8.1e-05  Score=64.37  Aligned_cols=100  Identities=7%  Similarity=-0.085  Sum_probs=59.4

Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHH
Q 005268          410 GIHGQGDKALNFFRQMLDEGVRPD-HITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGM  488 (705)
Q Consensus       410 ~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~  488 (705)
                      .+.+++++|++.+++..+.  .|+ ...|..+..++...++++.+....+                          .+++
T Consensus        13 ~r~~~feeA~~~~~~Ai~l--~P~~aea~~n~G~~l~~l~~~~~g~~al~--------------------------~~~e   64 (158)
T 1zu2_A           13 DRILLFEQIRQDAENTYKS--NPLDADNLTRWGGVLLELSQFHSISDAKQ--------------------------MIQE   64 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCHHHHHH--------------------------HHHH
T ss_pred             HHHhHHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHhcccchhhhhHh--------------------------HHHH
Confidence            4455667777777777763  343 4456656666666655432211110                          1335


Q ss_pred             HHHHHHhC-CCCCC-HHHHHHHHHHHHhc-----------CChhHHHHHHHHHhccCCCCcc
Q 005268          489 AHNFIQNM-PVRPD-ASIWGALLGACRIH-----------GNMELGAVASDRLFEVDSENVG  537 (705)
Q Consensus       489 A~~~~~~~-~~~p~-~~~~~~ll~~~~~~-----------g~~~~a~~~~~~~~~~~p~~~~  537 (705)
                      |+..|++. .+.|+ ..+|..+..+|...           |++++|+..|+++++++|++..
T Consensus        65 Ai~~le~AL~ldP~~~~A~~~LG~ay~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l~P~~~~  126 (158)
T 1zu2_A           65 AITKFEEALLIDPKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVDEQPDNTH  126 (158)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCTTCHH
T ss_pred             HHHHHHHHHHhCcCcHHHHHHHHHHHHHhcccCcchhhhhccHHHHHHHHHHHHHhCCCCHH
Confidence            55555444 23343 44555666666554           5899999999999999998753

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.44  E-value=0.00034  Score=55.00  Aligned_cols=69  Identities=10%  Similarity=-0.024  Sum_probs=61.0

Q ss_pred             CCCHHHHHHHHHHHHhcCC---hhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhCCC
Q 005268          499 RPDASIWGALLGACRIHGN---MELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDRGL  567 (705)
Q Consensus       499 ~p~~~~~~~ll~~~~~~g~---~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  567 (705)
                      ++|+..|..+..++...++   .++|...++++++++|+++.+...++..+...|++++|...|+.+.+...
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            3567788888888876555   69999999999999999999999999999999999999999999988754

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.34  E-value=0.00017  Score=76.19  Aligned_cols=114  Identities=10%  Similarity=-0.033  Sum_probs=86.4

Q ss_pred             HHHhcCCHHHHHHHHHhC---------CCCCC-HHHHHHHHHHHHhcCChhHHHHHHHHHhc-----cCCCCc---chhh
Q 005268          479 LFGRAGHLGMAHNFIQNM---------PVRPD-ASIWGALLGACRIHGNMELGAVASDRLFE-----VDSENV---GYYV  540 (705)
Q Consensus       479 ~~~~~g~~~~A~~~~~~~---------~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~-----~~p~~~---~~~~  540 (705)
                      .+..+|++++|+.++++.         +..|+ ..+++.|..+|...|++++|+.+++++++     +.|++|   ..+.
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            456789999999988765         12344 45889999999999999999999999886     356554   4577


Q ss_pred             hhhhhhhhcCCcchHHHHHHHHHhCCCccCCceeEEEECCEEEEEEeCCCCCCCcHHHHHHHHHHHHHHH
Q 005268          541 LMSNIYANVGKWEGVDEVRSLARDRGLKKTPGWSSIEVNNKVDIFYTGNRTHPKYEKIYDELRNLTAKMK  610 (705)
Q Consensus       541 ~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~m~  610 (705)
                      .|+.+|..+|++++|..+++++.+...+                  .-...||...++...+.....++.
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al~i~~~------------------~lG~~Hp~~~~~~~~l~~~~~e~~  449 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAYAILLV------------------THGPSHPITKDLEAMRMQTEMELR  449 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHH------------------HTCTTSHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHH------------------HhCCCChHHHHHHHHHHHHHHHHH
Confidence            8999999999999999999988753210                  112459988887776666555443

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.32  E-value=0.00032  Score=57.11  Aligned_cols=67  Identities=9%  Similarity=-0.025  Sum_probs=62.0

Q ss_pred             CCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhCC
Q 005268          500 PDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDRG  566 (705)
Q Consensus       500 p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  566 (705)
                      ++...|..+...+...|++++|+..++++++++|+++..+..++.+|...|++++|.+.++...+..
T Consensus         2 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~   68 (111)
T 2l6j_A            2 SQFEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYT   68 (111)
T ss_dssp             THHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSC
T ss_pred             chHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC
Confidence            3566788999999999999999999999999999999999999999999999999999999988753

>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=97.30  E-value=0.0011  Score=56.76  Aligned_cols=110  Identities=10%  Similarity=-0.047  Sum_probs=56.3

Q ss_pred             CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHh----cCCHHH
Q 005268          413 GQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGR----AGHLGM  488 (705)
Q Consensus       413 g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~----~g~~~~  488 (705)
                      +++++|++.|++..+.| .|+..    +...|...+.+++|.++|+...+.    -+...+..|..+|..    .+++++
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            45666777777776665 33333    444555556666666666665542    233444555555544    445555


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHh----cCChhHHHHHHHHHhcc
Q 005268          489 AHNFIQNMPVRPDASIWGALLGACRI----HGNMELGAVASDRLFEV  531 (705)
Q Consensus       489 A~~~~~~~~~~p~~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~  531 (705)
                      |.+.|++.-..-++..+..|...|..    .+|.++|...++++.+.
T Consensus        80 A~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~  126 (138)
T 1klx_A           80 AAQYYSKACGLNDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRL  126 (138)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHC
Confidence            55555544222334444444444444    44444444444444443

>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=97.26  E-value=0.00022  Score=74.14  Aligned_cols=115  Identities=15%  Similarity=0.095  Sum_probs=84.4

Q ss_pred             HHHHhcCCHHHHHHHHHhC-C-----CCC---C-HHHHHHHHHHHHhcCChhHHHHHHHHHhcc-----CCCCc---chh
Q 005268          478 DLFGRAGHLGMAHNFIQNM-P-----VRP---D-ASIWGALLGACRIHGNMELGAVASDRLFEV-----DSENV---GYY  539 (705)
Q Consensus       478 ~~~~~~g~~~~A~~~~~~~-~-----~~p---~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~-----~p~~~---~~~  539 (705)
                      .-+.+.|++++|++++++. .     +.|   + ..+++.|..+|...|++++|+.++++++++     .|++|   ..+
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            3455667777777777654 1     222   2 447888889999999999999999988763     45554   457


Q ss_pred             hhhhhhhhhcCCcchHHHHHHHHHhCCCccCCceeEEEECCEEEEEEeCCCCCCCcHHHHHHHHHHHHHHH
Q 005268          540 VLMSNIYANVGKWEGVDEVRSLARDRGLKKTPGWSSIEVNNKVDIFYTGNRTHPKYEKIYDELRNLTAKMK  610 (705)
Q Consensus       540 ~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~m~  610 (705)
                      ..|+.+|..+|++++|..+++++.+.-. +                 .-...||...+++..+.+...+|+
T Consensus       375 ~nLa~~~~~~g~~~eA~~~~~~Al~i~~-~-----------------~lG~~Hp~~~~~~~~l~~~~~e~~  427 (429)
T 3qwp_A          375 MKVGKLQLHQGMFPQAMKNLRLAFDIMR-V-----------------THGREHSLIEDLILLLEECDANIR  427 (429)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHH-H-----------------HTCTTSHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHHHH-H-----------------hcCCCChHHHHHHHHHHHHHHHHh
Confidence            7899999999999999999998876311 0                 112469999998888888877775

>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=97.24  E-value=0.0026  Score=68.79  Aligned_cols=149  Identities=11%  Similarity=0.052  Sum_probs=120.3

Q ss_pred             CChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHhccCc----------HHHHHHHHHHhHHhhCCcC-CcchHHHHHHHH
Q 005268          413 GQGDKALNFFRQMLDEGVRPDHI-TFVSLLTACSHSGL----------VSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLF  480 (705)
Q Consensus       413 g~~~~A~~~~~~m~~~g~~p~~~-t~~~ll~a~~~~g~----------~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~  480 (705)
                      ...++|++.++++++  +.|+.. .|+.--.++.+.|+          +++++++++.+.+.   .| +...|..-.-++
T Consensus        43 ~~~eeal~~~~~~l~--~nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~---~pK~y~aW~hR~w~l  117 (567)
T 1dce_A           43 ELDESVLELTSQILG--ANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRV---NPKSYGTWHHRCWLL  117 (567)
T ss_dssp             CCSHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHH---CTTCHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHH--HCchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHh---CCCCHHHHHHHHHHH
Confidence            345688999999999  567754 56655555666666          89999999999864   45 456788888888


Q ss_pred             HhcC--CHHHHHHHHHhC-CCC-CCHHHHHHHHHHHHhcC-ChhHHHHHHHHHhccCCCCcchhhhhhhhhhhc------
Q 005268          481 GRAG--HLGMAHNFIQNM-PVR-PDASIWGALLGACRIHG-NMELGAVASDRLFEVDSENVGYYVLMSNIYANV------  549 (705)
Q Consensus       481 ~~~g--~~~~A~~~~~~~-~~~-p~~~~~~~ll~~~~~~g-~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~------  549 (705)
                      .+.|  ++++|+++++++ ... .|...|+.-.......| .++++.+.++++++.+|.|.++|...+.++...      
T Consensus       118 ~~l~~~~~~~el~~~~k~l~~d~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~saW~~r~~ll~~l~~~~~~  197 (567)
T 1dce_A          118 SRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDS  197 (567)
T ss_dssp             HTCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCS
T ss_pred             HHcccccHHHHHHHHHHHHhhccccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCccHHHHHHHHHHhhcccccc
Confidence            8999  779999999998 333 46889999999999999 899999999999999999999999888887664      


Q ss_pred             --------CCcchHHHHHHHHHhCC
Q 005268          550 --------GKWEGVDEVRSLARDRG  566 (705)
Q Consensus       550 --------g~~~~a~~~~~~m~~~~  566 (705)
                              ++++++.+.++.+....
T Consensus       198 ~~~~~~~~~~~~eel~~~~~ai~~~  222 (567)
T 1dce_A          198 GPQGRLPENVLLKELELVQNAFFTD  222 (567)
T ss_dssp             SSCCSSCHHHHHHHHHHHHHHHHHC
T ss_pred             cccccccHHHHHHHHHHHHHHHhhC
Confidence                    55788888888887653

>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=97.24  E-value=0.0033  Score=62.38  Aligned_cols=140  Identities=9%  Similarity=-0.027  Sum_probs=80.5

Q ss_pred             CCCCcchHHHHHHHHHh--cCC---hHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhc---cC-----cHHHHHHHHHHh
Q 005268          395 PRSSSVPWNAIISCHGI--HGQ---GDKALNFFRQMLDEGVRPDH-ITFVSLLTACSH---SG-----LVSEGQRYFHMM  460 (705)
Q Consensus       395 ~~~~~~~~~~li~~~~~--~g~---~~~A~~~~~~m~~~g~~p~~-~t~~~ll~a~~~---~g-----~~~~a~~~~~~m  460 (705)
                      ...+...|...+.+...  .++   ..+|+.+|++.++  ..|+. ..+..+..++..   .+     ......+.+...
T Consensus       190 ~p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~--lDP~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~  267 (372)
T 3ly7_A          190 LPHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQ--SSPEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNI  267 (372)
T ss_dssp             SCSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHH
Confidence            34567778877766543  333   4789999999999  67875 345444444431   00     111111111111


Q ss_pred             HHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCc
Q 005268          461 QEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENV  536 (705)
Q Consensus       461 ~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  536 (705)
                      ........+...|..+.-.+...|++++|...++++ ..+|+...|..+...+...|+.++|...+++++.++|..+
T Consensus       268 ~a~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~P~~~  344 (372)
T 3ly7_A          268 VTLPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLEMSWLNYVLLGKVYEMKGMNREAADAYLTAFNLRPGAN  344 (372)
T ss_dssp             HTCGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCSHH
T ss_pred             HhcccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcC
Confidence            110011334556666655565667777777777666 3456666666666667777777777777777777777543

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.20  E-value=0.0013  Score=51.09  Aligned_cols=64  Identities=20%  Similarity=0.261  Sum_probs=60.0

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhC
Q 005268          502 ASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       502 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      ...|..+...+...|++++|+..++++++.+|+++..+..++.+|...|++++|.+.+++..+.
T Consensus         9 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~   72 (91)
T 1na3_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALEL   72 (91)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            5678888999999999999999999999999999999999999999999999999999998775

>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=97.18  E-value=0.0014  Score=56.12  Aligned_cols=113  Identities=6%  Similarity=-0.077  Sum_probs=91.3

Q ss_pred             cCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCChhHHH
Q 005268          447 SGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNMPVRPDASIWGALLGACRI----HGNMELGA  522 (705)
Q Consensus       447 ~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~----~g~~~~a~  522 (705)
                      .+++++|.++|+...+. | .|+  ..  |..+|...+.+++|.+.|++.-...+...+..|...|..    .+|.++|.
T Consensus         8 ~~d~~~A~~~~~~aa~~-g-~~~--a~--lg~~y~~g~~~~~A~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~   81 (138)
T 1klx_A            8 KKDLKKAIQYYVKACEL-N-EMF--GC--LSLVSNSQINKQKLFQYLSKACELNSGNGCRFLGDFYENGKYVKKDLRKAA   81 (138)
T ss_dssp             HHHHHHHHHHHHHHHHT-T-CTT--HH--HHHHTCTTSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHH
T ss_pred             ccCHHHHHHHHHHHHcC-C-CHh--hh--HHHHHHcCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHcCCCCCccHHHHH
Confidence            34678899999888764 4 233  33  778888888899999999887444678888888888887    78999999


Q ss_pred             HHHHHHhccCCCCcchhhhhhhhhhh----cCCcchHHHHHHHHHhCCC
Q 005268          523 VASDRLFEVDSENVGYYVLMSNIYAN----VGKWEGVDEVRSLARDRGL  567 (705)
Q Consensus       523 ~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~a~~~~~~m~~~~~  567 (705)
                      ..++++.+.  .++.++..|+.+|..    .+++++|.+.+++..+.|.
T Consensus        82 ~~~~~Aa~~--g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A           82 QYYSKACGL--NDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             HHHHHHHHT--TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcC--CCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCC
Confidence            999998876  467888889999988    8899999999999888764

>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=97.05  E-value=0.00022  Score=73.93  Aligned_cols=83  Identities=6%  Similarity=0.018  Sum_probs=61.0

Q ss_pred             cCCHHHHHHHHHhC---------CCCCC-HHHHHHHHHHHHhcCChhHHHHHHHHHhcc-----CCCCc---chhhhhhh
Q 005268          483 AGHLGMAHNFIQNM---------PVRPD-ASIWGALLGACRIHGNMELGAVASDRLFEV-----DSENV---GYYVLMSN  544 (705)
Q Consensus       483 ~g~~~~A~~~~~~~---------~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~-----~p~~~---~~~~~l~~  544 (705)
                      .|++++|+.++++.         +..|+ ..+++.|..+|...|++++|+.++++++++     .|++|   ..+..|+.
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            45666666666543         12333 357888888888899999998888888763     45544   45778999


Q ss_pred             hhhhcCCcchHHHHHHHHHhC
Q 005268          545 IYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       545 ~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      +|..+|++++|..+++++.+.
T Consensus       391 ~~~~qg~~~eA~~~~~~Al~i  411 (433)
T 3qww_A          391 LYMGLENKAAGEKALKKAIAI  411 (433)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhccCHHHHHHHHHHHHHH
Confidence            999999999999999888753

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=96.86  E-value=0.0039  Score=49.64  Aligned_cols=63  Identities=17%  Similarity=0.222  Sum_probs=38.8

Q ss_pred             CcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHH
Q 005268          398 SSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPD-HITFVSLLTACSHSGLVSEGQRYFHMMQE  462 (705)
Q Consensus       398 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~m~~  462 (705)
                      +...|..+...|...|++++|+..|++.++.  .|+ ...|..+..++...|++++|.+.|+...+
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVET--DPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            3344666666666666666666666666663  333 34566666666666667766666665553

>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=96.83  E-value=0.004  Score=64.46  Aligned_cols=94  Identities=16%  Similarity=0.034  Sum_probs=66.2

Q ss_pred             ccCcHHHHHHHHHHhHHhhC--CcCC----cchHHHHHHHHHhcCCHHHHHHHHHhC---------CCCCC-HHHHHHHH
Q 005268          446 HSGLVSEGQRYFHMMQEEFG--IKPH----LKHYGCMVDLFGRAGHLGMAHNFIQNM---------PVRPD-ASIWGALL  509 (705)
Q Consensus       446 ~~g~~~~a~~~~~~m~~~~~--~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~~---------~~~p~-~~~~~~ll  509 (705)
                      ..|++++|..++++..+...  +.|+    ..+++.|..+|...|++++|+.++++.         +..|+ ..+++.|.
T Consensus       310 ~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa  389 (433)
T 3qww_A          310 HYKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLG  389 (433)
T ss_dssp             TTSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHH
Confidence            34677777777776654321  2222    256777788888888888888777665         23455 45789999


Q ss_pred             HHHHhcCChhHHHHHHHHHhc-----cCCCCcchh
Q 005268          510 GACRIHGNMELGAVASDRLFE-----VDSENVGYY  539 (705)
Q Consensus       510 ~~~~~~g~~~~a~~~~~~~~~-----~~p~~~~~~  539 (705)
                      ..|...|++++|+.+++++++     +.|++|.+-
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~i~~~~lG~~Hp~~~  424 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIAIMEVAHGKDHPYIS  424 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHHHHHHHcCCCChHHH
Confidence            999999999999999999886     467766543

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.78  E-value=0.043  Score=62.40  Aligned_cols=114  Identities=16%  Similarity=0.082  Sum_probs=75.8

Q ss_pred             HHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccccchhHHhhccCchHHHHH
Q 005268          275 MYAKLGIINSACAVFEGLPVKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIK  354 (705)
Q Consensus       275 ~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~  354 (705)
                      ....+|+++.|.++.+.+.  +...|..+...+.+.|+++.|.+.|.++..          |..+...+...++.+...+
T Consensus       661 ~~l~~~~~~~A~~~~~~~~--~~~~W~~la~~al~~~~~~~A~~~y~~~~d----------~~~l~~l~~~~~~~~~~~~  728 (814)
T 3mkq_A          661 LALKVGQLTLARDLLTDES--AEMKWRALGDASLQRFNFKLAIEAFTNAHD----------LESLFLLHSSFNNKEGLVT  728 (814)
T ss_dssp             HHHHHTCHHHHHHHHTTCC--CHHHHHHHHHHHHHTTCHHHHHHHHHHHTC----------HHHHHHHHHHTTCHHHHHH
T ss_pred             hhhhcCCHHHHHHHHHhhC--cHhHHHHHHHHHHHcCCHHHHHHHHHHccC----------hhhhHHHHHHcCCHHHHHH
Confidence            4567788999988887764  567899999999999999999999988765          2334444555666665555


Q ss_pred             HHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCcchHHHHHHHHHhcCChHHHHHHHHH
Q 005268          355 IHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQ  424 (705)
Q Consensus       355 ~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  424 (705)
                      +-+.+...|      -++....+|.++|++++|.+++                  .+.+++++|..+-+.
T Consensus       729 ~~~~a~~~~------~~~~A~~~~~~~g~~~~a~~~~------------------~~~~~~~~A~~lA~~  774 (814)
T 3mkq_A          729 LAKDAETTG------KFNLAFNAYWIAGDIQGAKDLL------------------IKSQRFSEAAFLGST  774 (814)
T ss_dssp             HHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHH------------------HHTTCHHHHHHHHHH
T ss_pred             HHHHHHHcC------chHHHHHHHHHcCCHHHHHHHH------------------HHcCChHHHHHHHHH
Confidence            555444443      1233444566677777777665                  344666666665543

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.78  E-value=0.0025  Score=50.43  Aligned_cols=64  Identities=11%  Similarity=0.155  Sum_probs=38.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHhC-CCCC-CHH-HHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchh
Q 005268          476 MVDLFGRAGHLGMAHNFIQNM-PVRP-DAS-IWGALLGACRIHGNMELGAVASDRLFEVDSENVGYY  539 (705)
Q Consensus       476 li~~~~~~g~~~~A~~~~~~~-~~~p-~~~-~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~  539 (705)
                      ....+.+.|++++|...+++. ...| +.. .|..+...+...|++++|+..++++++++|+++..+
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~   72 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNPDSPALQ   72 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHH
Confidence            344556666666666666655 2223 344 566666666666666666666666666666655544

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.76  E-value=0.0048  Score=52.63  Aligned_cols=90  Identities=14%  Similarity=0.064  Sum_probs=63.8

Q ss_pred             CCHHHHHHHHHHHHhcC---ChhHHHHHHHHHhccC-C-CCcchhhhhhhhhhhcCCcchHHHHHHHHHhCCCccCCcee
Q 005268          500 PDASIWGALLGACRIHG---NMELGAVASDRLFEVD-S-ENVGYYVLMSNIYANVGKWEGVDEVRSLARDRGLKKTPGWS  574 (705)
Q Consensus       500 p~~~~~~~ll~~~~~~g---~~~~a~~~~~~~~~~~-p-~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~s  574 (705)
                      ++..+.-.+.+++.+.+   ++++|+.+++.+++.+ | ++...+..|+-+|.+.|++++|++.++.+.+.         
T Consensus        30 ~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl~~Y~~A~~y~~~lL~i---------  100 (152)
T 1pc2_A           30 VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQT---------  100 (152)
T ss_dssp             CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHHH---------
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHHHHHHHHHHHhc---------
Confidence            56777777777887777   5668888888888877 6 45666777888888888888888888887765         


Q ss_pred             EEEECCEEEEEEeCCCCCCCcHHHHHHHHHHHHHHHhCCcc
Q 005268          575 SIEVNNKVDIFYTGNRTHPKYEKIYDELRNLTAKMKSLGYV  615 (705)
Q Consensus       575 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~m~~~g~~  615 (705)
                                       .|...+.......+.+++++.|++
T Consensus       101 -----------------eP~n~QA~~Lk~~ie~~~~kdgl~  124 (152)
T 1pc2_A          101 -----------------EPQNNQAKELERLIDKAMKKDGLV  124 (152)
T ss_dssp             -----------------CTTCHHHHHHHHHHHHHHHHTTCC
T ss_pred             -----------------CCCCHHHHHHHHHHHHHHHHhhHH
Confidence                             333344444455566667776655

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=96.72  E-value=0.0054  Score=50.16  Aligned_cols=58  Identities=19%  Similarity=0.113  Sum_probs=26.8

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhH
Q 005268          402 WNAIISCHGIHGQGDKALNFFRQMLDEGVRPD-HITFVSLLTACSHSGLVSEGQRYFHMMQ  461 (705)
Q Consensus       402 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~m~  461 (705)
                      |..+...|...|++++|+..|++.++.  .|+ ...+..+..++...|++++|...|+...
T Consensus        22 ~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A           22 RFTLGKTYAEHEQFDAALPHLRAALDF--DPTYSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            444444444444445555555544442  222 2344444444455555555555554443

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=96.60  E-value=0.0051  Score=48.59  Aligned_cols=87  Identities=13%  Similarity=0.087  Sum_probs=62.9

Q ss_pred             HHHHHhccCcHHHHHHHHHHhHHhhCCcC-Ccc-hHHHHHHHHHhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhc
Q 005268          440 LLTACSHSGLVSEGQRYFHMMQEEFGIKP-HLK-HYGCMVDLFGRAGHLGMAHNFIQNM-PVRPD-ASIWGALLGACRIH  515 (705)
Q Consensus       440 ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~-~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~  515 (705)
                      ....+...|++++|.+.|+...+.   .| +.. .+..+...|.+.|++++|.+.|++. ...|+ ...|..        
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~---~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~--------   74 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQT---EPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNPDSPALQAR--------   74 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHH---CSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTHHHHH--------
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHH---CCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHH--------
Confidence            445677889999999999988764   45 446 7888888999999999999998877 33444 223311        


Q ss_pred             CChhHHHHHHHHHhccCCCCcc
Q 005268          516 GNMELGAVASDRLFEVDSENVG  537 (705)
Q Consensus       516 g~~~~a~~~~~~~~~~~p~~~~  537 (705)
                      +.+.++...+++....+|+++.
T Consensus        75 ~~~~~a~~~~~~~~~~~p~~~~   96 (99)
T 2kc7_A           75 KMVMDILNFYNKDMYNQLEHHH   96 (99)
T ss_dssp             HHHHHHHHHHCCTTHHHHCCSS
T ss_pred             HHHHHHHHHHHHHhccCccccc
Confidence            5567777888887777776543

>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=96.58  E-value=0.0087  Score=62.02  Aligned_cols=69  Identities=13%  Similarity=-0.039  Sum_probs=45.3

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHhC---------CCCCC-HHHHHHHHHHHHhcCChhHHHHHHHHHhc-----cCCCCc
Q 005268          472 HYGCMVDLFGRAGHLGMAHNFIQNM---------PVRPD-ASIWGALLGACRIHGNMELGAVASDRLFE-----VDSENV  536 (705)
Q Consensus       472 ~~~~li~~~~~~g~~~~A~~~~~~~---------~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~-----~~p~~~  536 (705)
                      +++.|+.+|...|++++|+.+++++         +..|+ ..+++.|...|...|++++|+.+++++++     +.|++|
T Consensus       331 ~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l~nLa~~~~~~g~~~eA~~~~~~Al~i~~~~lG~~Hp  410 (429)
T 3qwp_A          331 VLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQVMKVGKLQLHQGMFPQAMKNLRLAFDIMRVTHGREHS  410 (429)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSH
T ss_pred             HHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhcCCCCh
Confidence            4555555555556666665555443         23344 44678888888888888888888888876     467776


Q ss_pred             chhh
Q 005268          537 GYYV  540 (705)
Q Consensus       537 ~~~~  540 (705)
                      .+-.
T Consensus       411 ~~~~  414 (429)
T 3qwp_A          411 LIED  414 (429)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            5543

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=96.58  E-value=0.0012  Score=66.71  Aligned_cols=238  Identities=11%  Similarity=0.073  Sum_probs=155.6

Q ss_pred             chhHHHHHHHHHHccCCHHHHHHHHhccCCCCeehHHHHHHHHHcCCChhhHHHHHHHHHHCCCCCChhhHHHHHHHHHc
Q 005268          163 NLFVSNNLINMYAKFGMMRHALRVFDQMMERDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQ  242 (705)
Q Consensus       163 ~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~  242 (705)
                      .+.+|+.|..++.+.+++.+|.+-|  +...|+..|..+|....+.|.+++-+..+...++..-.|  ..=+.++-++++
T Consensus        53 ~p~VWs~LgkAqL~~~~v~eAIdsy--IkA~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~ke~--~IDteLi~ayAk  128 (624)
T 3lvg_A           53 EPAVWSQLAKAQLQKGMVKEAIDSY--IKADDPSSYMEVVQAANTSGNWEELVKYLQMARKKARES--YVETELIFALAK  128 (624)
T ss_dssp             CCCCSSSHHHHTTTSSSCTTTTTSS--CCCSCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTCCST--TTTHHHHHHHHT
T ss_pred             CccHHHHHHHHHHccCchHHHHHHH--HhCCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhccc--ccHHHHHHHHHh
Confidence            4456667777777777766666554  333566667777777777777777777666555443333  333456677777


Q ss_pred             cCChhhHHHHHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCC------------------------CCChh
Q 005268          243 LNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLP------------------------VKDVI  298 (705)
Q Consensus       243 ~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~------------------------~~~~~  298 (705)
                      .+++.+-+++.        -.||..-...+.+-+...|.++.|.-+|..+.                        ..++.
T Consensus       129 ~~rL~elEefl--------~~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~k  200 (624)
T 3lvg_A          129 TNRLAELEEFI--------NGPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTR  200 (624)
T ss_dssp             SCSSSTTTSTT--------SCCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSC
T ss_pred             hCcHHHHHHHH--------cCCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChh
Confidence            77766544443        24455445566666777777777777776554                        23778


Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHH
Q 005268          299 SWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMY  378 (705)
Q Consensus       299 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y  378 (705)
                      +|-.+-.+|...+.+.-|.-.--.+.    +.|  ..+..++.-|...|-+++-..+++..+.. -....-+++-|.-.|
T Consensus       201 tWKeV~~ACvd~~EfrLAqicGLniI----vha--deL~elv~~YE~~G~f~ELIsLlEaglgl-ErAHmGmFTELaILY  273 (624)
T 3lvg_A          201 TWKEVCFACVDGKEFRLAQMCGLHIV----VHA--DELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILY  273 (624)
T ss_dssp             SHHHHTHHHHHSCTTTTTTHHHHHHH----CCS--SCCSGGGSSSSTTCCCTTSTTTHHHHTTS-TTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCchHHHHHHHhcchhc----ccH--HHHHHHHHHHHhCCCHHHHHHHHHHHhCC-CchhHHHHHHHHHHH
Confidence            99999999999999887654433333    223  34556778888899999888888876632 235677888888888


Q ss_pred             HhcCCHHHHHHHHhhCC----CC-------CcchHHHHHHHHHhcCChHHHHH
Q 005268          379 GKCGRIDDAMSLFYQVP----RS-------SSVPWNAIISCHGIHGQGDKALN  420 (705)
Q Consensus       379 ~k~g~~~~A~~~~~~~~----~~-------~~~~~~~li~~~~~~g~~~~A~~  420 (705)
                      +|- ++++-.+-++...    -|       ....|..++-.|.+-.+++.|..
T Consensus       274 sKY-~PeKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~l  325 (624)
T 3lvg_A          274 SKF-KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAII  325 (624)
T ss_dssp             HSS-CTTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHHH
T ss_pred             Hhc-CHHHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHHH
Confidence            875 4555555444332    22       22339999999998888887653

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.40  E-value=0.12  Score=42.30  Aligned_cols=139  Identities=10%  Similarity=0.026  Sum_probs=95.9

Q ss_pred             hcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHH
Q 005268          411 IHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAH  490 (705)
Q Consensus       411 ~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~  490 (705)
                      ..|..++..++..+....   .+..-++-++.-....-+-+-..+.++.+-+-    .|          +..+|++....
T Consensus        19 ldG~v~qGveii~k~~~s---sni~E~NW~ICNiiD~a~C~y~v~vLd~IGki----FD----------is~C~NlKrVi   81 (172)
T 1wy6_A           19 LDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSY----FD----------LDKCQNLKSVV   81 (172)
T ss_dssp             HTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG----SC----------GGGCSCTHHHH
T ss_pred             HhhhHHHHHHHHHHHcCC---CCccccceeeeecchhhchhHHHHHHHHHhhh----cC----------cHhhhcHHHHH
Confidence            356667777777776653   23334444444333444444445555444322    22          23577888877


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhCCCc
Q 005268          491 NFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDRGLK  568 (705)
Q Consensus       491 ~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  568 (705)
                      ..+-.+.  .+....+.-++....+|.-+.-.+++..++.-+|.+|+...-++++|.+.|+..+|.+++.++-++|++
T Consensus        82 ~C~~~~n--~~se~vd~ALd~lv~~~KkDqLdki~~~~l~n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~k  157 (172)
T 1wy6_A           82 ECGVINN--TLNEHVNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  157 (172)
T ss_dssp             HHHHHTT--CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHhc--chHHHHHHHHHHHHHhccHhHHHHHHHHHhccCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhhH
Confidence            7777765  244445677888889999999999999977767668899999999999999999999999999999984

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=96.35  E-value=0.0014  Score=66.27  Aligned_cols=433  Identities=11%  Similarity=0.054  Sum_probs=248.3

Q ss_pred             CHHHHHHHHHHHHcCCChhHHHHHhccCCCCCcchHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHhHHHHhhc
Q 005268           62 DVFVAASLLHMYCRFGLANVARKLFDDMPVRDSGSWNAMISGYCQSGNAVEALDILDEMRLEGVSMDPITVASILPVCAR  141 (705)
Q Consensus        62 ~~~~~~~ll~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~  141 (705)
                      .+.+|..|..++.+.|++.+|.+-|=+  ..|+..|..+|.+..+.|.+++-+..+...++..  -++..=+.|+-+|++
T Consensus        53 ~p~VWs~LgkAqL~~~~v~eAIdsyIk--A~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~--ke~~IDteLi~ayAk  128 (624)
T 3lvg_A           53 EPAVWSQLAKAQLQKGMVKEAIDSYIK--ADDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAK  128 (624)
T ss_dssp             CCCCSSSHHHHTTTSSSCTTTTTSSCC--CSCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTC--CSTTTTHHHHHHHHT
T ss_pred             CccHHHHHHHHHHccCchHHHHHHHHh--CCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh--cccccHHHHHHHHHh
Confidence            456788899999999999988876644  3466678899999999999999888877666542  344555678888888


Q ss_pred             CCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHccCCHHHHHHHHhccCC------------------------CCeeh
Q 005268          142 SDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGMMRHALRVFDQMME------------------------RDVVS  197 (705)
Q Consensus       142 ~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~------------------------~~~~~  197 (705)
                      .+++.+-.+++       -.||..-.....+-+...|.++.|.-+|..+..                        .++.+
T Consensus       129 ~~rL~elEefl-------~~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~kt  201 (624)
T 3lvg_A          129 TNRLAELEEFI-------NGPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRT  201 (624)
T ss_dssp             SCSSSTTTSTT-------SCCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCS
T ss_pred             hCcHHHHHHHH-------cCCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhH
Confidence            88876544433       245665566677777788888888888876632                        36678


Q ss_pred             HHHHHHHHHcCCChhhHHHHHHHHHHCCCCCChhhHHHHHHHHHccCChhhHHHHHHHHHHhcCCCchhHHHHHHHHHHH
Q 005268          198 WNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYA  277 (705)
Q Consensus       198 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~  277 (705)
                      |-.+-.+|...+.+.-|--.--.+.-   .||  .+..++.-|...|.+++-..+++.-...  -.....+++-|.-.|+
T Consensus       202 WKeV~~ACvd~~EfrLAqicGLniIv---had--eL~elv~~YE~~G~f~ELIsLlEaglgl--ErAHmGmFTELaILYs  274 (624)
T 3lvg_A          202 WKEVCFACVDGKEFRLAQMCGLHIVV---HAD--ELEELINYYQDRGYFEELITMLEAALGL--ERAHMGMFTELAILYS  274 (624)
T ss_dssp             HHHHTHHHHHSCTTTTTTHHHHHHHC---CSS--CCSGGGSSSSTTCCCTTSTTTHHHHTTS--TTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCchHHHHHHHhcchhcc---cHH--HHHHHHHHHHhCCCHHHHHHHHHHHhCC--CchhHHHHHHHHHHHH
Confidence            88888888888877766544433321   111  1223344466667777766666655421  2345678888888888


Q ss_pred             hcCCHHHHHHHHh----cCCCC-------ChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccccchhHHhhcc
Q 005268          278 KLGIINSACAVFE----GLPVK-------DVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHV  346 (705)
Q Consensus       278 ~~g~~~~A~~~f~----~~~~~-------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~  346 (705)
                      |-. .++-.+.++    ++.-|       ....|.-++-.|.+..+++.|...   |.+   -.|+...-........+.
T Consensus       275 KY~-PeKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~lt---Mi~---h~~~Aw~h~~Fkdii~KV  347 (624)
T 3lvg_A          275 KFK-PQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIIT---MMN---HPTDAWKEGQFKDIITKV  347 (624)
T ss_dssp             SSC-TTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHHHT---TTS---CHHHHCCGGGGTTTGGGC
T ss_pred             hcC-HHHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHHHH---HHh---CChhhccHHHHHHHHHHc
Confidence            863 333333333    22222       345699999999999888877543   433   223333333334444455


Q ss_pred             CchHHHHHHHHHHHHhCCCCchhHHHHHH-------------HHHHhcCCHHHHHHHHhhCCCCCcchHH-HHHHHHHhc
Q 005268          347 GALRQGIKIHARVIKNCLCFDVFVATCLV-------------DMYGKCGRIDDAMSLFYQVPRSSSVPWN-AIISCHGIH  412 (705)
Q Consensus       347 ~~~~~a~~~~~~~~~~g~~~~~~~~~~li-------------~~y~k~g~~~~A~~~~~~~~~~~~~~~~-~li~~~~~~  412 (705)
                      .+.+---+....-++.    .+...+-|+             ..+.|.|++.-....+......|...-| ++-..|...
T Consensus       348 aN~EiyYKAi~FYL~e----~P~lL~DLL~vL~prlDh~RvV~~~~k~~~LpLIkpYL~~Vq~~N~~aVNeAln~L~IEE  423 (624)
T 3lvg_A          348 ANVELYYRAIQFYLEF----KPLLLNDLLMVLSPRLDHTRAVNYFSKVKQLPLVKPYLRSVQNHNNKSVNESLNNLFITE  423 (624)
T ss_dssp             SCSHHHHHHHHHHTTS----CCTTSHHHHHHHCTTCCSTTTHHHHHTTTCGGGGTGGGTSCCCSCCHHHHHHHHHHHHHT
T ss_pred             chHHHHHHHHHHHHHh----ChHHHHHHHHhccccCChHHHHHHHHhcCCchhhHHHHHHHHHhhHHHHHHHHHHHHhhh
Confidence            5544332222222221    122233333             3444445444444444444444443322 233333333


Q ss_pred             CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHH
Q 005268          413 GQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNF  492 (705)
Q Consensus       413 g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~  492 (705)
                      .|+                   .+...-+.+|-.-..+.-|.++     ++   .+-.+.-..-...|.+.++++++.++
T Consensus       424 EDy-------------------~~LR~SId~ydNFD~i~LA~rL-----Ek---HeL~eFRrIAA~LYkkn~rw~qsi~l  476 (624)
T 3lvg_A          424 EDY-------------------QALRTSIDAYDNFDNISLAQRL-----EK---HELIEFRRIAAYLFKGNNRWKQSVEL  476 (624)
T ss_dssp             TCC-------------------HHHHHTTSSCCCSCTTHHHHHH-----HT---CSSHHHHHHHHHHHHTTCHHHHHSSC
T ss_pred             hhH-------------------HHHHHHHHHhccccHHHHHHHH-----hh---CchHHHHHHHHHHHHhcccHHHHHHH
Confidence            333                   2233333333333333333332     11   11122223334567888888888877


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHH
Q 005268          493 IQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEV  558 (705)
Q Consensus       493 ~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~  558 (705)
                      .++=..-.|.      +...+..|+.+.++++++-.++.+  +...+....-.|...=+.+-+.++
T Consensus       477 ~KkDklykDA------ietAa~S~~~elaeeLL~yFv~~g--~~EcF~a~LytCYdLlrpDvVlEl  534 (624)
T 3lvg_A          477 CKKDSLYKDA------MQYASESKDTELAEELLQWFLQEE--KRECFGACLFTCYDLLRPDVVLET  534 (624)
T ss_dssp             SSTTCCTTGG------GTTTTTCCCTTHHHHHHHHHHHHC--STHHHHHHHHHTSSSSSCHHHHHH
T ss_pred             HHhcccHHHH------HHHHHHcCCHHHHHHHHHHHHHcC--chHHHHHHHHHHhhccChHHHHHH
Confidence            7554322232      333456777777777777766543  334555555556566666655543

>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=96.29  E-value=0.0085  Score=56.96  Aligned_cols=87  Identities=17%  Similarity=0.197  Sum_probs=70.0

Q ss_pred             HHHHHHHHHhC-CCCCC---HHHHHHHHHHHHh-----cCChhHHHHHHHHHhccCCCC-cchhhhhhhhhhhc-CCcch
Q 005268          486 LGMAHNFIQNM-PVRPD---ASIWGALLGACRI-----HGNMELGAVASDRLFEVDSEN-VGYYVLMSNIYANV-GKWEG  554 (705)
Q Consensus       486 ~~~A~~~~~~~-~~~p~---~~~~~~ll~~~~~-----~g~~~~a~~~~~~~~~~~p~~-~~~~~~l~~~~~~~-g~~~~  554 (705)
                      ..+|...+++. .+.|+   ...|.+|...|.+     -|+.++|++.|+++++++|+. ...++.++..++.. |+.++
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            44555555555 45666   5678888888888     499999999999999999974 99999999999884 99999


Q ss_pred             HHHHHHHHHhCCCccCCc
Q 005268          555 VDEVRSLARDRGLKKTPG  572 (705)
Q Consensus       555 a~~~~~~m~~~~~~~~~~  572 (705)
                      +.+.+++.........|+
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            999999998876654454

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=96.00  E-value=0.042  Score=54.54  Aligned_cols=134  Identities=10%  Similarity=0.070  Sum_probs=92.5

Q ss_pred             CCCCHHHHHHHHHHHh--c---cCcHHHHHHHHHHhHHhhCCcCCc-chHHHHHHHHH----hcC-------CHHHHHHH
Q 005268          430 VRPDHITFVSLLTACS--H---SGLVSEGQRYFHMMQEEFGIKPHL-KHYGCMVDLFG----RAG-------HLGMAHNF  492 (705)
Q Consensus       430 ~~p~~~t~~~ll~a~~--~---~g~~~~a~~~~~~m~~~~~~~p~~-~~~~~li~~~~----~~g-------~~~~A~~~  492 (705)
                      .+.+...|...+.+..  .   .....+|+.+|++..+.   .|+- ..|..+.-+|.    ..+       .+.+|.+-
T Consensus       190 ~p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~l---DP~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a  266 (372)
T 3ly7_A          190 LPHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQS---SPEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDN  266 (372)
T ss_dssp             SCSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHH
Confidence            4555666777666543  2   33468899999998854   7763 33433332221    111       11223332


Q ss_pred             HHhCC-CCCCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhCCC
Q 005268          493 IQNMP-VRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDRGL  567 (705)
Q Consensus       493 ~~~~~-~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~  567 (705)
                      ...+. .+.+..+|..+...+...|++++|...++++++++| +...|..++.++.-.|++++|.+.++++.....
T Consensus       267 ~~a~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln~-s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~P  341 (372)
T 3ly7_A          267 IVTLPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLEM-SWLNYVLLGKVYEMKGMNREAADAYLTAFNLRP  341 (372)
T ss_dssp             HHTCGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSC
T ss_pred             HHhcccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC
Confidence            23332 234678888888888888999999999999999997 566788999999999999999999999887643

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=95.94  E-value=0.26  Score=55.92  Aligned_cols=101  Identities=16%  Similarity=0.125  Sum_probs=53.2

Q ss_pred             HHhcCCHHHHHHHHhhCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHH
Q 005268          378 YGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYF  457 (705)
Q Consensus       378 y~k~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~  457 (705)
                      ..++|++++|.++.+.+.  +...|..+...+.+.|+++.|.+.|.++..         |..+...+...|+.+...++-
T Consensus       662 ~l~~~~~~~A~~~~~~~~--~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~  730 (814)
T 3mkq_A          662 ALKVGQLTLARDLLTDES--AEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLA  730 (814)
T ss_dssp             HHHHTCHHHHHHHHTTCC--CHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHH
T ss_pred             hhhcCCHHHHHHHHHhhC--cHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHH
Confidence            345666777766665552  344577777777777777777777766543         223333344455554444433


Q ss_pred             HHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhC
Q 005268          458 HMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNM  496 (705)
Q Consensus       458 ~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~  496 (705)
                      +..... |      .++.-..+|.+.|++++|++++.++
T Consensus       731 ~~a~~~-~------~~~~A~~~~~~~g~~~~a~~~~~~~  762 (814)
T 3mkq_A          731 KDAETT-G------KFNLAFNAYWIAGDIQGAKDLLIKS  762 (814)
T ss_dssp             HHHHHT-T------CHHHHHHHHHHHTCHHHHHHHHHHT
T ss_pred             HHHHHc-C------chHHHHHHHHHcCCHHHHHHHHHHc
Confidence            322221 1      2233334455556666666665554

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=95.57  E-value=0.036  Score=43.17  Aligned_cols=68  Identities=6%  Similarity=0.006  Sum_probs=51.5

Q ss_pred             CCcchHHHHHHHHHhcCC---HHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCC
Q 005268          468 PHLKHYGCMVDLFGRAGH---LGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSEN  535 (705)
Q Consensus       468 p~~~~~~~li~~~~~~g~---~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~  535 (705)
                      +++..+..+..++...++   .++|..++++. ...| ++..+..+...+...|++++|+..++++++.+|++
T Consensus         4 ~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p~~   76 (93)
T 3bee_A            4 VTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSNDPN   76 (93)
T ss_dssp             CCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCCTT
T ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCC
Confidence            455667777777754444   68888888776 3445 46677788888999999999999999999999873

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=95.39  E-value=0.12  Score=44.02  Aligned_cols=91  Identities=12%  Similarity=-0.032  Sum_probs=57.6

Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccC---cHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHH
Q 005268          416 DKALNFFRQMLDEGVRPDHITFVSLLTACSHSG---LVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNF  492 (705)
Q Consensus       416 ~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g---~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~  492 (705)
                      ..+.+-|.+....|. ++..+-..+..++.+++   ++++|+.+|+...+. . .|+                       
T Consensus        15 ~~~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~-~-~p~-----------------------   68 (152)
T 1pc2_A           15 LKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPK-G-SKE-----------------------   68 (152)
T ss_dssp             HHHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHH-S-CHH-----------------------
T ss_pred             HHHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhc-C-Ccc-----------------------
Confidence            344555555555443 55555555555666666   555777777666543 1 120                       


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchh
Q 005268          493 IQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYY  539 (705)
Q Consensus       493 ~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~  539 (705)
                             -+...+-.|.-+|.+.|++++|.+.++.+++++|+|..+.
T Consensus        69 -------~~rd~lY~LAv~~~kl~~Y~~A~~y~~~lL~ieP~n~QA~  108 (152)
T 1pc2_A           69 -------EQRDYVFYLAVGNYRLKEYEKALKYVRGLLQTEPQNNQAK  108 (152)
T ss_dssp             -------HHHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             -------chHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHH
Confidence                   0123344566788999999999999999999999876543

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=95.27  E-value=0.053  Score=43.27  Aligned_cols=69  Identities=12%  Similarity=0.063  Sum_probs=47.3

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhCC---------CCCCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhh
Q 005268          474 GCMVDLFGRAGHLGMAHNFIQNMP---------VRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLM  542 (705)
Q Consensus       474 ~~li~~~~~~g~~~~A~~~~~~~~---------~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l  542 (705)
                      -.|...+.+.|+++.|...++.+-         -.+...++..|..++.+.|+++.|...++++++++|+++.+...+
T Consensus         9 ~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~n~   86 (104)
T 2v5f_A            9 FELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRANGNL   86 (104)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHhhH
Confidence            334444445555555544443330         123466888999999999999999999999999999887664444

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=95.04  E-value=0.84  Score=39.84  Aligned_cols=103  Identities=18%  Similarity=0.174  Sum_probs=67.8

Q ss_pred             HHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccccchhHHhhccCchHHHH
Q 005268          274 DMYAKLGIINSACAVFEGLPVKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGI  353 (705)
Q Consensus       274 ~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~  353 (705)
                      +...++|+++.|.++.+.+  .+...|..|.......|+++-|.+.|.+...          +..+.-.|...|+.+.-.
T Consensus        13 ~LAL~lg~l~~A~e~a~~l--~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D----------~~~L~~Ly~~tg~~e~L~   80 (177)
T 3mkq_B           13 DLALEYGNLDAALDEAKKL--NDSITWERLIQEALAQGNASLAEMIYQTQHS----------FDKLSFLYLVTGDVNKLS   80 (177)
T ss_dssp             HHHHHTTCHHHHHHHHHHH--CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC----------HHHHHHHHHHHTCHHHHH
T ss_pred             HHHHhcCCHHHHHHHHHHh--CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC----------HHHHHHHHHHhCCHHHHH
Confidence            3456788999998887765  4677899999999999999999999988765          334444555566666555


Q ss_pred             HHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhC
Q 005268          354 KIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQV  394 (705)
Q Consensus       354 ~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~  394 (705)
                      .+-+.....|      -++.....+.-.|+++++.++|.+.
T Consensus        81 kla~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~~~  115 (177)
T 3mkq_B           81 KMQNIAQTRE------DFGSMLLNTFYNNSTKERSSIFAEG  115 (177)
T ss_dssp             HHHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHHT
T ss_pred             HHHHHHHHCc------cHHHHHHHHHHcCCHHHHHHHHHHC
Confidence            5544444443      1233333344556666666665443

>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=94.93  E-value=5  Score=43.18  Aligned_cols=268  Identities=7%  Similarity=0.020  Sum_probs=132.2

Q ss_pred             HHHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCC
Q 005268          251 SVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEIN  330 (705)
Q Consensus       251 ~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~  330 (705)
                      ++-..+.+..+.+......+.-+..+.+.+++......+.. +..+...-.....+....|+..+|......+-. .| .
T Consensus        57 ev~~Fl~~~~~~p~~~~Lr~~~l~~l~~~~~w~~~l~~~~~-~p~~~~~~c~~~~A~~~~G~~~~a~~~~~~lW~-~~-~  133 (618)
T 1qsa_A           57 TVTNFVRANPTLPPARTLQSRFVNELARREDWRGLLAFSPE-KPGTTEAQCNYYYAKWNTGQSEEAWQGAKELWL-TG-K  133 (618)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHHHHTTCHHHHHHHCCS-CCSSHHHHHHHHHHHHHTTCHHHHHHHHHHHHS-CS-S
T ss_pred             HHHHHHHHCCCChhHHHHHHHHHHHHHhCCCHHHHHHhccC-CCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHh-CC-C
Confidence            33344444332444445556667777888889888887776 444555555567777888888878777777654 22 1


Q ss_pred             CCcccccchhHHhhccCchHH--HHHHHHHHHHhC-----------CCCch-hHHHHHHHHHHhcCCHHHHHHHHhhCCC
Q 005268          331 PNQGTYVSILPAYSHVGALRQ--GIKIHARVIKNC-----------LCFDV-FVATCLVDMYGKCGRIDDAMSLFYQVPR  396 (705)
Q Consensus       331 p~~~t~~~ll~a~~~~~~~~~--a~~~~~~~~~~g-----------~~~~~-~~~~~li~~y~k~g~~~~A~~~~~~~~~  396 (705)
                      ........++....+.|.+..  ..+-+..+...|           ++++. .....++..+.+-..+   ........ 
T Consensus       134 ~~p~~c~~l~~~~~~~g~lt~~~~~~R~~~al~~~~~~~a~~l~~~l~~~~~~~a~~~~al~~~p~~~---~~~~~~~~-  209 (618)
T 1qsa_A          134 SQPNACDKLFSVWRASGKQDPLAYLERIRLAMKAGNTGLVTVLAGQMPADYQTIASAIISLANNPNTV---LTFARTTG-  209 (618)
T ss_dssp             CCCTHHHHHHHHHHHTTCSCHHHHHHHHHHHHHTTCHHHHHHHHHTCCGGGHHHHHHHHHHHHCGGGH---HHHHHHSC-
T ss_pred             CCcHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHhCCHHHHHHHHHHHHHHhChHhH---HHHHhccC-
Confidence            223334445555444333221  111111111111           11111 1112222222211111   11111111 


Q ss_pred             CCcch---HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHH----HHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCC
Q 005268          397 SSSVP---WNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHIT----FVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPH  469 (705)
Q Consensus       397 ~~~~~---~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t----~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~  469 (705)
                      ++...   ...-+.-++ ..+++.|..+|......+ ..+...    ...+.......+...++...+......   .++
T Consensus       210 ~~~~~~~~~~~~~~rla-r~d~~~A~~~~~~~~~~~-~~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~~---~~~  284 (618)
T 1qsa_A          210 ATDFTRQMAAVAFASVA-RQDAENARLMIPSLAQAQ-QLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMR---SQS  284 (618)
T ss_dssp             CCHHHHHHHHHHHHHHH-HHCHHHHHHHHHHHHHHT-TCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHT---CCC
T ss_pred             CChhhHHHHHHHHHHHH-hcCHHHHHHHHHhhhhcc-CCCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhcccc---CCC
Confidence            11111   111122222 347788888888876543 223222    222232334445345556666554322   233


Q ss_pred             cchHHHHHHHHHhcCCHHHHHHHHHhCCCCC-CHHHH-HHHHHHHHhcCChhHHHHHHHHHhc
Q 005268          470 LKHYGCMVDLFGRAGHLGMAHNFIQNMPVRP-DASIW-GALLGACRIHGNMELGAVASDRLFE  530 (705)
Q Consensus       470 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p-~~~~~-~~ll~~~~~~g~~~~a~~~~~~~~~  530 (705)
                      .....-.+....+.|+++.|...|+.|+..+ +..-| -=+..+....|+.++|...|+++.+
T Consensus       285 ~~~~e~~~r~Alr~~d~~~a~~~~~~l~~~~~~~~r~~YW~~ra~~~~g~~~~a~~~~~~~a~  347 (618)
T 1qsa_A          285 TSLIERRVRMALGTGDRRGLNTWLARLPMEAKEKDEWRYWQADLLLERGREAEAKEILHQLMQ  347 (618)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHSCTTGGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             hHHHHHHHHHHHHCCCHHHHHHHHHHccccccccHhHHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            3233334444457799999999999886432 21211 1234466778899999998888875

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=94.86  E-value=0.5  Score=41.25  Aligned_cols=128  Identities=14%  Similarity=0.150  Sum_probs=84.6

Q ss_pred             HHHhcCCHHHHHHHHhhCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHH
Q 005268          377 MYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRY  456 (705)
Q Consensus       377 ~y~k~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~  456 (705)
                      ...++|+++.|.++.+.+  .+...|..|......+|+.+-|.+.|.+...         |..+.-.|...|+.+.-.++
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            345678888888887766  4556688888888888888888888887765         44455556667777665554


Q ss_pred             HHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHH
Q 005268          457 FHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRL  528 (705)
Q Consensus       457 ~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~  528 (705)
                      -+....+ |      -++.-...+.-.|+++++.+++.+...-|...      -....+|..+.|.++.+++
T Consensus        83 a~iA~~~-g------~~n~af~~~l~lGdv~~~i~lL~~~~r~~eA~------~~A~t~g~~~~a~~~~~~~  141 (177)
T 3mkq_B           83 QNIAQTR-E------DFGSMLLNTFYNNSTKERSSIFAEGGSLPLAY------AVAKANGDEAAASAFLEQA  141 (177)
T ss_dssp             HHHHHHT-T------CHHHHHHHHHHHTCHHHHHHHHHHTTCHHHHH------HHHHHTTCHHHHHHHHHHT
T ss_pred             HHHHHHC-c------cHHHHHHHHHHcCCHHHHHHHHHHCCChHHHH------HHHHHcCcHHHHHHHHHHh
Confidence            4333322 1      34444555667888888888888875333222      1234467777777777665

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=94.68  E-value=0.092  Score=42.96  Aligned_cols=26  Identities=12%  Similarity=0.000  Sum_probs=12.8

Q ss_pred             HHHHhcCChhHHHHHHHHHhccCCCC
Q 005268          510 GACRIHGNMELGAVASDRLFEVDSEN  535 (705)
Q Consensus       510 ~~~~~~g~~~~a~~~~~~~~~~~p~~  535 (705)
                      -++.+.|++++|.+.++.+++.+|+|
T Consensus        82 vg~yklg~Y~~A~~~~~~lL~~eP~n  107 (126)
T 1nzn_A           82 VGNYRLKEYEKALKYVRGLLQTEPQN  107 (126)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHhhhHHHHHHHHHHHHHhCCCC
Confidence            34444555555555555555555544

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=93.92  E-value=0.66  Score=38.63  Aligned_cols=67  Identities=4%  Similarity=-0.049  Sum_probs=43.2

Q ss_pred             CCCHHHHHHHHHHHHhcCC---hhHHHHHHHHHhccCCCC-cchhhhhhhhhhhcCCcchHHHHHHHHHhC
Q 005268          499 RPDASIWGALLGACRIHGN---MELGAVASDRLFEVDSEN-VGYYVLMSNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       499 ~p~~~~~~~ll~~~~~~g~---~~~a~~~~~~~~~~~p~~-~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      .|+..+--.+.+++.+..+   ..+++.+++.++..+|.+ -.....|+-++.+.|++++|+++.+.+.+.
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~  106 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  106 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHT
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhc
Confidence            3555555556666666554   346777777777766643 233445677778888888888877777654

>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=93.64  E-value=0.68  Score=44.02  Aligned_cols=112  Identities=10%  Similarity=0.044  Sum_probs=72.2

Q ss_pred             hcCCHHHHHHHHhhCCCCCcch--HHHHHHH-HHhc--CC------hHHHHHHHHHHHHcCCCCC---HHHHHHHHHHHh
Q 005268          380 KCGRIDDAMSLFYQVPRSSSVP--WNAIISC-HGIH--GQ------GDKALNFFRQMLDEGVRPD---HITFVSLLTACS  445 (705)
Q Consensus       380 k~g~~~~A~~~~~~~~~~~~~~--~~~li~~-~~~~--g~------~~~A~~~~~~m~~~g~~p~---~~t~~~ll~a~~  445 (705)
                      +.|+..+-.+.+.+..+.++..  |..++.+ +...  |+      ..+|...+++.++  +.|+   ...|..+...|.
T Consensus       133 ~~~~~~~~~~~l~~~~~~dve~L~W~ai~~ss~a~~~~gg~~Al~~l~~A~a~lerAle--LDP~~~~GsA~~~LG~lY~  210 (301)
T 3u64_A          133 FSGDEQRLHKVLSRCTRVDVGTLYWVGTGYVAAFALTPLGSALPDTVHAAVMMLERACD--LWPSYQEGAVWNVLTKFYA  210 (301)
T ss_dssp             TSSCHHHHHHHHTTCCGGGHHHHHHHHHHHHHHHTTSCTTSCCHHHHHHHHHHHHHHHH--HCTTHHHHHHHHHHHHHHH
T ss_pred             HhcchhhHHHHHHHcCccccHHHHHHHHHHHHHHhcCCCChHHHHhHHHHHHHHHHHHH--hCCCcccCHHHHHHHHHHH
Confidence            3455555556666666555443  7666653 3332  32      3567777777777  6777   346777777777


Q ss_pred             cc-----CcHHHHHHHHHHhHHhhCCcC--CcchHHHHHHHHHhc-CCHHHHHHHHHhC
Q 005268          446 HS-----GLVSEGQRYFHMMQEEFGIKP--HLKHYGCMVDLFGRA-GHLGMAHNFIQNM  496 (705)
Q Consensus       446 ~~-----g~~~~a~~~~~~m~~~~~~~p--~~~~~~~li~~~~~~-g~~~~A~~~~~~~  496 (705)
                      ..     |+.++|.+.|++..+   +.|  +..++....+.|++. |+.++|.+.+++.
T Consensus       211 ~vPp~~gGd~ekA~~~ferAL~---LnP~~~id~~v~YA~~l~~~~gd~~~a~~~L~kA  266 (301)
T 3u64_A          211 AAPESFGGGMEKAHTAFEHLTR---YCSAHDPDHHITYADALCIPLNNRAGFDEALDRA  266 (301)
T ss_dssp             HSCTTTTCCHHHHHHHHHHHHH---HCCTTCSHHHHHHHHHTTTTTTCHHHHHHHHHHH
T ss_pred             hCCCccCCCHHHHHHHHHHHHH---hCCCCCchHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            73     788888888887774   355  366677777777774 7777777777665

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=92.96  E-value=0.18  Score=55.46  Aligned_cols=54  Identities=11%  Similarity=0.013  Sum_probs=49.6

Q ss_pred             HHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHH
Q 005268          510 GACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLAR  563 (705)
Q Consensus       510 ~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  563 (705)
                      .-|...|+++.|+.+++++...-|.+-.++..|+.+|...|+|+.|.-.+..+.
T Consensus       345 ~FLl~K~~~elAL~~Ak~AV~~aPseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          345 NFLLNRGDYELALGVSNTSTELALDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             HHHhccCcHHHHHHHHHHHHhcCchhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence            346678999999999999999999999999999999999999999999888774

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=92.56  E-value=0.68  Score=37.82  Aligned_cols=86  Identities=10%  Similarity=0.018  Sum_probs=54.7

Q ss_pred             CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHH---HHHHHHHhHHhhCCcC--CcchHHHHHHHHHhcCCHH
Q 005268          413 GQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSE---GQRYFHMMQEEFGIKP--HLKHYGCMVDLFGRAGHLG  487 (705)
Q Consensus       413 g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~---a~~~~~~m~~~~~~~p--~~~~~~~li~~~~~~g~~~  487 (705)
                      .....+.+-|.+....|. |+..+-..+..++.++....+   |+.++....+. + .|  .....-.|.-++.|.|+++
T Consensus        15 ~~l~~~~~~y~~e~~~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~-~-~p~~~Rd~lY~LAvg~yklg~Y~   91 (126)
T 1nzn_A           15 EDLLKFEKKFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPK-G-SKEEQRDYVFYLAVGNYRLKEYE   91 (126)
T ss_dssp             HHHHHHHHHHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTT-S-CHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHhccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhc-C-CcchHHHHHHHHHHHHHHhhhHH
Confidence            344555666666666553 666666666677777776555   77777776643 1 13  2334445667788888888


Q ss_pred             HHHHHHHhC-CCCCC
Q 005268          488 MAHNFIQNM-PVRPD  501 (705)
Q Consensus       488 ~A~~~~~~~-~~~p~  501 (705)
                      +|.+.++.+ ..+|+
T Consensus        92 ~A~~~~~~lL~~eP~  106 (126)
T 1nzn_A           92 KALKYVRGLLQTEPQ  106 (126)
T ss_dssp             HHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHhCCC
Confidence            888888776 34554

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=92.23  E-value=0.69  Score=36.56  Aligned_cols=65  Identities=8%  Similarity=-0.092  Sum_probs=54.4

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHHhccC-------CCCcchhhhhhhhhhhcCCcchHHHHHHHHHhC
Q 005268          501 DASIWGALLGACRIHGNMELGAVASDRLFEVD-------SENVGYYVLMSNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       501 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~-------p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      +..-.-.|...+...|+++.|..-++++++..       +..+..+..|+.+|.+.|++++|...++.+.+.
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            44455678899999999999999999998753       234566889999999999999999999998765

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=89.85  E-value=7.3  Score=32.01  Aligned_cols=63  Identities=17%  Similarity=0.168  Sum_probs=38.8

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCC
Q 005268          402 WNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGI  466 (705)
Q Consensus       402 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~  466 (705)
                      .+.-+..+...|.-++-.+++.++... .+|++.....+.+||.+.|+..++.+++.+..++ |+
T Consensus        94 vd~ALd~lv~~~KkDqLdki~~~~l~n-~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~k-G~  156 (172)
T 1wy6_A           94 VNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKK-GE  156 (172)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT-TC
T ss_pred             HHHHHHHHHHhccHhHHHHHHHHHhcc-CCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHh-hh
Confidence            344455566666666666666664332 4666666666777777777777777777666654 44

>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=88.98  E-value=0.92  Score=37.23  Aligned_cols=44  Identities=7%  Similarity=0.057  Sum_probs=20.2

Q ss_pred             HHHHHHHHHhccCCCC-cchhhhhhhhhhhcCCcchHHHHHHHHH
Q 005268          520 LGAVASDRLFEVDSEN-VGYYVLMSNIYANVGKWEGVDEVRSLAR  563 (705)
Q Consensus       520 ~a~~~~~~~~~~~p~~-~~~~~~l~~~~~~~g~~~~a~~~~~~m~  563 (705)
                      +|+.+++.++..+|.. -..+..|+-++.+.|++++|++..+.+.
T Consensus        61 ~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL  105 (134)
T 3o48_A           61 LGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLF  105 (134)
T ss_dssp             HHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            4444555544444421 2223344444555555555555554444

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=88.88  E-value=35  Score=38.45  Aligned_cols=266  Identities=11%  Similarity=0.027  Sum_probs=129.0

Q ss_pred             HHccCChhhHHHHHHHHHHhc-CCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCC-CCC----------hhHHHHHHHHH
Q 005268          240 VAQLNDCRNSRSVHGFIMRRG-WFMEDVIIGNAVVDMYAKLGIINSACAVFEGLP-VKD----------VISWNTLITGY  307 (705)
Q Consensus       240 ~~~~~~~~~a~~i~~~~~~~g-~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~-~~~----------~~~~~~li~~~  307 (705)
                      ....++.+++..++......+ .-.+.......+.-+...+|.-+++..++.... ..+          +..-.++.-|+
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            445677777766665543211 012233444555555666666666666554432 111          11223333344


Q ss_pred             HHcCC-hhHHHHHHHhhhhcCCCCCCcccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHH--hcCCH
Q 005268          308 AQNGL-ASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYG--KCGRI  384 (705)
Q Consensus       308 ~~~g~-~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~--k~g~~  384 (705)
                      +-.|. -+++.+.+..+............-.++...+...|+.+....++..+.+..   +..+...++.+++  -.|+.
T Consensus       464 a~~GS~~eev~e~L~~~L~dd~~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~---~e~vrR~aalgLGll~~g~~  540 (963)
T 4ady_A          464 AAMGSANIEVYEALKEVLYNDSATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQ---HGNITRGLAVGLALINYGRQ  540 (963)
T ss_dssp             HSTTCCCHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCS---CHHHHHHHHHHHHHHTTTCG
T ss_pred             HhcCCCCHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccC---cHHHHHHHHHHHHhhhCCCh
Confidence            44443 245666666665411100000111122233445677777777777666532   2233333444433  55777


Q ss_pred             HHHHHHHhhCC-CCCcc-hHH---HHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHH
Q 005268          385 DDAMSLFYQVP-RSSSV-PWN---AIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHM  459 (705)
Q Consensus       385 ~~A~~~~~~~~-~~~~~-~~~---~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~  459 (705)
                      +.+..+.+.+. ..+.. -|.   ++..+|+-.|+.....++++.+.... ..+......+.-++...|..+.+.++++.
T Consensus       541 e~~~~li~~L~~~~dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d~-~d~VRraAViaLGlI~~g~~e~v~rlv~~  619 (963)
T 4ady_A          541 ELADDLITKMLASDESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSDS-NDDVRRAAVIALGFVLLRDYTTVPRIVQL  619 (963)
T ss_dssp             GGGHHHHHHHHHCSCHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTSSSCSSHHHHTTT
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccCC-cHHHHHHHHHHHHhhccCCHHHHHHHHHH
Confidence            77766666654 22322 243   33456677778766666888877631 12222222222244445555555666654


Q ss_pred             hHHhhCCcCCcchHHHHHHHHHhcCCH-HHHHHHHHhCCCCCCHHHHHHHHHH
Q 005268          460 MQEEFGIKPHLKHYGCMVDLFGRAGHL-GMAHNFIQNMPVRPDASIWGALLGA  511 (705)
Q Consensus       460 m~~~~~~~p~~~~~~~li~~~~~~g~~-~~A~~~~~~~~~~p~~~~~~~ll~~  511 (705)
                      +.+  ...|.+..-.++.-+....|.. .+|.+.+..+...+|..+-..-+-+
T Consensus       620 L~~--~~d~~VR~gAalALGli~aGn~~~~aid~L~~L~~D~d~~Vrq~Ai~A  670 (963)
T 4ady_A          620 LSK--SHNAHVRCGTAFALGIACAGKGLQSAIDVLDPLTKDPVDFVRQAAMIA  670 (963)
T ss_dssp             GGG--CSCHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHTCSSHHHHHHHHHH
T ss_pred             HHh--cCCHHHHHHHHHHHHHhccCCCcHHHHHHHHHHccCCCHHHHHHHHHH
Confidence            443  2234443334444444444443 5677777777555665544333333

>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=88.40  E-value=3.1  Score=34.93  Aligned_cols=107  Identities=12%  Similarity=0.169  Sum_probs=63.0

Q ss_pred             CCCCcchHHHHHHHHHhcCCh------HHHHHHHHHHHHcCCCCCHH----HHHHHHHH---HhccCcHHHHHHHHHHhH
Q 005268          395 PRSSSVPWNAIISCHGIHGQG------DKALNFFRQMLDEGVRPDHI----TFVSLLTA---CSHSGLVSEGQRYFHMMQ  461 (705)
Q Consensus       395 ~~~~~~~~~~li~~~~~~g~~------~~A~~~~~~m~~~g~~p~~~----t~~~ll~a---~~~~g~~~~a~~~~~~m~  461 (705)
                      ...|..+|-..+....+.|++      ++.+++|++.... ++|+..    .|..+.--   +...+++++|+++|+.+.
T Consensus         9 ~p~~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~-~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~   87 (161)
T 4h7y_A            9 MANNPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEA-LPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMAR   87 (161)
T ss_dssp             -CCSHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHH-SCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHc-CCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            366777788888887777888      7778888877775 666531    11111110   011133333333333332


Q ss_pred             HhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCc
Q 005268          462 EEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENV  536 (705)
Q Consensus       462 ~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  536 (705)
                      +.                                 ..+ =..+|-....--.++|++..|.+++.+++.+.|.+.
T Consensus        88 ~~---------------------------------hKk-FAKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~~  128 (161)
T 4h7y_A           88 AN---------------------------------CKK-FAFVHISFAQFELSQGNVKKSKQLLQKAVERGAVPL  128 (161)
T ss_dssp             HH---------------------------------CTT-BHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBCH
T ss_pred             HH---------------------------------hHH-HHHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCcH
Confidence            21                                 011 166676666667778888888888888888877543

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=87.69  E-value=20  Score=36.83  Aligned_cols=147  Identities=10%  Similarity=0.048  Sum_probs=80.1

Q ss_pred             CChhHHHHHHHHHHHC-----CCCCChhhHHhHHHHhhcCCChHHHHHHHHHHHHh-CCCCchhHHHHHHH----HHHcc
Q 005268          108 GNAVEALDILDEMRLE-----GVSMDPITVASILPVCARSDNILSGLLIHLYIVKH-GLEFNLFVSNNLIN----MYAKF  177 (705)
Q Consensus       108 g~~~~A~~~~~~m~~~-----g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~-g~~~~~~~~~~Li~----~y~~~  177 (705)
                      |++++|++.+..+.+.     +..........++..|...++++...+.+..+.+. |..+.  ....++.    .....
T Consensus        30 ~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~qlk~--ai~~~V~~~~~~l~~~  107 (445)
T 4b4t_P           30 NDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQLKL--SIQYMIQKVMEYLKSS  107 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTSHH--HHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhhHH--HHHHHHHHHHHHHhcC
Confidence            7888999888666542     23334556777888899999998887766655443 32222  2233332    22222


Q ss_pred             CCH--HHHHHHHhccCC---CCe-------ehHHHHHHHHHcCCChhhHHHHHHHHHHCCCCCChh-----hHHHHHHHH
Q 005268          178 GMM--RHALRVFDQMME---RDV-------VSWNSIIAAYEQSNDPITAHGFFTTMQQAGIQPDLL-----TLVSLTSIV  240 (705)
Q Consensus       178 g~~--~~A~~~f~~m~~---~~~-------~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-----t~~~ll~a~  240 (705)
                      ...  +.-..+.+....   .-.       .....|...|...|++.+|.+++..+...-...+..     .+...++.|
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            222  222333333321   111       112456777888888888888888885432222211     233344555


Q ss_pred             HccCChhhHHHHHHHH
Q 005268          241 AQLNDCRNSRSVHGFI  256 (705)
Q Consensus       241 ~~~~~~~~a~~i~~~~  256 (705)
                      ...+++..+..+...+
T Consensus       188 l~~~d~~~a~~~~~ki  203 (445)
T 4b4t_P          188 ILKGDYSQATVLSRKI  203 (445)
T ss_dssp             HHHTCHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHH
Confidence            5556666665555554

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=87.59  E-value=41  Score=37.83  Aligned_cols=248  Identities=11%  Similarity=-0.010  Sum_probs=128.6

Q ss_pred             HHHhcCCHHHHHHHHhcCCC----CCh--hHHHHHHHHHHHcCChhHHHHHHHhhhhcCCC------CCCcc--cccchh
Q 005268          275 MYAKLGIINSACAVFEGLPV----KDV--ISWNTLITGYAQNGLASEAIEVFQMMEECNEI------NPNQG--TYVSIL  340 (705)
Q Consensus       275 ~y~~~g~~~~A~~~f~~~~~----~~~--~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~------~p~~~--t~~~ll  340 (705)
                      +....|+.+++..+++.-..    .+.  ..-..+.-|....|..+++..++.........      .+...  ....+.
T Consensus       383 GlIh~g~~~~gl~~L~~yL~~~~s~~~~ik~GAllaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaLGLG  462 (963)
T 4ady_A          383 GVIHKGNLLEGKKVMAPYLPGSRASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLGIG  462 (963)
T ss_dssp             HHHTSSCTTTHHHHHTTTSTTSCCSCHHHHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHHHH
T ss_pred             hhhccCchHHHHHHHHHhccccCCCcHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHHHHH
Confidence            35567888889999887664    222  23334455667777777888877776541110      00000  111222


Q ss_pred             HHhhccCchHHHHHHHHHHHHhCCCCch--hHHHHHHHHHHhcCCHHHHHHHHhhCCC--CC-cchHHHHHHHHHhcCCh
Q 005268          341 PAYSHVGALRQGIKIHARVIKNCLCFDV--FVATCLVDMYGKCGRIDDAMSLFYQVPR--SS-SVPWNAIISCHGIHGQG  415 (705)
Q Consensus       341 ~a~~~~~~~~~a~~~~~~~~~~g~~~~~--~~~~~li~~y~k~g~~~~A~~~~~~~~~--~~-~~~~~~li~~~~~~g~~  415 (705)
                      -++...++ +++...+..++...- +..  ...-+|.-.|.-.|+-+....++..+.+  .+ +.-.-++.-|+...|+.
T Consensus       463 la~~GS~~-eev~e~L~~~L~dd~-~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~~e~vrR~aalgLGll~~g~~  540 (963)
T 4ady_A          463 LAAMGSAN-IEVYEALKEVLYNDS-ATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQHGNITRGLAVGLALINYGRQ  540 (963)
T ss_dssp             HHSTTCCC-HHHHHHHHHHHHTCC-HHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCG
T ss_pred             HHhcCCCC-HHHHHHHHHHHhcCC-HHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhhhCCCh
Confidence            22333333 344444444443211 111  1122333344556777776776665432  22 22234444556678999


Q ss_pred             HHHHHHHHHHHHcCCCCCH-HHHH---HHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHH
Q 005268          416 DKALNFFRQMLDEGVRPDH-ITFV---SLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHN  491 (705)
Q Consensus       416 ~~A~~~~~~m~~~g~~p~~-~t~~---~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~  491 (705)
                      +.+..+.+.+...   +|. .-|.   .+.-+|+..|+.....++++.+...  ...++.....+.-++.-.|+.+.+.+
T Consensus       541 e~~~~li~~L~~~---~dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d--~~d~VRraAViaLGlI~~g~~e~v~r  615 (963)
T 4ady_A          541 ELADDLITKMLAS---DESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSD--SNDDVRRAAVIALGFVLLRDYTTVPR  615 (963)
T ss_dssp             GGGHHHHHHHHHC---SCHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHC--SCHHHHHHHHHHHHHHTSSSCSSHHH
T ss_pred             HHHHHHHHHHHhC---CCHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccC--CcHHHHHHHHHHHHhhccCCHHHHHH
Confidence            9999999988873   333 3343   3344788899988888898887753  22222222333333444666666666


Q ss_pred             HHHhCCCCCCHHHHHHH--HHHHHhcCCh-hHHHHHHHHHh
Q 005268          492 FIQNMPVRPDASIWGAL--LGACRIHGNM-ELGAVASDRLF  529 (705)
Q Consensus       492 ~~~~~~~~p~~~~~~~l--l~~~~~~g~~-~~a~~~~~~~~  529 (705)
                      +++.+....|..+-...  .-|....|+. .++...+..+.
T Consensus       616 lv~~L~~~~d~~VR~gAalALGli~aGn~~~~aid~L~~L~  656 (963)
T 4ady_A          616 IVQLLSKSHNAHVRCGTAFALGIACAGKGLQSAIDVLDPLT  656 (963)
T ss_dssp             HTTTGGGCSCHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHH
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHhccCCCcHHHHHHHHHHc
Confidence            66544322333332222  2233333333 45666666654

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=87.59  E-value=22  Score=34.60  Aligned_cols=138  Identities=12%  Similarity=0.067  Sum_probs=88.4

Q ss_pred             HHHHHHHHHHcCCChhHHHHHhccCCCCCcchHHHHHHHHHhCCChhHHHHHH----HHHHHCCCCCChhhHHhHHHHhh
Q 005268           65 VAASLLHMYCRFGLANVARKLFDDMPVRDSGSWNAMISGYCQSGNAVEALDIL----DEMRLEGVSMDPITVASILPVCA  140 (705)
Q Consensus        65 ~~~~ll~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~----~~m~~~g~~p~~~t~~~ll~~~~  140 (705)
                      .+.++..-|.+.+++++|.+++-.           -...+.+.|+...|.++-    +-..+.++++|..+...++..+.
T Consensus        37 ~~RTi~~Ry~~~k~y~eAidLL~~-----------GA~~ll~~~Q~~sg~DL~~llvevy~~~~~~~~~~~~~rL~~L~~  105 (336)
T 3lpz_A           37 ETRLVAARYSKQGNWAAAVDILAS-----------VSQTLLRSGQGGSGGDLAVLLVDTFRQAGQRVDGASRGKLLGCLR  105 (336)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHH-----------HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhhcCHHHHHHHHHH-----------HHHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            566677778889999999887432           234566778877776665    44456788899888877777776


Q ss_pred             cCCC--hHH---HHHHHHHHHHhC--CCCchhHHHHHHHHHHccCCHHHHHHHHhccCCCCeehHHHHHHHHHcCCChhh
Q 005268          141 RSDN--ILS---GLLIHLYIVKHG--LEFNLFVSNNLINMYAKFGMMRHALRVFDQMMERDVVSWNSIIAAYEQSNDPIT  213 (705)
Q Consensus       141 ~~~~--~~~---a~~~~~~~~~~g--~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~  213 (705)
                      ....  ...   ..+....-.+.|  ..-|+.....+...|.+.+++.+|+.-|=.-..+++..+..|+..+.+.+...+
T Consensus       106 ~~~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~Ae~H~ilg~~~s~~~~a~mL~ew~~~~~~~e  185 (336)
T 3lpz_A          106 LFQPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEAAEKHLVLGTKESPEVLARMEYEWYKQDESHT  185 (336)
T ss_dssp             TSCTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHTTSCTTHHHHHHHHHHHHHHTSCGGG
T ss_pred             hCCCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHhcCCchHHHHHHHHHHHHHhcCCcc
Confidence            5543  121   222233333444  445778888888999999999999988842222223566555544444443333

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=86.93  E-value=23  Score=34.16  Aligned_cols=139  Identities=12%  Similarity=0.144  Sum_probs=86.1

Q ss_pred             HHHHHHHHHccCCHHHHHHHHhccCCCCeehHHHHHHHHHcCCChhhHHHH----HHHHHHCCCCCChhhHHHHHHHHHc
Q 005268          167 SNNLINMYAKFGMMRHALRVFDQMMERDVVSWNSIIAAYEQSNDPITAHGF----FTTMQQAGIQPDLLTLVSLTSIVAQ  242 (705)
Q Consensus       167 ~~~Li~~y~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~A~~~----~~~m~~~g~~p~~~t~~~ll~a~~~  242 (705)
                      +.++..-|.+.+++++|.+++..-           ...+.+.|+...|-++    .+...+.+++++..+...++..+..
T Consensus        36 ~Rtl~~Ry~~~~~~~eAidlL~~g-----------a~~ll~~~Q~~sa~DLa~llvev~~~~~~~~~~~~~~rl~~l~~~  104 (312)
T 2wpv_A           36 LRTIANRYVRSKSYEHAIELISQG-----------ALSFLKAKQGGSGTDLIFYLLEVYDLAEVKVDDISVARLVRLIAE  104 (312)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHH-----------HHHHHHTTCHHHHHHHHHHHHHHHHHTTCCCSHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHH-----------HHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Confidence            445666678888888888876322           2345566776655554    4445566888888877777777665


Q ss_pred             cCCh-----hhHHHHHHHHHHhcC-CCchhHHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHHc---CCh
Q 005268          243 LNDC-----RNSRSVHGFIMRRGW-FMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDVISWNTLITGYAQN---GLA  313 (705)
Q Consensus       243 ~~~~-----~~a~~i~~~~~~~g~-~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~---g~~  313 (705)
                      ...-     ........+..+.|. ..-|+.....+...|.+.|++.+|+..|-.-...|...+..++.-+...   |..
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            4322     222333333444432 2247788899999999999999999988633222455665555555444   544


Q ss_pred             hHH
Q 005268          314 SEA  316 (705)
Q Consensus       314 ~~A  316 (705)
                      .++
T Consensus       185 ~e~  187 (312)
T 2wpv_A          185 STV  187 (312)
T ss_dssp             HHH
T ss_pred             chH
Confidence            443

>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=85.82  E-value=8.5  Score=29.53  Aligned_cols=86  Identities=15%  Similarity=0.104  Sum_probs=59.0

Q ss_pred             hHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 005268          349 LRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQMLDE  428 (705)
Q Consensus       349 ~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  428 (705)
                      .++|..|-+.+...+.  ...+--.-+..+...|++++|..+.+...-||..+|-+|-.  .+.|..+++..-+.++..+
T Consensus        23 HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s~le~rL~~la~s   98 (116)
T 2p58_C           23 HEEANCIAEWLHLKGE--EEAVQLIRLSSLMNRGDYASALQQGNKLAYPDLEPWLALCE--YRLGLGSALESRLNRLARS   98 (116)
T ss_dssp             HHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHHHHTTSCCGGGHHHHHHHH--HHHTCHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHHHHHHHHHHHHhC
Confidence            4556666555555443  22222222345667899999999999999999999988865  4668888888888788777


Q ss_pred             CCCCCHHHHHH
Q 005268          429 GVRPDHITFVS  439 (705)
Q Consensus       429 g~~p~~~t~~~  439 (705)
                      | .|....|..
T Consensus        99 g-~p~~q~Fa~  108 (116)
T 2p58_C           99 Q-DPRIQTFVN  108 (116)
T ss_dssp             C-CHHHHHHHH
T ss_pred             C-CHHHHHHHH
Confidence            6 555555543

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=85.21  E-value=8  Score=29.61  Aligned_cols=86  Identities=15%  Similarity=0.165  Sum_probs=59.8

Q ss_pred             hHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 005268          349 LRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQMLDE  428 (705)
Q Consensus       349 ~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  428 (705)
                      .++|..|-+.+...+.  ...+--.-+..+...|++++|..+.+...-||..+|-+|-.  .+.|..+++..-+.++-.+
T Consensus        22 HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s~le~rL~~la~s   97 (115)
T 2uwj_G           22 HEEALCIAEWLERLGQ--DEAARLIRISSLANQGRYQEALAFAHGNPWPALEPWFALCE--WHLGLGAALDRRLAGLGGS   97 (115)
T ss_dssp             HHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHGGGTTCCCGGGHHHHHHHH--HHTTCHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHHHHHHHHHHHHhC
Confidence            4556556555555443  22222222345667899999999999999999999988755  4678888888888888887


Q ss_pred             CCCCCHHHHHH
Q 005268          429 GVRPDHITFVS  439 (705)
Q Consensus       429 g~~p~~~t~~~  439 (705)
                      | .|....|..
T Consensus        98 g-~p~~q~Fa~  107 (115)
T 2uwj_G           98 S-DPALADFAA  107 (115)
T ss_dssp             S-SHHHHHHHH
T ss_pred             C-CHHHHHHHH
Confidence            6 565555543

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=84.17  E-value=31  Score=33.23  Aligned_cols=169  Identities=5%  Similarity=0.009  Sum_probs=92.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHHcCChhHHHHH----HHhhhhcCCCCCCcccccchhHHh
Q 005268          268 IGNAVVDMYAKLGIINSACAVFEGLPVKDVISWNTLITGYAQNGLASEAIEV----FQMMEECNEINPNQGTYVSILPAY  343 (705)
Q Consensus       268 ~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~----~~~m~~~~~~~p~~~t~~~ll~a~  343 (705)
                      .+.++..=|.+.+++++|.+++..           -...+.+.|+...|-++    .+-..+ .+++++......++..+
T Consensus        35 ~~Rtl~~Ry~~~~~~~eAidlL~~-----------ga~~ll~~~Q~~sa~DLa~llvev~~~-~~~~~~~~~~~rl~~l~  102 (312)
T 2wpv_A           35 TLRTIANRYVRSKSYEHAIELISQ-----------GALSFLKAKQGGSGTDLIFYLLEVYDL-AEVKVDDISVARLVRLI  102 (312)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHH-----------HHHHHHHTTCHHHHHHHHHHHHHHHHH-TTCCCSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHH-----------HHHHHHHCCCcchHHHHHHHHHHHHHH-cCCCCCHHHHHHHHHHH
Confidence            344555568888899998887542           22334555665554443    333344 56666666555555554


Q ss_pred             hccCchH-HHHHHHHHHHH----hC--CCCchhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCcchHHHHHHHHHhc---C
Q 005268          344 SHVGALR-QGIKIHARVIK----NC--LCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIH---G  413 (705)
Q Consensus       344 ~~~~~~~-~a~~~~~~~~~----~g--~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~---g  413 (705)
                      .....-+ .-..+...+++    .|  ..-++.....+...|.+.|++.+|+.-|-.-...|...+..|+.-+...   |
T Consensus       103 ~~~p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~H~i~~~~~s~~~~a~~l~~w~~~~~~~  182 (312)
T 2wpv_A          103 AELDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERYFMLGTHDSMIKYVDLLWDWLCQVDDI  182 (312)
T ss_dssp             TTCCTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHHTSCHHHHHHHHHHHHHHHHHTTCC
T ss_pred             HHCCCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHhCCCccHHHHHHHHHHHHHhcCCC
Confidence            4322111 11233333333    22  2237788888999999999999999877532222333333333333222   2


Q ss_pred             ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHh
Q 005268          414 QGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEE  463 (705)
Q Consensus       414 ~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~  463 (705)
                      ...++              +...-..++ -|...|++..|..+|+...+.
T Consensus       183 ~~~e~--------------dlf~~RaVL-~yL~l~n~~~A~~~~~~f~~~  217 (312)
T 2wpv_A          183 EDSTV--------------AEFFSRLVF-NYLFISNISFAHESKDIFLER  217 (312)
T ss_dssp             CHHHH--------------HHHHHHHHH-HHHHTTBHHHHHHHHHHHHHH
T ss_pred             CcchH--------------HHHHHHHHH-HHHHhcCHHHHHHHHHHHHHH
Confidence            22221              111112222 355678899999999877654

>2qx5_A Nucleoporin NIC96; mRNA transport, nuclear pore complex, nucleus, protein transport, translocation, transport, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2rfo_A

Probab=83.92  E-value=36  Score=36.70  Aligned_cols=44  Identities=23%  Similarity=0.280  Sum_probs=25.8

Q ss_pred             hHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHhHHHHhhc
Q 005268           96 SWNAMISGYCQSGNAVEALDILDEMRLEGVSMDPITVASILPVCAR  141 (705)
Q Consensus        96 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~  141 (705)
                      .| ++|--+.+.|++++|.++.++.... +.--...|...+..++.
T Consensus       155 ~W-a~IyY~LR~G~~~~A~e~~~~~~~~-~~~~d~~F~~~l~~~~~  198 (661)
T 2qx5_A          155 IW-ALIFYLLRAGLIKEALQVLVENKAN-IKKVEQSFLTYFKAYAS  198 (661)
T ss_dssp             HH-HHHHHHHTTTCHHHHHHHHHHTGGG-C-----CHHHHHHHC--
T ss_pred             cH-HHHHHHHhcCCHHHHHHHHHHhhhh-HhhhhHHHHHHHHHHHh
Confidence            44 4566788899999999888766431 11112456666676663

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=81.93  E-value=39  Score=32.80  Aligned_cols=134  Identities=13%  Similarity=0.062  Sum_probs=81.9

Q ss_pred             HHHHHHHHHccCCHHHHHHHHhccCCCCeehHHHHHHHHHcCCChhhHHHHH----HHHHHCCCCCChhhHHHHHHHHHc
Q 005268          167 SNNLINMYAKFGMMRHALRVFDQMMERDVVSWNSIIAAYEQSNDPITAHGFF----TTMQQAGIQPDLLTLVSLTSIVAQ  242 (705)
Q Consensus       167 ~~~Li~~y~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~----~~m~~~g~~p~~~t~~~ll~a~~~  242 (705)
                      +.++..-|.+.+++++|.+++..-           ...+.+.|+...|-++-    +...+.++++|..+...++..+..
T Consensus        38 ~RTi~~Ry~~~k~y~eAidLL~~G-----------A~~ll~~~Q~~sg~DL~~llvevy~~~~~~~~~~~~~rL~~L~~~  106 (336)
T 3lpz_A           38 TRLVAARYSKQGNWAAAVDILASV-----------SQTLLRSGQGGSGGDLAVLLVDTFRQAGQRVDGASRGKLLGCLRL  106 (336)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHH-----------HHHHHHTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHhhcCHHHHHHHHHHH-----------HHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Confidence            344556678888888888875322           33456667766555544    555667888888887777777766


Q ss_pred             cCChh-----hHHHHHHHHHHhcC-CCchhHHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHHcC
Q 005268          243 LNDCR-----NSRSVHGFIMRRGW-FMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDVISWNTLITGYAQNG  311 (705)
Q Consensus       243 ~~~~~-----~a~~i~~~~~~~g~-~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g  311 (705)
                      ...-+     .......+-.+.|. ..-|+.....+...|.+.+++.+|+..|-.-..+....+..|+.-+...+
T Consensus       107 ~~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~Ae~H~ilg~~~s~~~~a~mL~ew~~~~  181 (336)
T 3lpz_A          107 FQPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEAAEKHLVLGTKESPEVLARMEYEWYKQD  181 (336)
T ss_dssp             SCTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHTTSCTTHHHHHHHHHHHHHHTS
T ss_pred             CCCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHhcCCchHHHHHHHHHHHHHhc
Confidence            55422     12223333344331 23467778888899999999999988884322222355655554444433

>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=81.65  E-value=11  Score=31.80  Aligned_cols=65  Identities=14%  Similarity=0.025  Sum_probs=42.5

Q ss_pred             CCChhHHHHHHHHHHHCCCCCChhhHHhHHHHhhcCCChHHHHHHHHHHHHhCCCCchhHHHHHHH
Q 005268          107 SGNAVEALDILDEMRLEGVSMDPITVASILPVCARSDNILSGLLIHLYIVKHGLEFNLFVSNNLIN  172 (705)
Q Consensus       107 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~  172 (705)
                      .+++++|.++|+.++..+-.- ...|..-..-=.+.|++..|++++...+..+..|....-.++-+
T Consensus        73 i~D~d~aR~vy~~a~~~hKkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~~~~le~a~~n  137 (161)
T 4h7y_A           73 IQEPDDARDYFQMARANCKKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAVPLEMLEIALRN  137 (161)
T ss_dssp             HHCGGGCHHHHHHHHHHCTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBCHHHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHHHhHHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCcHHHHHHHHHh
Confidence            478888899998887642222 33333333334678889999999988888877665544444433

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=81.07  E-value=8.5  Score=32.99  Aligned_cols=26  Identities=12%  Similarity=0.023  Sum_probs=13.7

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHhH
Q 005268          436 TFVSLLTACSHSGLVSEGQRYFHMMQ  461 (705)
Q Consensus       436 t~~~ll~a~~~~g~~~~a~~~~~~m~  461 (705)
                      ++..+..++...+.+..|...|+...
T Consensus        65 ~l~~ladalf~~~eyrrA~~~y~qAL   90 (167)
T 3ffl_A           65 LLVYHADSLFHDKEYRNAVSKYTMAL   90 (167)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHH
Confidence            34444455555555555555555543

>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=80.52  E-value=9  Score=29.56  Aligned_cols=62  Identities=13%  Similarity=0.234  Sum_probs=49.5

Q ss_pred             hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHH
Q 005268          415 GDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVD  478 (705)
Q Consensus       415 ~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~  478 (705)
                      .-+..+-++.+....+-|++....+.|.||.+.+++.-|.++|+.++.+-  .+...+|..+++
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            44666677777777899999999999999999999999999999887653  334556777765

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=80.37  E-value=6.3  Score=43.32  Aligned_cols=53  Identities=9%  Similarity=-0.003  Sum_probs=44.0

Q ss_pred             HHHccCChhhHHHHHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCC
Q 005268          239 IVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLP  293 (705)
Q Consensus       239 a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~  293 (705)
                      -|.+.++++.|..+-...+..  .|.+-.+|..|...|.+.|+++.|+-.++.+|
T Consensus       346 FLl~K~~~elAL~~Ak~AV~~--aPseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          346 FLLNRGDYELALGVSNTSTEL--ALDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--CSSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             HHhccCcHHHHHHHHHHHHhc--CchhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence            355677788888887777776  47788899999999999999999999999887

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=80.32  E-value=11  Score=32.27  Aligned_cols=69  Identities=13%  Similarity=0.065  Sum_probs=41.8

Q ss_pred             cCCCCCHH--HHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCc-------chHHHHHHHHHhcCCHHHHHHHHHhC
Q 005268          428 EGVRPDHI--TFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHL-------KHYGCMVDLFGRAGHLGMAHNFIQNM  496 (705)
Q Consensus       428 ~g~~p~~~--t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~-------~~~~~li~~~~~~g~~~~A~~~~~~~  496 (705)
                      .|+.|...  ++..-+..+...|.++.|+-+.+.+....+..|+.       .++..+.+++...|++.+|...|++.
T Consensus        12 ~~~~~~~~~~~l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qA   89 (167)
T 3ffl_A           12 SGLVPRGSHMNVIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMA   89 (167)
T ss_dssp             ---------CCHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             cCCCCCccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            34555543  33344556677788888877776655443334442       35677888999999999998888774

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	705
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.89
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.87
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.52
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.48
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.04
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	98.96
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.94
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	98.92
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.92
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.92
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	98.86
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.81
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.8
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	98.75
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.51
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.5
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.49
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.45
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.38
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.36
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.36
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.3
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.3
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.29
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.19
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.18
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.17
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.15
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.07
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.01
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.01
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.0
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.96
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.93
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.91
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.85
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.78
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.76
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.72
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.7
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.68
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.6
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.58
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	97.57
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.56
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.48
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.37
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.36
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.27
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.25
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.13
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.03
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	96.93
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	96.74
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	95.44
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	94.41
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	93.48
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	92.92
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	91.32
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	91.3
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	89.46
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	88.11

>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=99.89  E-value=1.3e-20  Score=194.10  Aligned_cols=240  Identities=14%  Similarity=0.171  Sum_probs=181.0

Q ss_pred             HHHHHHcCChhHHHHHHHhhhhcCCCCCC-cccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcC
Q 005268          304 ITGYAQNGLASEAIEVFQMMEECNEINPN-QGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCG  382 (705)
Q Consensus       304 i~~~~~~g~~~~A~~~~~~m~~~~~~~p~-~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g  382 (705)
                      .......+....+...+.....   ..|+ ...+..+...+...++.+.|...+..+++.. +.+...+..+...|...|
T Consensus       142 ~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~  217 (388)
T d1w3ba_         142 GNLLKALGRLEEAKACYLKAIE---TQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEAR  217 (388)
T ss_dssp             HHHHHTTSCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTT
T ss_pred             cccccccchhhhhHHHHHHhhc---cCcchhHHHHhhcccccccCcHHHHHHHHHHHHHhC-cccHHHHHHHhhhhhccc
Confidence            3333444444455544444443   2332 2233344444555556666666665555542 234556677778888888


Q ss_pred             CHHHHHHHHhhCC---CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCcHHHHHHHHH
Q 005268          383 RIDDAMSLFYQVP---RSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPD-HITFVSLLTACSHSGLVSEGQRYFH  458 (705)
Q Consensus       383 ~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~  458 (705)
                      ++++|...|++..   ..+...|..+...+.+.|++++|+..|++.++  +.|+ ..++..+..++...|++++|.+.++
T Consensus       218 ~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~  295 (388)
T d1w3ba_         218 IFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIE--LQPHFPDAYCNLANALKEKGSVAEAEDCYN  295 (388)
T ss_dssp             CTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--TCSSCHHHHHHHHHHHHHHSCHHHHHHHHH
T ss_pred             cHHHHHHHHHHhHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            8888888887665   34455577888889999999999999999998  5665 4688888899999999999999999


Q ss_pred             HhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCc
Q 005268          459 MMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRPD-ASIWGALLGACRIHGNMELGAVASDRLFEVDSENV  536 (705)
Q Consensus       459 ~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  536 (705)
                      .....  .+.+...+..+...+.+.|++++|++.+++. ...|+ ..+|..+...+...|++++|+..++++++++|+++
T Consensus       296 ~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~P~~~  373 (388)
T d1w3ba_         296 TALRL--CPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFA  373 (388)
T ss_dssp             HHHHH--CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCTTCH
T ss_pred             hhhcc--CCccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCH
Confidence            88754  3446678888999999999999999999886 55665 67899999999999999999999999999999999


Q ss_pred             chhhhhhhhhhhcCC
Q 005268          537 GYYVLMSNIYANVGK  551 (705)
Q Consensus       537 ~~~~~l~~~~~~~g~  551 (705)
                      .++..|+.+|.+.|+
T Consensus       374 ~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         374 DAYSNMGNTLKEMQD  388 (388)
T ss_dssp             HHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHHHcCC
Confidence            999999999988875

>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=99.87  E-value=2.9e-19  Score=183.89  Aligned_cols=351  Identities=14%  Similarity=0.064  Sum_probs=262.0

Q ss_pred             HHHcCCChhhHHHHHHHHHHCCCCCC-hhhHHHHHHHHHccCChhhHHHHHHHHHHhcCCCchhHHHHHHHHHHHhcCCH
Q 005268          204 AYEQSNDPITAHGFFTTMQQAGIQPD-LLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGII  282 (705)
Q Consensus       204 ~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~  282 (705)
                      .+.+.|++++|++.|+++.+.  .|+ ...+..+...+...|++++|...+..+++..  |.+..++..+...|.+.|++
T Consensus         8 ~~~~~G~~~~A~~~~~~~l~~--~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~--p~~~~a~~~l~~~~~~~g~~   83 (388)
T d1w3ba_           8 REYQAGDFEAAERHCMQLWRQ--EPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN--PLLAEAYSNLGNVYKERGQL   83 (388)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHhhhhccc
Confidence            344445555555555555443  122 3344444445555555555555555555543  55667788888888888888


Q ss_pred             HHHHHHHhcCC---CCChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccccchhHHhhccCchHHHHHHHHHH
Q 005268          283 NSACAVFEGLP---VKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARV  359 (705)
Q Consensus       283 ~~A~~~f~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~  359 (705)
                      ++|...+....   ..+...+..........+....+......... . ..................+....+...+...
T Consensus        84 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  161 (388)
T d1w3ba_          84 QEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQ-Y-NPDLYCVRSDLGNLLKALGRLEEAKACYLKA  161 (388)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHH-H-CTTCTHHHHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccc-c-ccccccccccccccccccchhhhhHHHHHHh
Confidence            88888887654   33444555555555666666666666655544 2 2223333334444555667777777777777


Q ss_pred             HHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHH
Q 005268          360 IKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVP---RSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHIT  436 (705)
Q Consensus       360 ~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t  436 (705)
                      .... +.+...+..+...+...|++++|...+++..   +.+...|..+...+...|++++|+..|++....+ +.+...
T Consensus       162 ~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~  239 (388)
T d1w3ba_         162 IETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVV  239 (388)
T ss_dssp             HHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHH
T ss_pred             hccC-cchhHHHHhhcccccccCcHHHHHHHHHHHHHhCcccHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-hhHHHH
Confidence            6653 4466778888999999999999999998765   4455679999999999999999999999999853 345567


Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhCC--CCCCHHHHHHHHHHHH
Q 005268          437 FVSLLTACSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNMP--VRPDASIWGALLGACR  513 (705)
Q Consensus       437 ~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~ll~~~~  513 (705)
                      +..+..++...|++++|...|+...+.   .| +...+..+...|.+.|++++|.+.++...  .+.+...+..+...+.
T Consensus       240 ~~~l~~~~~~~~~~~~A~~~~~~al~~---~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~  316 (388)
T d1w3ba_         240 HGNLACVYYEQGLIDLAIDTYRRAIEL---QPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKR  316 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHT---CSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccCCccchhhhHHHHHHH
Confidence            888888999999999999999988753   55 45788999999999999999999998772  3456788999999999


Q ss_pred             hcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhC
Q 005268          514 IHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       514 ~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      ..|++++|+..++++++++|+++.++..++.+|...|++++|.+.++++.+.
T Consensus       317 ~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l  368 (388)
T d1w3ba_         317 EQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI  368 (388)
T ss_dssp             TTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTT
T ss_pred             HCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            9999999999999999999999999999999999999999999999998764

>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=99.52  E-value=2.4e-13  Score=135.59  Aligned_cols=226  Identities=15%  Similarity=0.063  Sum_probs=152.9

Q ss_pred             HHHHHHHcCChhHHHHHHHhhhhcCCCCCC-cccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhc
Q 005268          303 LITGYAQNGLASEAIEVFQMMEECNEINPN-QGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKC  381 (705)
Q Consensus       303 li~~~~~~g~~~~A~~~~~~m~~~~~~~p~-~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~  381 (705)
                      ....+.+.|++++|+..|+++.+   ..|+ ..++..+..++...|+++.|...+..+++.. +.+...+..+...|...
T Consensus        25 ~g~~~~~~g~~~~A~~~~~~al~---~~P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~  100 (323)
T d1fcha_          25 EGLRRLQEGDLPNAVLLFEAAVQ---QDPKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNE  100 (323)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH---SCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-ccccccccccccccccc
Confidence            44556677777777777777766   4453 3344445555555555555555555555442 22344444444455555


Q ss_pred             CCHHHHHHHHhhCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH----------------HHHHHHHHHHh
Q 005268          382 GRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDH----------------ITFVSLLTACS  445 (705)
Q Consensus       382 g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~----------------~t~~~ll~a~~  445 (705)
                      |++++|.+.                               +++...  +.|+.                ......+..+.
T Consensus       101 ~~~~~A~~~-------------------------------~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  147 (323)
T d1fcha_         101 SLQRQACEI-------------------------------LRDWLR--YTPAYAHLVTPAEEGAGGAGLGPSKRILGSLL  147 (323)
T ss_dssp             TCHHHHHHH-------------------------------HHHHHH--TSTTTGGGCC---------------CTTHHHH
T ss_pred             ccccccccc-------------------------------hhhHHH--hccchHHHHHhhhhhhhhcccccchhhHHHHH
Confidence            555555444                               444443  12211                01111122334


Q ss_pred             ccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHH
Q 005268          446 HSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAV  523 (705)
Q Consensus       446 ~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~  523 (705)
                      ..+..+++.+.+....+...-.++...+..+...+.+.|++++|+..+++. ...| +..+|..+...+...|++++|+.
T Consensus       148 ~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~  227 (323)
T d1fcha_         148 SDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQSEEAVA  227 (323)
T ss_dssp             HHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HhhHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHhhhhcccccccccccccccchhhhhhcccccccchhHHH
Confidence            456677888888877654333345567888899999999999999999886 3344 47789999999999999999999


Q ss_pred             HHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhC
Q 005268          524 ASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       524 ~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      .++++++++|+++.++..++.+|...|++++|.+.+++..+.
T Consensus       228 ~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l  269 (323)
T d1fcha_         228 AYRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNM  269 (323)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            999999999999999999999999999999999999998774

>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=99.48  E-value=3.7e-13  Score=134.18  Aligned_cols=248  Identities=14%  Similarity=0.070  Sum_probs=182.0

Q ss_pred             HHHHHHHhcCCHHHHHHHHhcCC---CCChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCC-cccccchhHHhhcc
Q 005268          271 AVVDMYAKLGIINSACAVFEGLP---VKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPN-QGTYVSILPAYSHV  346 (705)
Q Consensus       271 ~li~~y~~~g~~~~A~~~f~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~-~~t~~~ll~a~~~~  346 (705)
                      .....|.+.|++++|...|++..   +.+..+|..+...|...|++++|+..|.+..+   +.|+ ...+..+...+...
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~---~~p~~~~~~~~la~~~~~~  100 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLE---LKPDNQTALMALAVSFTNE  100 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHhhhc---ccccccccccccccccccc
Confidence            45667889999999999999864   34678999999999999999999999999988   6674 45667777889999


Q ss_pred             CchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHH
Q 005268          347 GALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQML  426 (705)
Q Consensus       347 ~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  426 (705)
                      |+++.|.+.+..+....... ............                ..+.......+..+...+.+.+|.+.|.+.+
T Consensus       101 ~~~~~A~~~~~~~~~~~~~~-~~~~~~~~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al  163 (323)
T d1fcha_         101 SLQRQACEILRDWLRYTPAY-AHLVTPAEEGAG----------------GAGLGPSKRILGSLLSDSLFLEVKELFLAAV  163 (323)
T ss_dssp             TCHHHHHHHHHHHHHTSTTT-GGGCC-------------------------------CTTHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccccccccchhhHHHhccch-HHHHHhhhhhhh----------------hcccccchhhHHHHHHhhHHHHHHHHHHHHH
Confidence            99999999999988753211 111100000000                0011111112223344566788999998888


Q ss_pred             HcCC-CCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CH
Q 005268          427 DEGV-RPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DA  502 (705)
Q Consensus       427 ~~g~-~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~  502 (705)
                      +... .++...+..+...+...|++++|...|+.....   .| +...|..+...|.+.|++++|.+.+++. ...| +.
T Consensus       164 ~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~---~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~  240 (323)
T d1fcha_         164 RLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV---RPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYI  240 (323)
T ss_dssp             HHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCH
T ss_pred             HHhhcccccccchhhHHHHHHHHHHhhhhccccccccc---ccccccchhhhhhcccccccchhHHHHHHHHHHHhhccH
Confidence            7432 234567778888899999999999999988754   44 4568888999999999999999999887 3455 47


Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhh
Q 005268          503 SIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVL  541 (705)
Q Consensus       503 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~  541 (705)
                      .+|..+..+|...|++++|+..|+++++++|++...+..
T Consensus       241 ~a~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~  279 (323)
T d1fcha_         241 RSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGE  279 (323)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcChhhhhh
Confidence            789999999999999999999999999999987765443

>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=99.04  E-value=9.3e-09  Score=102.57  Aligned_cols=227  Identities=11%  Similarity=0.060  Sum_probs=148.7

Q ss_pred             hhHHhhccCchHHHHHHHHHHHHhCC--C---CchhHHHHHHHHHHhcCCHHHHHHHHhhCC-------CCCc----chH
Q 005268          339 ILPAYSHVGALRQGIKIHARVIKNCL--C---FDVFVATCLVDMYGKCGRIDDAMSLFYQVP-------RSSS----VPW  402 (705)
Q Consensus       339 ll~a~~~~~~~~~a~~~~~~~~~~g~--~---~~~~~~~~li~~y~k~g~~~~A~~~~~~~~-------~~~~----~~~  402 (705)
                      +...+...|++++|...+..+.+...  .   .....+..+...|...|++..|...+....       .+..    ..+
T Consensus        57 lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~  136 (366)
T d1hz4a_          57 LGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLV  136 (366)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHH
Confidence            33444444555555555544433210  0   012234445566677777777776665432       1111    124


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCC----CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCC-----cchH
Q 005268          403 NAIISCHGIHGQGDKALNFFRQMLDEGVRP----DHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPH-----LKHY  473 (705)
Q Consensus       403 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p----~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-----~~~~  473 (705)
                      ..+...+...|+++.+...+.+........    ...++......+...+...++...+........-...     ...+
T Consensus       137 ~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~  216 (366)
T d1hz4a_         137 RIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNAN  216 (366)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHH
T ss_pred             HHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHH
Confidence            556677788889999998888887643221    2335555566777888888888888776554322222     2345


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhCC-CCC-----CHHHHHHHHHHHHhcCChhHHHHHHHHHhc------cCCCCcchhhh
Q 005268          474 GCMVDLFGRAGHLGMAHNFIQNMP-VRP-----DASIWGALLGACRIHGNMELGAVASDRLFE------VDSENVGYYVL  541 (705)
Q Consensus       474 ~~li~~~~~~g~~~~A~~~~~~~~-~~p-----~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~------~~p~~~~~~~~  541 (705)
                      ..+...+...|++++|...+++.. ..|     ....+..+...+...|++++|...+++++.      ..|+...++..
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            566777889999999999998772 222     244567788889999999999999998874      34556677888


Q ss_pred             hhhhhhhcCCcchHHHHHHHHHhC
Q 005268          542 MSNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       542 l~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      ++.+|...|++++|.+.+++..+.
T Consensus       297 la~~~~~~g~~~~A~~~l~~Al~l  320 (366)
T d1hz4a_         297 LNQLYWQAGRKSDAQRVLLDALKL  320 (366)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHH
Confidence            999999999999999999887653

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.96  E-value=1.5e-08  Score=99.31  Aligned_cols=222  Identities=10%  Similarity=0.128  Sum_probs=140.0

Q ss_pred             hHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHH
Q 005268          298 ISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDM  377 (705)
Q Consensus       298 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~  377 (705)
                      ..++.+...+.+.+.+++|+++++++.+   +.|+..                                  ..|+....+
T Consensus        44 ~a~~~~~~~~~~~e~~~~Al~~~~~ai~---lnP~~~----------------------------------~a~~~r~~~   86 (315)
T d2h6fa1          44 DVYDYFRAVLQRDERSERAFKLTRDAIE---LNAANY----------------------------------TVWHFRRVL   86 (315)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHH---HCTTCH----------------------------------HHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHH---HCCCCh----------------------------------HHHHHHHHH
Confidence            3456666677777888888888888877   666533                                  233344444


Q ss_pred             HHhcC-CHHHHHHHHhhCC---CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCcHHH
Q 005268          378 YGKCG-RIDDAMSLFYQVP---RSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPD-HITFVSLLTACSHSGLVSE  452 (705)
Q Consensus       378 y~k~g-~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~  452 (705)
                      +.+.| ++++|...++...   +.+..+|+.+...+...|++++|++.++++++  +.|+ ...|..+...+.+.|++++
T Consensus        87 l~~l~~~~~eal~~~~~al~~~p~~~~a~~~~~~~~~~l~~~~eAl~~~~kal~--~dp~n~~a~~~~~~~~~~~~~~~~  164 (315)
T d2h6fa1          87 LKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLVEWLRDPSQELEFIADILN--QDAKNYHAWQHRQWVIQEFKLWDN  164 (315)
T ss_dssp             HHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHTCCTT
T ss_pred             HHHhCcCHHHHHHHHHHHHHHHHhhhhHHHHHhHHHHhhccHHHHHHHHhhhhh--hhhcchHHHHHHHHHHHHHHhhHH
Confidence            44433 3555555555443   34445566666667777777777777777777  3444 4567777777777777777


Q ss_pred             HHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCC------HHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHH
Q 005268          453 GQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGH------LGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAV  523 (705)
Q Consensus       453 a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~------~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~  523 (705)
                      |++.++.+.+.   .| +...|+.+..++.+.|.      +++|++.+.++ ...| +...|..+...+.. ...+++..
T Consensus       165 Al~~~~~al~~---~p~n~~a~~~r~~~l~~~~~~~~~~~~~~ai~~~~~al~~~P~~~~~~~~l~~ll~~-~~~~~~~~  240 (315)
T d2h6fa1         165 ELQYVDQLLKE---DVRNNSVWNQRYFVISNTTGYNDRAVLEREVQYTLEMIKLVPHNESAWNYLKGILQD-RGLSKYPN  240 (315)
T ss_dssp             HHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTT-TCGGGCHH
T ss_pred             HHHHHHHHHHH---CCccHHHHHHHHHHHHHccccchhhhhHHhHHHHHHHHHhCCCchHHHHHHHHHHHh-cChHHHHH
Confidence            77777777643   44 34456666666655554      56777777665 3344 57788887776554 44678888


Q ss_pred             HHHHHhccCCCCcch--hhhhhhhhhhc--CCcchHHHHHHHH
Q 005268          524 ASDRLFEVDSENVGY--YVLMSNIYANV--GKWEGVDEVRSLA  562 (705)
Q Consensus       524 ~~~~~~~~~p~~~~~--~~~l~~~~~~~--g~~~~a~~~~~~m  562 (705)
                      .++++.+++|+....  +..++.+|...  +..+.+...+++.
T Consensus       241 ~~~~~~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~ka  283 (315)
T d2h6fa1         241 LLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNKEDILNKA  283 (315)
T ss_dssp             HHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCSSHHHHHHHH
T ss_pred             HHHHHHHhCCCcCCHHHHHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            999998888865443  44566666443  4555555554443

>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=98.94  E-value=2.1e-08  Score=98.06  Aligned_cols=187  Identities=12%  Similarity=0.125  Sum_probs=148.6

Q ss_pred             CchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCCC---CCc-chHHHHHHHHHhcCChHHHHHHH
Q 005268          347 GALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPR---SSS-VPWNAIISCHGIHGQGDKALNFF  422 (705)
Q Consensus       347 ~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~~---~~~-~~~~~li~~~~~~g~~~~A~~~~  422 (705)
                      +..+.+..+++++++...+.+...+..++..+.+.|+++.|..+|+++..   .+. ..|...+....+.|+.++|.++|
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            45678889999988765666777888899999999999999999998753   232 35899999999999999999999


Q ss_pred             HHHHHcCCCCCHHHHHHHHH-HHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhC----C
Q 005268          423 RQMLDEGVRPDHITFVSLLT-ACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNM----P  497 (705)
Q Consensus       423 ~~m~~~g~~p~~~t~~~ll~-a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~----~  497 (705)
                      +++++.+ +.+...|..... -+...|+.+.|..+|+.+.+.+  +.+...|...++.+.+.|++++|..+|++.    +
T Consensus       158 ~~al~~~-~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~--p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~  234 (308)
T d2onda1         158 KKAREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGS  234 (308)
T ss_dssp             HHHHTST-TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH--TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSS
T ss_pred             HHHHHhC-CCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhh--hhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCC
Confidence            9999854 223344444333 2345689999999999998752  334578999999999999999999999886    2


Q ss_pred             CCCC--HHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCc
Q 005268          498 VRPD--ASIWGALLGACRIHGNMELGAVASDRLFEVDSENV  536 (705)
Q Consensus       498 ~~p~--~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  536 (705)
                      ..|+  ...|...+.--..+|+.+.+..+++++.++-|++.
T Consensus       235 ~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~~~~~~  275 (308)
T d2onda1         235 LPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAFREEY  275 (308)
T ss_dssp             SCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHTTTTT
T ss_pred             CChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcccc
Confidence            3443  56899999998999999999999999998888654

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.92  E-value=6.2e-09  Score=102.09  Aligned_cols=192  Identities=8%  Similarity=0.058  Sum_probs=160.0

Q ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCcchHHHHHHHHHhcC-ChHHHHHHHHHHHHcCCCCC-HHHHHHHHH
Q 005268          368 VFVATCLVDMYGKCGRIDDAMSLFYQVP---RSSSVPWNAIISCHGIHG-QGDKALNFFRQMLDEGVRPD-HITFVSLLT  442 (705)
Q Consensus       368 ~~~~~~li~~y~k~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g-~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~  442 (705)
                      ...++.+...+.+.+..++|+++++++.   +.+...|+....++...| ++++|+..+++.++  +.|+ ..+|..+..
T Consensus        43 ~~a~~~~~~~~~~~e~~~~Al~~~~~ai~lnP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~--~~p~~~~a~~~~~~  120 (315)
T d2h6fa1          43 RDVYDYFRAVLQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIE--EQPKNYQVWHHRRV  120 (315)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH--HCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHHCCCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHH--HHHhhhhHHHHHhH
Confidence            3455666677888999999999999887   455566999999988876 58999999999999  4666 468999999


Q ss_pred             HHhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCC--
Q 005268          443 ACSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGN--  517 (705)
Q Consensus       443 a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~--  517 (705)
                      .+...|++++|++.++.+.+.   .| +...|..+...+.+.|++++|++.++++ ...| +...|+.+...+...+.  
T Consensus       121 ~~~~l~~~~eAl~~~~kal~~---dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~n~~a~~~r~~~l~~~~~~~  197 (315)
T d2h6fa1         121 LVEWLRDPSQELEFIADILNQ---DAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVRNNSVWNQRYFVISNTTGYN  197 (315)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCSC
T ss_pred             HHHhhccHHHHHHHHhhhhhh---hhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCccHHHHHHHHHHHHHccccc
Confidence            999999999999999999854   55 5678999999999999999999999988 4455 57789888777776655  


Q ss_pred             ----hhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhC
Q 005268          518 ----MELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       518 ----~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                          +++|+..+.++++++|++...+..++.++...| .+++.+.++...+.
T Consensus       198 ~~~~~~~ai~~~~~al~~~P~~~~~~~~l~~ll~~~~-~~~~~~~~~~~~~l  248 (315)
T d2h6fa1         198 DRAVLEREVQYTLEMIKLVPHNESAWNYLKGILQDRG-LSKYPNLLNQLLDL  248 (315)
T ss_dssp             SHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTTTC-GGGCHHHHHHHHHH
T ss_pred             hhhhhHHhHHHHHHHHHhCCCchHHHHHHHHHHHhcC-hHHHHHHHHHHHHh
Confidence                578999999999999999999999988877655 57888888877664

>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=98.92  E-value=3.2e-10  Score=112.94  Aligned_cols=228  Identities=11%  Similarity=-0.021  Sum_probs=162.4

Q ss_pred             HcCChhHHHHHHHhhhhcCCCCCCc-ccccchhHHhhcc--CchHHHHHHHHHHHHhCCCCchhHH-HHHHHHHHhcCCH
Q 005268          309 QNGLASEAIEVFQMMEECNEINPNQ-GTYVSILPAYSHV--GALRQGIKIHARVIKNCLCFDVFVA-TCLVDMYGKCGRI  384 (705)
Q Consensus       309 ~~g~~~~A~~~~~~m~~~~~~~p~~-~t~~~ll~a~~~~--~~~~~a~~~~~~~~~~g~~~~~~~~-~~li~~y~k~g~~  384 (705)
                      ..|++++|+..++...+   ..|+. ..+.....++...  ++.+.+...+..+++... ++...+ ..+...+...|..
T Consensus        85 ~~~~~~~al~~~~~~l~---~~pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~-~~~~~~~~~~~~~~~~~~~~  160 (334)
T d1dcea1          85 SAALVKAELGFLESCLR---VNPKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADE-RNFHCWDYRRFVAAQAAVAP  160 (334)
T ss_dssp             HHHHHHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTCCCH
T ss_pred             HHHHHHHHHHHHHHHHH---hCCCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhCc-hhhhhhhhHHHHHHHhcccc
Confidence            34556778888888776   55643 3344444444444  347788888888877643 334443 3455677788999


Q ss_pred             HHHHHHHhhCCC---CCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhH
Q 005268          385 DDAMSLFYQVPR---SSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQ  461 (705)
Q Consensus       385 ~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~  461 (705)
                      ++|...++....   .+...|+.+...+.+.|++++|...+++...  +.|+..   .+...+...+..+++...+....
T Consensus       161 ~~Al~~~~~~i~~~p~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~~~---~~~~~~~~l~~~~~a~~~~~~~l  235 (334)
T d1dcea1         161 AEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPEN--VLLKEL---ELVQNAFFTDPNDQSAWFYHRWL  235 (334)
T ss_dssp             HHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHH--HHHHHH---HHHHHHHHHCSSCSHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHhHH--hHHHHH---HHHHHHHHhcchhHHHHHHHHHH
Confidence            999999998874   4455688899999999999888777766555  233322   22333445566677777777665


Q ss_pred             HhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchh
Q 005268          462 EEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRPD-ASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYY  539 (705)
Q Consensus       462 ~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~  539 (705)
                      ..  -.++...+..++..+...|+.++|...+.+. +..|+ ..+|..+...+...|+.++|...++++++++|++...|
T Consensus       236 ~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ldP~~~~y~  313 (334)
T d1dcea1         236 LG--RAEPLFRCELSVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYL  313 (334)
T ss_dssp             HS--CCCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGGGHHHH
T ss_pred             Hh--CcchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCcccHHHH
Confidence            43  3345556777788888899999999988876 45554 56888899999999999999999999999999888888


Q ss_pred             hhhhhhhh
Q 005268          540 VLMSNIYA  547 (705)
Q Consensus       540 ~~l~~~~~  547 (705)
                      ..|+..+.
T Consensus       314 ~~L~~~~~  321 (334)
T d1dcea1         314 DDLRSKFL  321 (334)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            87776664

>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=98.92  E-value=2.6e-09  Score=101.73  Aligned_cols=198  Identities=9%  Similarity=-0.058  Sum_probs=124.2

Q ss_pred             cccchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCcchHHHHHHHHHh
Q 005268          335 TYVSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVP---RSSSVPWNAIISCHGI  411 (705)
Q Consensus       335 t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~  411 (705)
                      ++..+...+.+.|+++.|...|..+++.. +.++.+++.+..+|.+.|++++|...|+++.   +.+..+|..+...|..
T Consensus        39 ~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~  117 (259)
T d1xnfa_          39 LLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALYY  117 (259)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHHhhhhhhHHHHHHHHHH
Confidence            34444555566666666666666666653 3456777888888888888888888888776   3445568888888889


Q ss_pred             cCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCC----H
Q 005268          412 HGQGDKALNFFRQMLDEGVRPD-HITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGH----L  486 (705)
Q Consensus       412 ~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~----~  486 (705)
                      .|++++|+..|++.++.  .|+ ......+..++...+..+....+......   ..+....++ ++..+.....    .
T Consensus       118 ~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~-~~~~~~~~~~~~~~~  191 (259)
T d1xnfa_         118 GGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEK---SDKEQWGWN-IVEFYLGNISEQTLM  191 (259)
T ss_dssp             TTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHH---SCCCSTHHH-HHHHHTTSSCHHHHH
T ss_pred             HhhHHHHHHHHHHHHhh--ccccHHHHHHHHHHHHHhhhHHHHHHHHHHhhc---cchhhhhhh-HHHHHHHHHHHHHHH
Confidence            99999999999998884  454 33333344445555555555555544432   233332332 2233222222    2


Q ss_pred             HHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchh
Q 005268          487 GMAHNFIQNM-PVRPD-ASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYY  539 (705)
Q Consensus       487 ~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~  539 (705)
                      +.+...+... ...|+ ..+|..+...+...|++++|...++++++.+|++...|
T Consensus       192 ~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~  246 (259)
T d1xnfa_         192 ERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNFVEH  246 (259)
T ss_dssp             HHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTCHHH
T ss_pred             HHHHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHH
Confidence            2222222111 11233 34677788899999999999999999999999875444

>d1hz4a_ a.118.8.2 (A:) Transcription factor MalT domain III {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Transcription factor MalT domain III
domain: Transcription factor MalT domain III
species: Escherichia coli [TaxId: 562]

Probab=98.86  E-value=1.3e-07  Score=93.84  Aligned_cols=187  Identities=7%  Similarity=-0.033  Sum_probs=107.7

Q ss_pred             HHHHHHHHhcCCHHHHHHHHhhCC----CC----CcchHHHHHHHHHhcCChHHHHHHHHHHHHcC--CCCC----HHHH
Q 005268          372 TCLVDMYGKCGRIDDAMSLFYQVP----RS----SSVPWNAIISCHGIHGQGDKALNFFRQMLDEG--VRPD----HITF  437 (705)
Q Consensus       372 ~~li~~y~k~g~~~~A~~~~~~~~----~~----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g--~~p~----~~t~  437 (705)
                      ..+...|...|+++.|...+....    ..    ....+..+...+...++..++...+.+.....  ....    ...+
T Consensus       137 ~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~  216 (366)
T d1hz4a_         137 RIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNAN  216 (366)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHH
T ss_pred             HHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHH
Confidence            344455556666666666555433    10    11123444555666677777777666555421  1111    1234


Q ss_pred             HHHHHHHhccCcHHHHHHHHHHhHHhhCCcC--CcchHHHHHHHHHhcCCHHHHHHHHHhC-------CCCCC-HHHHHH
Q 005268          438 VSLLTACSHSGLVSEGQRYFHMMQEEFGIKP--HLKHYGCMVDLFGRAGHLGMAHNFIQNM-------PVRPD-ASIWGA  507 (705)
Q Consensus       438 ~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p--~~~~~~~li~~~~~~g~~~~A~~~~~~~-------~~~p~-~~~~~~  507 (705)
                      ..+...+...|++++|...+....+...-.+  ....+..+...+...|++++|...+++.       ...|+ ..+|..
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            4445566777888888887776543211111  1234455677788888888888777665       23333 346777


Q ss_pred             HHHHHHhcCChhHHHHHHHHHhccCCCC--c-------chhhhhhhhhhhcCCcchHHHH
Q 005268          508 LLGACRIHGNMELGAVASDRLFEVDSEN--V-------GYYVLMSNIYANVGKWEGVDEV  558 (705)
Q Consensus       508 ll~~~~~~g~~~~a~~~~~~~~~~~p~~--~-------~~~~~l~~~~~~~g~~~~a~~~  558 (705)
                      +...+...|++++|...+++++++.+..  .       ..+..+...+...++.+++.+-
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            8888889999999999998888765421  1       1122334445566777776543

>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=98.81  E-value=6.5e-09  Score=98.90  Aligned_cols=213  Identities=11%  Similarity=0.012  Sum_probs=144.8

Q ss_pred             chHHHHHHHHHHHHhCCCC---chhHHHHHHHHHHhcCCHHHHHHHHhhCC---CCCcchHHHHHHHHHhcCChHHHHHH
Q 005268          348 ALRQGIKIHARVIKNCLCF---DVFVATCLVDMYGKCGRIDDAMSLFYQVP---RSSSVPWNAIISCHGIHGQGDKALNF  421 (705)
Q Consensus       348 ~~~~a~~~~~~~~~~g~~~---~~~~~~~li~~y~k~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~  421 (705)
                      ..+.+..-+++++......   ...++..+...|.+.|++++|...|++..   +.+..+|+.+..+|.+.|++++|++.
T Consensus        14 ~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~~~~a~~~lg~~~~~~g~~~~A~~~   93 (259)
T d1xnfa_          14 QQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEA   93 (259)
T ss_dssp             HHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccCCCCHHHHhhhchHHHHHHHHHHhhhh
Confidence            3444545555555432111   23466677889999999999999999876   56677799999999999999999999


Q ss_pred             HHHHHHcCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCC-cchHHHHHHHHHhcCCHHHHHHHHHhCC-C
Q 005268          422 FRQMLDEGVRPD-HITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPH-LKHYGCMVDLFGRAGHLGMAHNFIQNMP-V  498 (705)
Q Consensus       422 ~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~-~  498 (705)
                      |+++++  +.|+ ..++..+..++...|++++|...|+...+.   .|+ ......+...+.+.+..+.+..+..... .
T Consensus        94 ~~~al~--~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  168 (259)
T d1xnfa_          94 FDSVLE--LDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD---DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKS  168 (259)
T ss_dssp             HHHHHH--HCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHS
T ss_pred             hhHHHH--HHhhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhh---ccccHHHHHHHHHHHHHhhhHHHHHHHHHHhhcc
Confidence            999999  4565 467888889999999999999999988764   443 3333344445555565555544443331 1


Q ss_pred             CCCHHHHHHHHHHHHhc----CChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhCC
Q 005268          499 RPDASIWGALLGACRIH----GNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDRG  566 (705)
Q Consensus       499 ~p~~~~~~~ll~~~~~~----g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  566 (705)
                      .++...++. +..+...    +..+.+...+.......|+...++..++.+|...|++++|.+.+++.....
T Consensus       169 ~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~  239 (259)
T d1xnfa_         169 DKEQWGWNI-VEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN  239 (259)
T ss_dssp             CCCSTHHHH-HHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             chhhhhhhH-HHHHHHHHHHHHHHHHHHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC
Confidence            222222222 2222111    123333333334444556667788889999999999999999999988654

>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=98.80  E-value=1.7e-09  Score=107.48  Aligned_cols=245  Identities=6%  Similarity=-0.103  Sum_probs=176.0

Q ss_pred             HcCChhHHHHHHHhhhhcCCCCCCcccc-----------cchhHHhhccCchHHHHHHHHHHHHhCCCCchhHHHHHHHH
Q 005268          309 QNGLASEAIEVFQMMEECNEINPNQGTY-----------VSILPAYSHVGALRQGIKIHARVIKNCLCFDVFVATCLVDM  377 (705)
Q Consensus       309 ~~g~~~~A~~~~~~m~~~~~~~p~~~t~-----------~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~~~~~~li~~  377 (705)
                      ..+..++|++++++..+   ..|+..+.           ......+...+.++++...++.+++.. +.+...+..+...
T Consensus        41 ~~~~~~~al~~~~~~l~---~~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~  116 (334)
T d1dcea1          41 AGELDESVLELTSQILG---ANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWL  116 (334)
T ss_dssp             TTCCSHHHHHHHHHHHH---HCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             cccccHHHHHHHHHHHH---HCCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhC-CCcHHHHHHhhHH
Confidence            33445788888888877   67766442           122223344566788888888888764 4456666666666


Q ss_pred             HHhcC--CHHHHHHHHhhCC---CCCcchHHH-HHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCcH
Q 005268          378 YGKCG--RIDDAMSLFYQVP---RSSSVPWNA-IISCHGIHGQGDKALNFFRQMLDEGVRPD-HITFVSLLTACSHSGLV  450 (705)
Q Consensus       378 y~k~g--~~~~A~~~~~~~~---~~~~~~~~~-li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~  450 (705)
                      +...+  ++++|...++++.   .++...|.. ....+...|.+++|+..++++++.  .|+ ...|..+..++...|++
T Consensus       117 ~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~--~p~~~~a~~~l~~~~~~~~~~  194 (334)
T d1dcea1         117 LSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITR--NFSNYSSWHYRSCLLPQLHPQ  194 (334)
T ss_dssp             HHTCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTT--TCCCHHHHHHHHHHHHHHSCC
T ss_pred             HHHhccccHHHHHHHHHHHHhhCchhhhhhhhHHHHHHHhccccHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhcCH
Confidence            66655  4889999888875   344555554 446677789999999999999884  554 56788888888888888


Q ss_pred             HHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhC--CCCCCHHHHHHHHHHHHhcCChhHHHHHHHHH
Q 005268          451 SEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNM--PVRPDASIWGALLGACRIHGNMELGAVASDRL  528 (705)
Q Consensus       451 ~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~  528 (705)
                      ++|...+....+.   .|+   .......+...+..+++...+.+.  ..+++...+..++..+...++.++|...+.+.
T Consensus       195 ~~A~~~~~~~~~~---~~~---~~~~~~~~~~l~~~~~a~~~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  268 (334)
T d1dcea1         195 PDSGPQGRLPENV---LLK---ELELVQNAFFTDPNDQSAWFYHRWLLGRAEPLFRCELSVEKSTVLQSELESCKELQEL  268 (334)
T ss_dssp             CCSSSCCSSCHHH---HHH---HHHHHHHHHHHCSSCSHHHHHHHHHHSCCCCSSSCCCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhHHh---HHH---HHHHHHHHHHhcchhHHHHHHHHHHHhCcchhhHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            8776665544432   221   112334455667777777766654  22334556677778888889999999999999


Q ss_pred             hccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhC
Q 005268          529 FEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       529 ~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      .+.+|++..++..++.+|...|++++|.+.++++.+.
T Consensus       269 ~~~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~l  305 (334)
T d1dcea1         269 EPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAV  305 (334)
T ss_dssp             CTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHH
T ss_pred             HhhCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999875

>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=98.75  E-value=5.1e-07  Score=87.91  Aligned_cols=77  Identities=9%  Similarity=0.148  Sum_probs=36.8

Q ss_pred             HHHHHHHhcC----CCCChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCc--ccccchhHHhhccCchHHHHHHH
Q 005268          283 NSACAVFEGL----PVKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQ--GTYVSILPAYSHVGALRQGIKIH  356 (705)
Q Consensus       283 ~~A~~~f~~~----~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~--~t~~~ll~a~~~~~~~~~a~~~~  356 (705)
                      ++|..+|++.    ...+...|...+..+...|+.++|..+|+++.+   ..|..  ..|...+..+.+.++++.|++++
T Consensus        81 ~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~---~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~  157 (308)
T d2onda1          81 DEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLA---IEDIDPTLVYIQYMKFARRAEGIKSGRMIF  157 (308)
T ss_dssp             HHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT---SSSSCTHHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHH---HhcCChHHHHHHHHHHHHHcCChHHHHHHH
Confidence            4455555432    223444555555555555666666666655554   33322  12344444444444555555555


Q ss_pred             HHHHHh
Q 005268          357 ARVIKN  362 (705)
Q Consensus       357 ~~~~~~  362 (705)
                      ..+++.
T Consensus       158 ~~al~~  163 (308)
T d2onda1         158 KKARED  163 (308)
T ss_dssp             HHHHTS
T ss_pred             HHHHHh
Confidence            544443

>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=98.51  E-value=1.2e-06  Score=78.20  Aligned_cols=139  Identities=9%  Similarity=-0.032  Sum_probs=100.3

Q ss_pred             HHHHHhcCCHHHHHHHHhhCCCCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCcHHHH
Q 005268          375 VDMYGKCGRIDDAMSLFYQVPRSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPD-HITFVSLLTACSHSGLVSEG  453 (705)
Q Consensus       375 i~~y~k~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a  453 (705)
                      ...+...|+++.|.+.|.++.+++...|..+..+|...|++++|++.|++.++  +.|+ ...|..+..++.+.|++++|
T Consensus        12 g~~~~~~~d~~~Al~~~~~i~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~--ldp~~~~a~~~~g~~~~~~g~~~~A   89 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSIN--RDKHLAVAYFQRGMLYYQTEKYDLA   89 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHH--HhhhhhhhHHHHHHHHHhhccHHHH
Confidence            34567789999999999998888888899999999999999999999999998  4565 45888888889999999999


Q ss_pred             HHHHHHhHHhhCCcCCcc-hHHHHHHHHHhcCCHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCChhHHHHHHHHHhcc
Q 005268          454 QRYFHMMQEEFGIKPHLK-HYGCMVDLFGRAGHLGMAHNFIQNMPVRPD-ASIWGALLGACRIHGNMELGAVASDRLFEV  531 (705)
Q Consensus       454 ~~~~~~m~~~~~~~p~~~-~~~~li~~~~~~g~~~~A~~~~~~~~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~  531 (705)
                      .+.|+.....  .+++.. .|.       ..|           ...+++ ..++..+..++...|++++|.+.+++++++
T Consensus        90 ~~~~~kAl~~--~~~n~~~~~~-------~~~-----------~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~  149 (192)
T d1hh8a_          90 IKDLKEALIQ--LRGNQLIDYK-------ILG-----------LQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSM  149 (192)
T ss_dssp             HHHHHHHHHT--TTTCSEEECG-------GGT-----------BCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHh--CccCchHHHH-------Hhh-----------hhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            9998887642  122210 000       000           001111 234556667777888888888888888877


Q ss_pred             CCCC
Q 005268          532 DSEN  535 (705)
Q Consensus       532 ~p~~  535 (705)
                      .|+.
T Consensus       150 ~~~~  153 (192)
T d1hh8a_         150 KSEP  153 (192)
T ss_dssp             CCSG
T ss_pred             CCCc
Confidence            7753

>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=98.50  E-value=2.7e-07  Score=75.07  Aligned_cols=89  Identities=8%  Similarity=0.063  Sum_probs=59.7

Q ss_pred             HHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcch
Q 005268          477 VDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEG  554 (705)
Q Consensus       477 i~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  554 (705)
                      ...+.+.|++++|+..|++. ...| +...|..+..++...|++++|+..++++++++|+++..|..++.+|...|++++
T Consensus        10 g~~~~~~g~~~eAi~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~~~~   89 (117)
T d1elwa_          10 GNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRFEE   89 (117)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcCCcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccCHHH
Confidence            44555666666666666665 2233 455677777777777777777777777777777777777777777777777777


Q ss_pred             HHHHHHHHHhC
Q 005268          555 VDEVRSLARDR  565 (705)
Q Consensus       555 a~~~~~~m~~~  565 (705)
                      |...++...+.
T Consensus        90 A~~~~~~a~~~  100 (117)
T d1elwa_          90 AKRTYEEGLKH  100 (117)
T ss_dssp             HHHHHHHHHTT
T ss_pred             HHHHHHHHHHh
Confidence            77777766654

>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=98.49  E-value=2e-07  Score=84.42  Aligned_cols=106  Identities=8%  Similarity=-0.076  Sum_probs=55.2

Q ss_pred             CCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCCC-HHHHHHH
Q 005268          432 PDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRPD-ASIWGAL  508 (705)
Q Consensus       432 p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l  508 (705)
                      |+...+......+...|++++|+..|....+.   .| +...|..+..+|.+.|++++|+..|+++ .+.|+ ..+|..+
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            44555555555555666666666666555432   23 3344555555555555555555555544 33343 4455555


Q ss_pred             HHHHHhcCChhHHHHHHHHHhccCCCCcchhh
Q 005268          509 LGACRIHGNMELGAVASDRLFEVDSENVGYYV  540 (705)
Q Consensus       509 l~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~  540 (705)
                      ..++...|++++|+..++++++++|++...+.
T Consensus        79 g~~~~~l~~~~~A~~~~~~al~l~p~~~~~~~  110 (201)
T d2c2la1          79 GQCQLEMESYDEAIANLQRAYSLAKEQRLNFG  110 (201)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCCCC
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCcccHHHHH
Confidence            55555555555555555555555554443333

>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=98.45  E-value=9e-07  Score=71.82  Aligned_cols=103  Identities=9%  Similarity=0.032  Sum_probs=80.5

Q ss_pred             HHHHhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC-CCC-CCHHHHHHHHHHHHhcCC
Q 005268          441 LTACSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVR-PDASIWGALLGACRIHGN  517 (705)
Q Consensus       441 l~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~ll~~~~~~g~  517 (705)
                      ...+...|++++|+..|+...+.   .| +...|..+..+|.+.|++++|+..+++. ... .+...|..+..++...|+
T Consensus        10 g~~~~~~g~~~eAi~~~~~al~~---~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~   86 (117)
T d1elwa_          10 GNKALSVGNIDDALQCYSEAIKL---DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNR   86 (117)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhc---CCcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccC
Confidence            44566777788888877777653   44 4556777778888888888888887776 223 467889999999999999


Q ss_pred             hhHHHHHHHHHhccCCCCcchhhhhhhhh
Q 005268          518 MELGAVASDRLFEVDSENVGYYVLMSNIY  546 (705)
Q Consensus       518 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  546 (705)
                      +++|+..++++++++|+++.++..+.++-
T Consensus        87 ~~~A~~~~~~a~~~~p~~~~~~~~l~~l~  115 (117)
T d1elwa_          87 FEEAKRTYEEGLKHEANNPQLKEGLQNME  115 (117)
T ss_dssp             HHHHHHHHHHHHTTCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHh
Confidence            99999999999999999988887776654

>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=98.38  E-value=7e-07  Score=80.63  Aligned_cols=93  Identities=10%  Similarity=-0.029  Sum_probs=46.4

Q ss_pred             chHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhh
Q 005268          471 KHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYAN  548 (705)
Q Consensus       471 ~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~  548 (705)
                      ..+...+..|.+.|++++|+..|+++ ...| +...|..+..+|...|++++|+..++++++++|+++.+|..++.+|..
T Consensus         5 ~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~~~a~~~lg~~~~~   84 (201)
T d2c2la1           5 QELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQCQLE   84 (201)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCCcHHHHHHHHHHHHH
Confidence            33344444555555555555555443 2222 344455555555555555555555555555555555555555555555


Q ss_pred             cCCcchHHHHHHHHH
Q 005268          549 VGKWEGVDEVRSLAR  563 (705)
Q Consensus       549 ~g~~~~a~~~~~~m~  563 (705)
                      .|++++|...++++.
T Consensus        85 l~~~~~A~~~~~~al   99 (201)
T d2c2la1          85 MESYDEAIANLQRAY   99 (201)
T ss_dssp             TTCHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHH
Confidence            555555555555443

>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=98.36  E-value=2.5e-07  Score=74.55  Aligned_cols=89  Identities=10%  Similarity=-0.033  Sum_probs=80.0

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCC
Q 005268          474 GCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGK  551 (705)
Q Consensus       474 ~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  551 (705)
                      -.+...+.+.|++++|+..|++. ...| +..+|..+...+...|++++|+..++++++++|+++.++..++.+|...|+
T Consensus        20 ~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~la~~y~~~g~   99 (112)
T d1hxia_          20 MEEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEHN   99 (112)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHhhhcccccccchhhhhhhhhhhhhhhHHHhhcccccccccccccccchHHHHHHHHHCCC
Confidence            34567788899999999999887 3455 588999999999999999999999999999999999999999999999999


Q ss_pred             cchHHHHHHHH
Q 005268          552 WEGVDEVRSLA  562 (705)
Q Consensus       552 ~~~a~~~~~~m  562 (705)
                      +++|.+.+++.
T Consensus       100 ~~~A~~~l~~~  110 (112)
T d1hxia_         100 ANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999998874

>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=98.36  E-value=1.1e-06  Score=75.82  Aligned_cols=89  Identities=15%  Similarity=0.098  Sum_probs=65.0

Q ss_pred             HHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcch
Q 005268          477 VDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEG  554 (705)
Q Consensus       477 i~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  554 (705)
                      ...|.+.|++++|+..|++. ...| +...|..+...+...|++++|...++++++++|+++.++..++.+|...|++++
T Consensus        17 gn~~~~~~~y~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~g~~~e   96 (159)
T d1a17a_          17 ANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKFRA   96 (159)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHcCCHHHHHHHhhhccccchhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHHHcCCHHH
Confidence            44566777777777777666 2333 466777777777777778888888888777777777777777777777788888


Q ss_pred             HHHHHHHHHhC
Q 005268          555 VDEVRSLARDR  565 (705)
Q Consensus       555 a~~~~~~m~~~  565 (705)
                      |...+++....
T Consensus        97 A~~~~~~a~~~  107 (159)
T d1a17a_          97 ALRDYETVVKV  107 (159)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHc
Confidence            77777777654

>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=98.30  E-value=1.3e-06  Score=78.05  Aligned_cols=88  Identities=16%  Similarity=0.007  Sum_probs=81.7

Q ss_pred             HHHHHhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHH
Q 005268          477 VDLFGRAGHLGMAHNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVD  556 (705)
Q Consensus       477 i~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~  556 (705)
                      ...+...|++++|++.|+++. +|++.+|..+...+...|++++|+..|+++++++|+++.+|..++.+|.+.|++++|.
T Consensus        12 g~~~~~~~d~~~Al~~~~~i~-~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~~~~a~~~~g~~~~~~g~~~~A~   90 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAVQ-DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYYQTEKYDLAI   90 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTSS-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhhhhhHHHHHHHHHhhccHHHHH
Confidence            456778999999999999874 6788999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhC
Q 005268          557 EVRSLARDR  565 (705)
Q Consensus       557 ~~~~~m~~~  565 (705)
                      +.+++....
T Consensus        91 ~~~~kAl~~   99 (192)
T d1hh8a_          91 KDLKEALIQ   99 (192)
T ss_dssp             HHHHHHHHT
T ss_pred             HHHHHHHHh
Confidence            999998764

>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=98.30  E-value=3.5e-06  Score=80.91  Aligned_cols=189  Identities=8%  Similarity=-0.050  Sum_probs=127.3

Q ss_pred             HHHHHHHhcCCHHHHHHHHhhCCC-----CC----cchHHHHHHHHHhcCChHHHHHHHHHHHHcCC---CCC--HHHHH
Q 005268          373 CLVDMYGKCGRIDDAMSLFYQVPR-----SS----SVPWNAIISCHGIHGQGDKALNFFRQMLDEGV---RPD--HITFV  438 (705)
Q Consensus       373 ~li~~y~k~g~~~~A~~~~~~~~~-----~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~---~p~--~~t~~  438 (705)
                      .....|..+|++++|.+.|.+..+     .+    ..+|+.+..+|.+.|++++|++.+++..+.-.   .+.  ..++.
T Consensus        42 ~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~  121 (290)
T d1qqea_          42 QAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKF  121 (290)
T ss_dssp             HHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHH
Confidence            345678888999999888877642     12    23588899999999999999999998765211   111  23566


Q ss_pred             HHHHHHh-ccCcHHHHHHHHHHhHHhhCCcCC----cchHHHHHHHHHhcCCHHHHHHHHHhCC-CCCC--------HHH
Q 005268          439 SLLTACS-HSGLVSEGQRYFHMMQEEFGIKPH----LKHYGCMVDLFGRAGHLGMAHNFIQNMP-VRPD--------ASI  504 (705)
Q Consensus       439 ~ll~a~~-~~g~~~~a~~~~~~m~~~~~~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~~~-~~p~--------~~~  504 (705)
                      .+...|. ..|++++|.+.++...+......+    ..++..++..|.+.|++++|.+.+++.. ..|+        ...
T Consensus       122 ~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~  201 (290)
T d1qqea_         122 ELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDY  201 (290)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHH
T ss_pred             HHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHH
Confidence            6666664 469999999999887643221211    2457888999999999999999998861 1111        123


Q ss_pred             HHHHHHHHHhcCChhHHHHHHHHHhccCCCCcch-----hhhhhhhhhh--cCCcchHHHHHHH
Q 005268          505 WGALLGACRIHGNMELGAVASDRLFEVDSENVGY-----YVLMSNIYAN--VGKWEGVDEVRSL  561 (705)
Q Consensus       505 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~-----~~~l~~~~~~--~g~~~~a~~~~~~  561 (705)
                      +..++..+...|+++.|...+++..+++|..+..     ...++.+|..  .+++++|...++.
T Consensus       202 ~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~  265 (290)
T d1qqea_         202 FLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDN  265 (290)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTT
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            4455556778899999999999999999864432     2345555543  3457777776653

>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=98.29  E-value=1.2e-05  Score=76.94  Aligned_cols=211  Identities=10%  Similarity=-0.036  Sum_probs=123.9

Q ss_pred             CHHHHHHHHhcCCCCChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccccchhHHhhccCchHHHHHHHHHHH
Q 005268          281 IINSACAVFEGLPVKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVI  360 (705)
Q Consensus       281 ~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~  360 (705)
                      ++++|.++|           ......|...|++++|.+.|.+..+   +.             ...++...         
T Consensus        32 ~~~~Aa~~y-----------~~aa~~y~~~~~~~~A~~~y~kA~~---~~-------------~~~~~~~~---------   75 (290)
T d1qqea_          32 KFEEAADLC-----------VQAATIYRLRKELNLAGDSFLKAAD---YQ-------------KKAGNEDE---------   75 (290)
T ss_dssp             HHHHHHHHH-----------HHHHHHHHHTTCTHHHHHHHHHHHH---HH-------------HHTTCHHH---------
T ss_pred             cHHHHHHHH-----------HHHHHHHHHCcCHHHHHHHHHHHHH---HH-------------HHcCCCHH---------
Confidence            456666554           3456778888888888888877765   10             01111100         


Q ss_pred             HhCCCCchhHHHHHHHHHHhcCCHHHHHHHHhhCCC----C-C----cchHHHHHHHHHh-cCChHHHHHHHHHHHHc--
Q 005268          361 KNCLCFDVFVATCLVDMYGKCGRIDDAMSLFYQVPR----S-S----SVPWNAIISCHGI-HGQGDKALNFFRQMLDE--  428 (705)
Q Consensus       361 ~~g~~~~~~~~~~li~~y~k~g~~~~A~~~~~~~~~----~-~----~~~~~~li~~~~~-~g~~~~A~~~~~~m~~~--  428 (705)
                            ...++..+..+|.+.|++++|.+.+++...    . +    ...+..+...|.. .|++++|++.|++..+.  
T Consensus        76 ------~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~  149 (290)
T d1qqea_          76 ------AGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYA  149 (290)
T ss_dssp             ------HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHH
T ss_pred             ------HHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHH
Confidence                  122344455555556666666555554321    1 1    1224555555643 58888888888877642  


Q ss_pred             --CCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCc-----chHHHHHHHHHhcCCHHHHHHHHHhC-CCC
Q 005268          429 --GVRPD-HITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHL-----KHYGCMVDLFGRAGHLGMAHNFIQNM-PVR  499 (705)
Q Consensus       429 --g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~-----~~~~~li~~~~~~g~~~~A~~~~~~~-~~~  499 (705)
                        +-.+. ..++..+...+...|++++|...|+.+.....-.+..     ..+..++..+...|+++.|...+++. ...
T Consensus       150 ~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~  229 (290)
T d1qqea_         150 QDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSED  229 (290)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC-
T ss_pred             hcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC
Confidence              21222 2357777888889999999999998877542222211     12344555667789999999999887 333


Q ss_pred             CC------HHHHHHHHHHHHhc--CChhHHHHHHHHHhccCC
Q 005268          500 PD------ASIWGALLGACRIH--GNMELGAVASDRLFEVDS  533 (705)
Q Consensus       500 p~------~~~~~~ll~~~~~~--g~~~~a~~~~~~~~~~~p  533 (705)
                      |+      ......|+.++...  +.+++|+..|+++.+++|
T Consensus       230 ~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~~~lD~  271 (290)
T d1qqea_         230 PNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMRLDK  271 (290)
T ss_dssp             --------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSCCCH
T ss_pred             CCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCH
Confidence            32      22445666666542  346778887777777665

>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=98.19  E-value=5.8e-06  Score=71.16  Aligned_cols=115  Identities=9%  Similarity=0.014  Sum_probs=84.4

Q ss_pred             HHHHhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCC
Q 005268          441 LTACSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGN  517 (705)
Q Consensus       441 l~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~  517 (705)
                      ...|.+.|++++|...|+...+.   .| +...|..+...|.+.|++++|.+.|+++ ...| +..+|..++.++...|+
T Consensus        17 gn~~~~~~~y~~A~~~~~~al~~---~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~g~   93 (159)
T d1a17a_          17 ANDYFKAKDYENAIKFYSQAIEL---NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGK   93 (159)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH---STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHcCCHHHHHHHhhhcccc---chhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHHHcCC
Confidence            34566777777777777777653   44 4566777777788888888888887776 3344 46789999999999999


Q ss_pred             hhHHHHHHHHHhccCCCCcchhhhhhhhh--hhcCCcchHHHH
Q 005268          518 MELGAVASDRLFEVDSENVGYYVLMSNIY--ANVGKWEGVDEV  558 (705)
Q Consensus       518 ~~~a~~~~~~~~~~~p~~~~~~~~l~~~~--~~~g~~~~a~~~  558 (705)
                      +++|...+++++.++|+++..+..+..+.  ...+.+++|...
T Consensus        94 ~~eA~~~~~~a~~~~p~~~~~~~~l~~~~~~~~~~~~~~a~~~  136 (159)
T d1a17a_          94 FRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAG  136 (159)
T ss_dssp             HHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            99999999999999999988877765543  333445555443

>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=98.18  E-value=8.3e-06  Score=70.99  Aligned_cols=111  Identities=8%  Similarity=-0.063  Sum_probs=69.9

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 005268          436 TFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNMPVRPDASIWGALLGACRIH  515 (705)
Q Consensus       436 t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~  515 (705)
                      .+......+...|++++|+..|....+.....+....-            .......+       ...+|+.+...|.+.
T Consensus        15 ~l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~------------~~~~~~~~-------~~~~~~nla~~y~k~   75 (170)
T d1p5qa1          15 IVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNE------------EAQKAQAL-------RLASHLNLAMCHLKL   75 (170)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSH------------HHHHHHHH-------HHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccccchH------------HHhhhchh-------HHHHHHHHHHHHHhh
Confidence            34444556777788888888777776542222221100            00000000       123456666777778


Q ss_pred             CChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhC
Q 005268          516 GNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       516 g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      |++++|+..++++++++|+++.++..++.+|...|++++|...++.+.+.
T Consensus        76 ~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  125 (170)
T d1p5qa1          76 QAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQL  125 (170)
T ss_dssp             TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hhcccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHh
Confidence            88888888888888888888888888888888888888888888777664

>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=98.17  E-value=5.4e-06  Score=72.19  Aligned_cols=132  Identities=8%  Similarity=-0.027  Sum_probs=98.3

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHH
Q 005268          402 WNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFG  481 (705)
Q Consensus       402 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~  481 (705)
                      +......+.+.|++++|+..|.+.++.  -|....            ..+.-......+.        ...|+.+..+|.
T Consensus        16 l~~~G~~~~~~~~~~~Ai~~y~~al~~--~~~~~~------------~~~~~~~~~~~~~--------~~~~~nla~~y~   73 (170)
T d1p5qa1          16 VKERGTVYFKEGKYKQALLQYKKIVSW--LEYESS------------FSNEEAQKAQALR--------LASHLNLAMCHL   73 (170)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHH--TTTCCC------------CCSHHHHHHHHHH--------HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH--hhhccc------------cchHHHhhhchhH--------HHHHHHHHHHHH
Confidence            555677889999999999999999873  221100            0000111111111        125777888999


Q ss_pred             hcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchH
Q 005268          482 RAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGV  555 (705)
Q Consensus       482 ~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a  555 (705)
                      +.|++++|+..+++. ...| ++..|..+..++...|++++|+..++++++++|+|+.....+..+....+...+.
T Consensus        74 k~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~~~~~~~~  149 (170)
T d1p5qa1          74 KLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRIRRQLAR  149 (170)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhhcccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999877 4455 6889999999999999999999999999999999999998888887666655544

>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=98.15  E-value=2.8e-06  Score=69.04  Aligned_cols=103  Identities=9%  Similarity=-0.067  Sum_probs=76.9

Q ss_pred             HHHHHHhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCC---HHHHHHHHHhC-CCCCCH---HHHHHHHH
Q 005268          439 SLLTACSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGH---LGMAHNFIQNM-PVRPDA---SIWGALLG  510 (705)
Q Consensus       439 ~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~---~~~A~~~~~~~-~~~p~~---~~~~~ll~  510 (705)
                      .+++.+...+++++|.+.|+.....   .| ++.++..+..+|.+.++   +++|+.+++++ ...|+.   .+|..|..
T Consensus         4 ~l~n~~~~~~~l~~Ae~~Y~~aL~~---~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~   80 (122)
T d1nzna_           4 AVLNELVSVEDLLKFEKKFQSEKAA---GSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAV   80 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH---SCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHhh---CCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHH
Confidence            4666777778888888888877653   44 45677777777776554   44688888776 334433   36888999


Q ss_pred             HHHhcCChhHHHHHHHHHhccCCCCcchhhhhhh
Q 005268          511 ACRIHGNMELGAVASDRLFEVDSENVGYYVLMSN  544 (705)
Q Consensus       511 ~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~  544 (705)
                      +|...|++++|+..++++++++|++..+...+..
T Consensus        81 ~y~~~g~~~~A~~~~~~aL~~~P~~~~A~~l~~~  114 (122)
T d1nzna_          81 GNYRLKEYEKALKYVRGLLQTEPQNNQAKELERL  114 (122)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHHHhhhHHHHHHHHHHHHhCcCCHHHHHHHHH
Confidence            9999999999999999999999998776655543

>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=98.07  E-value=1.7e-05  Score=67.54  Aligned_cols=63  Identities=14%  Similarity=0.029  Sum_probs=56.8

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhC
Q 005268          503 SIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       503 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      .+|..+...|.+.|++++|+..++++++++|+++.+|..++.+|...|++++|...++...+.
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            467778888999999999999999999999999999999999999999999999999888765

>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=98.01  E-value=0.00021  Score=66.97  Aligned_cols=149  Identities=11%  Similarity=0.001  Sum_probs=98.3

Q ss_pred             cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH--HhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHh----cCC
Q 005268          412 HGQGDKALNFFRQMLDEGVRPDHITFVSLLTA--CSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGR----AGH  485 (705)
Q Consensus       412 ~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a--~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~----~g~  485 (705)
                      ..+.+.|...+++....|..+.... ......  .........+...+.....    ..+...+..|...|..    ..+
T Consensus        87 ~~~~~~a~~~~~~a~~~g~~~a~~~-l~~~~~~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~~L~~~~~~~~~~~~~  161 (265)
T d1ouva_          87 SQNTNKALQYYSKACDLKYAEGCAS-LGGIYHDGKVVTRDFKKAVEYFTKACD----LNDGDGCTILGSLYDAGRGTPKD  161 (265)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHH-HHHHHHHCSSSCCCHHHHHHHHHHHHH----TTCHHHHHHHHHHHHHTSSSCCC
T ss_pred             chhhHHHHHHHhhhhhhhhhhHHHh-hcccccCCCcccchhHHHHHHhhhhhc----ccccchhhhhhhhhccCCCcccc
Confidence            3466778888887777653222111 111111  1234456666666655443    2345566777777764    446


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCChhHHHHHHHHHhccCCCCcchhhhhhhhhhh----cCCcchHHH
Q 005268          486 LGMAHNFIQNMPVRPDASIWGALLGACRI----HGNMELGAVASDRLFEVDSENVGYYVLMSNIYAN----VGKWEGVDE  557 (705)
Q Consensus       486 ~~~A~~~~~~~~~~p~~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~a~~  557 (705)
                      ...+...++......+......|...+..    ..|+++|+..|+++.+.+  ++.++..|+.+|..    ..+.++|.+
T Consensus       162 ~~~~~~~~~~a~~~g~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g--~~~a~~~LG~~y~~G~g~~~n~~~A~~  239 (265)
T d1ouva_         162 LKKALASYDKACDLKDSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE--NGGGCFNLGAMQYNGEGVTRNEKQAIE  239 (265)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHTTSSSSCCSTTHHH
T ss_pred             cccchhhhhccccccccccccchhhhcccCcccccchhhhhhhHhhhhccc--CHHHHHHHHHHHHcCCCCccCHHHHHH
Confidence            77777777766434567777777666665    568999999999998875  56788889998876    448999999


Q ss_pred             HHHHHHhCCC
Q 005268          558 VRSLARDRGL  567 (705)
Q Consensus       558 ~~~~m~~~~~  567 (705)
                      .+++..+.|.
T Consensus       240 ~~~kAa~~g~  249 (265)
T d1ouva_         240 NFKKGCKLGA  249 (265)
T ss_dssp             HHHHHHHHTC
T ss_pred             HHHHHHHCcC
Confidence            9999988874

>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=98.01  E-value=1.6e-05  Score=65.29  Aligned_cols=92  Identities=12%  Similarity=0.085  Sum_probs=75.8

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcch-------hhhhhh
Q 005268          474 GCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGY-------YVLMSN  544 (705)
Q Consensus       474 ~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~-------~~~l~~  544 (705)
                      -.+.+.|.+.|++++|+..|++. ...| +..+|..+..+|.+.|++++|+..++++++++|+++..       |..++.
T Consensus         8 k~~G~~~~~~~~y~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg~   87 (128)
T d1elra_           8 KELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGN   87 (128)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHH
Confidence            34677788889999999888777 3344 57889999999999999999999999999999887764       445677


Q ss_pred             hhhhcCCcchHHHHHHHHHhC
Q 005268          545 IYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       545 ~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      .+...+++++|.+.+++....
T Consensus        88 ~~~~~~~~~~A~~~~~kal~~  108 (128)
T d1elra_          88 SYFKEEKYKDAIHFYNKSLAE  108 (128)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhCCHHHHHHHHHHHHhc
Confidence            788888999999999887653

>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=98.00  E-value=9e-06  Score=65.96  Aligned_cols=93  Identities=10%  Similarity=-0.022  Sum_probs=77.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcC---ChhHHHHHHHHHhccCCCC--cchhhhhhhh
Q 005268          473 YGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHG---NMELGAVASDRLFEVDSEN--VGYYVLMSNI  545 (705)
Q Consensus       473 ~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g---~~~~a~~~~~~~~~~~p~~--~~~~~~l~~~  545 (705)
                      ...+++.+...+++++|++.|++. ...| +..++..+..++.+.+   ++++|+.+++++++.+|.+  ..++..|+.+
T Consensus         2 ~~~l~n~~~~~~~l~~Ae~~Y~~aL~~~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~   81 (122)
T d1nzna_           2 MEAVLNELVSVEDLLKFEKKFQSEKAAGSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVG   81 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHH
Confidence            346778888999999999999988 3344 5778888988887654   5567999999999998754  3478899999


Q ss_pred             hhhcCCcchHHHHHHHHHhC
Q 005268          546 YANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       546 ~~~~g~~~~a~~~~~~m~~~  565 (705)
                      |.+.|++++|.+.++++.+.
T Consensus        82 y~~~g~~~~A~~~~~~aL~~  101 (122)
T d1nzna_          82 NYRLKEYEKALKYVRGLLQT  101 (122)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhhhHHHHHHHHHHHHh
Confidence            99999999999999999875

>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=97.96  E-value=1.8e-05  Score=68.80  Aligned_cols=65  Identities=8%  Similarity=-0.057  Sum_probs=57.7

Q ss_pred             CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhC
Q 005268          501 DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       501 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      +...|..+...+.+.|++++|+..+.++++++|+++.+|..++.+|...|++++|.+.++.+.+.
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            35567788888899999999999999999999999999999999999999999999999988875

>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=97.93  E-value=4.7e-05  Score=65.90  Aligned_cols=93  Identities=6%  Similarity=-0.059  Sum_probs=75.5

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhc
Q 005268          472 HYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANV  549 (705)
Q Consensus       472 ~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~  549 (705)
                      .|+.+..+|.+.|++++|+..+++. ...| +..+|..+..++...|++++|+..++++++++|+++.+...+..+....
T Consensus        66 ~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~~  145 (168)
T d1kt1a1          66 AFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQIFMCQKKA  145 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHhhhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHH
Confidence            5667888899999999999999887 3334 5788999999999999999999999999999999999988888887776


Q ss_pred             CCcch-HHHHHHHHHh
Q 005268          550 GKWEG-VDEVRSLARD  564 (705)
Q Consensus       550 g~~~~-a~~~~~~m~~  564 (705)
                      +...+ ..+++..|-+
T Consensus       146 ~~~~e~~kk~~~~~f~  161 (168)
T d1kt1a1         146 KEHNERDRRTYANMFK  161 (168)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HhHHHHHHHHHHHHHh
Confidence            65543 4455555543

>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=97.91  E-value=6.6e-05  Score=64.99  Aligned_cols=81  Identities=6%  Similarity=-0.057  Sum_probs=69.0

Q ss_pred             cchHHHHHHHHHhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhh
Q 005268          470 LKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYA  547 (705)
Q Consensus       470 ~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~  547 (705)
                      ...|..+..+|.+.|++++|+..++++ .+.| ++..|..+..++...|++++|+..++++++++|+++.+...+..++.
T Consensus        77 ~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p~n~~~~~~l~~~~~  156 (169)
T d1ihga1          77 LSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVKQ  156 (169)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhcccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            346777888999999999999999887 5555 47799999999999999999999999999999999888887776664


Q ss_pred             hcC
Q 005268          548 NVG  550 (705)
Q Consensus       548 ~~g  550 (705)
                      ...
T Consensus       157 ~l~  159 (169)
T d1ihga1         157 KIK  159 (169)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            443

>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=97.85  E-value=6.9e-05  Score=64.75  Aligned_cols=63  Identities=10%  Similarity=-0.035  Sum_probs=58.4

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhC
Q 005268          503 SIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       503 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      .+|..+..++.+.|++++|+..++++++++|+++.+|..++.+|...|++++|...++.+.+.
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            356677788899999999999999999999999999999999999999999999999998865

>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=97.78  E-value=2.9e-06  Score=88.26  Aligned_cols=217  Identities=8%  Similarity=0.026  Sum_probs=86.6

Q ss_pred             hHHHHHHHhhhhcCCCCCC-cccccchhHHhhccCchHHHHHHHHHHHHhCCCCch-hHHHHHHHHHHhcCCHHHHHHHH
Q 005268          314 SEAIEVFQMMEECNEINPN-QGTYVSILPAYSHVGALRQGIKIHARVIKNCLCFDV-FVATCLVDMYGKCGRIDDAMSLF  391 (705)
Q Consensus       314 ~~A~~~~~~m~~~~~~~p~-~~t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~~~-~~~~~li~~y~k~g~~~~A~~~~  391 (705)
                      -+|.+.|++..+   ++|| ...+..+..++...++++++   ++.++...  |+. ...+...... +. .+..+.+.+
T Consensus         3 ~eA~q~~~qA~~---l~p~~a~a~~~la~~~~~~~~l~ea---ye~~i~~d--p~~a~~~~~e~~Lw-~~-~y~~~ie~~   72 (497)
T d1ya0a1           3 LQSAQYLRQAEV---LKADMTDSKLGPAEVWTSRQALQDL---YQKMLVTD--LEYALDKKVEQDLW-NH-AFKNQITTL   72 (497)
T ss_dssp             HHHHHHHHHHHH---HHGGGTCSSSCSSSSHHHHHHHHHH---HHHHHHHC--HHHHHHHTHHHHHH-HH-HTHHHHHHH
T ss_pred             HHHHHHHHHHHH---cCCCCHHHHhhHHHHHHHHchHHHH---HHHHHHcC--hhhHHHHhHHHHHH-HH-HHHHHHHHH
Confidence            378899999987   7886 44566777777777777765   66665542  211 1111111000 00 112233333


Q ss_pred             hhCCC----CCcchHHHHHHHH--HhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhh
Q 005268          392 YQVPR----SSSVPWNAIISCH--GIHGQGDKALNFFRQMLDEGVRPD-HITFVSLLTACSHSGLVSEGQRYFHMMQEEF  464 (705)
Q Consensus       392 ~~~~~----~~~~~~~~li~~~--~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~  464 (705)
                      +...+    ++.........++  ...+.++.|+..+.+...  +.|+ ...+..+...+.+.|+.++|...+...... 
T Consensus        73 r~~~k~~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~~--l~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~-  149 (497)
T d1ya0a1          73 QGQAKNRANPNRSEVQANLSLFLEAASGFYTQLLQELCTVFN--VDLPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSY-  149 (497)
T ss_dssp             HHHHSCSSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC---------------------------------CCHHHHH-
T ss_pred             HHhcccccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC--CChhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCC-
Confidence            32221    1111111111111  112333333333333322  2332 234444444555555555555544433221 


Q ss_pred             CCcCCcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhh
Q 005268          465 GIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRPD-ASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLM  542 (705)
Q Consensus       465 ~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l  542 (705)
                        .| ...+..+.+++...|++++|...|++. ...|+ ...|+.|...+...|+..+|...|.+++..+|+.+.++..|
T Consensus       150 --~~-~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~~~~~~a~~nL  226 (497)
T d1ya0a1         150 --IC-QHCLVHLGDIARYRNQTSQAESYYRHAAQLVPSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVKFPFPAASTNL  226 (497)
T ss_dssp             --HH-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSSBCCHHHHHHH
T ss_pred             --CH-HHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCHHHHHHH
Confidence              11 124445555555555555555555554 23333 34555555555555555555555555555555555555555


Q ss_pred             hhhh
Q 005268          543 SNIY  546 (705)
Q Consensus       543 ~~~~  546 (705)
                      ..++
T Consensus       227 ~~~~  230 (497)
T d1ya0a1         227 QKAL  230 (497)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            4444

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=97.76  E-value=6.8e-05  Score=63.59  Aligned_cols=125  Identities=7%  Similarity=-0.107  Sum_probs=90.1

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHH
Q 005268          401 PWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLF  480 (705)
Q Consensus       401 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~  480 (705)
                      .+......+.+.|++.+|+..|.+.+..  .|....           ..-.........+        ....|+.+...|
T Consensus        19 ~~~~~G~~~f~~~~y~~A~~~Y~~al~~--~~~~~~-----------~~~~~~~~~~~~~--------~~~~~~Nla~~~   77 (153)
T d2fbna1          19 DIKEEGNEFFKKNEINEAIVKYKEALDF--FIHTEE-----------WDDQILLDKKKNI--------EISCNLNLATCY   77 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHT--TTTCTT-----------CCCHHHHHHHHHH--------HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhh--Ccchhh-----------hhhHHHHHhhhhH--------HHHHHhhHHHHH
Confidence            3666677888889999999999888862  221100           0000000000011        123677888999


Q ss_pred             HhcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhh
Q 005268          481 GRAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIY  546 (705)
Q Consensus       481 ~~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~  546 (705)
                      .+.|++++|++.++++ ...| +..+|..+..++...|++++|+..++++++++|+|+.+...+..+.
T Consensus        78 ~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P~n~~~~~~l~~~~  145 (153)
T d2fbna1          78 NKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSYELCV  145 (153)
T ss_dssp             HHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHhcccchhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            9999999999999887 4455 5789999999999999999999999999999999988776665543

>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=97.72  E-value=0.0064  Score=57.88  Aligned_cols=275  Identities=11%  Similarity=0.082  Sum_probs=151.2

Q ss_pred             CCHHHHHHHHHHHHcCCChhHHHHHhccCCCCCcchHHHHHHHHHhCCChhHHHHHHHHHHHCCCCCChhhHHhHHHHhh
Q 005268           61 WDVFVAASLLHMYCRFGLANVARKLFDDMPVRDSGSWNAMISGYCQSGNAVEALDILDEMRLEGVSMDPITVASILPVCA  140 (705)
Q Consensus        61 ~~~~~~~~ll~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~~~~  140 (705)
                      ||..--....+.+.+.|.++.|..+|..+.     -|..++..+.+.+++..|.+++.+..      +..+|..+..+|.
T Consensus        12 ~n~~d~~~i~~~c~~~~lye~A~~lY~~~~-----d~~rl~~~~v~l~~~~~avd~~~k~~------~~~~~k~~~~~l~   80 (336)
T d1b89a_          12 PNNAHIQQVGDRCYDEKMYDAAKLLYNNVS-----NFGRLASTLVHLGEYQAAVDGARKAN------STRTWKEVCFACV   80 (336)
T ss_dssp             C----------------CTTTHHHHHHHTT-----CHHHHHHHHHTTTCHHHHHHHHHHHT------CHHHHHHHHHHHH
T ss_pred             CCcCCHHHHHHHHHHCCCHHHHHHHHHhCC-----CHHHHHHHHHhhccHHHHHHHHHHcC------CHHHHHHHHHHHH
Confidence            344444555666778899999999998765     48888899999999999998887652      5668888888888


Q ss_pred             cCCChHHHHHHHHHHHHhCCCCchhHHHHHHHHHHccCCHHHHHHHHhccCC---CCeehHHHHHHHHHcCCChhhHHHH
Q 005268          141 RSDNILSGLLIHLYIVKHGLEFNLFVSNNLINMYAKFGMMRHALRVFDQMME---RDVVSWNSIIAAYEQSNDPITAHGF  217 (705)
Q Consensus       141 ~~~~~~~a~~~~~~~~~~g~~~~~~~~~~Li~~y~~~g~~~~A~~~f~~m~~---~~~~~~~~li~~~~~~g~~~~A~~~  217 (705)
                      .......+     .+.......+......++..|-..|.+++...+++....   .+...++.++..|++.+ +++-++.
T Consensus        81 ~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~~~~~~~~~~L~~lyak~~-~~kl~e~  154 (336)
T d1b89a_          81 DGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFK-PQKMREH  154 (336)
T ss_dssp             HTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSTTCCHHHHHHHHHHHHTTC-HHHHHHH
T ss_pred             hCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCCccchHHHHHHHHHHHHhC-hHHHHHH
Confidence            77665443     222233344555667788999999999999999986533   45567888888888864 4555555


Q ss_pred             HHHHHHCCCCCChhhHHHHHHHHHccCChhhHHHHHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCCCCCh
Q 005268          218 FTTMQQAGIQPDLLTLVSLTSIVAQLNDCRNSRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDV  297 (705)
Q Consensus       218 ~~~m~~~g~~p~~~t~~~ll~a~~~~~~~~~a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~  297 (705)
                      ++..   +   +......+++.|...+-                       |..++-.|.+.|++++|..+.-.-+ ++.
T Consensus       155 l~~~---s---~~y~~~k~~~~c~~~~l-----------------------~~elv~Ly~~~~~~~~A~~~~i~~~-~~~  204 (336)
T d1b89a_         155 LELF---W---SRVNIPKVLRAAEQAHL-----------------------WAELVFLYDKYEEYDNAIITMMNHP-TDA  204 (336)
T ss_dssp             HHHH---S---TTSCHHHHHHHHHTTTC-----------------------HHHHHHHHHHTTCHHHHHHHHHHST-TTT
T ss_pred             HHhc---c---ccCCHHHHHHHHHHcCC-----------------------hHHHHHHHHhcCCHHHHHHHHHHcc-hhh
Confidence            4443   1   12223334445544333                       3345566777777777765543221 112


Q ss_pred             hHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcc-----------cccchhHHhhccCchHHHHHHHHHHHHhCCCC
Q 005268          298 ISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQG-----------TYVSILPAYSHVGALRQGIKIHARVIKNCLCF  366 (705)
Q Consensus       298 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~-----------t~~~ll~a~~~~~~~~~a~~~~~~~~~~g~~~  366 (705)
                      ......+..+.+..+.+...++.....+   ..|+..           ....++..+.+.+++......++.....+   
T Consensus       205 ~~~~~f~e~~~k~~N~e~~~~~i~~yL~---~~p~~i~~lL~~v~~~~d~~r~V~~~~k~~~l~li~p~Le~v~~~n---  278 (336)
T d1b89a_         205 WKEGQFKDIITKVANVELYYRAIQFYLE---FKPLLLNDLLMVLSPRLDHTRAVNYFSKVKQLPLVKPYLRSVQNHN---  278 (336)
T ss_dssp             CCHHHHHHHHHHCSSTHHHHHHHHHHHH---HCGGGHHHHHHHHGGGCCHHHHHHHHHHTTCTTTTHHHHHHHHTTC---
T ss_pred             hhHHHHHHHHHccCChHHHHHHHHHHHH---cCHHHHHHHHHHhccCCCHHHHHHHHHhcCCcHHHHHHHHHHHHcC---
Confidence            2223344455555555544444443333   122211           11223333334444444444554444333   


Q ss_pred             chhHHHHHHHHHHhcCCHHHHH
Q 005268          367 DVFVATCLVDMYGKCGRIDDAM  388 (705)
Q Consensus       367 ~~~~~~~li~~y~k~g~~~~A~  388 (705)
                      +..+.++|.+.|...++++.-+
T Consensus       279 ~~~vn~al~~lyie~~d~~~l~  300 (336)
T d1b89a_         279 NKSVNESLNNLFITEEDYQALR  300 (336)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHH
T ss_pred             hHHHHHHHHHHHhCcchhHHHH
Confidence            3346666666666666654433

>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=97.70  E-value=1.8e-05  Score=82.09  Aligned_cols=259  Identities=9%  Similarity=-0.047  Sum_probs=141.5

Q ss_pred             HHHHHHhcCC---CCChhHHHHHHHHHHHcCChhHHHHHHHhhhhcCCCCCCcccccchhHHhhccCchHHHHHHHHHHH
Q 005268          284 SACAVFEGLP---VKDVISWNTLITGYAQNGLASEAIEVFQMMEECNEINPNQGTYVSILPAYSHVGALRQGIKIHARVI  360 (705)
Q Consensus       284 ~A~~~f~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~p~~~t~~~ll~a~~~~~~~~~a~~~~~~~~  360 (705)
                      +|.+.|++..   +....+|..+...|...|++++|   |+++..   ..|+...-..+....- ...+..+.+.++...
T Consensus         4 eA~q~~~qA~~l~p~~a~a~~~la~~~~~~~~l~ea---ye~~i~---~dp~~a~~~~~e~~Lw-~~~y~~~ie~~r~~~   76 (497)
T d1ya0a1           4 QSAQYLRQAEVLKADMTDSKLGPAEVWTSRQALQDL---YQKMLV---TDLEYALDKKVEQDLW-NHAFKNQITTLQGQA   76 (497)
T ss_dssp             HHHHHHHHHHHHHGGGTCSSSCSSSSHHHHHHHHHH---HHHHHH---HCHHHHHHHTHHHHHH-HHHTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCCHHHHhhHHHHHHHHchHHHH---HHHHHH---cChhhHHHHhHHHHHH-HHHHHHHHHHHHHhc
Confidence            4666666543   23455677777788888888876   666655   3343111000100000 112334555555555


Q ss_pred             HhCCCCchhHH--HHHHHHHHhcCCHHHHHHHHhhCC---CCCcchHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH
Q 005268          361 KNCLCFDVFVA--TCLVDMYGKCGRIDDAMSLFYQVP---RSSSVPWNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHI  435 (705)
Q Consensus       361 ~~g~~~~~~~~--~~li~~y~k~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~  435 (705)
                      +....++..-.  ..+...+...+.++.|...++...   ..+...|..+...+.+.|+.++|...+.+....  .| ..
T Consensus        77 k~~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~~l~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~~-~~  153 (497)
T d1ya0a1          77 KNRANPNRSEVQANLSLFLEAASGFYTQLLQELCTVFNVDLPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSY--IC-QH  153 (497)
T ss_dssp             SCSSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC-------------------------------CCHHHHH--HH-HH
T ss_pred             ccccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCChhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCC--CH-HH
Confidence            44333332222  112223344567788888777654   344556888888999999999999988887652  22 35


Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCc-chHHHHHHHHHhcCCHHHHHHHHHhC-C-CCCCHHHHHHHHHHH
Q 005268          436 TFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHL-KHYGCMVDLFGRAGHLGMAHNFIQNM-P-VRPDASIWGALLGAC  512 (705)
Q Consensus       436 t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~ll~~~  512 (705)
                      ++..+...+...|++++|...|+...+   +.|+. ..|+.|..++...|+..+|...|.+. . .+|-..++.+|...+
T Consensus       154 ~~~~LG~l~~~~~~~~~A~~~y~~A~~---l~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~~~~~~a~~nL~~~~  230 (497)
T d1ya0a1         154 CLVHLGDIARYRNQTSQAESYYRHAAQ---LVPSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVKFPFPAASTNLQKAL  230 (497)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH---HCTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSSBCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHH---HCCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHH
Confidence            777888899999999999999999885   46754 68999999999999999999999887 2 356788899998877


Q ss_pred             HhcCChhHHHHHHHHHhccCCC---CcchhhhhhhhhhhcCCcchHHHHHHHH
Q 005268          513 RIHGNMELGAVASDRLFEVDSE---NVGYYVLMSNIYANVGKWEGVDEVRSLA  562 (705)
Q Consensus       513 ~~~g~~~~a~~~~~~~~~~~p~---~~~~~~~l~~~~~~~g~~~~a~~~~~~m  562 (705)
                      .+..+..++       ....+.   -...++.+...+.....+++..++.+.+
T Consensus       231 ~~~~~~~~~-------~~~~~~~~~~~~~f~~~~~~l~~~~~~~~~~~~~~~~  276 (497)
T d1ya0a1         231 SKALESRDE-------VKTKWGVSDFIKAFIKFHGHVYLSKSLEKLSPLREKL  276 (497)
T ss_dssp             HHHTTSCCC-------CCSSCCHHHHHHHHHHHHHHHHHTCCGGGHHHHHHHH
T ss_pred             HHhhhhhhh-------hccccccchHHHHHHHHHHHHHhCCchhhHHHHHHHH
Confidence            655432211       011111   1223455666666777777776665544

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=97.68  E-value=0.00011  Score=58.49  Aligned_cols=88  Identities=8%  Similarity=-0.078  Sum_probs=50.6

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHH
Q 005268          403 NAIISCHGIHGQGDKALNFFRQMLDEGVRPD-HITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLF  480 (705)
Q Consensus       403 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~  480 (705)
                      ..+...+.+.|++++|+..|++.+.  ..|+ ...|..+..++.+.|++++|...|+...+.   .| +...+..+...|
T Consensus        20 ~~~g~~~~~~g~~~~A~~~~~~al~--~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~---~p~~~~a~~~la~~y   94 (112)
T d1hxia_          20 MEEGLSMLKLANLAEAALAFEAVCQ--KEPEREEAWRSLGLTQAENEKDGLAIIALNHARML---DPKDIAVHAALAVSH   94 (112)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH--HSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHhhhcc--cccccchhhhhhhhhhhhhhhHHHhhccccccccc---ccccccchHHHHHHH
Confidence            3344555666666666666666666  3443 345666666666666666666666665532   33 344555555555


Q ss_pred             HhcCCHHHHHHHHHh
Q 005268          481 GRAGHLGMAHNFIQN  495 (705)
Q Consensus       481 ~~~g~~~~A~~~~~~  495 (705)
                      ...|++++|++.+++
T Consensus        95 ~~~g~~~~A~~~l~~  109 (112)
T d1hxia_          95 TNEHNANAALASLRA  109 (112)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHH
Confidence            555555555555543

>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=97.60  E-value=0.024  Score=53.73  Aligned_cols=25  Identities=12%  Similarity=0.065  Sum_probs=14.0

Q ss_pred             chHHHHHHHHHhcCCHHHHHHHHHh
Q 005268          471 KHYGCMVDLFGRAGHLGMAHNFIQN  495 (705)
Q Consensus       471 ~~~~~li~~~~~~g~~~~A~~~~~~  495 (705)
                      .+.+++.+.|...++++.-.+.+++
T Consensus       281 ~vn~al~~lyie~~d~~~l~~~i~~  305 (336)
T d1b89a_         281 SVNESLNNLFITEEDYQALRTSIDA  305 (336)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCcchhHHHHHHHHH
Confidence            3555666666666665554444444

>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=97.58  E-value=0.00011  Score=64.04  Aligned_cols=119  Identities=8%  Similarity=-0.059  Sum_probs=83.4

Q ss_pred             HHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCh
Q 005268          439 SLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMAHNFIQNMPVRPDASIWGALLGACRIHGNM  518 (705)
Q Consensus       439 ~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~g~~  518 (705)
                      .........|++++|.+.|.....-+   +....-     .+...........-++.    -....|..+...+...|++
T Consensus        16 ~~g~~~~~~g~~e~A~~~~~~AL~l~---rG~~l~-----~~~~~~w~~~~r~~l~~----~~~~a~~~la~~~~~~g~~   83 (179)
T d2ff4a2          16 TAGVHAAAAGRFEQASRHLSAALREW---RGPVLD-----DLRDFQFVEPFATALVE----DKVLAHTAKAEAEIACGRA   83 (179)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTC---CSSTTG-----GGTTSTTHHHHHHHHHH----HHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhhC---cccccc-----cCcchHHHHHHHHHHHH----HHHHHHHHHHHHHHHCCCc
Confidence            33456778899999999888877432   221100     00000001111111111    1245678899999999999


Q ss_pred             hHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHh-----CCCcc
Q 005268          519 ELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARD-----RGLKK  569 (705)
Q Consensus       519 ~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~-----~~~~~  569 (705)
                      ++|+..++++++.+|.+...|..++.+|...|++++|.+.|+.+.+     .|+.|
T Consensus        84 ~~Al~~~~~al~~~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P  139 (179)
T d2ff4a2          84 SAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDP  139 (179)
T ss_dssp             HHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCC
T ss_pred             hHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCc
Confidence            9999999999999999999999999999999999999999998754     46644

>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=97.57  E-value=0.0099  Score=54.84  Aligned_cols=113  Identities=8%  Similarity=-0.085  Sum_probs=70.5

Q ss_pred             ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc----cCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHh----cCC
Q 005268          414 QGDKALNFFRQMLDEGVRPDHITFVSLLTACSH----SGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGR----AGH  485 (705)
Q Consensus       414 ~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~----~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~----~g~  485 (705)
                      ....|...+......   .+...+..+...+..    ..+...+..+++...+. |   +......|...|..    ..+
T Consensus       125 ~~~~a~~~~~~~~~~---~~~~~~~~L~~~~~~~~~~~~~~~~~~~~~~~a~~~-g---~~~A~~~lg~~y~~g~~~~~d  197 (265)
T d1ouva_         125 DFKKAVEYFTKACDL---NDGDGCTILGSLYDAGRGTPKDLKKALASYDKACDL-K---DSPGCFNAGNMYHHGEGATKN  197 (265)
T ss_dssp             CHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHTCSSCCC
T ss_pred             hhHHHHHHhhhhhcc---cccchhhhhhhhhccCCCcccccccchhhhhccccc-c---ccccccchhhhcccCcccccc
Confidence            445566666665552   344455555555543    44566677776665532 2   44455556555554    457


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCChhHHHHHHHHHhccCC
Q 005268          486 LGMAHNFIQNMPVRPDASIWGALLGACRI----HGNMELGAVASDRLFEVDS  533 (705)
Q Consensus       486 ~~~A~~~~~~~~~~p~~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~p  533 (705)
                      +++|...|++....-++..+..|...|..    ..|.++|.+.|+++.+..+
T Consensus       198 ~~~A~~~~~~aa~~g~~~a~~~LG~~y~~G~g~~~n~~~A~~~~~kAa~~g~  249 (265)
T d1ouva_         198 FKEALARYSKACELENGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGA  249 (265)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTC
T ss_pred             hhhhhhhHhhhhcccCHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHCcC
Confidence            88888888877433466677777777664    3478889999998877765

>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=97.56  E-value=6.9e-05  Score=62.82  Aligned_cols=126  Identities=13%  Similarity=0.100  Sum_probs=71.8

Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhccCc----------HHHHHHHHHHhHHhhCCcC-CcchHHHH
Q 005268          409 HGIHGQGDKALNFFRQMLDEGVRPDH-ITFVSLLTACSHSGL----------VSEGQRYFHMMQEEFGIKP-HLKHYGCM  476 (705)
Q Consensus       409 ~~~~g~~~~A~~~~~~m~~~g~~p~~-~t~~~ll~a~~~~g~----------~~~a~~~~~~m~~~~~~~p-~~~~~~~l  476 (705)
                      |-+.+.+++|+..|++.++  +.|+. ..+..+..++...++          +++|+..|+...+   +.| +...|..+
T Consensus         7 ~~r~~~fe~A~~~~e~al~--~~P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~---l~P~~~~a~~~l   81 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYK--SNPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALL---IDPKKDEAVWCI   81 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHH---HCTTCHHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHh--hCCcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHH---hcchhhHHHhhH
Confidence            4556677888888888887  45554 456666666654333          3444444444442   233 22334444


Q ss_pred             HHHHHhcCCHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHH
Q 005268          477 VDLFGRAGHLGMAHNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVD  556 (705)
Q Consensus       477 i~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~  556 (705)
                      ..+|...|++            .++...         ..+++++|...|+++++++|++...+..|...       ..|.
T Consensus        82 G~~y~~~g~~------------~~~~~~---------~~~~~~~A~~~~~kal~l~P~~~~~~~~L~~~-------~ka~  133 (145)
T d1zu2a1          82 GNAYTSFAFL------------TPDETE---------AKHNFDLATQFFQQAVDEQPDNTHYLKSLEMT-------AKAP  133 (145)
T ss_dssp             HHHHHHHHHH------------CCCHHH---------HHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHH-------HTHH
T ss_pred             HHHHHHcccc------------hhhHHH---------HHHhHHHhhhhhhcccccCCCHHHHHHHHHHH-------HHHH
Confidence            4443333221            011110         11246889999999999999988766666544       4666


Q ss_pred             HHHHHHHhCCC
Q 005268          557 EVRSLARDRGL  567 (705)
Q Consensus       557 ~~~~~m~~~~~  567 (705)
                      +++.+..++|+
T Consensus       134 ~~~~e~~k~~~  144 (145)
T d1zu2a1         134 QLHAEAYKQGL  144 (145)
T ss_dssp             HHHHHHHHSSS
T ss_pred             HHHHHHHHHhc
Confidence            67776666654

>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=97.48  E-value=0.00056  Score=55.60  Aligned_cols=93  Identities=11%  Similarity=0.008  Sum_probs=60.4

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCC-----cchHHH
Q 005268          402 WNAIISCHGIHGQGDKALNFFRQMLDEGVRPD-HITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPH-----LKHYGC  475 (705)
Q Consensus       402 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~-----~~~~~~  475 (705)
                      +-.+...|.+.|++++|+..|.+.++.  .|+ ...+..+..+|.+.|++++|.+.++.+.+...-.+.     ..+|..
T Consensus         7 ~k~~G~~~~~~~~y~~Ai~~y~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~   84 (128)
T d1elra_           7 EKELGNDAYKKKDFDTALKHYDKAKEL--DPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYAR   84 (128)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHH
Confidence            344566777788888888888888874  444 567777778888888888888888877643111111     124445


Q ss_pred             HHHHHHhcCCHHHHHHHHHhC
Q 005268          476 MVDLFGRAGHLGMAHNFIQNM  496 (705)
Q Consensus       476 li~~~~~~g~~~~A~~~~~~~  496 (705)
                      +...+...+++++|++.|++.
T Consensus        85 lg~~~~~~~~~~~A~~~~~ka  105 (128)
T d1elra_          85 IGNSYFKEEKYKDAIHFYNKS  105 (128)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHH
Confidence            555666666666666666543

>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=97.37  E-value=0.00011  Score=61.41  Aligned_cols=84  Identities=13%  Similarity=0.060  Sum_probs=56.9

Q ss_pred             hcCCHHHHHHHHHhC-CCCC-CHHHHHHHHHHHHh----------cCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhc
Q 005268          482 RAGHLGMAHNFIQNM-PVRP-DASIWGALLGACRI----------HGNMELGAVASDRLFEVDSENVGYYVLMSNIYANV  549 (705)
Q Consensus       482 ~~g~~~~A~~~~~~~-~~~p-~~~~~~~ll~~~~~----------~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~  549 (705)
                      |.+.+++|+..|++. ...| ++.+|..+..++..          .+.+++|+..++++++++|+++.+|..++.+|...
T Consensus         9 r~~~fe~A~~~~e~al~~~P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~P~~~~a~~~lG~~y~~~   88 (145)
T d1zu2a1           9 RILLFEQIRQDAENTYKSNPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYTSF   88 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             HHccHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhcchhhHHHhhHHHHHHHc
Confidence            344455555555444 2222 34444444444432          24467899999999999999999999999999887


Q ss_pred             CC-----------cchHHHHHHHHHhC
Q 005268          550 GK-----------WEGVDEVRSLARDR  565 (705)
Q Consensus       550 g~-----------~~~a~~~~~~m~~~  565 (705)
                      |+           +++|.+.+++..+.
T Consensus        89 g~~~~~~~~~~~~~~~A~~~~~kal~l  115 (145)
T d1zu2a1          89 AFLTPDETEAKHNFDLATQFFQQAVDE  115 (145)
T ss_dssp             HHHCCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccchhhHHHHHHhHHHhhhhhhccccc
Confidence            65           57777888777765

>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=97.36  E-value=0.00019  Score=61.00  Aligned_cols=64  Identities=8%  Similarity=-0.061  Sum_probs=50.7

Q ss_pred             HHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCC-----------cchhhhhhhhhhhcCCcchHHHHHHHHHhC
Q 005268          502 ASIWGALLGACRIHGNMELGAVASDRLFEVDSEN-----------VGYYVLMSNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       502 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~-----------~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      ...|+.+..++...|++++|...+++.+++.|..           ..++..++.+|...|++++|.+.+++..+.
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            3567788888888888888888888887654321           224677899999999999999999998764

>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=97.27  E-value=0.0022  Score=55.33  Aligned_cols=68  Identities=16%  Similarity=0.193  Sum_probs=35.5

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHhHH----hhCCcCCcch
Q 005268          403 NAIISCHGIHGQGDKALNFFRQMLDEGVRP-DHITFVSLLTACSHSGLVSEGQRYFHMMQE----EFGIKPHLKH  472 (705)
Q Consensus       403 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~----~~~~~p~~~~  472 (705)
                      ..+...+...|++++|+..++++++  +.| +...|..++.++...|+.++|++.|+.+.+    ..|+.|...+
T Consensus        71 ~~la~~~~~~g~~~~Al~~~~~al~--~~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          71 TAKAEAEIACGRASAVIAELEALTF--EHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH--HSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHCCCchHHHHHHHHHHH--hCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            3444455555555555555555555  233 234555555555555555555555555422    2366665443

>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=97.25  E-value=0.00029  Score=53.85  Aligned_cols=70  Identities=13%  Similarity=0.105  Sum_probs=52.3

Q ss_pred             HHHHHHHhcCCHHHHHHHHHhC----C----CCCC-HHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhh
Q 005268          475 CMVDLFGRAGHLGMAHNFIQNM----P----VRPD-ASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSN  544 (705)
Q Consensus       475 ~li~~~~~~g~~~~A~~~~~~~----~----~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~  544 (705)
                      .+...+.+.|++++|...|++.    +    ..++ ..++..|..++.+.|++++|+..++++++++|+++.++..+..
T Consensus        10 ~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P~~~~a~~Nl~~   88 (95)
T d1tjca_          10 ELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRANGNLKY   88 (95)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCcCCHHHHHHHHH
Confidence            4555566666666666655544    1    1223 5678899999999999999999999999999999888777643

>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=97.13  E-value=0.00053  Score=63.60  Aligned_cols=127  Identities=10%  Similarity=-0.053  Sum_probs=88.8

Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCc-chHHHHHHHHHhcCCHH
Q 005268          410 GIHGQGDKALNFFRQMLDEGVRPD-HITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHL-KHYGCMVDLFGRAGHLG  487 (705)
Q Consensus       410 ~~~g~~~~A~~~~~~m~~~g~~p~-~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~-~~~~~li~~~~~~g~~~  487 (705)
                      .+.|++++|+..+++.++  ..|+ ...+..+...++..|++++|.+.++...+.   .|+. ..+..+..++...+..+
T Consensus         7 L~~G~l~eAl~~l~~al~--~~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l---~P~~~~~~~~l~~ll~a~~~~~   81 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIK--ASPKDASLRSSFIELLCIDGDFERADEQLMQSIKL---FPEYLPGASQLRHLVKAAQARK   81 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHH--TCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CGGGHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCcHHHHHHHHHHHHhccccH
Confidence            456889999999999988  4555 467888888999999999999999888753   5643 44555555555555555


Q ss_pred             HHHHHHHhC--CCCCC-HHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhh
Q 005268          488 MAHNFIQNM--PVRPD-ASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVL  541 (705)
Q Consensus       488 ~A~~~~~~~--~~~p~-~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~  541 (705)
                      ++..-....  ..+|+ ...+......+...|+.++|...++++.++.|+.+..+..
T Consensus        82 ~a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~p~~~~~~~~  138 (264)
T d1zbpa1          82 DFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQEKGFLAND  138 (264)
T ss_dssp             HHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCCCEEETT
T ss_pred             HHHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCCCccccc
Confidence            544332221  12232 3344445567888999999999999999999987766543

>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=97.03  E-value=0.0022  Score=53.98  Aligned_cols=65  Identities=11%  Similarity=-0.049  Sum_probs=42.6

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHhC--------CCCCC-----HHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCc
Q 005268          472 HYGCMVDLFGRAGHLGMAHNFIQNM--------PVRPD-----ASIWGALLGACRIHGNMELGAVASDRLFEVDSENV  536 (705)
Q Consensus       472 ~~~~li~~~~~~g~~~~A~~~~~~~--------~~~p~-----~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~  536 (705)
                      .|+.+..+|...|++++|...+++.        ...++     ..++..+..+|...|++++|+..|++++++.|...
T Consensus        57 ~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l~~~~~  134 (156)
T d2hr2a1          57 CHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERK  134 (156)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhhHHhh
Confidence            3445555555555555555544443        11222     22567788899999999999999999999877543

>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=96.93  E-value=0.0013  Score=50.07  Aligned_cols=62  Identities=8%  Similarity=-0.108  Sum_probs=53.4

Q ss_pred             HHHHHHHHHHhcCChhHHHHHHHHHhccCCCC-------cchhhhhhhhhhhcCCcchHHHHHHHHHhC
Q 005268          504 IWGALLGACRIHGNMELGAVASDRLFEVDSEN-------VGYYVLMSNIYANVGKWEGVDEVRSLARDR  565 (705)
Q Consensus       504 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~-------~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  565 (705)
                      .+-.++..+.+.|+++.|+..+++++++.|.+       ..++..|+.+|.+.|++++|...++++.+.
T Consensus         7 dc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l   75 (95)
T d1tjca_           7 DSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (95)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHh
Confidence            34567889999999999999999999876554       345778999999999999999999999876

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=96.74  E-value=0.00034  Score=64.91  Aligned_cols=120  Identities=11%  Similarity=0.059  Sum_probs=86.6

Q ss_pred             HhccCcHHHHHHHHHHhHHhhCCcC-CcchHHHHHHHHHhcCCHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCChhH
Q 005268          444 CSHSGLVSEGQRYFHMMQEEFGIKP-HLKHYGCMVDLFGRAGHLGMAHNFIQNM-PVRPD-ASIWGALLGACRIHGNMEL  520 (705)
Q Consensus       444 ~~~~g~~~~a~~~~~~m~~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~ll~~~~~~g~~~~  520 (705)
                      ..+.|++++|+..++...+.   .| +...+..++.+|++.|++++|...++.. ...|+ ...+..+...+...+..++
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            34679999999999998864   55 6689999999999999999999999888 45565 5566666555554444333


Q ss_pred             HHHHHHHHhc-cCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhCC
Q 005268          521 GAVASDRLFE-VDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDRG  566 (705)
Q Consensus       521 a~~~~~~~~~-~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~  566 (705)
                      +......... .+|++...+...+..+...|+.++|.+.++.+.+..
T Consensus        83 a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~  129 (264)
T d1zbpa1          83 FAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELR  129 (264)
T ss_dssp             HTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC
Confidence            3222222111 234444555667888999999999999999988753

>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=95.44  E-value=0.29  Score=37.49  Aligned_cols=140  Identities=11%  Similarity=0.042  Sum_probs=93.7

Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHhcCCHHHH
Q 005268          410 GIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGRAGHLGMA  489 (705)
Q Consensus       410 ~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~~g~~~~A  489 (705)
                      ...|..++..++..+....   .+..-|+-++.-....-+-+-..+.++.+-+-+.+              ..++++...
T Consensus        13 ildG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~FDl--------------s~C~Nlk~v   75 (161)
T d1wy6a1          13 LLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDL--------------DKCQNLKSV   75 (161)
T ss_dssp             HHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCG--------------GGCSCTHHH
T ss_pred             HHhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhhhcCc--------------hhhhcHHHH
Confidence            3456677777777777653   23334444444444444445555555544332222              345666666


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcchhhhhhhhhhhcCCcchHHHHHHHHHhCCCc
Q 005268          490 HNFIQNMPVRPDASIWGALLGACRIHGNMELGAVASDRLFEVDSENVGYYVLMSNIYANVGKWEGVDEVRSLARDRGLK  568 (705)
Q Consensus       490 ~~~~~~~~~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~~~~  568 (705)
                      ...+-.+.  .+....+--++...++|.-+.-.+++..+++-+.-+|.....++++|.+.|...++.+++.++-++|++
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 VECGVINN--TLNEHVNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  152 (161)
T ss_dssp             HHHHHHTT--CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHhc--chHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhHH
Confidence            66665553  233445666788888999888889999988876668889999999999999999999999999999874

>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=94.41  E-value=2.5  Score=41.25  Aligned_cols=57  Identities=12%  Similarity=-0.040  Sum_probs=38.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHHcCChhHHHHHHHhhhh
Q 005268          268 IGNAVVDMYAKLGIINSACAVFEGLPVKDVISWNTLITGYAQNGLASEAIEVFQMMEE  325 (705)
Q Consensus       268 ~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  325 (705)
                      .....+..+.+.++++.....+..-+ .+...-.....+....|+.++|...+...-.
T Consensus        74 lr~~~l~~L~~~~~w~~~~~~~~~~p-~~~~~~c~~~~A~~~~g~~~~a~~~~~~lW~  130 (450)
T d1qsaa1          74 LQSRFVNELARREDWRGLLAFSPEKP-GTTEAQCNYYYAKWNTGQSEEAWQGAKELWL  130 (450)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHCCSCC-SSHHHHHHHHHHHHHTTCHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHhccCHHHHHHhccCCC-CCHHHHHHHHHHHHHcCChHHHHHHHHHHHh
Confidence            34445666777888887777665432 2444445566777788888888888777665

>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=93.48  E-value=0.16  Score=39.47  Aligned_cols=46  Identities=7%  Similarity=0.077  Sum_probs=23.4

Q ss_pred             hHHHHHHHHHhccCCCCc-chhhhhhhhhhhcCCcchHHHHHHHHHh
Q 005268          519 ELGAVASDRLFEVDSENV-GYYVLMSNIYANVGKWEGVDEVRSLARD  564 (705)
Q Consensus       519 ~~a~~~~~~~~~~~p~~~-~~~~~l~~~~~~~g~~~~a~~~~~~m~~  564 (705)
                      ++|+.++++++..+|.+. ..+..|+-+|.+.|++++|.+.++.+.+
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            455555555555554432 3334455555555555555555555544

>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=92.92  E-value=0.33  Score=38.55  Aligned_cols=50  Identities=8%  Similarity=-0.032  Sum_probs=31.2

Q ss_pred             CChhHHHHHHHHHhccCCCCcchhhhhhhhhhh----cCCcchHHHHHHHHHhCCC
Q 005268          516 GNMELGAVASDRLFEVDSENVGYYVLMSNIYAN----VGKWEGVDEVRSLARDRGL  567 (705)
Q Consensus       516 g~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~a~~~~~~m~~~~~  567 (705)
                      .|.++|.+.+++..+..  ++.+...|+.+|..    ..+.++|.+++++..+.|.
T Consensus        73 ~d~~~A~~~~~~aa~~g--~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G~  126 (133)
T d1klxa_          73 KDLRKAAQYYSKACGLN--DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  126 (133)
T ss_dssp             CCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             hhhHHHHHHHhhhhccC--cchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCCC
Confidence            35566777777665543  34556666666655    3466677777777776654

>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=91.32  E-value=2.3  Score=32.42  Aligned_cols=64  Identities=19%  Similarity=0.182  Sum_probs=46.0

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCc
Q 005268          402 WNAIISCHGIHGQGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIK  467 (705)
Q Consensus       402 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~  467 (705)
                      .+.-+....++|+-++-.++++.+.+. -+|++.....+..||-+.|...++.+++.+..+. |++
T Consensus        89 vdlALd~lv~~~kkd~Ld~i~~~l~kn-~~i~~~~llkia~A~kkig~~re~nell~~ACe~-G~K  152 (161)
T d1wy6a1          89 VNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACKK-GEK  152 (161)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT-TCH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHH-hHH
Confidence            444556677778877777787776664 3777777778888888888888888888877665 543

>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=91.30  E-value=1  Score=35.46  Aligned_cols=111  Identities=12%  Similarity=-0.016  Sum_probs=67.3

Q ss_pred             ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhhCCcCCcchHHHHHHHHHh----cCCHHHH
Q 005268          414 QGDKALNFFRQMLDEGVRPDHITFVSLLTACSHSGLVSEGQRYFHMMQEEFGIKPHLKHYGCMVDLFGR----AGHLGMA  489 (705)
Q Consensus       414 ~~~~A~~~~~~m~~~g~~p~~~t~~~ll~a~~~~g~~~~a~~~~~~m~~~~~~~p~~~~~~~li~~~~~----~g~~~~A  489 (705)
                      |+++|+++|++..+.|. |..  ...|  +.....+.++|.++++...+. |   ++.....|..+|..    ..+.++|
T Consensus         8 d~~~A~~~~~kaa~~g~-~~a--~~~l--~~~~~~~~~~a~~~~~~aa~~-g---~~~a~~~Lg~~y~~g~~~~~d~~~A   78 (133)
T d1klxa_           8 DLKKAIQYYVKACELNE-MFG--CLSL--VSNSQINKQKLFQYLSKACEL-N---SGNGCRFLGDFYENGKYVKKDLRKA   78 (133)
T ss_dssp             HHHHHHHHHHHHHHTTC-TTH--HHHH--HTCTTSCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             CHHHHHHHHHHHHHCCC-hhh--hhhh--ccccccCHHHHHHHHhhhhcc-c---chhhhhhHHHhhhhccccchhhHHH
Confidence            56677777777777662 222  1222  223445677788877776543 3   33445555555543    3467888


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHh----cCChhHHHHHHHHHhccCC
Q 005268          490 HNFIQNMPVRPDASIWGALLGACRI----HGNMELGAVASDRLFEVDS  533 (705)
Q Consensus       490 ~~~~~~~~~~p~~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~p  533 (705)
                      .++|++.-..-++.....|...|..    ..|.++|...++++.++..
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            8888777323345555556555554    4578888888888877653

>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=89.46  E-value=0.59  Score=36.05  Aligned_cols=36  Identities=22%  Similarity=0.208  Sum_probs=29.6

Q ss_pred             HHHHHHHHHHHhcCChhHHHHHHHHHhccCCCCcch
Q 005268          503 SIWGALLGACRIHGNMELGAVASDRLFEVDSENVGY  538 (705)
Q Consensus       503 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~p~~~~~  538 (705)
                      ..|-.|.-+|.+.|++++|.+.++++++++|+|..+
T Consensus        74 d~lY~Lav~yyklgdy~~A~~~~~~~L~ieP~n~qA  109 (124)
T d2pqrb1          74 ECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQV  109 (124)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHH
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHccCCCcHHH
Confidence            355667778889999999999999999999987544

>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=88.11  E-value=12  Score=36.03  Aligned_cols=115  Identities=13%  Similarity=0.048  Sum_probs=60.2

Q ss_pred             HHHHHHccCCHHHHHHHHhccCCCCeehHHHHHHHHHcCCChhhHHHHHHHHHHCCC-CCChhhHHHHHHHHHccCChhh
Q 005268          170 LINMYAKFGMMRHALRVFDQMMERDVVSWNSIIAAYEQSNDPITAHGFFTTMQQAGI-QPDLLTLVSLTSIVAQLNDCRN  248 (705)
Q Consensus       170 Li~~y~~~g~~~~A~~~f~~m~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~~t~~~ll~a~~~~~~~~~  248 (705)
                      .+..+.+.+++......+..-+ .+...--....+..+.|+.++|...+...-..|. .|+                  .
T Consensus        78 ~l~~L~~~~~w~~~~~~~~~~p-~~~~~~c~~~~A~~~~g~~~~a~~~~~~lW~~~~~~p~------------------~  138 (450)
T d1qsaa1          78 FVNELARREDWRGLLAFSPEKP-GTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGKSQPN------------------A  138 (450)
T ss_dssp             HHHHHHHTTCHHHHHHHCCSCC-SSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSSCCCT------------------H
T ss_pred             HHHHHHhccCHHHHHHhccCCC-CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCch------------------H
Confidence            3455667777776665554322 1333333456667778888888887777755542 222                  2


Q ss_pred             HHHHHHHHHHhcCCCchhHHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHH
Q 005268          249 SRSVHGFIMRRGWFMEDVIIGNAVVDMYAKLGIINSACAVFEGLPVKDVISWNTLIT  305 (705)
Q Consensus       249 a~~i~~~~~~~g~~~~~~~~~~~li~~y~~~g~~~~A~~~f~~~~~~~~~~~~~li~  305 (705)
                      ...++....+.|  ..+...+-.-+......|+...|..+...++..........+.
T Consensus       139 c~~l~~~~~~~~--~lt~~~~~~R~~~~l~~~~~~~a~~l~~~l~~~~~~~~~a~~~  193 (450)
T d1qsaa1         139 CDKLFSVWRASG--KQDPLAYLERIRLAMKAGNTGLVTVLAGQMPADYQTIASAIIS  193 (450)
T ss_dssp             HHHHHHHHHHTT--CSCHHHHHHHHHHHHHTTCHHHHHHHHHTCCGGGHHHHHHHHH
T ss_pred             HHHHHHHHHhcC--CCCHHHHHHHHHHHHHcCChhhHHHHHhhCChhHHHHHHHHHH
Confidence            223344444443  2222222334444555677777777776665443333333333