Citrus Sinensis ID: 005729

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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
Protein Sequence
MILLPPQPLSVRFPAIHSACPITRHHVIFQPAFSVSTITGITTATASGESSFSSSSFTSKQNDTEEEEEDDDDVLSLQKQRYDFTPLLNFLSENSNSESASALASSPSSLNRVEFKLAESYRAVPAPLWHSLLKNLCSSNSSIDLAYAVVSWLQKHNLCYSYELLYSILIHALGRSEKLYEAFLLSQRQRLTPLTYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPDRKARAMLRSALRYMKQTLKT
Secondary Structure (PSIPRED)
cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHcccccccccHHHHHHHHHHcccHHHHHHHHccccccHHHHHHHHHHcccccHHHHHHHHHHHHHccccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHccccHHHHHHHHHcccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccccccccHHHHHHHHHccccHHHHHHHHHHHHHcccccccEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccccHHHHHHHHHHHccccccHHHHHHHHHHHHHccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccEEHHHHHHHHHHHccHHHHHHHccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccHHHHHHcccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccHHHHHHHHHHHHcccHHHHHHHHHHcccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEHHHHHHHHHHHcccHHHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHccccccc
Coil and Loop (DISEMBL)
millppqplsvrfpaihsacpitrhhvifqpafsvstITGITtatasgessfssssftskqndteeeeeddddVLSLQKqrydftpllnflsensnsesasalasspsslnRVEFKLAesyravpapLWHSLLKNLCSSNSSIDLAYAVVSWLQKHNLCYSYELLYSILIHALGRSEKLYEAFLLSQRQRLTPLTYNALISACARNDDLEKALNLMSKMrqdgyhcdfinYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGmaqgvglspktATYAAVITALSNSGRTIEAEAVFEELkesglkprtKAYNALLKGYVKMGYLKDAEFVVSEmersgvlpdehtYSLLIDAYANAGRWESARIVLKEMevshakpnsfIYSRILAGYRDRGEWQRTFQVLKEMkssgvepdthFYNVMIDTFGKYNCLHHAMAAFDRMlsegiepdtitwnTLIDCHFKCGRYDRAEELFEEMqergyfpcttTYNIMINLLGEQERWEDVKRLLGNmraqgllpnvVTYTTLVDIygqsgrfddAIECLEGLSDQAVNAFRVMrtdglkpsnLALNSLINAFGEDQRDAEAFAVLQYMKenglkpdvVTYTTLMKALIRvdkfhkvpAVYEEMILSGCTPDRKARAMLRSALRYMKQTLKT
Flexible Loop (DISEMBL)
millppqplsVRFPAIHSACPITRHHVIFQPAFSVSTITGITTAtasgessfssssftskqndteeeeeddddvLSLQKQRYDFTPLLNFLSENSNSESASALASSPSSLNRVEFKLAESYRAVPAPLWHSLLKNLCSSNSSIDLAYAVVSWLQKHNLCYSYELLYSILIHALGRSEKLYEAFLLSQRQRLTPLTYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFeelkesglkprtKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMevshakpnsfiYSRILAGYRDRGEWQRTFQVLKemkssgvepdTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMraqgllpnVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMkenglkpdvVTYTTLMKALIRVDKFHKVPAVYEemilsgctpdrKARAMLRSALRYMKQTLKT
Low Complexity Region (SEG)
MILLPPQPLSVRFPAIHSACPITRHHVIFQPAFSVstitgittatasgessfssssftsKQNdteeeeeddddVLSLQKQRYDFTpllnflsensnsesasalasspsslnRVEFKLAESYRAVPAPLWHsllknlcssnssIDLAYAVVSWLQKHNLCYSYELLYSILIHALGRSEKLYEAFLLSQRQRLTPLTYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPDRKARAMLRSALRYMKQTLKT
Disordered region (IsUnstruct)
*********SVRFPAIHSACPITRHHVIFQPAFSVSTITGITT****************************************FTPLL************************VEFKLAESYRAVPAPLWHSLLKNLCSSNSSIDLAYAVVSWLQKHNLCYSYELLYSILIHALGRSEKLYEAFLLSQRQRLTPLTYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPD********************
Disordered Region (DISOPRED)
*********S**FPAI***********************GITTATASGESSFSSSSFTSKQNDTEEEEEDDDDVLSLQKQRYDFTPLLNFLSENSNSESASALASSPSSLNRVEFKLAESYRAVPAPLWHSLLKNLCSSNSSIDLAYAVVSWLQKHNLCYSYELLYSILIHALGRSEKLYEAFLLSQRQRLTPLTYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPDRKARAMLRSALRYMKQTL**
Disordered Region (DISEMBL)
MILLPPQPLSVRFPAIHSACPITRHHVIFQPAFSVSTITGITTA******************************LSLQKQRYDFTPLLNFLSEN***************LNRVEFKLAESYRAVPAPLWHSLLKNLCSSNSSIDLAYAVVSWLQKHNLCYSYELLYSILIHALGRSEKLYEAFLLSQRQRLTPLTYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPDRKARAMLRSALRYMKQTLKT
Disordered Region (DISPRO)
****PPQPLSVRFPAIHSACPITRHHVIFQPAFSVSTITGITTATASGESSFSSSSFTSKQNDTEEEEEDDDDVLSLQKQRYDFTPLLNFLSENSNSESASALASSPSSLNRVEFKLAESYRAVPAPLWHSLLKNLCSSNSSIDLAYAVVSWLQKHNLCYSYELLYSILIHALGRSEKLYEAFLLSQRQRLTPLTYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPDRKARAMLRSALRYMK*****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MILLPPQPLSVRFPAIHSACPITRHHVIFQPAFSVSTITGITTATASGESSFSSSSFTSKQNDTEEEEEDDDDVLSLQKQRYDFTPLLNFLSENSNSESASALASSPSSLNRVEFKLAESYRAVPAPLWHSLLKNLCSSNSSIDLAYAVVSWLQKHNLCYSYELLYSILIHALGRSEKLYEAFLLSQRQRLTPLTYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPDRKARAMLRSALRYMKQTLKT
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	680	2.2.26 [Sep-21-2011]
Q8L844	709	Pentatricopeptide repeat-	yes	no	0.995	0.954	0.696	0.0
Q6NQ83	619	Pentatricopeptide repeat-	no	no	0.732	0.804	0.274	2e-54
Q9LYZ9	819	Pentatricopeptide repeat-	no	no	0.802	0.666	0.270	4e-54
O64624	822	Pentatricopeptide repeat-	no	no	0.722	0.597	0.261	4e-54
Q76C99	791	Protein Rf1, mitochondria	N/A	no	0.733	0.630	0.270	3e-52
Q9FIX3	747	Pentatricopeptide repeat-	no	no	0.598	0.544	0.300	2e-50
Q9FMF6	730	Pentatricopeptide repeat-	no	no	0.730	0.680	0.255	2e-49
Q9LPX2	644	Pentatricopeptide repeat-	no	no	0.692	0.731	0.273	7e-49
Q9SXD1	630	Pentatricopeptide repeat-	no	no	0.65	0.701	0.271	3e-48
Q9LQ14	629	Pentatricopeptide repeat-	no	no	0.723	0.782	0.267	5e-48

>sp|Q8L844|PP413_ARATH Pentatricopeptide repeat-containing protein At5g42310, mitochondrial OS=Arabidopsis thaliana GN=At5g42310 PE=2 SV=1

 Score =  965 bits (2495), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 494/709 (69%), Positives = 573/709 (80%), Gaps = 32/709 (4%)

Query: 1   MILLPPQPL-SVRFPAIHSACPITRHHV-IFQPAFSVSTITGITTATASGESSFSSSSFT 58
           M+LL   PL S RF +++       HH   FQP   +S  +  T+A+    S  SSSS+ 
Sbjct: 1   MLLLQQPPLVSTRFHSLYFLTHHHHHHHRFFQPP--ISAFSATTSASLPSPSPSSSSSYF 58

Query: 59  SKQNDTEEEEEDDDDVLSLQKQRYDFTPLLNFLSENSNSESA----SALASSPSSLNRVE 114
           S  N  +  EE+D++  S   +RYDF+PLL FLS     E A    S   +SP SLN VE
Sbjct: 59  SSWNGLDTNEEEDNEFSSEVHRRYDFSPLLKFLSRFGPVELALDSESESEASPESLNPVE 118

Query: 115 FKLAESYRAVPAPLWHSLLKNLCSSNSSIDLAYAVVSWLQKHNLCYSYELLYSILIHALG 174
           F L ESYRAVPAP WHSL+K+L SS SS+ LAYAVVSWLQKHNLC+SYELLYSILIHALG
Sbjct: 119 FDLVESYRAVPAPYWHSLIKSLTSSTSSLGLAYAVVSWLQKHNLCFSYELLYSILIHALG 178

Query: 175 RSEKLYEAFLLSQRQRLTPLTYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLV 234
           RSEKLYEAFLLSQ+Q LTPLTYNALI ACARN+D+EKALNL++KMRQDGY  DF+NYSLV
Sbjct: 179 RSEKLYEAFLLSQKQTLTPLTYNALIGACARNNDIEKALNLIAKMRQDGYQSDFVNYSLV 238

Query: 235 IQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGV 294
           IQSLTR+NKIDS +L +LYKEIE DK+ELD QL+ND+I+GFAK+GD SKA++ LGMAQ  
Sbjct: 239 IQSLTRSNKIDSVMLLRLYKEIERDKLELDVQLVNDIIMGFAKSGDPSKALQLLGMAQAT 298

Query: 295 GLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDA 354
           GLS KTAT  ++I+AL++SGRT+EAEA+FEEL++SG+KPRT+AYNALLKGYVK G LKDA
Sbjct: 299 GLSAKTATLVSIISALADSGRTLEAEALFEELRQSGIKPRTRAYNALLKGYVKTGPLKDA 358

Query: 355 EFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAG 414
           E +VSEME+ GV PDEHTYSLLIDAY NAGRWESARIVLKEME    +PNSF++SR+LAG
Sbjct: 359 ESMVSEMEKRGVSPDEHTYSLLIDAYVNAGRWESARIVLKEMEAGDVQPNSFVFSRLLAG 418

Query: 415 YRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPD 474
           +RDRGEWQ+TFQVLKEMKS GV+PD  FYNV+IDTFGK+NCL HAM  FDRMLSEGIEPD
Sbjct: 419 FRDRGEWQKTFQVLKEMKSIGVKPDRQFYNVVIDTFGKFNCLDHAMTTFDRMLSEGIEPD 478

Query: 475 TITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLG 534
            +TWNTLIDCH K GR+  AEE+FE M+ RG  PC TTYNIMIN  G+QERW+D+KRLLG
Sbjct: 479 RVTWNTLIDCHCKHGRHIVAEEMFEAMERRGCLPCATTYNIMINSYGDQERWDDMKRLLG 538

Query: 535 NMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLE------------------------G 570
            M++QG+LPNVVT+TTLVD+YG+SGRF+DAIECLE                        G
Sbjct: 539 KMKSQGILPNVVTHTTLVDVYGKSGRFNDAIECLEEMKSVGLKPSSTMYNALINAYAQRG 598

Query: 571 LSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYT 630
           LS+QAVNAFRVM +DGLKPS LALNSLINAFGED+RDAEAFAVLQYMKENG+KPDVVTYT
Sbjct: 599 LSEQAVNAFRVMTSDGLKPSLLALNSLINAFGEDRRDAEAFAVLQYMKENGVKPDVVTYT 658

Query: 631 TLMKALIRVDKFHKVPAVYEEMILSGCTPDRKARAMLRSALRYMKQTLK 679
           TLMKALIRVDKF KVP VYEEMI+SGC PDRKAR+MLRSALRYMKQTL+
Sbjct: 659 TLMKALIRVDKFQKVPVVYEEMIMSGCKPDRKARSMLRSALRYMKQTLR 707

Arabidopsis thaliana (taxid: 3702)

>sp|Q6NQ83|PP247_ARATH Pentatricopeptide repeat-containing protein At3g22470, mitochondrial OS=Arabidopsis thaliana GN=At3g22470 PE=2 SV=1

 Score =  214 bits (544), Expect = 2e-54,   Method: Compositional matrix adjust.
 Identities = 149/543 (27%), Positives = 249/543 (45%), Gaps = 45/543 (8%)

Query: 151 SWLQKHNLCYSYELLYSILIHALGRSEKLYEAFLLSQRQRLTPLTYNALISACARNDDLE 210
           S + +  L Y   L   I+   +  +  L+E+ ++  R   TP+ +N L SA AR    +
Sbjct: 29  SSITEAKLSYKERLRNGIVDIKVNDAIDLFES-MIQSRPLPTPIDFNRLCSAVARTKQYD 87

Query: 211 KALNLMSKMRQDGYHCDFINYSLVIQSLTRTNKI--DSSLLQKLYK-EIECDKIE----- 262
             L     M  +G   D    +++I    R  K+    S+L + +K   E D I      
Sbjct: 88  LVLGFCKGMELNGIEHDMYTMTIMINCYCRKKKLLFAFSVLGRAWKLGYEPDTITFSTLV 147

Query: 263 ----LDGQL---------------------LNDVIVGFAKAGDASKAMRFLGMAQGVGLS 297
               L+G++                     ++ +I G    G  S+A+  +      G  
Sbjct: 148 NGFCLEGRVSEAVALVDRMVEMKQRPDLVTVSTLINGLCLKGRVSEALVLIDRMVEYGFQ 207

Query: 298 PKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFV 357
           P   TY  V+  L  SG +  A  +F +++E  +K     Y+ ++    K G   DA  +
Sbjct: 208 PDEVTYGPVLNRLCKSGNSALALDLFRKMEERNIKASVVQYSIVIDSLCKDGSFDDALSL 267

Query: 358 VSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRD 417
            +EME  G+  D  TYS LI    N G+W+    +L+EM   +  P+   +S ++  +  
Sbjct: 268 FNEMEMKGIKADVVTYSSLIGGLCNDGKWDDGAKMLREMIGRNIIPDVVTFSALIDVFVK 327

Query: 418 RGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTIT 477
            G+     ++  EM + G+ PDT  YN +ID F K NCLH A   FD M+S+G EPD +T
Sbjct: 328 EGKLLEAKELYNEMITRGIAPDTITYNSLIDGFCKENCLHEANQMFDLMVSKGCEPDIVT 387

Query: 478 WNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMR 537
           ++ LI+ + K  R D    LF E+  +G  P T TYN ++    +  +    K L   M 
Sbjct: 388 YSILINSYCKAKRVDDGMRLFREISSKGLIPNTITYNTLVLGFCQSGKLNAAKELFQEMV 447

Query: 538 AQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSL 597
           ++G+ P+VVTY  L+D    +G  + A+E  E +    +       T G+   N+ ++ +
Sbjct: 448 SRGVPPSVVTYGILLDGLCDNGELNKALEIFEKMQKSRM-------TLGIGIYNIIIHGM 500

Query: 598 INAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMILSGC 657
            NA   D    +A+++   + + G+KPDVVTY  ++  L +     +   ++ +M   GC
Sbjct: 501 CNASKVD----DAWSLFCSLSDKGVKPDVVTYNVMIGGLCKKGSLSEADMLFRKMKEDGC 556

Query: 658 TPD 660
           TPD
Sbjct: 557 TPD 559

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LYZ9|PP362_ARATH Pentatricopeptide repeat-containing protein At5g02860 OS=Arabidopsis thaliana GN=At5g02860 PE=2 SV=1

 Score =  213 bits (542), Expect = 4e-54,   Method: Compositional matrix adjust.
 Identities = 159/588 (27%), Positives = 257/588 (43%), Gaps = 42/588 (7%)

Query: 110 LNRVEFKLAESYRAVPAPLWHSLLKNL--CSSNSSIDLAYAVVSWLQKHNLCYSY--ELL 165
           L+ V  +L E ++  P      LL  L     +   DLA     W  K     S     +
Sbjct: 116 LDSVLSELFEPFKDKPESTSSELLAFLKGLGFHKKFDLALRAFDWFMKQKDYQSMLDNSV 175

Query: 166 YSILIHALGRSEKLYEAF-----LLSQRQRLTPLTYNALISACARNDDLEKALNLMSKMR 220
            +I+I  LG+  ++  A      L      L   +Y +LISA A +    +A+N+  KM 
Sbjct: 176 VAIIISMLGKEGRVSSAANMFNGLQEDGFSLDVYSYTSLISAFANSGRYREAVNVFKKME 235

Query: 221 QDGYHCDFINYSLVIQSL----TRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFA 276
           +DG     I Y++++       T  NKI +SL++K+    + D I  D    N +I    
Sbjct: 236 EDGCKPTLITYNVILNVFGKMGTPWNKI-TSLVEKM----KSDGIAPDAYTYNTLITCCK 290

Query: 277 KAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTK 336
           +     +A +     +  G S    TY A++     S R  EA  V  E+  +G  P   
Sbjct: 291 RGSLHQEAAQVFEEMKAAGFSYDKVTYNALLDVYGKSHRPKEAMKVLNEMVLNGFSPSIV 350

Query: 337 AYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEM 396
            YN+L+  Y + G L +A  + ++M   G  PD  TY+ L+  +  AG+ ESA  + +EM
Sbjct: 351 TYNSLISAYARDGMLDEAMELKNQMAEKGTKPDVFTYTTLLSGFERAGKVESAMSIFEEM 410

Query: 397 EVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCL 456
             +  KPN   ++  +  Y +RG++    ++  E+   G+ PD   +N ++  FG+    
Sbjct: 411 RNAGCKPNICTFNAFIKMYGNRGKFTEMMKIFDEINVCGLSPDIVTWNTLLAVFGQNGMD 470

Query: 457 HHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIM 516
                 F  M   G  P+  T+NTLI  + +CG +++A  ++  M + G  P  +TYN +
Sbjct: 471 SEVSGVFKEMKRAGFVPERETFNTLISAYSRCGSFEQAMTVYRRMLDAGVTPDLSTYNTV 530

Query: 517 INLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQ---------------SGRF 561
           +  L     WE  +++L  M      PN +TY +L+  Y                 SG  
Sbjct: 531 LAALARGGMWEQSEKVLAEMEDGRCKPNELTYCSLLHAYANGKEIGLMHSLAEEVYSGVI 590

Query: 562 DDAIECLEGLS---------DQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFA 612
           +     L+ L           +A  AF  ++  G  P    LNS+++ +G  Q  A+A  
Sbjct: 591 EPRAVLLKTLVLVCSKCDLLPEAERAFSELKERGFSPDITTLNSMVSIYGRRQMVAKANG 650

Query: 613 VLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPD 660
           VL YMKE G  P + TY +LM    R   F K   +  E++  G  PD
Sbjct: 651 VLDYMKERGFTPSMATYNSLMYMHSRSADFGKSEEILREILAKGIKPD 698

Arabidopsis thaliana (taxid: 3702)

>sp|O64624|PP163_ARATH Pentatricopeptide repeat-containing protein At2g18940 OS=Arabidopsis thaliana GN=At2g18940 PE=2 SV=1

 Score =  213 bits (542), Expect = 4e-54,   Method: Compositional matrix adjust.
 Identities = 137/523 (26%), Positives = 247/523 (47%), Gaps = 32/523 (6%)

Query: 168 ILIHALGR------SEKLYEAFLLSQRQRLTPLTYNALISACARNDDLEKALNLMSKMRQ 221
           I +  LGR      + KL +   L Q   L    Y  ++ A +R    EKA++L  +M++
Sbjct: 180 IFVRILGRESQYSVAAKLLDKIPL-QEYLLDVRAYTTILHAYSRTGKYEKAIDLFERMKE 238

Query: 222 DGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDA 281
            G     + Y++++    +  +    +L  L  E+    ++ D    + V+   A+ G  
Sbjct: 239 MGPSPTLVTYNVILDVFGKMGRSWRKILGVL-DEMRSKGLKFDEFTCSTVLSACAREGLL 297

Query: 282 SKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNAL 341
            +A  F    +  G  P T TY A++     +G   EA +V +E++E+     +  YN L
Sbjct: 298 REAKEFFAELKSCGYEPGTVTYNALLQVFGKAGVYTEALSVLKEMEENSCPADSVTYNEL 357

Query: 342 LKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHA 401
           +  YV+ G+ K+A  V+  M + GV+P+  TY+ +IDAY  AG+ + A  +   M+ +  
Sbjct: 358 VAAYVRAGFSKEAAGVIEMMTKKGVMPNAITYTTVIDAYGKAGKEDEALKLFYSMKEAGC 417

Query: 402 KPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMA 461
            PN+  Y+ +L+    +       ++L +MKS+G  P+   +N M+   G          
Sbjct: 418 VPNTCTYNAVLSLLGKKSRSNEMIKMLCDMKSNGCSPNRATWNTMLALCGNKGMDKFVNR 477

Query: 462 AFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLG 521
            F  M S G EPD  T+NTLI  + +CG    A +++ EM   G+  C TTYN ++N L 
Sbjct: 478 VFREMKSCGFEPDRDTFNTLISAYGRCGSEVDASKMYGEMTRAGFNACVTTYNALLNALA 537

Query: 522 EQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSG------RFDDAIE--------- 566
            +  W   + ++ +M+++G  P   +Y+ ++  Y + G      R ++ I+         
Sbjct: 538 RKGDWRSGENVISDMKSKGFKPTETSYSLMLQCYAKGGNYLGIERIENRIKEGQIFPSWM 597

Query: 567 -----CLEGLSDQAV----NAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYM 617
                 L     +A+     AF + +  G KP  +  NS+++ F  +    +A  +L+ +
Sbjct: 598 LLRTLLLANFKCRALAGSERAFTLFKKHGYKPDMVIFNSMLSIFTRNNMYDQAEGILESI 657

Query: 618 KENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPD 660
           +E+GL PD+VTY +LM   +R  +  K   + + +  S   PD
Sbjct: 658 REDGLSPDLVTYNSLMDMYVRRGECWKAEEILKTLEKSQLKPD 700

Arabidopsis thaliana (taxid: 3702)

>sp|Q76C99|RF1_ORYSI Protein Rf1, mitochondrial OS=Oryza sativa subsp. indica GN=Rf1 PE=2 SV=1

 Score =  207 bits (526), Expect = 3e-52,   Method: Compositional matrix adjust.
 Identities = 142/525 (27%), Positives = 244/525 (46%), Gaps = 26/525 (4%)

Query: 124 VPAPLWHSLLKNLCSSNSSIDLAYAVVSWLQKHNLCYSYELLYSILIHALGRSEKLYEAF 183
           V A  +  LLK LC+   + D    V+  + +   C      Y+IL+  L    +  EA 
Sbjct: 120 VDAIAFTPLLKGLCADKRTSDAMDIVLRRMTELG-CIPNVFSYNILLKGLCDENRSQEAL 178

Query: 184 LL-----SQRQRLTP---LTYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVI 235
            L       R   +P   ++Y  +I+   +  D +KA +   +M   G   D + Y+ +I
Sbjct: 179 ELLHMMADDRGGGSPPDVVSYTTVINGFFKEGDSDKAYSTYHEMLDRGILPDVVTYNSII 238

Query: 236 QSLTRTNKIDSSL--LQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQG 293
            +L +   +D ++  L  + K    + +  D    N ++ G+  +G   +A+ FL   + 
Sbjct: 239 AALCKAQAMDKAMEVLNTMVK----NGVMPDCMTYNSILHGYCSSGQPKEAIGFLKKMRS 294

Query: 294 VGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKD 353
            G+ P   TY+ ++  L  +GR +EA  +F+ + + GLKP    Y  LL+GY   G L +
Sbjct: 295 DGVEPDVVTYSLLMDYLCKNGRCMEARKIFDSMTKRGLKPEITTYGTLLQGYATKGALVE 354

Query: 354 AEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILA 413
              ++  M R+G+ PD + +S+LI AYA  G+ + A +V  +M      PN+  Y  ++ 
Sbjct: 355 MHGLLDLMVRNGIHPDHYVFSILICAYAKQGKVDQAMLVFSKMRQQGLNPNAVTYGAVIG 414

Query: 414 GYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEP 473
                G  +      ++M   G+ P    YN +I      N    A      ML  GI  
Sbjct: 415 ILCKSGRVEDAMLYFEQMIDEGLSPGNIVYNSLIHGLCTCNKWERAEELILEMLDRGICL 474

Query: 474 DTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLL 533
           +TI +N++ID H K GR   +E+LFE M   G  P   TYN +IN      + ++  +LL
Sbjct: 475 NTIFFNSIIDSHCKEGRVIESEKLFELMVRIGVKPNVITYNTLINGYCLAGKMDEAMKLL 534

Query: 534 GNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLA 593
             M + GL PN VTY+TL++ Y +  R +DA+             F+ M + G+ P  + 
Sbjct: 535 SGMVSVGLKPNTVTYSTLINGYCKISRMEDALV-----------LFKEMESSGVSPDIIT 583

Query: 594 LNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALIR 638
            N ++    + +R A A  +   + E+G + ++ TY  ++  L +
Sbjct: 584 YNIILQGLFQTRRTAAAKELYVRITESGTQIELSTYNIILHGLCK 628

Reduces the expression of the cytoplasmic male sterility (CMS)-associated mitochondrial gene ORF79, encoding a cytotoxic peptide. Can restore male fertility by blocking ORF79 production via endonucleolytic cleavage of dicistronic ATP6/ORF79 mRNA. Promotes the editing of ATP6 mRNAs independently of its cleavage function.

Oryza sativa subsp. indica (taxid: 39946)

>sp|Q9FIX3|PP407_ARATH Pentatricopeptide repeat-containing protein At5g39710 OS=Arabidopsis thaliana GN=EMB2745 PE=2 SV=1

 Score =  201 bits (511), Expect = 2e-50,   Method: Compositional matrix adjust.
 Identities = 130/432 (30%), Positives = 200/432 (46%), Gaps = 25/432 (5%)

Query: 271 VIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIE-AEAVFEELKES 329
           V+  +++     KA+  + +AQ  G  P   +Y AV+ A   S R I  AE VF+E+ ES
Sbjct: 140 VVKSYSRLSLIDKALSIVHLAQAHGFMPGVLSYNAVLDATIRSKRNISFAENVFKEMLES 199

Query: 330 GLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESA 389
            + P    YN L++G+   G +  A  +  +ME  G LP+  TY+ LID Y    + +  
Sbjct: 200 QVSPNVFTYNILIRGFCFAGNIDVALTLFDKMETKGCLPNVVTYNTLIDGYCKLRKIDDG 259

Query: 390 RIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDT 449
             +L+ M +   +PN   Y+ ++ G    G  +    VL EM   G   D   YN +I  
Sbjct: 260 FKLLRSMALKGLEPNLISYNVVINGLCREGRMKEVSFVLTEMNRRGYSLDEVTYNTLIKG 319

Query: 450 FGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPC 509
           + K    H A+     ML  G+ P  IT+ +LI    K G  +RA E  ++M+ RG  P 
Sbjct: 320 YCKEGNFHQALVMHAEMLRHGLTPSVITYTSLIHSMCKAGNMNRAMEFLDQMRVRGLCPN 379

Query: 510 TTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLE 569
             TY  +++   ++    +  R+L  M   G  P+VVTY  L++ +  +G+ +DAI  LE
Sbjct: 380 ERTYTTLVDGFSQKGYMNEAYRVLREMNDNGFSPSVVTYNALINGHCVTGKMEDAIAVLE 439

Query: 570 -----GLS-------------------DQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQ 605
                GLS                   D+A+   R M   G+KP  +  +SLI  F E +
Sbjct: 440 DMKEKGLSPDVVSYSTVLSGFCRSYDVDEALRVKREMVEKGIKPDTITYSSLIQGFCEQR 499

Query: 606 RDAEAFAVLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPDRKARA 665
           R  EA  + + M   GL PD  TYT L+ A        K   ++ EM+  G  PD    +
Sbjct: 500 RTKEACDLYEEMLRVGLPPDEFTYTALINAYCMEGDLEKALQLHNEMVEKGVLPDVVTYS 559

Query: 666 MLRSALRYMKQT 677
           +L + L    +T
Sbjct: 560 VLINGLNKQSRT 571

Arabidopsis thaliana (taxid: 3702)

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

 Score =  197 bits (502), Expect = 2e-49,   Method: Compositional matrix adjust.
 Identities = 134/524 (25%), Positives = 252/524 (48%), Gaps = 27/524 (5%)

Query: 122 RAVPAPLW--HSLLKNLCSSNSSIDLAYAVVSWLQKHNLCYSYELLYSILIHALGRSEKL 179
           R +P  L+    ++K  C+ N  ID A +++  + KH  C    ++Y  LIH+L +  ++
Sbjct: 211 RKIPPTLFTFGVVMKAFCAVNE-IDSALSLLRDMTKHG-CVPNSVIYQTLIHSLSKCNRV 268

Query: 180 YEAFLLSQRQRLTPL-----TYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLV 234
            EA  L +   L        T+N +I    + D + +A  ++++M   G+  D I Y  +
Sbjct: 269 NEALQLLEEMFLMGCVPDAETFNDVILGLCKFDRINEAAKMVNRMLIRGFAPDDITYGYL 328

Query: 235 IQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLG-MAQG 293
           +  L +  ++D++  + L+  I   +I     + N +I GF   G    A   L  M   
Sbjct: 329 MNGLCKIGRVDAA--KDLFYRIPKPEI----VIFNTLIHGFVTHGRLDDAKAVLSDMVTS 382

Query: 294 VGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKD 353
            G+ P   TY ++I      G    A  V  +++  G KP   +Y  L+ G+ K+G + +
Sbjct: 383 YGIVPDVCTYNSLIYGYWKEGLVGLALEVLHDMRNKGCKPNVYSYTILVDGFCKLGKIDE 442

Query: 354 AEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILA 413
           A  V++EM   G+ P+   ++ LI A+    R   A  + +EM     KP+ + ++ +++
Sbjct: 443 AYNVLNEMSADGLKPNTVGFNCLISAFCKEHRIPEAVEIFREMPRKGCKPDVYTFNSLIS 502

Query: 414 GYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEP 473
           G  +  E +    +L++M S GV  +T  YN +I+ F +   +  A    + M+ +G   
Sbjct: 503 GLCEVDEIKHALWLLRDMISEGVVANTVTYNTLINAFLRRGEIKEARKLVNEMVFQGSPL 562

Query: 474 DTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLL 533
           D IT+N+LI    + G  D+A  LFE+M   G+ P   + NI+IN L      E+     
Sbjct: 563 DEITYNSLIKGLCRAGEVDKARSLFEKMLRDGHAPSNISCNILINGLCRSGMVEEAVEFQ 622

Query: 534 GNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLA 593
             M  +G  P++VT+ +L++   ++GR +D +             FR ++ +G+ P  + 
Sbjct: 623 KEMVLRGSTPDIVTFNSLINGLCRAGRIEDGL-----------TMFRKLQAEGIPPDTVT 671

Query: 594 LNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALI 637
            N+L++   +     +A  +L    E+G  P+  T++ L++++I
Sbjct: 672 FNTLMSWLCKGGFVYDACLLLDEGIEDGFVPNHRTWSILLQSII 715

Arabidopsis thaliana (taxid: 3702)

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

 Score =  196 bits (497), Expect = 7e-49,   Method: Compositional matrix adjust.
 Identities = 138/505 (27%), Positives = 229/505 (45%), Gaps = 34/505 (6%)

Query: 195 TYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYK 254
           T + +I+   R   L  A + M K+ + GY  D + ++ ++  L    ++  +L      
Sbjct: 125 TLSIMINCFCRCRKLSYAFSTMGKIMKLGYEPDTVIFNTLLNGLCLECRVSEAL------ 178

Query: 255 EIECDKIELDGQ----LLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITAL 310
           E+    +E+  +     LN ++ G    G  S A+  +      G  P   TY  V+  +
Sbjct: 179 ELVDRMVEMGHKPTLITLNTLVNGLCLNGKVSDAVVLIDRMVETGFQPNEVTYGPVLNVM 238

Query: 311 SNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDE 370
             SG+T  A  +  +++E  +K     Y+ ++ G  K G L +A  + +EME  G   D 
Sbjct: 239 CKSGQTALAMELLRKMEERNIKLDAVKYSIIIDGLCKDGSLDNAFNLFNEMEIKGFKADI 298

Query: 371 HTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKE 430
            TY+ LI  + NAGRW+    +L++M      PN   +S ++  +   G+ +   Q+LKE
Sbjct: 299 ITYNTLIGGFCNAGRWDDGAKLLRDMIKRKISPNVVTFSVLIDSFVKEGKLREADQLLKE 358

Query: 431 MKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGR 490
           M   G+ P+T  YN +ID F K N L  A+   D M+S+G +PD +T+N LI+ + K  R
Sbjct: 359 MMQRGIAPNTITYNSLIDGFCKENRLEEAIQMVDLMISKGCDPDIMTFNILINGYCKANR 418

Query: 491 YDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTT 550
            D   ELF EM  RG    T TYN ++    +  + E  K+L   M ++ + P++V+Y  
Sbjct: 419 IDDGLELFREMSLRGVIANTVTYNTLVQGFCQSGKLEVAKKLFQEMVSRRVRPDIVSYKI 478

Query: 551 LVDIYGQSGRFDDAIE------------------------CLEGLSDQAVNAFRVMRTDG 586
           L+D    +G  + A+E                        C     D A + F  +   G
Sbjct: 479 LLDGLCDNGELEKALEIFGKIEKSKMELDIGIYMIIIHGMCNASKVDDAWDLFCSLPLKG 538

Query: 587 LKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVP 646
           +K    A N +I+        ++A  + + M E G  PD +TY  L++A +  D      
Sbjct: 539 VKLDARAYNIMISELCRKDSLSKADILFRKMTEEGHAPDELTYNILIRAHLGDDDATTAA 598

Query: 647 AVYEEMILSGCTPDRKARAMLRSAL 671
            + EEM  SG   D     M+ + L
Sbjct: 599 ELIEEMKSSGFPADVSTVKMVINML 623

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SXD1|PPR91_ARATH Pentatricopeptide repeat-containing protein At1g62670, mitochondrial OS=Arabidopsis thaliana GN=At1g62670 PE=2 SV=2

 Score =  194 bits (492), Expect = 3e-48,   Method: Compositional matrix adjust.
 Identities = 127/468 (27%), Positives = 216/468 (46%), Gaps = 26/468 (5%)

Query: 195 TYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYK 254
           TY+ LI+   R   L  AL ++ KM + GY  + +  S ++     + +I  ++   L  
Sbjct: 118 TYSILINCFCRRSQLPLALAVLGKMMKLGYEPNIVTLSSLLNGYCHSKRISEAV--ALVD 175

Query: 255 EIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSG 314
           ++     + +    N +I G      AS+AM  +      G  P   TY  V+  L   G
Sbjct: 176 QMFVTGYQPNTVTFNTLIHGLFLHNKASEAMALIDRMVAKGCQPDLVTYGVVVNGLCKRG 235

Query: 315 RTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYS 374
            T  A  +  ++++  L+P    YN ++ G  K  ++ DA  +  EME  G+ P+  TYS
Sbjct: 236 DTDLAFNLLNKMEQGKLEPGVLIYNTIIDGLCKYKHMDDALNLFKEMETKGIRPNVVTYS 295

Query: 375 LLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSS 434
            LI    N GRW  A  +L +M      P+ F +S ++  +   G+     ++  EM   
Sbjct: 296 SLISCLCNYGRWSDASRLLSDMIERKINPDVFTFSALIDAFVKEGKLVEAEKLYDEMVKR 355

Query: 435 GVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRA 494
            ++P    Y+ +I+ F  ++ L  A   F+ M+S+   PD +T+NTLI    K  R +  
Sbjct: 356 SIDPSIVTYSSLINGFCMHDRLDEAKQMFEFMVSKHCFPDVVTYNTLIKGFCKYKRVEEG 415

Query: 495 EELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDI 554
            E+F EM +RG    T TYNI+I  L +    +  + +   M + G+ PN++TY TL+D 
Sbjct: 416 MEVFREMSQRGLVGNTVTYNILIQGLFQAGDCDMAQEIFKEMVSDGVPPNIMTYNTLLDG 475

Query: 555 YGQSGRFDDAI------------------------ECLEGLSDQAVNAFRVMRTDGLKPS 590
             ++G+ + A+                         C  G  +   + F  +   G+KP 
Sbjct: 476 LCKNGKLEKAMVVFEYLQRSKMEPTIYTYNIMIEGMCKAGKVEDGWDLFCNLSLKGVKPD 535

Query: 591 NLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALIR 638
            +A N++I+ F       EA A+ + MKE+G  P+   Y TL++A +R
Sbjct: 536 VVAYNTMISGFCRKGSKEEADALFKEMKEDGTLPNSGCYNTLIRARLR 583

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LQ14|PPR96_ARATH Pentatricopeptide repeat-containing protein At1g62930, chloroplastic OS=Arabidopsis thaliana GN=At1g62930 PE=2 SV=2

 Score =  193 bits (490), Expect = 5e-48,   Method: Compositional matrix adjust.
 Identities = 137/513 (26%), Positives = 244/513 (47%), Gaps = 21/513 (4%)

Query: 130 HSLLKNLCSSNSSIDLAYAVVSWLQKHNLCYSYELL-YSILIHALGRSEKLYEAFLLSQR 188
           +++L N     S + LA AV+  + K  L Y  +++  S L++     +++ EA  L  +
Sbjct: 118 YNILINCFCRRSQLPLALAVLGKMMK--LGYEPDIVTLSSLLNGYCHGKRISEAVALVDQ 175

Query: 189 QRL-----TPLTYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRTNK 243
             +       +T+N LI     ++   +A+ L+ +M   G   D   Y  V+  L +   
Sbjct: 176 MFVMEYQPNTVTFNTLIHGLFLHNKASEAVALIDRMVARGCQPDLFTYGTVVNGLCKRGD 235

Query: 244 IDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATY 303
           ID +L   L K++E  KIE D  +   +I       + + A+         G+ P   TY
Sbjct: 236 IDLAL--SLLKKMEKGKIEADVVIYTTIIDALCNYKNVNDALNLFTEMDNKGIRPNVVTY 293

Query: 304 AAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMER 363
            ++I  L N GR  +A  +  ++ E  + P    ++AL+  +VK G L +AE +  EM +
Sbjct: 294 NSLIRCLCNYGRWSDASRLLSDMIERKINPNVVTFSALIDAFVKEGKLVEAEKLYDEMIK 353

Query: 364 SGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQR 423
             + PD  TYS LI+ +    R + A+ + + M      PN   Y+ ++ G+      + 
Sbjct: 354 RSIDPDIFTYSSLINGFCMHDRLDEAKHMFELMISKDCFPNVVTYNTLIKGFCKAKRVEE 413

Query: 424 TFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLID 483
             ++ +EM   G+  +T  YN +I    +      A   F +M+S+G+ PD IT++ L+D
Sbjct: 414 GMELFREMSQRGLVGNTVTYNTLIQGLFQAGDCDMAQKIFKKMVSDGVPPDIITYSILLD 473

Query: 484 CHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLP 543
              K G+ ++A  +FE +Q+    P   TYNIMI  + +  + ED   L  ++  +G+ P
Sbjct: 474 GLCKYGKLEKALVVFEYLQKSKMEPDIYTYNIMIEGMCKAGKVEDGWDLFCSLSLKGVKP 533

Query: 544 NVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGE 603
           NV+ YTT++  +           C +GL ++A   FR M+ DG  P++   N+LI A   
Sbjct: 534 NVIIYTTMISGF-----------CRKGLKEEADALFREMKEDGTLPNSGTYNTLIRARLR 582

Query: 604 DQRDAEAFAVLQYMKENGLKPDVVTYTTLMKAL 636
           D   A +  +++ M+  G   D  T + ++  L
Sbjct: 583 DGDKAASAELIKEMRSCGFVGDASTISMVINML 615

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	680
225457536	695	PREDICTED: pentatricopeptide repeat-cont	0.983	0.962	0.712	0.0
224083253	709	predicted protein [Populus trichocarpa]	0.989	0.949	0.698	0.0
255539196	695	pentatricopeptide repeat-containing prot	0.983	0.962	0.703	0.0
356508736	680	PREDICTED: pentatricopeptide repeat-cont	0.957	0.957	0.688	0.0
147859909	724	hypothetical protein VITISV_040783 [Viti	0.957	0.899	0.713	0.0
297795313	711	pentatricopeptide repeat-containing prot	0.902	0.863	0.737	0.0
224065693	709	predicted protein [Populus trichocarpa]	0.992	0.952	0.678	0.0
15238925	709	pentatricopeptide repeat-containing prot	0.995	0.954	0.696	0.0
449453081	720	PREDICTED: pentatricopeptide repeat-cont	0.972	0.918	0.681	0.0
356517404	696	PREDICTED: pentatricopeptide repeat-cont	0.988	0.965	0.687	0.0

>gi|225457536|ref|XP_002272226.1| PREDICTED: pentatricopeptide repeat-containing protein At5g42310, mitochondrial [Vitis vinifera] gi|297745544|emb|CBI40709.3| unnamed protein product [Vitis vinifera]

 Score = 1011 bits (2615), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 502/705 (71%), Positives = 569/705 (80%), Gaps = 36/705 (5%)

Query: 2   ILLPPQPLSVRFPAIHSACPITRHHVIFQPAFSVSTITGITTATASGESSFSSSSFTSKQ 61
           +LL P PL  RFP+ H   P+ R H I QP    +T       TASGE+S     F+   
Sbjct: 1   MLLLPAPLPTRFPSYHFLSPVLRDHRILQPPLLATTSA--AVTTASGEAS----QFSKPL 54

Query: 62  NDTEEEEEDDDDVLSLQKQRYDFTPLLNFLSEN-SNSESASALASSP-SSLNRVEFKLAE 119
           N    E     D+ S+  +RYDFTPLL FLS + S+S+S + + S P +SL+  EF+L E
Sbjct: 55  N----EYGSSGDLNSVPNRRYDFTPLLRFLSNSESDSDSGAEVESPPPTSLDFTEFQLVE 110

Query: 120 SYRAVPAPLWHSLLKNLCSSNSSIDLAYAVVSWLQKHNLCYSYELLYSILIHALGRSEKL 179
           SYRAVPAPLWHSLLK+LCS +SSI  AY++V+WL++HNLC+SYELLYSILIHALGRSEKL
Sbjct: 111 SYRAVPAPLWHSLLKSLCSDSSSIGTAYSLVTWLERHNLCFSYELLYSILIHALGRSEKL 170

Query: 180 YEAFLLSQRQRLTPLTYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLT 239
           YEAFLLSQRQ LTPLTYNALI ACARNDDLEKALNLMS+MR+DG+  DF+NYS +IQSLT
Sbjct: 171 YEAFLLSQRQTLTPLTYNALIGACARNDDLEKALNLMSRMRRDGFPSDFVNYSFIIQSLT 230

Query: 240 RTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPK 299
           RTNK DSS+LQK+Y EIE DKIELDGQLLND+IVGFAK+GD ++AM FL M QG GLSPK
Sbjct: 231 RTNKSDSSMLQKIYAEIESDKIELDGQLLNDIIVGFAKSGDVNRAMSFLAMVQGNGLSPK 290

Query: 300 TATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVS 359
           TAT  AVITAL N+GRT EAEA+FEELKE GL PRT+AYNALLKGYVK G LKDAE +VS
Sbjct: 291 TATLVAVITALGNAGRTEEAEAIFEELKEGGLMPRTRAYNALLKGYVKTGSLKDAESIVS 350

Query: 360 EMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRG 419
           EMERSG  PDEHTYSLLIDAYANAGRWESARIVLKEME S  +PNS+++SRILA YRDRG
Sbjct: 351 EMERSGFSPDEHTYSLLIDAYANAGRWESARIVLKEMEASGVRPNSYVFSRILASYRDRG 410

Query: 420 EWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWN 479
           +WQ++FQVL+EM++SGV PD HFYNVMIDTFGK NCL HA+A FDRM  EG++PD +TWN
Sbjct: 411 KWQKSFQVLREMRNSGVSPDRHFYNVMIDTFGKCNCLDHALATFDRMRMEGVQPDAVTWN 470

Query: 480 TLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQ 539
           TLIDCH K G +++AEELFE MQE G  PCTTTYNIMIN  GEQERWEDVK LLG M++Q
Sbjct: 471 TLIDCHCKSGHHNKAEELFEAMQESGCSPCTTTYNIMINSFGEQERWEDVKTLLGKMQSQ 530

Query: 540 GLLPNVVTYTTLVDIYGQSGRFDDAIECLE------------------------GLSDQA 575
           GLL NVVTYTTLVDIYGQSGRF DAIECLE                        GLS+QA
Sbjct: 531 GLLANVVTYTTLVDIYGQSGRFKDAIECLEVMKSVGLKPSSTMYNALINAYAQRGLSEQA 590

Query: 576 VNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKA 635
           +NAFRVMR DGLKPS L LNSLINAFGED+RDAEAF+VLQYMKEN LKPDVVTYTTLMKA
Sbjct: 591 INAFRVMRADGLKPSVLVLNSLINAFGEDRRDAEAFSVLQYMKENDLKPDVVTYTTLMKA 650

Query: 636 LIRVDKFHKVPAVYEEMILSGCTPDRKARAMLRSALRYMKQTLKT 680
           LIRV+KF KVPAVYEEM LSGCTPDRKARAMLRSALRYM++TLK+
Sbjct: 651 LIRVEKFDKVPAVYEEMTLSGCTPDRKARAMLRSALRYMERTLKS 695

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224083253|ref|XP_002306972.1| predicted protein [Populus trichocarpa] gi|222856421|gb|EEE93968.1| predicted protein [Populus trichocarpa]

 Score = 1010 bits (2612), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 499/714 (69%), Positives = 582/714 (81%), Gaps = 41/714 (5%)

Query: 1   MILLPPQPLSVRFPAIHSACPITRHH------VIFQPAFSVSTITGITTATASGESSFSS 54
           M+L PP PL  RFP++++  PI  HH      +IFQP FS    T  TT  A    S+S 
Sbjct: 1   MLLFPP-PLPNRFPSVYTTSPIVHHHHHHHHHLIFQPPFSA---TSTTTNFADSSLSYSK 56

Query: 55  SSFTSKQNDTEEEEEDDDDVLSLQKQRYDFTPLLNFLSEN-----SNSESASALASSPSS 109
               + QND E     DDDVL LQ +RYDFTPLL++LS+           + + +SSP+S
Sbjct: 57  RLHYASQNDIEGFS--DDDVLPLQSRRYDFTPLLDYLSKKITTSTDTDSDSDSASSSPTS 114

Query: 110 LNRVEFKLAESYRAVPAPLWHSLLKNLCSSNSSIDLAYAVVSWLQKHNLCYSYELLYSIL 169
           L+  EF+LAESYR VP PLWHSLLK+LC+S+SSI LAYAVV WLQKHNLC+SYELLYSIL
Sbjct: 115 LDPTEFQLAESYRVVPGPLWHSLLKSLCTSSSSIGLAYAVVLWLQKHNLCFSYELLYSIL 174

Query: 170 IHALGRSEKLYEAFLLSQRQRLTPLTYNALISACARNDDLEKALNLMSKMRQDGYHCDFI 229
           IHALG+SEKLYEAFLLSQRQ LTPLTYNALISACARN+DLEKALNL+++MRQDGY  DF+
Sbjct: 175 IHALGQSEKLYEAFLLSQRQNLTPLTYNALISACARNNDLEKALNLITRMRQDGYPSDFV 234

Query: 230 NYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLG 289
           NYSL+I+SL R N++DS++LQKLY+EIECDK+ELD QL ND+IVGFAKAGD SKA+ FLG
Sbjct: 235 NYSLIIRSLMRKNRVDSAILQKLYREIECDKLELDVQLSNDIIVGFAKAGDLSKALEFLG 294

Query: 290 MAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMG 349
           + QG GLS KTAT  AVI AL N GRT+EAEA+FEE++++GLKPRT+AYNALL+GYVK G
Sbjct: 295 VVQGSGLSVKTATLVAVIWALGNCGRTVEAEAIFEEMRDNGLKPRTRAYNALLRGYVKAG 354

Query: 350 YLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYS 409
            LKDAEFVVSEMERSGV P+E TYS LIDAY NAGRWESARIVLKEME S+ +PN++++S
Sbjct: 355 LLKDAEFVVSEMERSGVSPNEQTYSFLIDAYGNAGRWESARIVLKEMEASNVQPNAYVFS 414

Query: 410 RILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSE 469
           RIL+ YRD+GEWQ++FQVL+EM++SGV PD  FYNVMIDTFGK+NCL HAMA FDRMLSE
Sbjct: 415 RILSSYRDKGEWQKSFQVLREMENSGVRPDRVFYNVMIDTFGKFNCLDHAMATFDRMLSE 474

Query: 470 GIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDV 529
           GIEPDT+TWNTLIDCH + G++DRAEELFEEM E GY PC TT+NIMIN  G+QERW+DV
Sbjct: 475 GIEPDTVTWNTLIDCHCRAGKHDRAEELFEEMMEGGYSPCNTTFNIMINSFGDQERWDDV 534

Query: 530 KRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLE-------------------- 569
           K LL +MR+QGL+PN VTYTTL+DIYG+SGRF+DAIECL+                    
Sbjct: 535 KNLLAHMRSQGLVPNSVTYTTLIDIYGKSGRFNDAIECLDDMKAAGLKPSSTMYNALINA 594

Query: 570 ----GLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPD 625
               GLS+QAV+AFR MR DGLKPS LALNSLINAFGED+RDAEAF VLQYMKEN LKPD
Sbjct: 595 YAQRGLSEQAVSAFRAMRVDGLKPSLLALNSLINAFGEDRRDAEAFTVLQYMKENDLKPD 654

Query: 626 VVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPDRKARAMLRSALRYMKQTLK 679
           VVTYTTLMKALIRV+KF KVP+VYEEMILSGCTPDRKARAMLRSAL+YMKQTL+
Sbjct: 655 VVTYTTLMKALIRVEKFDKVPSVYEEMILSGCTPDRKARAMLRSALKYMKQTLE 708

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255539196|ref|XP_002510663.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223551364|gb|EEF52850.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  991 bits (2562), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 494/702 (70%), Positives = 575/702 (81%), Gaps = 33/702 (4%)

Query: 1   MILLPPQPLSVRFPAIHSACPITRHHVIFQPAFSVSTITGITTATASGESSFSSSSFTSK 60
           M+L PP P + RFP+I   CPI   H          + T  +    +   S  S S  + 
Sbjct: 1   MLLFPPPP-ATRFPSITVTCPIPVRHYHHHSQLPPLSATNTSATAIASSFSNLSLSLDNN 59

Query: 61  QNDTEEEEEDDDDVLSLQKQRYDFTPLLNFLSENSNSESASALASSPSSLNRVEFKLAES 120
           Q DTE+      D+L+LQ +RYDFTPLLNFLS  +  +++   +SSP+SL+  EF+LAES
Sbjct: 60  QKDTEQ------DILALQSRRYDFTPLLNFLS--NQIKASPNTSSSPTSLDTTEFQLAES 111

Query: 121 YRAVPAPLWHSLLKNLCSSNSSIDLAYAVVSWLQKHNLCYSYELLYSILIHALGRSEKLY 180
           YRAVP PLWHSLLK+L SS+SSI LAYAVVSWLQKHNLC+SYELLYSILIHALGRSEKLY
Sbjct: 112 YRAVPGPLWHSLLKSLSSSSSSIGLAYAVVSWLQKHNLCFSYELLYSILIHALGRSEKLY 171

Query: 181 EAFLLSQRQRLTPLTYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTR 240
           EAFLLSQ+Q L+PLTYNALI+ACARN+DLEKA+NL+S+MRQDGY  DF+NYSL+IQSL R
Sbjct: 172 EAFLLSQQQALSPLTYNALINACARNNDLEKAINLISRMRQDGYPSDFVNYSLIIQSLVR 231

Query: 241 TNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKT 300
           +N+IDS +LQKLY EI+CDK+ELD QL ND+IVGFAKAGD +KAM FLGM Q  GLSP+T
Sbjct: 232 SNRIDSPILQKLYSEIQCDKLELDVQLSNDIIVGFAKAGDPNKAMEFLGMVQASGLSPRT 291

Query: 301 ATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSE 360
           AT  AVI+AL +SGR IEAEA+FEE+K++GLKP+T+AYN LLKGYVK G LKDAEF+VSE
Sbjct: 292 ATLIAVISALGDSGRIIEAEAIFEEMKDNGLKPKTRAYNGLLKGYVKAGMLKDAEFIVSE 351

Query: 361 MERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGE 420
           MERSGV PDE TYSLLIDAY+NAGRWESARIVLKEME ++  PNS+++SRILA YRDRGE
Sbjct: 352 MERSGVSPDECTYSLLIDAYSNAGRWESARIVLKEMEANNIMPNSYVFSRILASYRDRGE 411

Query: 421 WQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNT 480
           WQ++FQVLKEMK+SGV PD HFYNVMIDTFGK++CL HAM  FD+MLSEGI+PDT+TWNT
Sbjct: 412 WQKSFQVLKEMKNSGVRPDRHFYNVMIDTFGKFSCLDHAMDTFDKMLSEGIQPDTVTWNT 471

Query: 481 LIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQG 540
           LIDCH K   ++RAEELFEEM E+G+ PC TT+NIMIN  GEQERW+DVK L+GNMR+ G
Sbjct: 472 LIDCHCKAELHERAEELFEEMMEKGFSPCVTTFNIMINSFGEQERWDDVKTLMGNMRSLG 531

Query: 541 LLPNVVTYTTLVDIYGQSGRFDDAIECLE------------------------GLSDQAV 576
           LLPNVVTYTTL+DIYG+SGRF DAIECLE                        GLS+QAV
Sbjct: 532 LLPNVVTYTTLIDIYGKSGRFSDAIECLEDMKSAGLKPSSTMYNALINAYAQKGLSEQAV 591

Query: 577 NAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKAL 636
           NAFR+MR D LKPS LALNSLINAFGED+RDAEAF+VL+YMKEN LKPDVVTYTTLMKAL
Sbjct: 592 NAFRLMRADSLKPSLLALNSLINAFGEDRRDAEAFSVLKYMKENDLKPDVVTYTTLMKAL 651

Query: 637 IRVDKFHKVPAVYEEMILSGCTPDRKARAMLRSALRYMKQTL 678
           IRVDKF+KVP+VYEEMIL+GCTPDRKARAMLRSAL+YMKQTL
Sbjct: 652 IRVDKFNKVPSVYEEMILAGCTPDRKARAMLRSALKYMKQTL 693

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356508736|ref|XP_003523110.1| PREDICTED: pentatricopeptide repeat-containing protein At5g42310, mitochondrial-like [Glycine max]

 Score =  984 bits (2543), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 488/709 (68%), Positives = 557/709 (78%), Gaps = 58/709 (8%)

Query: 1   MILLPPQPLSVRFPA--IHSACPITRHHVIFQPAFSVSTITGITTATASGESSFSSSSFT 58
           M LLPPQ  +  FP+   H        H +  P  S S IT   T               
Sbjct: 1   MNLLPPQLTTTPFPSPSTHRHSHHNNIHFLPPPQSSASPITAKPTIL------------- 47

Query: 59  SKQNDTEEEEEDDDDVLSLQKQRYDFTPLLNFLSENSNSESASALASSPSSLNRVEFKLA 118
                    EE  DD+LSL  +RYDFTPLL+FLS  SNS       S P+SL+  EF+LA
Sbjct: 48  ---------EEGPDDILSLHNRRYDFTPLLSFLSTTSNS-------SPPTSLDSTEFQLA 91

Query: 119 ESYRAVPAPLWHSLLKNLCSSNSS---IDLAYAVVSWLQKHNLCYSYELLYSILIHALGR 175
           ESYRAVPAPLWH+ LK+LC+S+SS   I LAYAVVSWLQKHNLC+SYELLYSILI+ALGR
Sbjct: 92  ESYRAVPAPLWHAFLKSLCASSSSSSSIALAYAVVSWLQKHNLCFSYELLYSILINALGR 151

Query: 176 SEKLYEAFLLSQRQRLTPLTYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVI 235
           SEKLYEAFLLSQRQ LTPLTYNALI ACARN D+EKALNLMSKMR+DGY  DF+NYS +I
Sbjct: 152 SEKLYEAFLLSQRQVLTPLTYNALIGACARNGDVEKALNLMSKMRRDGYQPDFVNYSSII 211

Query: 236 QSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVG 295
           Q LTR+NKIDS +LQKLY EIE DKIE+DG L+ND+IVGF+KAGD ++AMRFL MAQ  G
Sbjct: 212 QYLTRSNKIDSPILQKLYAEIETDKIEIDGHLMNDIIVGFSKAGDPTRAMRFLAMAQSNG 271

Query: 296 LSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAE 355
           L+PK +T  AVI AL NSGRT EAEA+FEE++E+GL+PRT+AYNALLKGYV+ G LKDAE
Sbjct: 272 LNPKPSTLVAVILALGNSGRTHEAEALFEEIRENGLEPRTRAYNALLKGYVRTGSLKDAE 331

Query: 356 FVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGY 415
           FVVSEME++GV PDE TYSLLID YA+AGRWESARIVLKEME S+ +PNS+++SRILA Y
Sbjct: 332 FVVSEMEKAGVKPDEQTYSLLIDVYAHAGRWESARIVLKEMEASNVQPNSYVFSRILANY 391

Query: 416 RDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDT 475
           RD+GEWQ++FQVLK+MKSSGV+PD HFYNVMIDTFGKYNCL HAMA F+RMLSEGI PD 
Sbjct: 392 RDKGEWQKSFQVLKDMKSSGVQPDRHFYNVMIDTFGKYNCLDHAMATFERMLSEGIPPDI 451

Query: 476 ITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGN 535
           +TWNTLIDCH K GR+D AEELF EMQ+RGY PC TTYNIMIN +GEQ+RWE V   L  
Sbjct: 452 VTWNTLIDCHCKSGRHDMAEELFSEMQQRGYSPCITTYNIMINSMGEQQRWEQVTAFLSK 511

Query: 536 MRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLE------------------------GL 571
           M++QGL PN +TYTTLVD+YG+SGRF DAIECLE                        GL
Sbjct: 512 MQSQGLQPNSITYTTLVDVYGKSGRFSDAIECLEVLKSTGFKPTSTMYNALINAYAQRGL 571

Query: 572 SDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTT 631
           S+ AVNAFR+M T+GL PS LALNSLINAFGED+RDAEAFAVLQYMKEN ++PDVVTYTT
Sbjct: 572 SELAVNAFRLMTTEGLTPSLLALNSLINAFGEDRRDAEAFAVLQYMKENNIEPDVVTYTT 631

Query: 632 LMKALIRVDKFHKVPAVYEEMILSGCTPDRKARAMLRSALRYMKQTLKT 680
           LMKALIRV+KF KVPAVYEEM+ SGCTPDRKARAMLRSALRYMKQTLK+
Sbjct: 632 LMKALIRVEKFQKVPAVYEEMVASGCTPDRKARAMLRSALRYMKQTLKS 680

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147859909|emb|CAN83144.1| hypothetical protein VITISV_040783 [Vitis vinifera]

 Score =  979 bits (2531), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 486/681 (71%), Positives = 552/681 (81%), Gaps = 30/681 (4%)

Query: 2   ILLPPQPLSVRFPAIHSACPITRHHVIFQPAFSVSTITGITTATASGESSFSSSSFTSKQ 61
           +LL P PL  RFP+ H   P+ R H I QP    +T       TASGE+S     F+   
Sbjct: 72  MLLLPAPLPTRFPSYHFLSPVLRDHRILQPPLLATTSA--AVTTASGEAS----QFSKPL 125

Query: 62  NDTEEEEEDDDDVLSLQKQRYDFTPLLNFLSEN-SNSESASALASSP-SSLNRVEFKLAE 119
           N    E     D+ S+  +RYDFTPLL FLS + S+S+S + + S P +SL+  EF+L E
Sbjct: 126 N----EYGSSGDLNSVPNRRYDFTPLLRFLSNSESDSDSGAEVESPPPTSLDFTEFQLVE 181

Query: 120 SYRAVPAPLWHSLLKNLCSSNSSIDLAYAVVSWLQKHNLCYSYELLYSILIHALGRSEKL 179
           SYRAVPAPLWHSLLK+LCS +SSI  AY++V+WL++HNLC+SYELLYSILIHALGRSEKL
Sbjct: 182 SYRAVPAPLWHSLLKSLCSDSSSIGTAYSLVTWLERHNLCFSYELLYSILIHALGRSEKL 241

Query: 180 YEAFLLSQRQRLTPLTYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLT 239
           YEAFLLSQRQ LTPLTYNALI ACARNDDLEKALNLMS+MR+DGY  DF+NYS +IQSLT
Sbjct: 242 YEAFLLSQRQTLTPLTYNALIGACARNDDLEKALNLMSRMRRDGYPSDFVNYSFIIQSLT 301

Query: 240 RTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPK 299
           RTNK DSS+LQK+Y EIE DKIELDGQLLND+IVGFAK+GD ++AM FL M QG GLSPK
Sbjct: 302 RTNKSDSSMLQKIYAEIESDKIELDGQLLNDIIVGFAKSGDVNRAMSFLAMVQGNGLSPK 361

Query: 300 TATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVS 359
           TAT  AVITAL N+GRT EAEA+FEELKE GL PRT+AYNALLKGYVK G LKDAE +VS
Sbjct: 362 TATLVAVITALGNAGRTEEAEAIFEELKEGGLMPRTRAYNALLKGYVKTGSLKDAESIVS 421

Query: 360 EMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRG 419
           EMERSG  PDEHTYSLLIDAYANAGRWESARIVLKEME S  +PNS+++SRILA YRDRG
Sbjct: 422 EMERSGFSPDEHTYSLLIDAYANAGRWESARIVLKEMEASGVRPNSYVFSRILASYRDRG 481

Query: 420 EWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWN 479
           +WQ++FQVL+EM++SGV PD HFYNVMIDTFGK NCL HA+A FDRM  EG++PD +TWN
Sbjct: 482 KWQKSFQVLREMRNSGVSPDRHFYNVMIDTFGKCNCLDHALATFDRMRMEGVQPDAVTWN 541

Query: 480 TLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQ 539
           TLIDCH K G +++AEELFE MQE G  PCTTTYNIMIN  GEQERWEDVK LLG M++Q
Sbjct: 542 TLIDCHCKSGHHNKAEELFEAMQESGCSPCTTTYNIMINSFGEQERWEDVKTLLGKMQSQ 601

Query: 540 GLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLIN 599
           GLL NVVTYTTL                  GLS+QA+NAFRVMR DGLKPS L LNSLIN
Sbjct: 602 GLLANVVTYTTL------------------GLSEQAINAFRVMRADGLKPSVLVLNSLIN 643

Query: 600 AFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTP 659
           AFGED+RDAEAF+VLQYMKEN LKPDVVTYTTLMKALIRV+KF KVPAVYEEM LSGCTP
Sbjct: 644 AFGEDRRDAEAFSVLQYMKENDLKPDVVTYTTLMKALIRVEKFDKVPAVYEEMTLSGCTP 703

Query: 660 DRKARAMLRSALRYMKQTLKT 680
           DRKARAMLRSALRYM++TLK+
Sbjct: 704 DRKARAMLRSALRYMERTLKS 724

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297795313|ref|XP_002865541.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata] gi|297311376|gb|EFH41800.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata]

 Score =  978 bits (2528), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 477/647 (73%), Positives = 542/647 (83%), Gaps = 33/647 (5%)

Query: 63  DTEEEEEDDDDVLSLQKQRYDFTPLLNFLSENSNSE------SASALASSPSSLNRVEFK 116
           DT EE   DD+  S   +RYDF+PLL FLS     E      S S   +SP SLN VEF+
Sbjct: 66  DTNEE---DDEFSSEVHRRYDFSPLLKFLSRFGPVELVLDSESESESEASPESLNPVEFE 122

Query: 117 LAESYRAVPAPLWHSLLKNLCSSNSSIDLAYAVVSWLQKHNLCYSYELLYSILIHALGRS 176
           L ESY AVPAP WHSL+K+LCSS SS+ LAYAVVSWLQKHNLC+SYELLYSILIHALGRS
Sbjct: 123 LVESYSAVPAPYWHSLIKSLCSSTSSLGLAYAVVSWLQKHNLCFSYELLYSILIHALGRS 182

Query: 177 EKLYEAFLLSQRQRLTPLTYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQ 236
           EKLYEAFLLSQ+Q LTPLTYNALI ACARN+D+EKALNL+S+MRQDGY  DF+NYSLVIQ
Sbjct: 183 EKLYEAFLLSQKQTLTPLTYNALIGACARNNDIEKALNLISRMRQDGYQSDFVNYSLVIQ 242

Query: 237 SLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGL 296
           SLTR NKIDS +LQ+LYKEIE DK+ELD QL+ND+I+GFAK+GD S+A++ LGMAQ  GL
Sbjct: 243 SLTRCNKIDSVMLQRLYKEIERDKLELDVQLVNDIIMGFAKSGDPSRALQLLGMAQATGL 302

Query: 297 SPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEF 356
           S KTAT  ++I+AL+NSGRT+EAEA+FEEL++SG+KPRTKAYNALLKGYVK G LKDAE 
Sbjct: 303 SAKTATLVSIISALANSGRTLEAEALFEELRQSGIKPRTKAYNALLKGYVKTGPLKDAEL 362

Query: 357 VVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYR 416
           +VSEME+ GV PDEHTYSLLIDAY NAGRWESARIVLKEME    +PNSF++SR+LAGYR
Sbjct: 363 MVSEMEKRGVSPDEHTYSLLIDAYVNAGRWESARIVLKEMETGDVQPNSFVFSRLLAGYR 422

Query: 417 DRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTI 476
           DRGEWQ+TFQVLKEMKS GV+PD  FYNV+IDTFGK+NCL HAM  FDRMLSEGIEPD +
Sbjct: 423 DRGEWQKTFQVLKEMKSIGVKPDRQFYNVVIDTFGKFNCLDHAMTTFDRMLSEGIEPDRV 482

Query: 477 TWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNM 536
           TWNTLIDCH K GR+  AEE+FE M+ RG  PC TTYNIMIN  G+QERW+D+KRLLG M
Sbjct: 483 TWNTLIDCHCKHGRHIVAEEMFEAMERRGCLPCATTYNIMINSYGDQERWDDMKRLLGKM 542

Query: 537 RAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLE------------------------GLS 572
           ++QG+LPNVVT+TTLVD+YG+SGRF+DAIECLE                        GLS
Sbjct: 543 KSQGILPNVVTHTTLVDVYGKSGRFNDAIECLEEMKSVGLKPSSTMYNALINAYAQRGLS 602

Query: 573 DQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTL 632
           +QAVNAFRVM +DGLKPS LALNSLINAFGED+RDAEAFAVLQYMKENG+KPDVVTYTTL
Sbjct: 603 EQAVNAFRVMTSDGLKPSLLALNSLINAFGEDRRDAEAFAVLQYMKENGVKPDVVTYTTL 662

Query: 633 MKALIRVDKFHKVPAVYEEMILSGCTPDRKARAMLRSALRYMKQTLK 679
           MKALIRVDKF KVP VYEEMI+SGC PDRKAR+MLRSALRYMKQTL+
Sbjct: 663 MKALIRVDKFQKVPGVYEEMIMSGCKPDRKARSMLRSALRYMKQTLR 709

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224065693|ref|XP_002301924.1| predicted protein [Populus trichocarpa] gi|222843650|gb|EEE81197.1| predicted protein [Populus trichocarpa]

 Score =  968 bits (2503), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 483/712 (67%), Positives = 571/712 (80%), Gaps = 37/712 (5%)

Query: 2   ILLPPQPLSVRFPAIHSACPI-TRHHVIFQPAFSVSTITGITTATASGESSFSSSSFTSK 60
           +LL PQPL  RFP+I    PI   HH I QP  + +  T   TAT   +SSF    ++ +
Sbjct: 1   MLLFPQPLPNRFPSISITSPIFQHHHRILQPQLAATPTTTALTATNLTDSSFP---YSKR 57

Query: 61  QNDTEEEEEDDDDV--------LSLQKQRYDFTPLLNFLSEN-SNSESASALASSPSSLN 111
            ++T + + +D           L LQ  RYDFTPL+N+LS   S S  + + ++SP+SL+
Sbjct: 58  HHETSQNDIEDYYNDDDDDDDILPLQSLRYDFTPLINYLSNKISTSTDSDSDSASPTSLD 117

Query: 112 RVEFKLAESYRAVPAPLWHSLLKNLCSSNSSIDLAYAVVSWLQKHNLCYSYELLYSILIH 171
             EF+LAESYR VP PLWHSLLK+LC+S+SSI LAYAVVSWLQKHNLC+SYELLYSILIH
Sbjct: 118 STEFQLAESYRVVPGPLWHSLLKSLCTSSSSIPLAYAVVSWLQKHNLCFSYELLYSILIH 177

Query: 172 ALGRSEKLYEAFLLSQRQRLTPLTYNALISACARNDDLEKALNLMSKMRQDGYHCDFINY 231
           ALG+SEKLYEAFLLSQ+Q LTPLTYNALISACARN+D+EKALNL+ +MR+DGY  D +NY
Sbjct: 178 ALGQSEKLYEAFLLSQKQNLTPLTYNALISACARNNDIEKALNLICRMREDGYPSDLVNY 237

Query: 232 SLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGMA 291
           SL+I+SL + N+ +SS+LQK+Y+EI+ DK+E+D QL ND+IVGFAKAGD  KA+ FLG+ 
Sbjct: 238 SLIIRSLMKNNRANSSILQKIYREIDRDKLEVDVQLWNDIIVGFAKAGDLDKALEFLGVV 297

Query: 292 QGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYL 351
           QG GLS KTAT   VI  L N GRT EAEA+FEE++++GL+PRT+AYNALL+GYVK G L
Sbjct: 298 QGSGLSVKTATLVTVIWGLGNCGRTEEAEAIFEEMRDNGLQPRTRAYNALLRGYVKAGLL 357

Query: 352 KDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRI 411
           +DAEFVVSEMERSGVLP+E TYSLLIDAY NA RWESARIVLKEME S+ +PN++++SRI
Sbjct: 358 RDAEFVVSEMERSGVLPNEQTYSLLIDAYGNAERWESARIVLKEMEASNVQPNAYVFSRI 417

Query: 412 LAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGI 471
           LA YRD+GEWQ+TFQVL+EM+ SGV PD  FYNV+IDTFGK+NCL HAMA FDRMLSEGI
Sbjct: 418 LASYRDKGEWQKTFQVLREMEDSGVRPDRIFYNVLIDTFGKFNCLDHAMATFDRMLSEGI 477

Query: 472 EPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKR 531
           EPDTITWNTL+DCH K G++DRAEELFEEM E+GY PC TT+NIMIN  G+QERW+DVK 
Sbjct: 478 EPDTITWNTLVDCHCKAGKHDRAEELFEEMMEKGYLPCNTTFNIMINSFGDQERWDDVKN 537

Query: 532 LLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLE---------------------- 569
           LL NMR+QGLLPN VTYTTL+DIYG+SGRFDDAIECL+                      
Sbjct: 538 LLTNMRSQGLLPNAVTYTTLIDIYGKSGRFDDAIECLDDMKAAGLKPSSTMYNALLNAYA 597

Query: 570 --GLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVV 627
             GLSDQAV+AF  MR DGLKPS LALNSLINAFG+D+RD EAF VLQYMKEN LKPDVV
Sbjct: 598 QRGLSDQAVSAFWAMRDDGLKPSLLALNSLINAFGKDRRDVEAFVVLQYMKENDLKPDVV 657

Query: 628 TYTTLMKALIRVDKFHKVPAVYEEMILSGCTPDRKARAMLRSALRYMKQTLK 679
           TYTTLMKALI V+KF KVP+VYEEMILSGCTPDRKARAMLRSAL+YMKQTL+
Sbjct: 658 TYTTLMKALILVEKFDKVPSVYEEMILSGCTPDRKARAMLRSALKYMKQTLE 709

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15238925|ref|NP_199046.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|75154282|sp|Q8L844.1|PP413_ARATH RecName: Full=Pentatricopeptide repeat-containing protein At5g42310, mitochondrial; Flags: Precursor gi|21539517|gb|AAM53311.1| maize crp1 protein-like [Arabidopsis thaliana] gi|332007411|gb|AED94794.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana]

 Score =  965 bits (2495), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 494/709 (69%), Positives = 573/709 (80%), Gaps = 32/709 (4%)

Query: 1   MILLPPQPL-SVRFPAIHSACPITRHHV-IFQPAFSVSTITGITTATASGESSFSSSSFT 58
           M+LL   PL S RF +++       HH   FQP   +S  +  T+A+    S  SSSS+ 
Sbjct: 1   MLLLQQPPLVSTRFHSLYFLTHHHHHHHRFFQPP--ISAFSATTSASLPSPSPSSSSSYF 58

Query: 59  SKQNDTEEEEEDDDDVLSLQKQRYDFTPLLNFLSENSNSESA----SALASSPSSLNRVE 114
           S  N  +  EE+D++  S   +RYDF+PLL FLS     E A    S   +SP SLN VE
Sbjct: 59  SSWNGLDTNEEEDNEFSSEVHRRYDFSPLLKFLSRFGPVELALDSESESEASPESLNPVE 118

Query: 115 FKLAESYRAVPAPLWHSLLKNLCSSNSSIDLAYAVVSWLQKHNLCYSYELLYSILIHALG 174
           F L ESYRAVPAP WHSL+K+L SS SS+ LAYAVVSWLQKHNLC+SYELLYSILIHALG
Sbjct: 119 FDLVESYRAVPAPYWHSLIKSLTSSTSSLGLAYAVVSWLQKHNLCFSYELLYSILIHALG 178

Query: 175 RSEKLYEAFLLSQRQRLTPLTYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLV 234
           RSEKLYEAFLLSQ+Q LTPLTYNALI ACARN+D+EKALNL++KMRQDGY  DF+NYSLV
Sbjct: 179 RSEKLYEAFLLSQKQTLTPLTYNALIGACARNNDIEKALNLIAKMRQDGYQSDFVNYSLV 238

Query: 235 IQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGV 294
           IQSLTR+NKIDS +L +LYKEIE DK+ELD QL+ND+I+GFAK+GD SKA++ LGMAQ  
Sbjct: 239 IQSLTRSNKIDSVMLLRLYKEIERDKLELDVQLVNDIIMGFAKSGDPSKALQLLGMAQAT 298

Query: 295 GLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDA 354
           GLS KTAT  ++I+AL++SGRT+EAEA+FEEL++SG+KPRT+AYNALLKGYVK G LKDA
Sbjct: 299 GLSAKTATLVSIISALADSGRTLEAEALFEELRQSGIKPRTRAYNALLKGYVKTGPLKDA 358

Query: 355 EFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAG 414
           E +VSEME+ GV PDEHTYSLLIDAY NAGRWESARIVLKEME    +PNSF++SR+LAG
Sbjct: 359 ESMVSEMEKRGVSPDEHTYSLLIDAYVNAGRWESARIVLKEMEAGDVQPNSFVFSRLLAG 418

Query: 415 YRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPD 474
           +RDRGEWQ+TFQVLKEMKS GV+PD  FYNV+IDTFGK+NCL HAM  FDRMLSEGIEPD
Sbjct: 419 FRDRGEWQKTFQVLKEMKSIGVKPDRQFYNVVIDTFGKFNCLDHAMTTFDRMLSEGIEPD 478

Query: 475 TITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLG 534
            +TWNTLIDCH K GR+  AEE+FE M+ RG  PC TTYNIMIN  G+QERW+D+KRLLG
Sbjct: 479 RVTWNTLIDCHCKHGRHIVAEEMFEAMERRGCLPCATTYNIMINSYGDQERWDDMKRLLG 538

Query: 535 NMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLE------------------------G 570
            M++QG+LPNVVT+TTLVD+YG+SGRF+DAIECLE                        G
Sbjct: 539 KMKSQGILPNVVTHTTLVDVYGKSGRFNDAIECLEEMKSVGLKPSSTMYNALINAYAQRG 598

Query: 571 LSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYT 630
           LS+QAVNAFRVM +DGLKPS LALNSLINAFGED+RDAEAFAVLQYMKENG+KPDVVTYT
Sbjct: 599 LSEQAVNAFRVMTSDGLKPSLLALNSLINAFGEDRRDAEAFAVLQYMKENGVKPDVVTYT 658

Query: 631 TLMKALIRVDKFHKVPAVYEEMILSGCTPDRKARAMLRSALRYMKQTLK 679
           TLMKALIRVDKF KVP VYEEMI+SGC PDRKAR+MLRSALRYMKQTL+
Sbjct: 659 TLMKALIRVDKFQKVPVVYEEMIMSGCKPDRKARSMLRSALRYMKQTLR 707

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449453081|ref|XP_004144287.1| PREDICTED: pentatricopeptide repeat-containing protein At5g42310, mitochondrial-like [Cucumis sativus] gi|449489420|ref|XP_004158306.1| PREDICTED: pentatricopeptide repeat-containing protein At5g42310, mitochondrial-like [Cucumis sativus]

 Score =  965 bits (2494), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 487/715 (68%), Positives = 572/715 (80%), Gaps = 54/715 (7%)

Query: 11  VRFPAIH-SACPITRHHV----IFQPAFSVSTITGITTATASGESSFSSSSFTSKQNDTE 65
            RFPA H S+ P+  HH     I     S S  +   T+++S  + ++SS       D  
Sbjct: 11  TRFPATHLSSPPVFLHHHHNPHIATTHLSFSFFSAPATSSSSLVTCYTSS-------DNL 63

Query: 66  EEEEDDDDVLSLQKQRYDFTPLLNFLSENS-----NSESASAL-------------ASSP 107
           E +  ++D +SLQ +RYDFTPLL+FLS +S     +S+S S +              +SP
Sbjct: 64  EFDVFENDPVSLQSRRYDFTPLLDFLSRSSAYPKFDSDSDSEVEFDSTFNSGSDSDTASP 123

Query: 108 SSLNRVEFKLAESYRAVPAPLWHSLLKNLCSSNSSIDLAYAVVSWLQKHNLCYSYELLYS 167
           +SL+  EF+LAE+YRAVPAPLWHSLLK+LCSS+SSI L YAVVSWLQ+HNLC+SYELLYS
Sbjct: 124 TSLDPTEFQLAEAYRAVPAPLWHSLLKSLCSSSSSIGLGYAVVSWLQRHNLCFSYELLYS 183

Query: 168 ILIHALGRSEKLYEAFLLSQRQRLTPLTYNALISACARNDDLEKALNLMSKMRQDGYHCD 227
           ILIHALGRSEKLYEAF+LSQ+Q LTPLTYNALI ACARN+DLEKALNLMS+MRQDG+  D
Sbjct: 184 ILIHALGRSEKLYEAFILSQKQTLTPLTYNALIGACARNNDLEKALNLMSRMRQDGFQSD 243

Query: 228 FINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMRF 287
           FINYSL+IQSLTRTNKID  LLQKLY+EIE DKIELDG LLND+I+GFAKAGD ++A+ F
Sbjct: 244 FINYSLIIQSLTRTNKIDIPLLQKLYEEIESDKIELDGLLLNDIILGFAKAGDPNRALYF 303

Query: 288 LGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVK 347
           L M Q  GL+PKT+T+ AVI+AL N GRT EAEA+FEE+KE GLKPR KA+NALLKGY +
Sbjct: 304 LSMVQASGLNPKTSTFVAVISALGNHGRTEEAEAIFEEMKEGGLKPRIKAFNALLKGYAR 363

Query: 348 MGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFI 407
            G LK+AE ++SEME+SG+ PDEHTY LL+DAYAN GRWESAR +LK+ME  + +PN+FI
Sbjct: 364 KGSLKEAESIISEMEKSGLSPDEHTYGLLVDAYANVGRWESARHLLKQMEARNVQPNTFI 423

Query: 408 YSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRML 467
           +SRILA YRDRGEWQ+TF+VL+EMK+S V+PD HFYNVMIDTFGK+NCL HAM  +DRML
Sbjct: 424 FSRILASYRDRGEWQKTFEVLREMKNSNVKPDRHFYNVMIDTFGKFNCLDHAMETYDRML 483

Query: 468 SEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWE 527
           SEGIEPD +TWNTLIDCH K G +DRA ELFEEMQERGY PC TTYNIMIN LGEQE+W+
Sbjct: 484 SEGIEPDVVTWNTLIDCHRKHGYHDRAAELFEEMQERGYLPCPTTYNIMINSLGEQEKWD 543

Query: 528 DVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLE------------------ 569
           +VK LLG M++QGLLPNVVTYTTLVDIYG SGRF+DAI+CLE                  
Sbjct: 544 EVKILLGKMQSQGLLPNVVTYTTLVDIYGHSGRFNDAIDCLEAMKSAGLKPSATMYNALI 603

Query: 570 ------GLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLK 623
                 GLS+QAVNA+RVM +DGL+PS LALNSLINAFGED+RD EAF++LQYMKEN +K
Sbjct: 604 NAFAQRGLSEQAVNAYRVMISDGLRPSLLALNSLINAFGEDRRDIEAFSILQYMKENDVK 663

Query: 624 PDVVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPDRKARAMLRSALRYMKQTL 678
           PDVVTYTTLMKALIRVDKF KVPAVYEEMILSGCTPD KARAMLRSALRYMK+TL
Sbjct: 664 PDVVTYTTLMKALIRVDKFDKVPAVYEEMILSGCTPDGKARAMLRSALRYMKRTL 718

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356517404|ref|XP_003527377.1| PREDICTED: pentatricopeptide repeat-containing protein At5g42310, mitochondrial-like [Glycine max]

 Score =  958 bits (2476), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 484/704 (68%), Positives = 562/704 (79%), Gaps = 32/704 (4%)

Query: 1   MILLPPQPLSVRFPAIHSACPITRHHVIFQPAFSVSTITGITTATASGESSFSSSSFTSK 60
           M LLPPQ  +  FP+I  +  +T  H    P                     +++  T+K
Sbjct: 1   MFLLPPQLTTAPFPSI--SIHVTHFHF---PTTHHRHNHNHNHNHVLPPPQSTANPITAK 55

Query: 61  QNDTEEEEEDDDDVLSLQKQRYDFTPLLNFLSENSNSESASALASSPSSLNRVEFKLAES 120
                  EE  DD+LS   +RYDFTPLL FLS  S +  + + ++ P+SL   EF+LAES
Sbjct: 56  PIIL---EEGPDDILSFHNRRYDFTPLLTFLSNPSTTSDSDSNSTPPTSLGSTEFQLAES 112

Query: 121 YRAVPAPLWHSLLKNLCSSNSSIDLAYAVVSWLQKHNLCYSYELLYSILIHALGRSEKLY 180
           YRAVPAPLWH+LLK+LCSS+SSI LAYAVVSWLQKHNLC+SYELLYSILI+ALGRSEKLY
Sbjct: 113 YRAVPAPLWHALLKSLCSSSSSIALAYAVVSWLQKHNLCFSYELLYSILINALGRSEKLY 172

Query: 181 EAFLLSQRQRLTPLTYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTR 240
           EAFLLSQRQ LTPLTYNALI ACARN D+EKALNLMSKMR+DGY  DF+NYS +IQ LTR
Sbjct: 173 EAFLLSQRQVLTPLTYNALIGACARNGDVEKALNLMSKMRRDGYQPDFVNYSSIIQYLTR 232

Query: 241 TNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKT 300
           +NKIDS +LQKLY EIE DKIE+DG L+ND+I+GF+KAGD ++AMRFL MAQ  GL+PK 
Sbjct: 233 SNKIDSPILQKLYTEIETDKIEIDGHLMNDIILGFSKAGDPTRAMRFLAMAQSNGLNPKP 292

Query: 301 ATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSE 360
           +T  AVI AL NSGRT EAEA+FEE++E+G +PRT+AYNALLKGYVK G LKDAEFVVSE
Sbjct: 293 STLVAVILALGNSGRTHEAEALFEEIRENGSEPRTRAYNALLKGYVKTGSLKDAEFVVSE 352

Query: 361 MERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGE 420
           ME++GV PDE TYSLLIDAYA+AGRWESARIVLKEME S+ +PNS++YSRILA YRD+GE
Sbjct: 353 MEKAGVKPDEQTYSLLIDAYAHAGRWESARIVLKEMEASNVEPNSYVYSRILASYRDKGE 412

Query: 421 WQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNT 480
           WQ++FQVLK+MKS+GV+PD HFYNVMIDTFGKYNCL HAMA F+RMLSEGI PDT+TWNT
Sbjct: 413 WQKSFQVLKDMKSNGVQPDRHFYNVMIDTFGKYNCLDHAMATFERMLSEGIRPDTVTWNT 472

Query: 481 LIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQG 540
           LI+CH K GR++ AEELF EMQ+RGY PC TTYNIMIN +GEQ+RWE V   L  M++QG
Sbjct: 473 LINCHCKSGRHNMAEELFGEMQQRGYSPCITTYNIMINSMGEQQRWEQVSLFLSKMQSQG 532

Query: 541 LLPNVVTYTTLVDIYGQSGRFDDAIECLE------------------------GLSDQAV 576
           LLPN +TYTTLVD+YG+SGRF DAIECLE                        GLS+ AV
Sbjct: 533 LLPNSITYTTLVDVYGKSGRFSDAIECLEVLKSTGFKPTSTMYNALINAYAQRGLSELAV 592

Query: 577 NAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKAL 636
           NAFR+M T+GL PS LALNSLINAFGED+RDAEAFAVLQYMKEN ++PDVVTYTTLMKAL
Sbjct: 593 NAFRLMTTEGLTPSLLALNSLINAFGEDRRDAEAFAVLQYMKENNIEPDVVTYTTLMKAL 652

Query: 637 IRVDKFHKVPAVYEEMILSGCTPDRKARAMLRSALRYMKQTLKT 680
           IRV+KF KVPAVYEEM+ SGCTPDRKARAMLRSALRYMKQTLK+
Sbjct: 653 IRVEKFQKVPAVYEEMVTSGCTPDRKARAMLRSALRYMKQTLKS 696

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

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	680
TAIR|locus:2157607	709	AT5G42310 [Arabidopsis thalian	0.963	0.923	0.579	5.3e-198
TAIR|locus:2077061	619	AT3G22470 "AT3G22470" [Arabido	0.666	0.731	0.283	2.2e-50
TAIR|locus:2151281	819	AT5G02860 [Arabidopsis thalian	0.705	0.586	0.256	4.2e-50
TAIR|locus:2044430	822	AT2G18940 [Arabidopsis thalian	0.704	0.582	0.264	5.6e-48
TAIR|locus:2164910	747	EMB2745 "EMBRYO DEFECTIVE 2745	0.676	0.615	0.272	1.6e-47
TAIR|locus:2173403	730	AT5G64320 "AT5G64320" [Arabido	0.707	0.658	0.283	6e-47
TAIR|locus:2026192	630	RPF2 "rna processing factor 2"	0.726	0.784	0.265	1.4e-46
TAIR|locus:2015494	629	RPF3 "RNA processing factor 3"	0.702	0.759	0.279	2.1e-45
TAIR|locus:1009023134	644	AT1G12775 [Arabidopsis thalian	0.663	0.700	0.288	4.4e-45
TAIR|locus:2034760	637	AT1G12300 [Arabidopsis thalian	0.705	0.753	0.280	9.1e-45

TAIR|locus:2157607 AT5G42310 [Arabidopsis thaliana (taxid:3702)]

 Score = 1917 (679.9 bits), Expect = 5.3e-198, P = 5.3e-198
 Identities = 394/680 (57%), Positives = 469/680 (68%)

Query:     1 MILLPPQPL-SVRFPAIHSACPITRHHV----IFQPAFSVXXXXXXXXXXXXXXXXXXXX 55
             M+LL   PL S RF   HS   +T HH      FQP  S                     
Sbjct:     1 MLLLQQPPLVSTRF---HSLYFLTHHHHHHHRFFQPPISAFSATTSASLPSPSPSSSSSY 57

Query:    56 XXXXKQNXXXXXXXXXXXVLSLQKQRYDFTXXXXXXXXXXXXXXXXXXXXXXXXXXR--- 112
                   N             S   +RYDF+                              
Sbjct:    58 FSSW--NGLDTNEEEDNEFSSEVHRRYDFSPLLKFLSRFGPVELALDSESESEASPESLN 115

Query:   113 -VEFKLAESYRAVPAPLWHXXXXXXXXXXXXIDLAYAVVSWLQKHNLCYSYELLYSILIH 171
              VEF L ESYRAVPAP WH            + LAYAVVSWLQKHNLC+SYELLYSILIH
Sbjct:   116 PVEFDLVESYRAVPAPYWHSLIKSLTSSTSSLGLAYAVVSWLQKHNLCFSYELLYSILIH 175

Query:   172 ALGRSEKLYEAFLLSQRQRLTPLTYNALISACARNDDLEKALNLMSKMRQDGYHCDFINY 231
             ALGRSEKLYEAFLLSQ+Q LTPLTYNALI ACARN+D+EKALNL++KMRQDGY  DF+NY
Sbjct:   176 ALGRSEKLYEAFLLSQKQTLTPLTYNALIGACARNNDIEKALNLIAKMRQDGYQSDFVNY 235

Query:   232 SLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGMA 291
             SLVIQSLTR+NKIDS +L +LYKEIE DK+ELD QL+ND+I+GFAK+GD SKA++ LGMA
Sbjct:   236 SLVIQSLTRSNKIDSVMLLRLYKEIERDKLELDVQLVNDIIMGFAKSGDPSKALQLLGMA 295

Query:   292 QGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYL 351
             Q  GLS KTAT  ++I+AL++SGRT+EAEA+FEEL++SG+KPRT+AYNALLKGYVK G L
Sbjct:   296 QATGLSAKTATLVSIISALADSGRTLEAEALFEELRQSGIKPRTRAYNALLKGYVKTGPL 355

Query:   352 KDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRI 411
             KDAE +VSEME+ GV PDEHTYSLLIDAY NAGRWESARIVLKEME    +PNSF++SR+
Sbjct:   356 KDAESMVSEMEKRGVSPDEHTYSLLIDAYVNAGRWESARIVLKEMEAGDVQPNSFVFSRL 415

Query:   412 LAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGI 471
             LAG+RDRGEWQ+TFQVLKEMKS GV+PD  FYNV+IDTFGK+NCL HAM  FDRMLSEGI
Sbjct:   416 LAGFRDRGEWQKTFQVLKEMKSIGVKPDRQFYNVVIDTFGKFNCLDHAMTTFDRMLSEGI 475

Query:   472 EPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKR 531
             EPD +TWNTLIDCH K GR+  AEE+FE M+ RG  PC TTYNIMIN  G+QERW+D+KR
Sbjct:   476 EPDRVTWNTLIDCHCKHGRHIVAEEMFEAMERRGCLPCATTYNIMINSYGDQERWDDMKR 535

Query:   532 LLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSN 591
             LLG M++QG+LPNVVT+TTLVD+YG+SGRF+DAIECLE            M++ GLKPS+
Sbjct:   536 LLGKMKSQGILPNVVTHTTLVDVYGKSGRFNDAIECLEE-----------MKSVGLKPSS 584

Query:   592 LALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEE 651
                N+LINA+ +     +A    + M  +GLKP ++   +L+ A     +  +  AV + 
Sbjct:   585 TMYNALINAYAQRGLSEQAVNAFRVMTSDGLKPSLLALNSLINAFGEDRRDAEAFAVLQY 644

Query:   652 MILSGCTPDRKARAMLRSAL 671
             M  +G  PD      L  AL
Sbjct:   645 MKENGVKPDVVTYTTLMKAL 664

GO:0005739 "mitochondrion" evidence=ISM

GO:0009507 "chloroplast" evidence=IDA

TAIR|locus:2077061 AT3G22470 "AT3G22470" [Arabidopsis thaliana (taxid:3702)]

 Score = 524 (189.5 bits), Expect = 2.2e-50, P = 2.2e-50
 Identities = 132/466 (28%), Positives = 225/466 (48%)

Query:   195 TYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYK 254
             T   +I+   R   L  A +++ +  + GY  D I +S ++       ++ S  +  + +
Sbjct:   107 TMTIMINCYCRKKKLLFAFSVLGRAWKLGYEPDTITFSTLVNGFCLEGRV-SEAVALVDR 165

Query:   255 EIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSG 314
              +E  K   D   ++ +I G    G  S+A+  +      G  P   TY  V+  L  SG
Sbjct:   166 MVEM-KQRPDLVTVSTLINGLCLKGRVSEALVLIDRMVEYGFQPDEVTYGPVLNRLCKSG 224

Query:   315 RTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYS 374
              +  A  +F +++E  +K     Y+ ++    K G   DA  + +EME  G+  D  TYS
Sbjct:   225 NSALALDLFRKMEERNIKASVVQYSIVIDSLCKDGSFDDALSLFNEMEMKGIKADVVTYS 284

Query:   375 LLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSS 434
              LI    N G+W+    +L+EM   +  P+   +S ++  +   G+     ++  EM + 
Sbjct:   285 SLIGGLCNDGKWDDGAKMLREMIGRNIIPDVVTFSALIDVFVKEGKLLEAKELYNEMITR 344

Query:   435 GVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRA 494
             G+ PDT  YN +ID F K NCLH A   FD M+S+G EPD +T++ LI+ + K  R D  
Sbjct:   345 GIAPDTITYNSLIDGFCKENCLHEANQMFDLMVSKGCEPDIVTYSILINSYCKAKRVDDG 404

Query:   495 EELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDI 554
               LF E+  +G  P T TYN ++    +  +    K L   M ++G+ P+VVTY  L+D 
Sbjct:   405 MRLFREISSKGLIPNTITYNTLVLGFCQSGKLNAAKELFQEMVSRGVPPSVVTYGILLDG 464

Query:   555 YGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVL 614
                +G  + A+E  E +    +       T G+   N+ ++ + NA   D    +A+++ 
Sbjct:   465 LCDNGELNKALEIFEKMQKSRM-------TLGIGIYNIIIHGMCNASKVD----DAWSLF 513

Query:   615 QYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPD 660
               + + G+KPDVVTY  ++  L +     +   ++ +M   GCTPD
Sbjct:   514 CSLSDKGVKPDVVTYNVMIGGLCKKGSLSEADMLFRKMKEDGCTPD 559

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2151281 AT5G02860 [Arabidopsis thaliana (taxid:3702)]

 Score = 526 (190.2 bits), Expect = 4.2e-50, P = 4.2e-50
 Identities = 128/499 (25%), Positives = 238/499 (47%)

Query:   160 YSYE-LLYSILIHALGRSEKLYEAFLLSQRQRL---TP--LTYNALISACARNDDLEKAL 213
             +SY+ + Y+ L+   G+S +  EA  +     L   +P  +TYN+LISA AR+  L++A+
Sbjct:   310 FSYDKVTYNALLDVYGKSHRPKEAMKVLNEMVLNGFSPSIVTYNSLISAYARDGMLDEAM 369

Query:   214 NLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIV 273
              L ++M + G   D   Y+ ++    R  K++S++   +++E+     + +    N  I 
Sbjct:   370 ELKNQMAEKGTKPDVFTYTTLLSGFERAGKVESAM--SIFEEMRNAGCKPNICTFNAFIK 427

Query:   274 GFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKP 333
              +   G  ++ M+        GLSP   T+  ++     +G   E   VF+E+K +G  P
Sbjct:   428 MYGNRGKFTEMMKIFDEINVCGLSPDIVTWNTLLAVFGQNGMDSEVSGVFKEMKRAGFVP 487

Query:   334 RTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVL 393
               + +N L+  Y + G  + A  V   M  +GV PD  TY+ ++ A A  G WE +  VL
Sbjct:   488 ERETFNTLISAYSRCGSFEQAMTVYRRMLDAGVTPDLSTYNTVLAALARGGMWEQSEKVL 547

Query:   394 KEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKY 453
              EME    KPN   Y  +L  Y +  E      + +E+ S  +EP       ++    K 
Sbjct:   548 AEMEDGRCKPNELTYCSLLHAYANGKEIGLMHSLAEEVYSGVIEPRAVLLKTLVLVCSKC 607

Query:   454 NCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTY 513
             + L  A  AF  +   G  PD  T N+++  + +     +A  + + M+ERG+ P   TY
Sbjct:   608 DLLPEAERAFSELKERGFSPDITTLNSMVSIYGRRQMVAKANGVLDYMKERGFTPSMATY 667

Query:   514 NIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSD 573
             N ++ +      +   + +L  + A+G+ P++++Y T++  Y ++ R  DA         
Sbjct:   668 NSLMYMHSRSADFGKSEEILREILAKGIKPDIISYNTVIYAYCRNTRMRDASRI------ 721

Query:   574 QAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLM 633
                  F  MR  G+ P  +  N+ I ++  D    EA  V++YM ++G +P+  TY +++
Sbjct:   722 -----FSEMRNSGIVPDVITYNTFIGSYAADSMFEEAIGVVRYMIKHGCRPNQNTYNSIV 776

Query:   634 KALIRVDKFHKVPAVYEEM 652
                 ++++  +     E++
Sbjct:   777 DGYCKLNRKDEAKLFVEDL 795

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2044430 AT2G18940 [Arabidopsis thaliana (taxid:3702)]

 Score = 507 (183.5 bits), Expect = 5.6e-48, P = 5.6e-48
 Identities = 132/500 (26%), Positives = 240/500 (48%)

Query:   168 ILIHALGR-SEKLYEAFLLS----QRQRLTPLTYNALISACARNDDLEKALNLMSKMRQD 222
             I +  LGR S+    A LL     Q   L    Y  ++ A +R    EKA++L  +M++ 
Sbjct:   180 IFVRILGRESQYSVAAKLLDKIPLQEYLLDVRAYTTILHAYSRTGKYEKAIDLFERMKEM 239

Query:   223 GYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDAS 282
             G     + Y++++    +  +    +L  L  E+    ++ D    + V+   A+ G   
Sbjct:   240 GPSPTLVTYNVILDVFGKMGRSWRKILGVL-DEMRSKGLKFDEFTCSTVLSACAREGLLR 298

Query:   283 KAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALL 342
             +A  F    +  G  P T TY A++     +G   EA +V +E++E+     +  YN L+
Sbjct:   299 EAKEFFAELKSCGYEPGTVTYNALLQVFGKAGVYTEALSVLKEMEENSCPADSVTYNELV 358

Query:   343 KGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAK 402
               YV+ G+ K+A  V+  M + GV+P+  TY+ +IDAY  AG+ + A  +   M+ +   
Sbjct:   359 AAYVRAGFSKEAAGVIEMMTKKGVMPNAITYTTVIDAYGKAGKEDEALKLFYSMKEAGCV 418

Query:   403 PNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAA 462
             PN+  Y+ +L+    +       ++L +MKS+G  P+   +N M+   G           
Sbjct:   419 PNTCTYNAVLSLLGKKSRSNEMIKMLCDMKSNGCSPNRATWNTMLALCGNKGMDKFVNRV 478

Query:   463 FDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGE 522
             F  M S G EPD  T+NTLI  + +CG    A +++ EM   G+  C TTYN ++N L  
Sbjct:   479 FREMKSCGFEPDRDTFNTLISAYGRCGSEVDASKMYGEMTRAGFNACVTTYNALLNALAR 538

Query:   523 QERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGL--SDQAVNAFR 580
             +  W   + ++ +M+++G  P   +Y+ ++  Y + G +   IE +E      Q   ++ 
Sbjct:   539 KGDWRSGENVISDMKSKGFKPTETSYSLMLQCYAKGGNYL-GIERIENRIKEGQIFPSWM 597

Query:   581 VMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALIRVD 640
             ++RT  L  +N    +L    G ++    AF +    K++G KPD+V + +++    R +
Sbjct:   598 LLRT--LLLANFKCRALA---GSER----AFTLF---KKHGYKPDMVIFNSMLSIFTRNN 645

Query:   641 KFHKVPAVYEEMILSGCTPD 660
              + +   + E +   G +PD
Sbjct:   646 MYDQAEGILESIREDGLSPD 665

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2164910 EMB2745 "EMBRYO DEFECTIVE 2745" [Arabidopsis thaliana (taxid:3702)]

 Score = 500 (181.1 bits), Expect = 1.6e-47, P = 1.6e-47
 Identities = 128/469 (27%), Positives = 225/469 (47%)

Query:   194 LTYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLY 253
             +TYN LI    +   ++    L+  M   G   + I+Y++VI  L R  ++    +  + 
Sbjct:   241 VTYNTLIDGYCKLRKIDDGFKLLRSMALKGLEPNLISYNVVINGLCREGRMKE--VSFVL 298

Query:   254 KEIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNS 313
              E+      LD    N +I G+ K G+  +A+         GL+P   TY ++I ++  +
Sbjct:   299 TEMNRRGYSLDEVTYNTLIKGYCKEGNFHQALVMHAEMLRHGLTPSVITYTSLIHSMCKA 358

Query:   314 GRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTY 373
             G    A    ++++  GL P  + Y  L+ G+ + GY+ +A  V+ EM  +G  P   TY
Sbjct:   359 GNMNRAMEFLDQMRVRGLCPNERTYTTLVDGFSQKGYMNEAYRVLREMNDNGFSPSVVTY 418

Query:   374 SLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKS 433
             + LI+ +   G+ E A  VL++M+     P+   YS +L+G+    +     +V +EM  
Sbjct:   419 NALINGHCVTGKMEDAIAVLEDMKEKGLSPDVVSYSTVLSGFCRSYDVDEALRVKREMVE 478

Query:   434 SGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDR 493
              G++PDT  Y+ +I  F +      A   ++ ML  G+ PD  T+  LI+ +   G  ++
Sbjct:   479 KGIKPDTITYSSLIQGFCEQRRTKEACDLYEEMLRVGLPPDEFTYTALINAYCMEGDLEK 538

Query:   494 AEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVD 553
             A +L  EM E+G  P   TY+++IN L +Q R  + KRLL  +  +  +P+ VTY TL++
Sbjct:   539 ALQLHNEMVEKGVLPDVVTYSVLINGLNKQSRTREAKRLLLKLFYEESVPSDVTYHTLIE 598

Query:   554 IYGQSGRFDDAIE-----CLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDA 608
                    F   +      C++G+  +A   F  M     KP   A N +I+         
Sbjct:   599 NCSNI-EFKSVVSLIKGFCMKGMMTEADQVFESMLGKNHKPDGTAYNIMIHGHCRAGDIR 657

Query:   609 EAFAVLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMILSGC 657
             +A+ + + M ++G     VT   L+KAL +  K +++ +V    +L  C
Sbjct:   658 KAYTLYKEMVKSGFLLHTVTVIALVKALHKEGKVNELNSVIVH-VLRSC 705

GO:0005739 "mitochondrion" evidence=ISM;IDA

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

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

 Score = 494 (179.0 bits), Expect = 6.0e-47, P = 6.0e-47
 Identities = 143/504 (28%), Positives = 241/504 (47%)

Query:   161 SYELLYSILIHALGRSEKLY-EAF--LLSQRQRLTPLTYNALISACARNDDLEKALNLMS 217
             SY ++  IL+   G   K+    F  +LS++   T  T+  ++ A    ++++ AL+L+ 
Sbjct:   184 SYNVVLEILVS--GNCHKVAANVFYDMLSRKIPPTLFTFGVVMKAFCAVNEIDSALSLLR 241

Query:   218 KMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAK 277
              M + G   + + Y  +I SL++ N+++ +L  +L +E+       D +  NDVI+G  K
Sbjct:   242 DMTKHGCVPNSVIYQTLIHSLSKCNRVNEAL--QLLEEMFLMGCVPDAETFNDVILGLCK 299

Query:   278 AGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKA 337
                 ++A + +      G +P   TY  ++  L   GR   A+ +F  +     KP    
Sbjct:   300 FDRINEAAKMVNRMLIRGFAPDDITYGYLMNGLCKIGRVDAAKDLFYRIP----KPEIVI 355

Query:   338 YNALLKGYVKMGYLKDAEFVVSEMERS-GVLPDEHTYSLLIDAYANAGRWESARIVLKEM 396
             +N L+ G+V  G L DA+ V+S+M  S G++PD  TY+ LI  Y   G    A  VL +M
Sbjct:   356 FNTLIHGFVTHGRLDDAKAVLSDMVTSYGIVPDVCTYNSLIYGYWKEGLVGLALEVLHDM 415

Query:   397 EVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCL 456
                  KPN + Y+ ++ G+   G+    + VL EM + G++P+T  +N +I  F K + +
Sbjct:   416 RNKGCKPNVYSYTILVDGFCKLGKIDEAYNVLNEMSADGLKPNTVGFNCLISAFCKEHRI 475

Query:   457 HHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIM 516
               A+  F  M  +G +PD  T+N+LI    +      A  L  +M   G    T TYN +
Sbjct:   476 PEAVEIFREMPRKGCKPDVYTFNSLISGLCEVDEIKHALWLLRDMISEGVVANTVTYNTL 535

Query:   517 INLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAV 576
             IN    +   ++ ++L+  M  QG   + +TY +L+      G       C  G  D+A 
Sbjct:   536 INAFLRRGEIKEARKLVNEMVFQGSPLDEITYNSLI-----KGL------CRAGEVDKAR 584

Query:   577 NAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKAL 636
             + F  M  DG  PSN++ N LIN         EA    + M   G  PD+VT+ +L+  L
Sbjct:   585 SLFEKMLRDGHAPSNISCNILINGLCRSGMVEEAVEFQKEMVLRGSTPDIVTFNSLINGL 644

Query:   637 IRVDKFHKVPAVYEEMILSGCTPD 660
              R  +      ++ ++   G  PD
Sbjct:   645 CRAGRIEDGLTMFRKLQAEGIPPD 668

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2026192 RPF2 "rna processing factor 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 488 (176.8 bits), Expect = 1.4e-46, P = 1.4e-46
 Identities = 136/513 (26%), Positives = 235/513 (45%)

Query:   166 YSILIHALGRSEKLYEAFLLS-QRQRL-TP---LTYNALISACARNDDLEKALNLMSKMR 220
             +S L+ A+ +  K      L  Q Q L  P    TY+ LI+   R   L  AL ++ KM 
Sbjct:    84 FSKLLSAIAKMNKFDVVISLGEQMQNLGIPHNHYTYSILINCFCRRSQLPLALAVLGKMM 143

Query:   221 QDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGD 280
             + GY  + +  S ++     + +I  ++   L  ++     + +    N +I G      
Sbjct:   144 KLGYEPNIVTLSSLLNGYCHSKRISEAVA--LVDQMFVTGYQPNTVTFNTLIHGLFLHNK 201

Query:   281 ASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNA 340
             AS+AM  +      G  P   TY  V+  L   G T  A  +  ++++  L+P    YN 
Sbjct:   202 ASEAMALIDRMVAKGCQPDLVTYGVVVNGLCKRGDTDLAFNLLNKMEQGKLEPGVLIYNT 261

Query:   341 LLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSH 400
             ++ G  K  ++ DA  +  EME  G+ P+  TYS LI    N GRW  A  +L +M    
Sbjct:   262 IIDGLCKYKHMDDALNLFKEMETKGIRPNVVTYSSLISCLCNYGRWSDASRLLSDMIERK 321

Query:   401 AKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAM 460
               P+ F +S ++  +   G+     ++  EM    ++P    Y+ +I+ F  ++ L  A 
Sbjct:   322 INPDVFTFSALIDAFVKEGKLVEAEKLYDEMVKRSIDPSIVTYSSLINGFCMHDRLDEAK 381

Query:   461 AAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLL 520
               F+ M+S+   PD +T+NTLI    K  R +   E+F EM +RG    T TYNI+I  L
Sbjct:   382 QMFEFMVSKHCFPDVVTYNTLIKGFCKYKRVEEGMEVFREMSQRGLVGNTVTYNILIQGL 441

Query:   521 GEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFR 580
              +    +  + +   M + G+ PN++TY TL+D  G          C  G  ++A+  F 
Sbjct:   442 FQAGDCDMAQEIFKEMVSDGVPPNIMTYNTLLD--GL---------CKNGKLEKAMVVFE 490

Query:   581 VMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALIRVD 640
              ++   ++P+    N +I    +  +  + + +   +   G+KPDVV Y T++    R  
Sbjct:   491 YLQRSKMEPTIYTYNIMIEGMCKAGKVEDGWDLFCNLSLKGVKPDVVAYNTMISGFCRKG 550

Query:   641 KFHKVPAVYEEMILSGCTPDRKA-RAMLRSALR 672
                +  A+++EM   G  P+      ++R+ LR
Sbjct:   551 SKEEADALFKEMKEDGTLPNSGCYNTLIRARLR 583

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0000966 "RNA 5'-end processing" evidence=IMP

GO:0003723 "RNA binding" evidence=IDA

TAIR|locus:2015494 RPF3 "RNA processing factor 3" [Arabidopsis thaliana (taxid:3702)]

 Score = 477 (173.0 bits), Expect = 2.1e-45, P = 2.1e-45
 Identities = 140/501 (27%), Positives = 242/501 (48%)

Query:   143 IDLAYAVVSWLQKHNLCYSYELL-YSILIHALGRSEKLYEAFLLSQRQ---RLTP--LTY 196
             + LA AV+  + K  L Y  +++  S L++     +++ EA  L  +       P  +T+
Sbjct:   131 LPLALAVLGKMMK--LGYEPDIVTLSSLLNGYCHGKRISEAVALVDQMFVMEYQPNTVTF 188

Query:   197 NALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEI 256
             N LI     ++   +A+ L+ +M   G   D   Y  V+  L +   ID +L   L K++
Sbjct:   189 NTLIHGLFLHNKASEAVALIDRMVARGCQPDLFTYGTVVNGLCKRGDIDLAL--SLLKKM 246

Query:   257 ECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRT 316
             E  KIE D  +   +I       + + A+         G+ P   TY ++I  L N GR 
Sbjct:   247 EKGKIEADVVIYTTIIDALCNYKNVNDALNLFTEMDNKGIRPNVVTYNSLIRCLCNYGRW 306

Query:   317 IEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLL 376
              +A  +  ++ E  + P    ++AL+  +VK G L +AE +  EM +  + PD  TYS L
Sbjct:   307 SDASRLLSDMIERKINPNVVTFSALIDAFVKEGKLVEAEKLYDEMIKRSIDPDIFTYSSL 366

Query:   377 IDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGV 436
             I+ +    R + A+ + + M      PN   Y+ ++ G+      +   ++ +EM   G+
Sbjct:   367 INGFCMHDRLDEAKHMFELMISKDCFPNVVTYNTLIKGFCKAKRVEEGMELFREMSQRGL 426

Query:   437 EPDTHFYNVMID-TFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAE 495
               +T  YN +I   F   +C   A   F +M+S+G+ PD IT++ L+D   K G+ ++A 
Sbjct:   427 VGNTVTYNTLIQGLFQAGDC-DMAQKIFKKMVSDGVPPDIITYSILLDGLCKYGKLEKAL 485

Query:   496 ELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIY 555
              +FE +Q+    P   TYNIMI  + +  + ED   L  ++  +G+ PNV+ YTT++   
Sbjct:   486 VVFEYLQKSKMEPDIYTYNIMIEGMCKAGKVEDGWDLFCSLSLKGVKPNVIIYTTMI--- 542

Query:   556 GQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQ 615
               SG F     C +GL ++A   FR M+ DG  P++   N+LI A   D   A +  +++
Sbjct:   543 --SG-F-----CRKGLKEEADALFREMKEDGTLPNSGTYNTLIRARLRDGDKAASAELIK 594

Query:   616 YMKENGLKPDVVTYTTLMKAL 636
              M+  G   D  T + ++  L
Sbjct:   595 EMRSCGFVGDASTISMVINML 615

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0006397 "mRNA processing" evidence=IMP

TAIR|locus:1009023134 AT1G12775 [Arabidopsis thaliana (taxid:3702)]

 Score = 474 (171.9 bits), Expect = 4.4e-45, P = 4.4e-45
 Identities = 135/468 (28%), Positives = 225/468 (48%)

Query:   195 TYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYK 254
             T + +I+   R   L  A + M K+ + GY  D + ++ ++  L    ++ S  L+ + +
Sbjct:   125 TLSIMINCFCRCRKLSYAFSTMGKIMKLGYEPDTVIFNTLLNGLCLECRV-SEALELVDR 183

Query:   255 EIECD-KIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNS 313
              +E   K  L    LN ++ G    G  S A+  +      G  P   TY  V+  +  S
Sbjct:   184 MVEMGHKPTLI--TLNTLVNGLCLNGKVSDAVVLIDRMVETGFQPNEVTYGPVLNVMCKS 241

Query:   314 GRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTY 373
             G+T  A  +  +++E  +K     Y+ ++ G  K G L +A  + +EME  G   D  TY
Sbjct:   242 GQTALAMELLRKMEERNIKLDAVKYSIIIDGLCKDGSLDNAFNLFNEMEIKGFKADIITY 301

Query:   374 SLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKS 433
             + LI  + NAGRW+    +L++M      PN   +S ++  +   G+ +   Q+LKEM  
Sbjct:   302 NTLIGGFCNAGRWDDGAKLLRDMIKRKISPNVVTFSVLIDSFVKEGKLREADQLLKEMMQ 361

Query:   434 SGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDR 493
              G+ P+T  YN +ID F K N L  A+   D M+S+G +PD +T+N LI+ + K  R D 
Sbjct:   362 RGIAPNTITYNSLIDGFCKENRLEEAIQMVDLMISKGCDPDIMTFNILINGYCKANRIDD 421

Query:   494 AEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVD 553
               ELF EM  RG    T TYN ++    +  + E  K+L   M ++ + P++V+Y  L+D
Sbjct:   422 GLELFREMSLRGVIANTVTYNTLVQGFCQSGKLEVAKKLFQEMVSRRVRPDIVSYKILLD 481

Query:   554 IYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDA-EAFA 612
                 +G  + A+E   G  +++      M  D +    + ++ + NA   D  DA + F 
Sbjct:   482 GLCDNGELEKALEIF-GKIEKSK-----MELD-IGIYMIIIHGMCNASKVD--DAWDLFC 532

Query:   613 VLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPD 660
              L  +K  G+K D   Y  ++  L R D   K   ++ +M   G  PD
Sbjct:   533 SLP-LK--GVKLDARAYNIMISELCRKDSLSKADILFRKMTEEGHAPD 577

GO:0005739 "mitochondrion" evidence=ISM

TAIR|locus:2034760 AT1G12300 [Arabidopsis thaliana (taxid:3702)]

 Score = 471 (170.9 bits), Expect = 9.1e-45, P = 9.1e-45
 Identities = 141/502 (28%), Positives = 239/502 (47%)

Query:   166 YSILIHALGRSEKLYEAFL-LSQRQRLTPLTYNA-----LISACARNDDLEKALNLMSKM 219
             +S L  A+ ++ K Y+  L L ++  L  + +N      +I+   R   L  A + M K+
Sbjct:    91 FSRLFSAIAKT-KQYDLVLALCKQMELKGIAHNLYTLSIMINCFCRCRKLCLAFSAMGKI 149

Query:   220 RQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAG 279
              + GY  + I +S +I  L    ++ S  L+ + + +E    + D   +N ++ G   +G
Sbjct:   150 IKLGYEPNTITFSTLINGLCLEGRV-SEALELVDRMVEMGH-KPDLITINTLVNGLCLSG 207

Query:   280 DASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYN 339
               ++AM  +      G  P   TY  V+  +  SG+T  A  +  +++E  +K     Y+
Sbjct:   208 KEAEAMLLIDKMVEYGCQPNAVTYGPVLNVMCKSGQTALAMELLRKMEERNIKLDAVKYS 267

Query:   340 ALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVS 399
              ++ G  K G L +A  + +EME  G+  +  TY++LI  + NAGRW+    +L++M   
Sbjct:   268 IIIDGLCKHGSLDNAFNLFNEMEMKGITTNIITYNILIGGFCNAGRWDDGAKLLRDMIKR 327

Query:   400 HAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHA 459
                PN   +S ++  +   G+ +   ++ KEM   G+ PDT  Y  +ID F K N L  A
Sbjct:   328 KINPNVVTFSVLIDSFVKEGKLREAEELHKEMIHRGIAPDTITYTSLIDGFCKENHLDKA 387

Query:   460 MAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINL 519
                 D M+S+G +P+  T+N LI+ + K  R D   ELF +M  RG    T TYN +I  
Sbjct:   388 NQMVDLMVSKGCDPNIRTFNILINGYCKANRIDDGLELFRKMSLRGVVADTVTYNTLIQG 447

Query:   520 LGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAF 579
               E  +    K L   M ++ + PN+VTY  L+D    +G  + A+E  E +        
Sbjct:   448 FCELGKLNVAKELFQEMVSRKVPPNIVTYKILLDGLCDNGESEKALEIFEKIEKSK---- 503

Query:   580 RVMRTDGLKPSNLALNSLINAFGEDQRDA-EAFAVLQYMKENGLKPDVVTYTTLMKALIR 638
               M  D +   N+ ++ + NA   D  DA + F  L  +K  G+KP V TY  ++  L +
Sbjct:   504 --MELD-IGIYNIIIHGMCNASKVD--DAWDLFCSLP-LK--GVKPGVKTYNIMIGGLCK 555

Query:   639 VDKFHKVPAVYEEMILSGCTPD 660
                  +   ++ +M   G  PD
Sbjct:   556 KGPLSEAELLFRKMEEDGHAPD 577

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)
Q8L844	PP413_ARATH	No assigned EC number	0.6967	0.9955	0.9548	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: GSVIVG00002876001 SubName- Full=Chromosome chr18 scaffold_137, whole genome shotgun sequence; (695 aa) (Vitis vinifera)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	680
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-29
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-28
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-26
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	3e-25
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	3e-25
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	3e-20
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-17
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-15
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-14
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-13
pfam13041	50	pfam13041, PPR_2, PPR repeat family	4e-13
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	8e-12
pfam12854	34	pfam12854, PPR_1, PPR repeat	2e-10
pfam13041	50	pfam13041, PPR_2, PPR repeat family	4e-10
pfam13041	50	pfam13041, PPR_2, PPR repeat family	8e-10
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-09
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-09
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	3e-08
pfam01535	31	pfam01535, PPR, PPR repeat	4e-08
pfam13041	50	pfam13041, PPR_2, PPR repeat family	5e-08
pfam13041	50	pfam13041, PPR_2, PPR repeat family	9e-08
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-07
pfam12854	34	pfam12854, PPR_1, PPR repeat	3e-06
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	5e-06
pfam01535	31	pfam01535, PPR, PPR repeat	5e-06
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	9e-06
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	1e-05
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	1e-05
pfam12854	34	pfam12854, PPR_1, PPR repeat	2e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	3e-05
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	3e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	5e-05
pfam01535	31	pfam01535, PPR, PPR repeat	2e-04
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	4e-04
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	5e-04
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	6e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	0.001
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	0.001
pfam01535	31	pfam01535, PPR, PPR repeat	0.001
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	0.001
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	0.002
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	0.002
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	0.003

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

 Score =  124 bits (313), Expect = 2e-29
 Identities = 97/406 (23%), Positives = 183/406 (45%), Gaps = 50/406 (12%)

Query: 195 TYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYK 254
           T+N L+S CA + D++ AL ++  +++ G   D   Y+ +I +  ++ K+D   + +++ 
Sbjct: 439 TFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVD--AMFEVFH 496

Query: 255 EIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSG 314
           E+    +E +      +I G A+AG  +KA    G+ +   + P    + A+I+A   SG
Sbjct: 497 EMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSG 556

Query: 315 RTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEM--ERSGVLPDEHT 372
                 AV             +A++                 V++EM  E   + PD  T
Sbjct: 557 ------AV------------DRAFD-----------------VLAEMKAETHPIDPDHIT 581

Query: 373 YSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMK 432
              L+ A ANAG+ + A+ V + +   + K    +Y+  +     +G+W     +  +MK
Sbjct: 582 VGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMK 641

Query: 433 SSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYD 492
             GV+PD  F++ ++D  G    L  A         +GI+  T+++++L+        + 
Sbjct: 642 KKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWK 701

Query: 493 RAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLV 552
           +A EL+E+++     P  +T N +I  L E  +      +L  M+  GL PN +TY+ L+
Sbjct: 702 KALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILL 761

Query: 553 DIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLI 598
                S R DDA        D  ++     + DG+KP+ +    + 
Sbjct: 762 V---ASERKDDA--------DVGLDLLSQAKEDGIKPNLVMCRCIT 796

Length = 1060

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

 Score =  121 bits (306), Expect = 2e-28
 Identities = 96/376 (25%), Positives = 163/376 (43%), Gaps = 46/376 (12%)

Query: 296 LSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAE 355
            +P  +T+  +++  ++S     A  V   ++E+GLK   K Y  L+    K G + DA 
Sbjct: 433 RNPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKV-DAM 491

Query: 356 F-VVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAG 414
           F V  EM  +GV  + HT+  LID  A AG+   A      M   + KP+  +++ +++ 
Sbjct: 492 FEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISA 551

Query: 415 YRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPD 474
               G   R F VL EMK+     +TH                             I+PD
Sbjct: 552 CGQSGAVDRAFDVLAEMKA-----ETH----------------------------PIDPD 578

Query: 475 TITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLG 534
            IT   L+      G+ DRA+E+++ + E         Y I +N   ++  W+    +  
Sbjct: 579 HITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYD 638

Query: 535 NMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLAL 594
           +M+ +G+ P+ V ++ LVD+ G +G  D A E L+             R  G+K   ++ 
Sbjct: 639 DMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQ-----------DARKQGIKLGTVSY 687

Query: 595 NSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMIL 654
           +SL+ A    +   +A  + + +K   L+P V T   L+ AL   ++  K   V  EM  
Sbjct: 688 SSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKR 747

Query: 655 SGCTPDRKARAMLRSA 670
            G  P+    ++L  A
Sbjct: 748 LGLCPNTITYSILLVA 763

Length = 1060

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

 Score =  116 bits (291), Expect = 1e-26
 Identities = 95/393 (24%), Positives = 180/393 (45%), Gaps = 26/393 (6%)

Query: 295 GLSPKT--ATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNA-LLKGYVKMGYL 351
           G+S K     Y      L   GR  +   + E++++ GL    K Y+A   K   K   +
Sbjct: 363 GVSGKRKSPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAV 422

Query: 352 KDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRI 411
           K+A F  +++ R+   P   T+++L+   A++   + A  VL+ ++ +  K +  +Y+ +
Sbjct: 423 KEA-FRFAKLIRN---PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTL 478

Query: 412 LAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGI 471
           ++     G+    F+V  EM ++GVE + H +  +ID   +   +  A  A+  M S+ +
Sbjct: 479 ISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNV 538

Query: 472 EPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGY--FPCTTTYNIMINLL---GEQERW 526
           +PD + +N LI    + G  DRA ++  EM+   +   P   T   ++      G+ +R 
Sbjct: 539 KPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRA 598

Query: 527 EDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDG 586
           ++V +++     +G  P V  YT  V+   Q G +D A+   +            M+  G
Sbjct: 599 KEVYQMIHEYNIKG-TPEV--YTIAVNSCSQKGDWDFALSIYDD-----------MKKKG 644

Query: 587 LKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVP 646
           +KP  +  ++L++  G      +AF +LQ  ++ G+K   V+Y++LM A      + K  
Sbjct: 645 VKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKAL 704

Query: 647 AVYEEMILSGCTPDRKARAMLRSALRYMKQTLK 679
            +YE++      P       L +AL    Q  K
Sbjct: 705 ELYEDIKSIKLRPTVSTMNALITALCEGNQLPK 737

Length = 1060

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

 Score =  111 bits (280), Expect = 3e-25
 Identities = 86/387 (22%), Positives = 157/387 (40%), Gaps = 48/387 (12%)

Query: 276 AKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRT 335
           A + D   A+R L + Q  GL      Y  +I+  + SG+      VF E+  +G++   
Sbjct: 448 ASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANV 507

Query: 336 KAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKE 395
             + AL+ G  + G +  A      M    V PD   ++ LI A   +G  + A  VL E
Sbjct: 508 HTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAE 567

Query: 396 M--EVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKY 453
           M  E     P+      ++    + G+  R  +V + +    ++     Y + +++  + 
Sbjct: 568 MKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQK 627

Query: 454 NCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTY 513
                A++ +D M  +G++PD + ++ L+D     G  D+A   FE +Q+          
Sbjct: 628 GDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKA---FEILQD---------- 674

Query: 514 NIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSD 573
                                  R QG+    V+Y++L+     +  +  A+E  E +  
Sbjct: 675 ----------------------ARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDI-- 710

Query: 574 QAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLM 633
                    ++  L+P+   +N+LI A  E  +  +A  VL  MK  GL P+ +TY+ L+
Sbjct: 711 ---------KSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILL 761

Query: 634 KALIRVDKFHKVPAVYEEMILSGCTPD 660
            A  R D       +  +    G  P+
Sbjct: 762 VASERKDDADVGLDLLSQAKEDGIKPN 788

Length = 1060

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

 Score =  110 bits (277), Expect = 3e-25
 Identities = 98/389 (25%), Positives = 164/389 (42%), Gaps = 31/389 (7%)

Query: 250 QKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMR-FLGMAQGVGLSPKTATYAAVIT 308
           + +Y  +E    E D  ++N V++   K G    A R F  M +         ++  +I 
Sbjct: 143 KAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPERNLA-----SWGTIIG 197

Query: 309 ALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLP 368
            L ++G   EA A+F E+ E G     + +  +L+    +G  +  + +   + ++GV+ 
Sbjct: 198 GLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVG 257

Query: 369 DEHTYSLLIDAYANAGRWESARIVLKEM-EVSHAKPNSFIYSRILAGYRDRGEWQRTFQV 427
           D      LID Y+  G  E AR V   M E +    NS     +LAGY   G  +    +
Sbjct: 258 DTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNS-----MLAGYALHGYSEEALCL 312

Query: 428 LKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFK 487
             EM+ SGV  D   +++MI  F +   L HA  A   ++  G   D +    L+D + K
Sbjct: 313 YYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSK 372

Query: 488 CGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVT 547
            GR + A  +F+ M  +       ++N +I   G   R      +   M A+G+ PN VT
Sbjct: 373 WGRMEDARNVFDRMPRKNLI----SWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVT 428

Query: 548 YTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVM-RTDGLKPSNLALNSLINAFGEDQR 606
           +  ++     S           GLS+Q    F+ M     +KP  +    +I   G +  
Sbjct: 429 FLAVLSACRYS-----------GLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGL 477

Query: 607 DAEAFAVLQYMKENGLKPDVVTYTTLMKA 635
             EA+A    ++    KP V  +  L+ A
Sbjct: 478 LDEAYA---MIRRAPFKPTVNMWAALLTA 503

Length = 697

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

 Score = 94.9 bits (236), Expect = 3e-20
 Identities = 94/363 (25%), Positives = 158/363 (43%), Gaps = 39/363 (10%)

Query: 302 TYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEM 361
           TY A++ A          +AV+  ++ SG +P     N +L  +VK G L DA  +  EM
Sbjct: 125 TYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEM 184

Query: 362 -ERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEM--EVSHAKPNSFIYS-RILAGYRD 417
            ER+       ++  +I    +AG +  A  + +EM  + S A+P +F+   R  AG   
Sbjct: 185 PERNLA-----SWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGS 239

Query: 418 -RGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTI 476
            R   Q    VLK    +GV  DT     +ID + K   +  A   FD M     E  T+
Sbjct: 240 ARAGQQLHCCVLK----TGVVGDTFVSCALIDMYSKCGDIEDARCVFDGM----PEKTTV 291

Query: 477 TWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNM 536
            WN+++  +   G  + A  L+ EM++ G      T++IMI +       E  K+    +
Sbjct: 292 AWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGL 351

Query: 537 RAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLE--------------------GLSDQAV 576
              G   ++V  T LVD+Y + GR +DA    +                    G   +AV
Sbjct: 352 IRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAV 411

Query: 577 NAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKEN-GLKPDVVTYTTLMKA 635
             F  M  +G+ P+++   ++++A        + + + Q M EN  +KP  + Y  +++ 
Sbjct: 412 EMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIEL 471

Query: 636 LIR 638
           L R
Sbjct: 472 LGR 474

Length = 697

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

 Score = 86.9 bits (215), Expect = 2e-17
 Identities = 62/254 (24%), Positives = 118/254 (46%), Gaps = 9/254 (3%)

Query: 165 LYSILIHALGRSEKLYEAF--LLSQRQRLTPL-----TYNALISACARNDDLEKALNLMS 217
           +++ LI A G+S  +  AF  L   +    P+     T  AL+ ACA    +++A  +  
Sbjct: 544 VFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQ 603

Query: 218 KMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAK 277
            + +         Y++ + S ++    D +L   +Y +++   ++ D    + ++     
Sbjct: 604 MIHEYNIKGTPEVYTIAVNSCSQKGDWDFAL--SIYDDMKKKGVKPDEVFFSALVDVAGH 661

Query: 278 AGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKA 337
           AGD  KA   L  A+  G+   T +Y++++ A SN+    +A  ++E++K   L+P    
Sbjct: 662 AGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVST 721

Query: 338 YNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEME 397
            NAL+    +   L  A  V+SEM+R G+ P+  TYS+L+ A       +    +L + +
Sbjct: 722 MNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAK 781

Query: 398 VSHAKPNSFIYSRI 411
               KPN  +   I
Sbjct: 782 EDGIKPNLVMCRCI 795

Length = 1060

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

 Score = 71.3 bits (176), Expect = 1e-15
 Identities = 22/46 (47%), Positives = 33/46 (71%)

Query: 473 PDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMIN 518
           PD +T+NTLID + K G+ + A +LF EM++RG  P   TY+I+I+
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILID 46

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|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score = 77.6 bits (191), Expect = 1e-14
 Identities = 98/453 (21%), Positives = 176/453 (38%), Gaps = 63/453 (13%)

Query: 269 NDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKE 328
           N  +      G   +A++ L   Q + +      Y A+           E   V      
Sbjct: 55  NSQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALS 114

Query: 329 SGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEM-ERSGVLPDEHTYSLLIDAYANAGRWE 387
           S      +  NA+L  +V+ G L  A +V  +M ER     D  ++++L+  YA AG ++
Sbjct: 115 SHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPER-----DLFSWNVLVGGYAKAGYFD 169

Query: 388 SARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMI 447
            A  +   M  +  +P+ + +  +L       +  R  +V   +   G E D    N +I
Sbjct: 170 EALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALI 229

Query: 448 DTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYF 507
             + K   +  A   FDRM       D I+WN +I  +F+ G      ELF  M+E    
Sbjct: 230 TMYVKCGDVVSARLVFDRMPRR----DCISWNAMISGYFENGECLEGLELFFTMRELSVD 285

Query: 508 PCTTTYNIMIN---LLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDA 564
           P   T   +I+   LLG++    ++    G +   G   +V    +L+ +Y   G + +A
Sbjct: 286 PDLMTITSVISACELLGDERLGREMH---GYVVKTGFAVDVSVCNSLIQMYLSLGSWGEA 342

Query: 565 ------IECLE--------------GLSDQAVNAFRVMRTDGLKPSNLALNSLINA---F 601
                 +E  +              GL D+A+  + +M  D + P  + + S+++A    
Sbjct: 343 EKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACL 402

Query: 602 GEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALI-------RVDK----FHKVP---- 646
           G+     +       + E   +  +++Y  +  ALI        +DK    FH +P    
Sbjct: 403 GDLDVGVK-------LHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDV 455

Query: 647 AVYEEMILSGCTPDRKARAMLRSALRYMKQTLK 679
             +  +I      +R   A++    R M  TLK
Sbjct: 456 ISWTSIIAGLRLNNRCFEALI--FFRQMLLTLK 486

Length = 857

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

 Score = 74.5 bits (183), Expect = 1e-13
 Identities = 117/534 (21%), Positives = 207/534 (38%), Gaps = 86/534 (16%)

Query: 194 LTYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQS---------------- 237
           +++NA+IS    N +  + L L   MR+     D +  + VI +                
Sbjct: 254 ISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGY 313

Query: 238 -LTRTNKID----SSLLQ------------KLYKEIECDKIELDGQLLNDVIVGFAKAGD 280
            +     +D    +SL+Q            K++  +E      D      +I G+ K G 
Sbjct: 314 VVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETK----DAVSWTAMISGYEKNGL 369

Query: 281 ASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNA 340
             KA+    + +   +SP   T A+V++A +  G       + E  +  GL       NA
Sbjct: 370 PDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANA 429

Query: 341 LLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSH 400
           L++ Y K   +  A  V   +    V+    +++ +I       R   A I  ++M +  
Sbjct: 430 LIEMYSKCKCIDKALEVFHNIPEKDVI----SWTSIIAGLRLNNRCFEALIFFRQM-LLT 484

Query: 401 AKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAM 460
            KPNS      L+     G      ++   +  +G+  D    N ++D + +   +++A 
Sbjct: 485 LKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAW 544

Query: 461 AAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLL 520
             F+       E D ++WN L+  +   G+   A ELF  M E G  P   T+   I+LL
Sbjct: 545 NQFNSH-----EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTF---ISLL 596

Query: 521 GEQERWEDVKR---LLGNMRAQ-GLLPNVVTYTTLVDIYGQSGRFDDAIECLEGL---SD 573
               R   V +      +M  +  + PN+  Y  +VD+ G++G+  +A   +  +    D
Sbjct: 597 CACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMPITPD 656

Query: 574 QAV-----NAFRVMRTDGL-----------KPSNLALNSLI-NAFGEDQRDAEAFAVLQY 616
            AV     NA R+ R   L            P+++    L+ N + +  +  E   V + 
Sbjct: 657 PAVWGALLNACRIHRHVELGELAAQHIFELDPNSVGYYILLCNLYADAGKWDEVARVRKT 716

Query: 617 MKENGLKPDV----VTYTTLMKALIRVDKFHK--------VPAVYEEMILSGCT 658
           M+ENGL  D     V     + A +  D+ H         +   YE+M  SG  
Sbjct: 717 MRENGLTVDPGCSWVEVKGKVHAFLTDDESHPQIKEINTVLEGFYEKMKASGLA 770

Length = 857

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

 Score = 63.6 bits (156), Expect = 4e-13
 Identities = 19/50 (38%), Positives = 31/50 (62%)

Query: 333 PRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYAN 382
           P    YN L+ GY K G +++A  + +EM++ G+ P+ +TYS+LID    
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 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|215563 PLN03081, PLN03081, pentatricopeptide (PPR) repeat-containing protein; Provisional

 Score = 68.0 bits (166), Expect = 8e-12
 Identities = 74/341 (21%), Positives = 131/341 (38%), Gaps = 49/341 (14%)

Query: 328 ESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWE 387
           E GLKPR +     ++  V     KDA    +++ +SGV     +    I+     GR  
Sbjct: 52  EQGLKPRPRLKPEPIRIEVSES--KDARLDDTQIRKSGV-----SLCSQIEKLVACGRHR 104

Query: 388 SARIVLKEMEV--SHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNV 445
            A  + + +E       P S   + + A    +   +    V   ++SSG EPD +  N 
Sbjct: 105 EALELFEILEAGCPFTLPASTYDALVEACIALK-SIRCVKAVYWHVESSGFEPDQYMMNR 163

Query: 446 MIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERG 505
           ++    K   L  A   FD M     E +  +W T+I      G Y  A  LF EM E G
Sbjct: 164 VLLMHVKCGMLIDARRLFDEM----PERNLASWGTIIGGLVDAGNYREAFALFREMWEDG 219

Query: 506 YFPCTTTYNIMINLLGEQERWEDVKRLLGNMRA----------QGLLPNVVTYTTLVDIY 555
                 T+ +M+               LG+ RA           G++ +      L+D+Y
Sbjct: 220 SDAEPRTFVVMLR----------ASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMY 269

Query: 556 GQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQ 615
            + G  +DA    +G+ ++                 +A NS++  +       EA  +  
Sbjct: 270 SKCGDIEDARCVFDGMPEKTT---------------VAWNSMLAGYALHGYSEEALCLYY 314

Query: 616 YMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMILSG 656
            M+++G+  D  T++ +++   R+         +  +I +G
Sbjct: 315 EMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTG 355

Length = 697

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

 Score = 55.4 bits (135), Expect = 2e-10
 Identities = 17/33 (51%), Positives = 24/33 (72%)

Query: 470 GIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQ 502
           G++PD +T+NTLID   + GR D A EL +EM+
Sbjct: 2   GLKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 34

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

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

 Score = 55.1 bits (134), Expect = 4e-10
 Identities = 22/94 (23%), Positives = 33/94 (35%), Gaps = 46/94 (48%)

Query: 543 PNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFG 602
           P+VVTY TL+D Y + G+ +                                        
Sbjct: 1   PDVVTYNTLIDGYCKKGKVE---------------------------------------- 20

Query: 603 EDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKAL 636
                 EA  +   MK+ G+KP+V TY+ L+  L
Sbjct: 21  ------EALKLFNEMKKRGIKPNVYTYSILIDGL 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|205222 pfam13041, PPR_2, PPR repeat family

 Score = 54.3 bits (132), Expect = 8e-10
 Identities = 14/50 (28%), Positives = 30/50 (60%)

Query: 403 PNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGK 452
           P+   Y+ ++ GY  +G+ +   ++  EMK  G++P+ + Y+++ID   K
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 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|215561 PLN03077, PLN03077, Protein ECB2; Provisional

 Score = 61.0 bits (148), Expect = 1e-09
 Identities = 92/470 (19%), Positives = 178/470 (37%), Gaps = 48/470 (10%)

Query: 195 TYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQS------LTRTNKIDSSL 248
           ++N L+   A+    ++AL L  +M   G   D   +  V+++      L R  ++ + +
Sbjct: 154 SWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHV 213

Query: 249 LQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKA-MRFLGMAQGVGLSPKTATYAAVI 307
           ++  +        ELD  ++N +I  + K GD   A + F  M +   +S     + A+I
Sbjct: 214 VRFGF--------ELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCIS-----WNAMI 260

Query: 308 TALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVL 367
           +    +G  +E   +F  ++E  + P      +++     +G  +    +   + ++G  
Sbjct: 261 SGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFA 320

Query: 368 PDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQV 427
            D    + LI  Y + G W  A  V   ME   A      ++ +++GY   G   +  + 
Sbjct: 321 VDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVS----WTAMISGYEKNGLPDKALET 376

Query: 428 LKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFK 487
              M+   V PD      ++        L   +   +    +G+    +  N LI+ + K
Sbjct: 377 YALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSK 436

Query: 488 CGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVT 547
           C   D+A E+F  + E+     T+    +I  L    R  +       M    L PN VT
Sbjct: 437 CKCIDKALEVFHNIPEKDVISWTS----IIAGLRLNNRCFEALIFFRQMLLT-LKPNSVT 491

Query: 548 YTTLVDIYGQSGRF-------DDAIECLEGLSDQAVNAF-----RVMRT-------DGLK 588
               +    + G            +    G      NA      R  R        +  +
Sbjct: 492 LIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHE 551

Query: 589 PSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALIR 638
              ++ N L+  +    + + A  +   M E+G+ PD VT+ +L+ A  R
Sbjct: 552 KDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSR 601

Length = 857

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

 Score = 52.8 bits (128), Expect = 3e-09
 Identities = 18/50 (36%), Positives = 27/50 (54%)

Query: 438 PDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFK 487
           PD   YN +ID + K   +  A+  F+ M   GI+P+  T++ LID   K
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 49.4 bits (119), Expect = 3e-08
 Identities = 19/33 (57%), Positives = 24/33 (72%)

Query: 476 ITWNTLIDCHFKCGRYDRAEELFEEMQERGYFP 508
           +T+NTLID   K GR + A ELF+EM+ERG  P
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEP 33

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 = 49.0 bits (118), Expect = 4e-08
 Identities = 14/30 (46%), Positives = 23/30 (76%)

Query: 476 ITWNTLIDCHFKCGRYDRAEELFEEMQERG 505
           +T+N+LI  + K G+ + A ELF+EM+E+G
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKG 30

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

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

 Score = 49.3 bits (119), Expect = 5e-08
 Identities = 17/50 (34%), Positives = 25/50 (50%)

Query: 298 PKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVK 347
           P   TY  +I      G+  EA  +F E+K+ G+KP    Y+ L+ G  K
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 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 = 48.6 bits (117), Expect = 9e-08
 Identities = 13/37 (35%), Positives = 19/37 (51%)

Query: 624 PDVVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPD 660
           PDVVTY TL+    +  K  +   ++ EM   G  P+
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPN 37

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 = 48.2 bits (116), Expect = 1e-07
 Identities = 15/44 (34%), Positives = 25/44 (56%)

Query: 195 TYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSL 238
           TYN LI    +   +E+AL L ++M++ G   +   YS++I  L
Sbjct: 5   TYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 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|205109 pfam12854, PPR_1, PPR repeat

 Score = 43.9 bits (105), Expect = 3e-06
 Identities = 15/28 (53%), Positives = 22/28 (78%)

Query: 539 QGLLPNVVTYTTLVDIYGQSGRFDDAIE 566
           +GL P+VVTY TL+D   ++GR D+A+E
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVE 28

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

 Score = 43.2 bits (103), Expect = 5e-06
 Identities = 13/33 (39%), Positives = 16/33 (48%)

Query: 443 YNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDT 475
           YN +ID   K   +  A+  F  M   GIEPD 
Sbjct: 3   YNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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 = 5e-06
 Identities = 13/29 (44%), Positives = 19/29 (65%)

Query: 195 TYNALISACARNDDLEKALNLMSKMRQDG 223
           TYN+LIS   +   LE+AL L  +M++ G
Sbjct: 2   TYNSLISGYCKAGKLEEALELFKEMKEKG 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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 42.4 bits (101), Expect = 9e-06
 Identities = 12/33 (36%), Positives = 18/33 (54%)

Query: 195 TYNALISACARNDDLEKALNLMSKMRQDGYHCD 227
           TYN LI    +   +E+AL L  +M++ 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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 42.1 bits (100), Expect = 1e-05
 Identities = 11/34 (32%), Positives = 18/34 (52%)

Query: 627 VTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPD 660
           VTY TL+  L +  +  +   +++EM   G  PD
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 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|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 42.6 bits (101), Expect = 1e-05
 Identities = 12/34 (35%), Positives = 16/34 (47%)

Query: 475 TITWNTLIDCHFKCGRYDRAEELFEEMQERGYFP 508
             T+N L+    K G  D A  + EEM+  G  P
Sbjct: 1   LETYNALLLALAKAGDPDLALAVLEEMKASGLKP 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|205109 pfam12854, PPR_1, PPR repeat

 Score = 41.6 bits (99), Expect = 2e-05
 Identities = 16/34 (47%), Positives = 20/34 (58%)

Query: 364 SGVLPDEHTYSLLIDAYANAGRWESARIVLKEME 397
            G+ PD  TY+ LID    AGR + A  +L EME
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 40.9 bits (97), Expect = 3e-05
 Identities = 12/34 (35%), Positives = 20/34 (58%)

Query: 512 TYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNV 545
           TYN +I+ L +  R E+   L   M+ +G+ P+V
Sbjct: 2   TYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 41.0 bits (97), Expect = 3e-05
 Identities = 14/31 (45%), Positives = 17/31 (54%)

Query: 338 YNALLKGYVKMGYLKDAEFVVSEMERSGVLP 368
           YNALL    K G    A  V+ EM+ SG+ P
Sbjct: 4   YNALLLALAKAGDPDLALAVLEEMKASGLKP 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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 40.1 bits (95), Expect = 5e-05
 Identities = 12/34 (35%), Positives = 19/34 (55%)

Query: 337 AYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDE 370
            YN L+ G  K G +++A  +  EM+  G+ PD 
Sbjct: 2   TYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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 = 38.6 bits (91), Expect = 2e-04
 Identities = 13/30 (43%), Positives = 19/30 (63%)

Query: 337 AYNALLKGYVKMGYLKDAEFVVSEMERSGV 366
            YN+L+ GY K G L++A  +  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|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 37.9 bits (89), Expect = 4e-04
 Identities = 15/34 (44%), Positives = 20/34 (58%)

Query: 370 EHTYSLLIDAYANAGRWESARIVLKEMEVSHAKP 403
             TY+ L+ A A AG  + A  VL+EM+ S  KP
Sbjct: 1   LETYNALLLALAKAGDPDLALAVLEEMKASGLKP 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|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 37.5 bits (88), Expect = 5e-04
 Identities = 12/29 (41%), Positives = 19/29 (65%)

Query: 195 TYNALISACARNDDLEKALNLMSKMRQDG 223
           TYNAL+ A A+  D + AL ++ +M+  G
Sbjct: 3   TYNALLLALAKAGDPDLALAVLEEMKASG 31

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|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 37.2 bits (87), Expect = 6e-04
 Identities = 11/31 (35%), Positives = 18/31 (58%)

Query: 408 YSRILAGYRDRGEWQRTFQVLKEMKSSGVEP 438
           Y+ +L      G+      VL+EMK+SG++P
Sbjct: 4   YNALLLALAKAGDPDLALAVLEEMKASGLKP 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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 36.7 bits (86), Expect = 0.001
 Identities = 11/35 (31%), Positives = 18/35 (51%)

Query: 406 FIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDT 440
             Y+ ++ G    G  +   ++ KEMK  G+EPD 
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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 = 36.3 bits (85), Expect = 0.001
 Identities = 14/32 (43%), Positives = 21/32 (65%)

Query: 302 TYAAVITALSNSGRTIEAEAVFEELKESGLKP 333
           TY  +I  L  +GR  EA  +F+E+KE G++P
Sbjct: 2   TYNTLIDGLCKAGRVEEALELFKEMKERGIEP 33

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 = 36.3 bits (85), Expect = 0.001
 Identities = 12/26 (46%), Positives = 16/26 (61%)

Query: 372 TYSLLIDAYANAGRWESARIVLKEME 397
           TY+ LI  Y  AG+ E A  + KEM+
Sbjct: 2   TYNSLISGYCKAGKLEEALELFKEMK 27

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|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 36.8 bits (86), Expect = 0.001
 Identities = 13/34 (38%), Positives = 16/34 (47%)

Query: 626 VVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTP 659
           + TY  L+ AL +        AV EEM  SG  P
Sbjct: 1   LETYNALLLALAKAGDPDLALAVLEEMKASGLKP 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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 35.5 bits (83), Expect = 0.002
 Identities = 14/35 (40%), Positives = 19/35 (54%)

Query: 371 HTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNS 405
            TY+ LID    AGR E A  + KEM+    +P+ 
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 35.6 bits (83), Expect = 0.002
 Identities = 17/34 (50%), Positives = 22/34 (64%)

Query: 300 TATYAAVITALSNSGRTIEAEAVFEELKESGLKP 333
             TY A++ AL+ +G    A AV EE+K SGLKP
Sbjct: 1   LETYNALLLALAKAGDPDLALAVLEEMKASGLKP 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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 35.1 bits (82), Expect = 0.003
 Identities = 13/32 (40%), Positives = 20/32 (62%)

Query: 595 NSLINAFGEDQRDAEAFAVLQYMKENGLKPDV 626
           N+LI+   +  R  EA  + + MKE G++PDV
Sbjct: 4   NTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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	680
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	100.0
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	100.0
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.93
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.92
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.91
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.89
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.89
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.88
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.88
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.87
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.85
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.83
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.83
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.82
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.81
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.8
PRK14574	822	hmsH outer membrane protein; Provisional	99.79
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.79
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.78
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.77
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.75
PRK14574	822	hmsH outer membrane protein; Provisional	99.75
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.73
KOG2003	840	consensus TPR repeat-containing protein [General f	99.69
KOG2076	895	consensus RNA polymerase III transcription factor	99.68
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.64
KOG2076	895	consensus RNA polymerase III transcription factor	99.62
KOG2003	840	consensus TPR repeat-containing protein [General f	99.62
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.59
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.57
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.55
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.54
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.53
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.53
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.52
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.52
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.51
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.49
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.47
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.46
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.46
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.44
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.42
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.42
KOG1126	638	consensus DNA-binding cell division cycle control	99.4
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.39
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.39
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.35
KOG1126	638	consensus DNA-binding cell division cycle control	99.34
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.33
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.28
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.25
PF13041	50	PPR_2: PPR repeat family	99.25
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.24
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.23
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.22
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.21
PRK12370	553	invasion protein regulator; Provisional	99.21
PRK12370	553	invasion protein regulator; Provisional	99.2
PF13041	50	PPR_2: PPR repeat family	99.19
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.18
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.17
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.17
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.16
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.15
KOG1129	478	consensus TPR repeat-containing protein [General f	99.14
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.13
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.13
KOG1129	478	consensus TPR repeat-containing protein [General f	99.12
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.09
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.08
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	99.02
KOG3616	1636	consensus Selective LIM binding factor [Transcript	99.0
PRK11189	296	lipoprotein NlpI; Provisional	98.96
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	98.95
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.94
PRK11189	296	lipoprotein NlpI; Provisional	98.93
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.91
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.89
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.87
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.87
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.87
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.86
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	98.85
KOG1125	579	consensus TPR repeat-containing protein [General f	98.84
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.81
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.79
PRK04841	903	transcriptional regulator MalT; Provisional	98.77
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.76
PRK04841	903	transcriptional regulator MalT; Provisional	98.75
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.75
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.74
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.73
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.73
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.68
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.64
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.62
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.61
KOG1125	579	consensus TPR repeat-containing protein [General f	98.6
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.6
PF12854	34	PPR_1: PPR repeat	98.52
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.52
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.51
PF12854	34	PPR_1: PPR repeat	98.49
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.48
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.45
PLN02789	320	farnesyltranstransferase	98.45
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.44
PLN02789	320	farnesyltranstransferase	98.43
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.43
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.4
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.37
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.3
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.3
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.29
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.28
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.25
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.22
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.18
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.18
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.17
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.16
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.14
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.12
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.09
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.08
PRK15359	144	type III secretion system chaperone protein SscB;	98.03
PRK15359	144	type III secretion system chaperone protein SscB;	97.99
KOG3060	289	consensus Uncharacterized conserved protein [Funct	97.97
PF13812	34	PPR_3: Pentatricopeptide repeat domain	97.95
TIGR02552	135	LcrH_SycD type III secretion low calcium response	97.95
COG4783	484	Putative Zn-dependent protease, contains TPR repea	97.93
KOG3060	289	consensus Uncharacterized conserved protein [Funct	97.91
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	97.87
PF13812	34	PPR_3: Pentatricopeptide repeat domain	97.79
TIGR02552	135	LcrH_SycD type III secretion low calcium response	97.78
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.74
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	97.65
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.64
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	97.61
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	97.59
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.55
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.54
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.53
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.5
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.48
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.44
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.39
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.35
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.34
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.33
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.31
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.28
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	97.27
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.26
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.22
KOG0553	304	consensus TPR repeat-containing protein [General f	97.2
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.14
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.14
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.12
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.11
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.11
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.09
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.08
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.07
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.07
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.05
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.05
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.04
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.0
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	96.99
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	96.99
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	96.99
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.95
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	96.94
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	96.93
COG4700	251	Uncharacterized protein conserved in bacteria cont	96.91
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	96.89
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	96.88
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	96.75
KOG0553	304	consensus TPR repeat-containing protein [General f	96.67
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.66
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.66
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.65
PF12688	120	TPR_5: Tetratrico peptide repeat	96.65
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	96.58
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.51
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	96.51
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.5
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.47
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	96.45
PF12688	120	TPR_5: Tetratrico peptide repeat	96.43
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	96.42
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	96.4
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	96.38
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	96.34
PF13371	73	TPR_9: Tetratricopeptide repeat	96.31
COG4700	251	Uncharacterized protein conserved in bacteria cont	96.31
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	96.27
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	96.13
KOG2796	366	consensus Uncharacterized conserved protein [Funct	96.1
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	96.08
PRK10803	263	tol-pal system protein YbgF; Provisional	96.02
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	95.98
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	95.98
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	95.97
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	95.93
PRK10803	263	tol-pal system protein YbgF; Provisional	95.64
PF03704	146	BTAD: Bacterial transcriptional activator domain;	95.58
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	95.53
PRK15331	165	chaperone protein SicA; Provisional	95.44
PF13371	73	TPR_9: Tetratricopeptide repeat	95.38
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	95.35
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	95.2
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	95.12
COG3898	531	Uncharacterized membrane-bound protein [Function u	95.1
KOG3941	406	consensus Intermediate in Toll signal transduction	95.06
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	95.0
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	94.94
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	94.93
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	94.74
KOG1585	308	consensus Protein required for fusion of vesicles	94.74
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	94.69
KOG3941	406	consensus Intermediate in Toll signal transduction	94.64
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	94.62
smart00299	140	CLH Clathrin heavy chain repeat homology.	94.58
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	94.56
PRK15331	165	chaperone protein SicA; Provisional	94.53
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	94.5
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	94.41
KOG1941	518	consensus Acetylcholine receptor-associated protei	94.32
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	94.28
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	94.18
smart00299	140	CLH Clathrin heavy chain repeat homology.	94.16
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	94.04
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	93.93
PRK11906	458	transcriptional regulator; Provisional	93.9
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	93.76
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	93.75
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	93.61
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	93.42
COG3629	280	DnrI DNA-binding transcriptional activator of the	93.26
KOG2610	491	consensus Uncharacterized conserved protein [Funct	93.13
COG3898	531	Uncharacterized membrane-bound protein [Function u	93.05
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	93.03
KOG1585	308	consensus Protein required for fusion of vesicles	92.98
KOG4555	175	consensus TPR repeat-containing protein [Function	92.81
COG4105	254	ComL DNA uptake lipoprotein [General function pred	92.73
COG0457	291	NrfG FOG: TPR repeat [General function prediction	92.59
KOG2610	491	consensus Uncharacterized conserved protein [Funct	92.42
KOG1941	518	consensus Acetylcholine receptor-associated protei	92.05
COG1747	711	Uncharacterized N-terminal domain of the transcrip	91.88
PRK11906	458	transcriptional regulator; Provisional	91.87
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	91.87
KOG4555	175	consensus TPR repeat-containing protein [Function	91.85
COG3118	304	Thioredoxin domain-containing protein [Posttransla	91.65
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	91.63
COG0457	291	NrfG FOG: TPR repeat [General function prediction	91.61
COG3629	280	DnrI DNA-binding transcriptional activator of the	91.57
COG3118	304	Thioredoxin domain-containing protein [Posttransla	91.55
KOG1586	288	consensus Protein required for fusion of vesicles	91.47
PF13428	44	TPR_14: Tetratricopeptide repeat	91.33
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	90.96
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	90.69
COG4105	254	ComL DNA uptake lipoprotein [General function pred	90.43
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	90.22
PF13512	142	TPR_18: Tetratricopeptide repeat	90.12
PF13428	44	TPR_14: Tetratricopeptide repeat	90.06
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	89.7
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	89.63
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	89.57
PF13512	142	TPR_18: Tetratricopeptide repeat	89.46
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	89.36
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	89.32
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	89.15
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	89.01
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	88.99
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	88.94
KOG1550	552	consensus Extracellular protein SEL-1 and related	88.86
PF13431	34	TPR_17: Tetratricopeptide repeat	88.5
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	88.29
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	88.18
PRK11619	644	lytic murein transglycosylase; Provisional	88.17
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	88.09
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	87.96
PRK09687	280	putative lyase; Provisional	87.78
KOG1586	288	consensus Protein required for fusion of vesicles	87.41
KOG0403	645	consensus Neoplastic transformation suppressor Pdc	87.36
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	87.11
PF13929	292	mRNA_stabil: mRNA stabilisation	86.03
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	86.0
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	85.83
KOG4648	536	consensus Uncharacterized conserved protein, conta	85.75
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	85.5
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	85.1
KOG4234	271	consensus TPR repeat-containing protein [General f	85.05
KOG1258	577	consensus mRNA processing protein [RNA processing	84.69
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	84.68
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	83.72
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	83.02
KOG4570	418	consensus Uncharacterized conserved protein [Funct	82.49
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	82.09
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	81.84
KOG0687	393	consensus 26S proteasome regulatory complex, subun	81.68
PF09477	116	Type_III_YscG: Bacterial type II secretion system	81.15
KOG2471	696	consensus TPR repeat-containing protein [General f	81.14
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	81.06
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	80.53
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	80.38
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	80.22

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=1.2e-72  Score=646.38  Aligned_cols=571  Identities=19%  Similarity=0.254  Sum_probs=459.6

Q ss_pred             cccccchhhHHHHhhcCCCccccccccCCCcchhhhHHHHHhhhcCCChhhHHHHHHHHhhCCCChHHHHHHHHHHHHCC
Q 005729           78 QKQRYDFTPLLNFLSENSNSESASALASSPSSLNRVEFKLAESYRAVPAPLWHSLLKNLCSSNSSIDLAYAVVSWLQKHN  157 (680)
Q Consensus        78 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  157 (680)
                      .++..+.+.++..+++.|..++|..+.+          .+.... ..++......+...|...+.++.|.++|..+.+.+
T Consensus        48 ~~~~~~~n~~i~~l~~~g~~~~A~~l~~----------~m~~~g-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  116 (857)
T PLN03077         48 SSSTHDSNSQLRALCSHGQLEQALKLLE----------SMQELR-VPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSH  116 (857)
T ss_pred             ccchhhHHHHHHHHHhCCCHHHHHHHHH----------HHHhcC-CCCChhHHHHHHHHHhhCCCHHHHHHHHHHHHHcC
Confidence            3455667888999999998866543322          122211 12333333344456777788999999999999998


Q ss_pred             CCCchHHHHHHHHHHhcccCCHHHHHHh-hCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCChhhHHHHHH
Q 005729          158 LCYSYELLYSILIHALGRSEKLYEAFLL-SQRQRLTPLTYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQ  236 (680)
Q Consensus       158 ~~~~~~~~~~~li~~~~~~g~~~~A~~~-~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~  236 (680)
                      .. .+..++|.|+++|+++|++++|+.+ ..+.++|.++||+||.+|++.|++++|+++|++|...|+.||.+||+.+++
T Consensus       117 ~~-~~~~~~n~li~~~~~~g~~~~A~~~f~~m~~~d~~~~n~li~~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~ll~  195 (857)
T PLN03077        117 PS-LGVRLGNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLR  195 (857)
T ss_pred             CC-CCchHHHHHHHHHHhCCChHHHHHHHhcCCCCCeeEHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHH
Confidence            63 5577899999999999999999998 778889999999999999999999999999999999999999999999999


Q ss_pred             HHHhcCCCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCh
Q 005729          237 SLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRT  316 (680)
Q Consensus       237 ~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~  316 (680)
                      +|++.++..  .+++++..|.+.|+.+|..++|.||.+|++.|++++|.++|+.|.    .||..+||++|.+|++.|++
T Consensus       196 ~~~~~~~~~--~~~~~~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~----~~d~~s~n~li~~~~~~g~~  269 (857)
T PLN03077        196 TCGGIPDLA--RGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMP----RRDCISWNAMISGYFENGEC  269 (857)
T ss_pred             HhCCccchh--hHHHHHHHHHHcCCCcccchHhHHHHHHhcCCCHHHHHHHHhcCC----CCCcchhHHHHHHHHhCCCH
Confidence            998888774  457888888888888888888888888888888888888888886    46778888888888888888


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 005729          317 IEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEM  396 (680)
Q Consensus       317 ~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  396 (680)
                      ++|+++|++|.+.|+.||..||+.++.+|++.|+++.|.+++..|.+.|+.||..+|++|+.+|++.|++++|.++|++|
T Consensus       270 ~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m  349 (857)
T PLN03077        270 LEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRM  349 (857)
T ss_pred             HHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhC
Confidence            88888888888888888888888888888888888888888888888887788877777777777777777777777776


Q ss_pred             HHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHH
Q 005729          397 EVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTI  476 (680)
Q Consensus       397 ~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~  476 (680)
                      .    .||..+|+.++.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|+++.|.++++.|.+.|+.++..
T Consensus       350 ~----~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~  425 (857)
T PLN03077        350 E----TKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVV  425 (857)
T ss_pred             C----CCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchH
Confidence            4    356667777777777777777777777777777777777777777777777677666666666666666666666


Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHHHC------------------------------CCCCCHHHHHHHHHHHHhcCCH
Q 005729          477 TWNTLIDCHFKCGRYDRAEELFEEMQER------------------------------GYFPCTTTYNIMINLLGEQERW  526 (680)
Q Consensus       477 ~~~~li~~~~~~g~~~~A~~~~~~m~~~------------------------------~~~p~~~t~~~li~~~~~~g~~  526 (680)
                      +||.||.+|+++|++++|.++|++|.+.                              ++.||..||+.++.+|++.|..
T Consensus       426 ~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~~~~pd~~t~~~lL~a~~~~g~l  505 (857)
T PLN03077        426 VANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLLTLKPNSVTLIAALSACARIGAL  505 (857)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHCCCHHHHHHHHHHHHhCCCCCHhHHHHHHHHHhhhchH
Confidence            6666666666666666666665555332                              3566666666666666666666


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHh-------------------hhHHHHHHHHHHHHHCCC
Q 005729          527 EDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLE-------------------GLSDQAVNAFRVMRTDGL  587 (680)
Q Consensus       527 ~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~-------------------~~~~~a~~~~~~m~~~g~  587 (680)
                      +.+.+++..+.+.|+.++..++++|+++|+++|++++|.++|+                   |..++|+++|++|.+.|+
T Consensus       506 ~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~  585 (857)
T PLN03077        506 MCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGV  585 (857)
T ss_pred             HHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhcCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCC
Confidence            6666666666666777777777788889999999999988775                   667899999999999999


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH-HCCCCCCHHHHHHHHHHHHhcCCcCcHHHHHHHHHHcCCCCCHHHHHH
Q 005729          588 KPSNLALNSLINAFGEDQRDAEAFAVLQYMK-ENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPDRKARAM  666 (680)
Q Consensus       588 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd~~~~~~  666 (680)
                      .||..||+.++.+|++.|++++|.++|++|. +.|+.|+..+|+.++++|++.|++++|.+++++|   .+.||..+|..
T Consensus       586 ~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~~eA~~~~~~m---~~~pd~~~~~a  662 (857)
T PLN03077        586 NPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKM---PITPDPAVWGA  662 (857)
T ss_pred             CCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCHHHHHHHHHHC---CCCCCHHHHHH
Confidence            9999999999999999999999999999999 6899999999999999999999999999999998   48999999999


Q ss_pred             HHHHHHH
Q 005729          667 LRSALRY  673 (680)
Q Consensus       667 l~~a~~~  673 (680)
                      ++.+|+.
T Consensus       663 Ll~ac~~  669 (857)
T PLN03077        663 LLNACRI  669 (857)
T ss_pred             HHHHHHH
Confidence            9999974

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=3e-71  Score=621.94  Aligned_cols=531  Identities=19%  Similarity=0.332  Sum_probs=497.9

Q ss_pred             ChhhHHHHHHHHhhCCCChHHHHHHHHHHHHCCCCCchHHHHHHHHHHhcccCCHHHHHHh-hCCCCCCHHHHHHHHHHH
Q 005729          125 PAPLWHSLLKNLCSSNSSIDLAYAVVSWLQKHNLCYSYELLYSILIHALGRSEKLYEAFLL-SQRQRLTPLTYNALISAC  203 (680)
Q Consensus       125 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~-~~~~~~~~~~~~~li~~~  203 (680)
                      ..+.+..+...+| +.|+++.|.++|++|.+.|..+.+...++.++..|.+.|.+.+|+.+ ..+..||..+|+.+|.+|
T Consensus       369 ~~~~~~~~y~~l~-r~G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~~pd~~Tyn~LL~a~  447 (1060)
T PLN03218        369 KSPEYIDAYNRLL-RDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRNPTLSTFNMLMSVC  447 (1060)
T ss_pred             CchHHHHHHHHHH-HCcCHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcCCCCHHHHHHHHHHH
Confidence            3456667777777 56899999999999999997677778889999999999999999988 556669999999999999


Q ss_pred             HHcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCCHHH
Q 005729          204 ARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASK  283 (680)
Q Consensus       204 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  283 (680)
                      ++.|++++|+++|++|.+.|+.||..+|+.+|.+|++.|+++.  +.++|++|.+.|+.||..+||.||.+|++.|++++
T Consensus       448 ~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~--A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~ee  525 (1060)
T PLN03218        448 ASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDA--MFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAK  525 (1060)
T ss_pred             HhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHH--HHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHH
Confidence            9999999999999999999999999999999999999999855  57999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHH--cCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 005729          284 AMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKE--SGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEM  361 (680)
Q Consensus       284 A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~--~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  361 (680)
                      |+++|+.|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.+  .|+.||..+|+.+|.+|++.|++++|.++|+.|
T Consensus       526 Al~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M  605 (1060)
T PLN03218        526 AFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMI  605 (1060)
T ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            999999999999999999999999999999999999999999986  678999999999999999999999999999999


Q ss_pred             HHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH
Q 005729          362 ERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTH  441 (680)
Q Consensus       362 ~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~  441 (680)
                      .+.|+.|+..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|++.|++++|.++|++|.+.|+.|+..
T Consensus       606 ~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~  685 (1060)
T PLN03218        606 HEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTV  685 (1060)
T ss_pred             HHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 005729          442 FYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLG  521 (680)
Q Consensus       442 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~  521 (680)
                      +|+.||.+|++.|++++|.++|++|.+.|+.||..+||.||.+|++.|++++|.++|++|.+.|+.||..||+.++.+|+
T Consensus       686 tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~a~~  765 (1060)
T PLN03218        686 SYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASE  765 (1060)
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHH------Hh--------hhHHHHHHHHHHHHHCCC
Q 005729          522 EQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIEC------LE--------GLSDQAVNAFRVMRTDGL  587 (680)
Q Consensus       522 ~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~------~~--------~~~~~a~~~~~~m~~~g~  587 (680)
                      +.|++++|.+++.+|.+.|+.||..+|++++..|.+  ++++|.+.      |+        ...++|+.+|++|.+.|+
T Consensus       766 k~G~le~A~~l~~~M~k~Gi~pd~~tynsLIglc~~--~y~ka~~l~~~v~~f~~g~~~~~n~w~~~Al~lf~eM~~~Gi  843 (1060)
T PLN03218        766 RKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCLR--RFEKACALGEPVVSFDSGRPQIENKWTSWALMVYRETISAGT  843 (1060)
T ss_pred             HCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH--HHHHHhhhhhhhhhhhccccccccchHHHHHHHHHHHHHCCC
Confidence            999999999999999999999999999999976532  34444333      22        335789999999999999


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCcCcHHHHHHHHHHcCCCCCHH
Q 005729          588 KPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPDRK  662 (680)
Q Consensus       588 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd~~  662 (680)
                      .||..||+.++.++++.+..+.+..+++.|...+..|+..+|+++++++.+.  .++|..++++|.+.|+.|+..
T Consensus       844 ~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~~~~~~~~~~~y~~Li~g~~~~--~~~A~~l~~em~~~Gi~p~~~  916 (1060)
T PLN03218        844 LPTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGFGEY--DPRAFSLLEEAASLGVVPSVS  916 (1060)
T ss_pred             CCCHHHHHHHHHHhcccccHHHHHHHHHHhccCCCCcchhhhHHHHHhhccC--hHHHHHHHHHHHHcCCCCCcc
Confidence            9999999999999989999999999999999888999999999999998432  368999999999999999986

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=6.4e-67  Score=586.97  Aligned_cols=495  Identities=19%  Similarity=0.325  Sum_probs=466.3

Q ss_pred             chHHHHHHHHHHhcccCCHHHHHHh-h-----CCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCChhhHHHH
Q 005729          161 SYELLYSILIHALGRSEKLYEAFLL-S-----QRQRLTPLTYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLV  234 (680)
Q Consensus       161 ~~~~~~~~li~~~~~~g~~~~A~~~-~-----~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l  234 (680)
                      .+...|..++..|++.|++.+|+.+ .     ....++..+++.++.+|.+.|.+++|+.+|+.|..    ||..+|+.+
T Consensus       368 ~~~~~~~~~y~~l~r~G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~~----pd~~Tyn~L  443 (1060)
T PLN03218        368 RKSPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRN----PTLSTFNML  443 (1060)
T ss_pred             CCchHHHHHHHHHHHCcCHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcCC----CCHHHHHHH
Confidence            3455688888999999999999987 1     12346777888999999999999999999999975    999999999


Q ss_pred             HHHHHhcCCCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 005729          235 IQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSG  314 (680)
Q Consensus       235 l~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g  314 (680)
                      |.+|++.|+++.  +.++|++|.+.|+.||..+||.||.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|
T Consensus       444 L~a~~k~g~~e~--A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G  521 (1060)
T PLN03218        444 MSVCASSQDIDG--ALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAG  521 (1060)
T ss_pred             HHHHHhCcCHHH--HHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCc
Confidence            999999999855  579999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--CCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Q 005729          315 RTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMER--SGVLPDEHTYSLLIDAYANAGRWESARIV  392 (680)
Q Consensus       315 ~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~--~g~~~~~~~~~~li~~~~~~g~~~~A~~~  392 (680)
                      ++++|.++|++|.+.|+.||..+|+.||.+|++.|++++|.++|++|.+  .|+.||..+|++||.+|++.|++++|.++
T Consensus       522 ~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~el  601 (1060)
T PLN03218        522 QVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEV  601 (1060)
T ss_pred             CHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHH
Confidence            9999999999999999999999999999999999999999999999986  67899999999999999999999999999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCC
Q 005729          393 LKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIE  472 (680)
Q Consensus       393 ~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~  472 (680)
                      |++|.+.++.|+..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|++.|++++|.++|+.|.+.|+.
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~~  681 (1060)
T PLN03218        602 YQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIK  681 (1060)
T ss_pred             HHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 005729          473 PDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLV  552 (680)
Q Consensus       473 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li  552 (680)
                      ||..+|+.+|.+|+++|++++|.++|++|.+.|+.||..+|+.||.+|++.|++++|.++|++|.+.|+.||..||+.++
T Consensus       682 pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL  761 (1060)
T PLN03218        682 LGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILL  761 (1060)
T ss_pred             CCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh-----------------------cCCHHH
Q 005729          553 DIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGE-----------------------DQRDAE  609 (680)
Q Consensus       553 ~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~-----------------------~g~~~~  609 (680)
                      .+|++.|++++|.++           |..|.+.|+.||..+|++++..|.+                       .++.++
T Consensus       762 ~a~~k~G~le~A~~l-----------~~~M~k~Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~g~~~~~n~w~~~  830 (1060)
T PLN03218        762 VASERKDDADVGLDL-----------LSQAKEDGIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSW  830 (1060)
T ss_pred             HHHHHCCCHHHHHHH-----------HHHHHHcCCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccccccchHHH
Confidence            999999998887766           6689999999999999999976542                       123578


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCcCcHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 005729          610 AFAVLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPDRKARAMLRSALR  672 (680)
Q Consensus       610 A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd~~~~~~l~~a~~  672 (680)
                      |..+|++|++.|+.||..||+.++.++++.+....+..++++|...+..|+..++..++.++.
T Consensus       831 Al~lf~eM~~~Gi~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~~~~~~~~~~~y~~Li~g~~  893 (1060)
T PLN03218        831 ALMVYRETISAGTLPTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGFG  893 (1060)
T ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHhcccccHHHHHHHHHHhccCCCCcchhhhHHHHHhhc
Confidence            999999999999999999999999888899999999999999999999999999998877764

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=1.9e-66  Score=595.18  Aligned_cols=505  Identities=17%  Similarity=0.239  Sum_probs=461.7

Q ss_pred             ChhhHHHHHHHHhhCCCChHHHHHHHHHHHHCCCCCchHHHHHHHHHHhcccCCHHHHHHh-hCCCCCCHHHHHHHHHHH
Q 005729          125 PAPLWHSLLKNLCSSNSSIDLAYAVVSWLQKHNLCYSYELLYSILIHALGRSEKLYEAFLL-SQRQRLTPLTYNALISAC  203 (680)
Q Consensus       125 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~-~~~~~~~~~~~~~li~~~  203 (680)
                      |+...+..+...|...+++..+.++|..+.+.|+ .++..+++.||.+|+++|++++|..+ ..+..+|.++||+||.+|
T Consensus       185 Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~g~-~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~~d~~s~n~li~~~  263 (857)
T PLN03077        185 PDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGF-ELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGY  263 (857)
T ss_pred             CChhHHHHHHHHhCCccchhhHHHHHHHHHHcCC-CcccchHhHHHHHHhcCCCHHHHHHHHhcCCCCCcchhHHHHHHH
Confidence            3333333344445566777888888888888885 45678899999999999999999998 778889999999999999


Q ss_pred             HHcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCCHHH
Q 005729          204 ARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASK  283 (680)
Q Consensus       204 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  283 (680)
                      ++.|++++|+++|++|.+.|+.||.+||+.++.+|++.|+.+  .+++++..|.+.|+.||..+||.||.+|++.|++++
T Consensus       264 ~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~--~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~  341 (857)
T PLN03077        264 FENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDER--LGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGE  341 (857)
T ss_pred             HhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChH--HHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHH
Confidence            999999999999999999999999999999999999999884  467999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 005729          284 AMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMER  363 (680)
Q Consensus       284 A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  363 (680)
                      |.++|+.|.    .||..+||++|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|++++|.++++.|.+
T Consensus       342 A~~vf~~m~----~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~  417 (857)
T PLN03077        342 AEKVFSRME----TKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAER  417 (857)
T ss_pred             HHHHHhhCC----CCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHH
Confidence            999999996    5899999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHH
Q 005729          364 SGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFY  443 (680)
Q Consensus       364 ~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~  443 (680)
                      .|+.|+..+|+.|+++|++.|++++|.++|++|.+    +|..+|+.++.+|++.|+.++|+.+|++|.. ++.||..||
T Consensus       418 ~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~----~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~  492 (857)
T PLN03077        418 KGLISYVVVANALIEMYSKCKCIDKALEVFHNIPE----KDVISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTL  492 (857)
T ss_pred             hCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCC----CCeeeHHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHH
Confidence            99999999999999999999999999999999964    6888999999999999999999999999986 589999999


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 005729          444 NVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQ  523 (680)
Q Consensus       444 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~  523 (680)
                      +.++.+|++.|+++.+.+++..+.+.|+.+|..++|+||.+|+++|++++|.++|+++     .+|..+|+.+|.+|++.
T Consensus       493 ~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~-----~~d~~s~n~lI~~~~~~  567 (857)
T PLN03077        493 IAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH-----EKDVVSWNILLTGYVAH  567 (857)
T ss_pred             HHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhc-----CCChhhHHHHHHHHHHc
Confidence            9999999999999999999999999999999999999999999999999999999987     57899999999999999


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHH-HCCCCCCHHHHHHHHHHHH
Q 005729          524 ERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMR-TDGLKPSNLALNSLINAFG  602 (680)
Q Consensus       524 g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~-~~g~~p~~~~~~~li~~~~  602 (680)
                      |+.++|.++|++|.+.|+.||..||+.++.+|++.|++++|.++           |+.|. ..|+.|+..+|++++++|+
T Consensus       568 G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~-----------f~~M~~~~gi~P~~~~y~~lv~~l~  636 (857)
T PLN03077        568 GKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEY-----------FHSMEEKYSITPNLKHYACVVDLLG  636 (857)
T ss_pred             CCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHH-----------HHHHHHHhCCCCchHHHHHHHHHHH
Confidence            99999999999999999999999999999999999888777665           56787 5689999999999999999


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCcCcHHHHHHHHHHcCCCCCHH
Q 005729          603 EDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPDRK  662 (680)
Q Consensus       603 ~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd~~  662 (680)
                      +.|++++|.+++++|.   +.||..+|++|+.+|...|+.+.+....+++.+  +.|+..
T Consensus       637 r~G~~~eA~~~~~~m~---~~pd~~~~~aLl~ac~~~~~~e~~e~~a~~l~~--l~p~~~  691 (857)
T PLN03077        637 RAGKLTEAYNFINKMP---ITPDPAVWGALLNACRIHRHVELGELAAQHIFE--LDPNSV  691 (857)
T ss_pred             hCCCHHHHHHHHHHCC---CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHh--hCCCCc
Confidence            9999999999999883   789999999999998888888888888877776  456543

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

Probab=100.00  E-value=7.7e-62  Score=544.22  Aligned_cols=472  Identities=19%  Similarity=0.263  Sum_probs=439.9

Q ss_pred             hhhHHHHHHHHhhCCCChHHHHHHHHHHHHCCCCCchHHHHHHHHHHhcccCCHHHHHHhhCCCCCCHHHHHHHHHHHHH
Q 005729          126 APLWHSLLKNLCSSNSSIDLAYAVVSWLQKHNLCYSYELLYSILIHALGRSEKLYEAFLLSQRQRLTPLTYNALISACAR  205 (680)
Q Consensus       126 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~li~~~~~  205 (680)
                      ...|..++..++ ..++++.|..+|.|+...+.                              ..+|..+|++++.+|++
T Consensus        87 ~~~~~~~i~~l~-~~g~~~~Al~~f~~m~~~~~------------------------------~~~~~~t~~~ll~a~~~  135 (697)
T PLN03081         87 GVSLCSQIEKLV-ACGRHREALELFEILEAGCP------------------------------FTLPASTYDALVEACIA  135 (697)
T ss_pred             ceeHHHHHHHHH-cCCCHHHHHHHHHHHHhcCC------------------------------CCCCHHHHHHHHHHHHh
Confidence            345666776665 34677778888877765431                              24678899999999999


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCCHHHHH
Q 005729          206 NDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAM  285 (680)
Q Consensus       206 ~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~  285 (680)
                      .++++.|.+++..|.+.|+.||..+|+.++..|++.|+++.  |.++|++|.    .||..+||.+|.+|++.|++++|+
T Consensus       136 ~~~~~~a~~l~~~m~~~g~~~~~~~~n~Li~~y~k~g~~~~--A~~lf~~m~----~~~~~t~n~li~~~~~~g~~~~A~  209 (697)
T PLN03081        136 LKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLID--ARRLFDEMP----ERNLASWGTIIGGLVDAGNYREAF  209 (697)
T ss_pred             CCCHHHHHHHHHHHHHhCCCcchHHHHHHHHHHhcCCCHHH--HHHHHhcCC----CCCeeeHHHHHHHHHHCcCHHHHH
Confidence            99999999999999999999999999999999999999855  579999996    479999999999999999999999


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC
Q 005729          286 RFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSG  365 (680)
Q Consensus       286 ~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  365 (680)
                      ++|++|.+.|+.|+..+|+.++.+|++.|..+.+.+++..+.+.|+.||..+||.||++|++.|++++|.++|++|.+  
T Consensus       210 ~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~--  287 (697)
T PLN03081        210 ALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPE--  287 (697)
T ss_pred             HHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCC--
Confidence            999999999999999999999999999999999999999999999999999999999999999999999999999974  


Q ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 005729          366 VLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNV  445 (680)
Q Consensus       366 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~  445 (680)
                        +|..+||+||.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|++++|.+++.+|.+.|+.||..+|+.
T Consensus       288 --~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~  365 (697)
T PLN03081        288 --KTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTA  365 (697)
T ss_pred             --CChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHH
Confidence              589999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 005729          446 MIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQER  525 (680)
Q Consensus       446 li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~  525 (680)
                      |+++|++.|++++|.++|++|.    .+|..+||.||.+|++.|+.++|.++|++|.+.|+.||..||+.++.+|++.|+
T Consensus       366 Li~~y~k~G~~~~A~~vf~~m~----~~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~  441 (697)
T PLN03081        366 LVDLYSKWGRMEDARNVFDRMP----RKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGL  441 (697)
T ss_pred             HHHHHHHCCCHHHHHHHHHhCC----CCCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCc
Confidence            9999999999999999999997    479999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHHH-CCCCCCHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 005729          526 WEDVKRLLGNMRA-QGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGED  604 (680)
Q Consensus       526 ~~~A~~~~~~m~~-~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~  604 (680)
                      +++|.++|+.|.+ .|+.|+..+|+.++++|++.|++++|.++++           +   .+..|+..+|++|+.+|..+
T Consensus       442 ~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~-----------~---~~~~p~~~~~~~Ll~a~~~~  507 (697)
T PLN03081        442 SEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIR-----------R---APFKPTVNMWAALLTACRIH  507 (697)
T ss_pred             HHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHH-----------H---CCCCCCHHHHHHHHHHHHHc
Confidence            9999999999986 5999999999999999999999999987653           3   35789999999999999999


Q ss_pred             CCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCcCcHHHHHHHHHHcCCC
Q 005729          605 QRDAEAFAVLQYMKENGLKP-DVVTYTTLMKALIRVDKFHKVPAVYEEMILSGCT  658 (680)
Q Consensus       605 g~~~~A~~~~~~m~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~  658 (680)
                      |+++.|..+++++.+  +.| +..+|..|++.|++.|++++|.+++++|.+.|+.
T Consensus       508 g~~~~a~~~~~~l~~--~~p~~~~~y~~L~~~y~~~G~~~~A~~v~~~m~~~g~~  560 (697)
T PLN03081        508 KNLELGRLAAEKLYG--MGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLS  560 (697)
T ss_pred             CCcHHHHHHHHHHhC--CCCCCCcchHHHHHHHHhCCCHHHHHHHHHHHHHcCCc
Confidence            999999999999976  556 4679999999999999999999999999999975

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

Probab=100.00  E-value=6e-60  Score=528.97  Aligned_cols=511  Identities=16%  Similarity=0.239  Sum_probs=445.8

Q ss_pred             ccccchhhHHHHhhcCCCccccccccCCCcchhhhHHHHHhhhcCCChh-hHHHHHHHHhhCCCChHHHHHHHHHHHHCC
Q 005729           79 KQRYDFTPLLNFLSENSNSESASALASSPSSLNRVEFKLAESYRAVPAP-LWHSLLKNLCSSNSSIDLAYAVVSWLQKHN  157 (680)
Q Consensus        79 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  157 (680)
                      .+..+++..+..++..|..++|..+.+          .+.......++. .+..++. .|...++++.+.++|..+.+.|
T Consensus        85 ~~~~~~~~~i~~l~~~g~~~~Al~~f~----------~m~~~~~~~~~~~t~~~ll~-a~~~~~~~~~a~~l~~~m~~~g  153 (697)
T PLN03081         85 KSGVSLCSQIEKLVACGRHREALELFE----------ILEAGCPFTLPASTYDALVE-ACIALKSIRCVKAVYWHVESSG  153 (697)
T ss_pred             CCceeHHHHHHHHHcCCCHHHHHHHHH----------HHHhcCCCCCCHHHHHHHHH-HHHhCCCHHHHHHHHHHHHHhC
Confidence            344567788888888888765543322          122222222333 4445554 4556788999999999999999


Q ss_pred             CCCchHHHHHHHHHHhcccCCHHHHHHh-hCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCChhhHHHHHH
Q 005729          158 LCYSYELLYSILIHALGRSEKLYEAFLL-SQRQRLTPLTYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQ  236 (680)
Q Consensus       158 ~~~~~~~~~~~li~~~~~~g~~~~A~~~-~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~  236 (680)
                      +. ++..+++.|+++|+++|++++|..+ ..+..+|.++||++|.+|++.|++++|+++|++|.+.|+.|+..+|+.++.
T Consensus       154 ~~-~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~  232 (697)
T PLN03081        154 FE-PDQYMMNRVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLR  232 (697)
T ss_pred             CC-cchHHHHHHHHHHhcCCCHHHHHHHHhcCCCCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHH
Confidence            64 5688999999999999999999998 777889999999999999999999999999999999999999999999999


Q ss_pred             HHHhcCCCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCh
Q 005729          237 SLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRT  316 (680)
Q Consensus       237 ~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~  316 (680)
                      +|++.|..  ..+++++..+.+.|+.+|..++|.||.+|+++|++++|.++|+.|.    .+|+++||++|.+|++.|+.
T Consensus       233 a~~~~~~~--~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~----~~~~vt~n~li~~y~~~g~~  306 (697)
T PLN03081        233 ASAGLGSA--RAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMP----EKTTVAWNSMLAGYALHGYS  306 (697)
T ss_pred             HHhcCCcH--HHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCC----CCChhHHHHHHHHHHhCCCH
Confidence            99999987  4467999999999999999999999999999999999999999996    47999999999999999999


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 005729          317 IEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEM  396 (680)
Q Consensus       317 ~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  396 (680)
                      ++|+++|++|.+.|+.||..||+.++.+|++.|++++|.+++..|.+.|+.||..+|++|+++|++.|++++|.++|++|
T Consensus       307 ~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m  386 (697)
T PLN03081        307 EEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRM  386 (697)
T ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHH-CCCCCCH
Q 005729          397 EVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLS-EGIEPDT  475 (680)
Q Consensus       397 ~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-~~~~~~~  475 (680)
                      .    .+|..+|+.+|.+|++.|+.++|.++|++|.+.|+.||..||+.++.+|++.|.+++|.++|+.|.+ .|+.|+.
T Consensus       387 ~----~~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~  462 (697)
T PLN03081        387 P----RKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRA  462 (697)
T ss_pred             C----CCCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCc
Confidence            6    4789999999999999999999999999999999999999999999999999999999999999986 6999999


Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHH
Q 005729          476 ITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLP-NVVTYTTLVDI  554 (680)
Q Consensus       476 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p-~~~~~~~li~~  554 (680)
                      .+|+.++++|++.|++++|.+++++|   ++.|+..+|+.++.+|+..|+++.|..+++++.+.  .| +..+|..|++.
T Consensus       463 ~~y~~li~~l~r~G~~~eA~~~~~~~---~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~--~p~~~~~y~~L~~~  537 (697)
T PLN03081        463 MHYACMIELLGREGLLDEAYAMIRRA---PFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGM--GPEKLNNYVVLLNL  537 (697)
T ss_pred             cchHhHHHHHHhcCCHHHHHHHHHHC---CCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhCC--CCCCCcchHHHHHH
Confidence            99999999999999999999999876   56899999999999999999999999999999764  45 46799999999


Q ss_pred             HHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCH-HHHHHH-------HHHHHhc----CCHHHHHHHHHHHHHCCC
Q 005729          555 YGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSN-LALNSL-------INAFGED----QRDAEAFAVLQYMKENGL  622 (680)
Q Consensus       555 ~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~-~~~~~l-------i~~~~~~----g~~~~A~~~~~~m~~~g~  622 (680)
                      |++.|++++|.++           ++.|++.|++... .+|..+       +.+-..+    .-++...++..+|.+.|.
T Consensus       538 y~~~G~~~~A~~v-----------~~~m~~~g~~k~~g~s~i~~~~~~~~f~~~d~~h~~~~~i~~~l~~l~~~~~~~gy  606 (697)
T PLN03081        538 YNSSGRQAEAAKV-----------VETLKRKGLSMHPACTWIEVKKQDHSFFSGDRLHPQSREIYQKLDELMKEISEYGY  606 (697)
T ss_pred             HHhCCCHHHHHHH-----------HHHHHHcCCccCCCeeEEEECCeEEEEccCCCCCccHHHHHHHHHHHHHHHHHcCC
Confidence            9999999988776           5588888875332 233211       1110001    113456678888899999


Q ss_pred             CCCHH
Q 005729          623 KPDVV  627 (680)
Q Consensus       623 ~p~~~  627 (680)
                      .||..
T Consensus       607 ~~~~~  611 (697)
T PLN03081        607 VAEEN  611 (697)
T ss_pred             CCCcc
Confidence            99753

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

Probab=100.00  E-value=2.5e-28  Score=285.97  Aligned_cols=519  Identities=15%  Similarity=0.092  Sum_probs=351.5

Q ss_pred             hhCCCChHHHHHHHHHHHHCCCCCchHHHHHHHHHHhcccCCHHHHHHh----hCCCCCCHHHHHHHHHHHHHcCCHHHH
Q 005729          137 CSSNSSIDLAYAVVSWLQKHNLCYSYELLYSILIHALGRSEKLYEAFLL----SQRQRLTPLTYNALISACARNDDLEKA  212 (680)
Q Consensus       137 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~----~~~~~~~~~~~~~li~~~~~~g~~~~A  212 (680)
                      ....++++.|...+..+.+..  |.+...+..+...+.+.|++++|...    ....+.+...|+.+...+.+.|++++|
T Consensus       305 ~~~~g~~~~A~~~~~~~~~~~--p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  382 (899)
T TIGR02917       305 EYQLGNLEQAYQYLNQILKYA--PNSHQARRLLASIQLRLGRVDEAIATLSPALGLDPDDPAALSLLGEAYLALGDFEKA  382 (899)
T ss_pred             HHHcCCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHCCCHHHH
Confidence            334566777777777766654  44455566666666667777666654    333444566666666666666777777


Q ss_pred             HHHHHHHHHcCCCCChhhHHHHHHHHHhcCCCChH--------------------------------HHHHHHHHHHhCC
Q 005729          213 LNLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSS--------------------------------LLQKLYKEIECDK  260 (680)
Q Consensus       213 ~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~~--------------------------------~~~~l~~~~~~~~  260 (680)
                      ++.|+++.+.. +.+...+..+...+...|+.+.+                                .+..+++.+... 
T Consensus       383 ~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-  460 (899)
T TIGR02917       383 AEYLAKATELD-PENAAARTQLGISKLSQGDPSEAIADLETAAQLDPELGRADLLLILSYLRSGQFDKALAAAKKLEKK-  460 (899)
T ss_pred             HHHHHHHHhcC-CCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhhCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHHh-
Confidence            77666665543 12233333444444444444322                                122334433332 


Q ss_pred             CCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHH
Q 005729          261 IELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNA  340 (680)
Q Consensus       261 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~  340 (680)
                      .+.+..+++.+...|...|++++|.+.|+++.+.. +.+...+..+...+...|++++|.+.|+++.+.+ +.+..++..
T Consensus       461 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~  538 (899)
T TIGR02917       461 QPDNASLHNLLGAIYLGKGDLAKAREAFEKALSIE-PDFFPAAANLARIDIQEGNPDDAIQRFEKVLTID-PKNLRAILA  538 (899)
T ss_pred             CCCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHH
Confidence            23455666777777777777777777777766542 2334556666677777777777777777776653 345666777


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 005729          341 LLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGE  420 (680)
Q Consensus       341 li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~  420 (680)
                      +...+.+.|+.++|..+++++.+.+ +.+...+..++..|.+.|++++|..+++.+.... +.+...|..+..++...|+
T Consensus       539 l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~  616 (899)
T TIGR02917       539 LAGLYLRTGNEEEAVAWLEKAAELN-PQEIEPALALAQYYLGKGQLKKALAILNEAADAA-PDSPEAWLMLGRAQLAAGD  616 (899)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-ccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCC
Confidence            7777777777777777777776654 2355666677777777777777777777776543 4466777777788888888


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHH
Q 005729          421 WQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEE  500 (680)
Q Consensus       421 ~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  500 (680)
                      +++|...|+++.+.. +.+...+..+...+.+.|++++|..+|+++.+.. +.+..++..++..+...|++++|..+++.
T Consensus       617 ~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  694 (899)
T TIGR02917       617 LNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKS  694 (899)
T ss_pred             HHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            888888888777654 4456677777777778888888888888777654 34567777778888888888888888888


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHh-----------
Q 005729          501 MQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLE-----------  569 (680)
Q Consensus       501 m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~-----------  569 (680)
                      +.+.+ +.+...+..+...+...|++++|...+.++...+  |+..++..++.++.+.|++++|.+.++           
T Consensus       695 ~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~~~~~~  771 (899)
T TIGR02917       695 LQKQH-PKAALGFELEGDLYLRQKDYPAAIQAYRKALKRA--PSSQNAIKLHRALLASGNTAEAVKTLEAWLKTHPNDAV  771 (899)
T ss_pred             HHhhC-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHH
Confidence            77765 5566777777778888888888888888887753  444667777888888888888877665           


Q ss_pred             ------------hhHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 005729          570 ------------GLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALI  637 (680)
Q Consensus       570 ------------~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~  637 (680)
                                  +..++|.+.|+++.+.. +.+..+++.++..+.+.|+ .+|+.+++++.+.. +-+..++..+..++.
T Consensus       772 ~~~~la~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~  848 (899)
T TIGR02917       772 LRTALAELYLAQKDYDKAIKHYRTVVKKA-PDNAVVLNNLAWLYLELKD-PRALEYAEKALKLA-PNIPAILDTLGWLLV  848 (899)
T ss_pred             HHHHHHHHHHHCcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhC-CCCcHHHHHHHHHHH
Confidence                        44567777787877653 3455678888888888888 77888888887742 235567778888888


Q ss_pred             hcCCcCcHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 005729          638 RVDKFHKVPAVYEEMILSGCTPDRKARAMLRSALR  672 (680)
Q Consensus       638 ~~g~~~~A~~~~~~m~~~g~~pd~~~~~~l~~a~~  672 (680)
                      +.|++++|.++++++++.+.. +..++..+..++.
T Consensus       849 ~~g~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~  882 (899)
T TIGR02917       849 EKGEADRALPLLRKAVNIAPE-AAAIRYHLALALL  882 (899)
T ss_pred             HcCCHHHHHHHHHHHHhhCCC-ChHHHHHHHHHHH
Confidence            899999999999999987654 6666665555554

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=1.6e-28  Score=287.59  Aligned_cols=498  Identities=13%  Similarity=0.052  Sum_probs=352.9

Q ss_pred             hCCCChHHHHHHHHHHHHCCCCCchHHHHHHHHHHhcccCCHHHHHHh----hCCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 005729          138 SSNSSIDLAYAVVSWLQKHNLCYSYELLYSILIHALGRSEKLYEAFLL----SQRQRLTPLTYNALISACARNDDLEKAL  213 (680)
Q Consensus       138 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~----~~~~~~~~~~~~~li~~~~~~g~~~~A~  213 (680)
                      ...|+++.|..+|.++.+.+  +.+...+..+...+...|++.+|...    ....+.+...+..++..+.+.|++++|+
T Consensus       374 ~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~  451 (899)
T TIGR02917       374 LALGDFEKAAEYLAKATELD--PENAAARTQLGISKLSQGDPSEAIADLETAAQLDPELGRADLLLILSYLRSGQFDKAL  451 (899)
T ss_pred             HHCCCHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhhCCcchhhHHHHHHHHHhcCCHHHHH
Confidence            34456666666666666554  44445555666666666666666544    2222233344555566666666666666


Q ss_pred             HHHHHHHHcCCCCChhhHHHHHHHHHhcCCCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Q 005729          214 NLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQG  293 (680)
Q Consensus       214 ~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  293 (680)
                      .+++++... .+.+..++..+...+...|+.+.  +...|.++.+.. +.+...+..+...+...|++++|.+.|+.+..
T Consensus       452 ~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~--A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~  527 (899)
T TIGR02917       452 AAAKKLEKK-QPDNASLHNLLGAIYLGKGDLAK--AREAFEKALSIE-PDFFPAAANLARIDIQEGNPDDAIQRFEKVLT  527 (899)
T ss_pred             HHHHHHHHh-CCCCcHHHHHHHHHHHhCCCHHH--HHHHHHHHHhhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            666666554 23455667777777777777744  457777766542 34556677777778888888888888887776


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHH
Q 005729          294 VGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTY  373 (680)
Q Consensus       294 ~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~  373 (680)
                      .+ +.+..++..+...+.+.|+.++|...++++.+.+ +.+...+..++..|.+.|++++|..+++.+.+.. +.+...|
T Consensus       528 ~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  604 (899)
T TIGR02917       528 ID-PKNLRAILALAGLYLRTGNEEEAVAWLEKAAELN-PQEIEPALALAQYYLGKGQLKKALAILNEAADAA-PDSPEAW  604 (899)
T ss_pred             hC-cCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHH
Confidence            53 3456677777788888888888888888877654 3456667777777888888888888888777643 3466777


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcc
Q 005729          374 SLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKY  453 (680)
Q Consensus       374 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~  453 (680)
                      ..+...|...|++++|+..|+++.+.. +.+...+..+..++.+.|++++|...++++.+.. +.+..++..++..+...
T Consensus       605 ~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~  682 (899)
T TIGR02917       605 LMLGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAA  682 (899)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHc
Confidence            777888888888888888888776653 3355667777777777888888888887777653 45567777777777778


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 005729          454 NCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLL  533 (680)
Q Consensus       454 g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~  533 (680)
                      |++++|..+++.+.+.. +.+...+..+...+.+.|++++|.+.|+++.+.+  |+..++..+...+.+.|++++|.+.+
T Consensus       683 ~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~  759 (899)
T TIGR02917       683 KRTESAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPAAIQAYRKALKRA--PSSQNAIKLHRALLASGNTAEAVKTL  759 (899)
T ss_pred             CCHHHHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHCCCHHHHHHHH
Confidence            88888888887777664 3456667777777777788888888887777664  44466666777777777777777777


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHh-----------------------hhHHHHHHHHHHHHHCCCCCC
Q 005729          534 GNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLE-----------------------GLSDQAVNAFRVMRTDGLKPS  590 (680)
Q Consensus       534 ~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~-----------------------~~~~~a~~~~~~m~~~g~~p~  590 (680)
                      .++.+.. +.+...+..+...|.+.|++++|.+.|+                       +. .+|+..++++.... +-+
T Consensus       760 ~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~-~~~  836 (899)
T TIGR02917       760 EAWLKTH-PNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKAPDNAVVLNNLAWLYLELKD-PRALEYAEKALKLA-PNI  836 (899)
T ss_pred             HHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhC-CCC
Confidence            7777653 3366777777777777777777777765                       22 34666677766532 223


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCcCcHHHHHHHHH
Q 005729          591 NLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMI  653 (680)
Q Consensus       591 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  653 (680)
                      ..++..+..++...|++++|..+++++.+.+. .+..++..++.++.+.|++++|.+++++|+
T Consensus       837 ~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  898 (899)
T TIGR02917       837 PAILDTLGWLLVEKGEADRALPLLRKAVNIAP-EAAAIRYHLALALLATGRKAEARKELDKLL  898 (899)
T ss_pred             cHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC-CChHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            45788899999999999999999999999653 388999999999999999999999999986

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

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.93  E-value=4.4e-20  Score=217.65  Aligned_cols=506  Identities=13%  Similarity=0.031  Sum_probs=298.1

Q ss_pred             HhhCCCChHHHHHHHHHHHHCCCCCchHHHHHHHHHHhcccCCHHHHHHh----hCCCCCCHHHH---------------
Q 005729          136 LCSSNSSIDLAYAVVSWLQKHNLCYSYELLYSILIHALGRSEKLYEAFLL----SQRQRLTPLTY---------------  196 (680)
Q Consensus       136 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~----~~~~~~~~~~~---------------  196 (680)
                      +....++.+.|.+.+.++....  |.++.++..++..+.+.|+.++|...    ....+.+...+               
T Consensus        37 ~~~~~~~~d~a~~~l~kl~~~~--p~~p~~~~~~~~~~l~~g~~~~A~~~l~~l~~~~P~~~~~~~~~~~~~~~~~~~~~  114 (1157)
T PRK11447         37 LGEATHREDLVRQSLYRLELID--PNNPDVIAARFRLLLRQGDSDGAQKLLDRLSQLAPDSNAYRSSRTTMLLSTPEGRQ  114 (1157)
T ss_pred             HHHhhCChHHHHHHHHHHHccC--CCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHhcCCchhh
Confidence            4445566777777777777665  66666777777777777777777654    33333343332               


Q ss_pred             -HHHHHHHHHcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHH-HhcCCCChHHHHHHHHHHHhCCCCcCHHHHHHHHHH
Q 005729          197 -NALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSL-TRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVG  274 (680)
Q Consensus       197 -~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~-~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~~~li~~  274 (680)
                       ..+...+.+.|++++|++.|+++...+ +|+...-....... ...|+.  ..+...++++.... +.+...+..+...
T Consensus       115 ~l~~A~ll~~~g~~~eA~~~~~~~l~~~-p~~~~la~~y~~~~~~~~g~~--~~A~~~L~~ll~~~-P~~~~~~~~LA~l  190 (1157)
T PRK11447        115 ALQQARLLATTGRTEEALASYDKLFNGA-PPELDLAVEYWRLVAKLPAQR--PEAINQLQRLNADY-PGNTGLRNTLALL  190 (1157)
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHccCC-CCChHHHHHHHHHHhhCCccH--HHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence             233445667777777777777776543 22221100111111 122444  23456666666542 3355566677777


Q ss_pred             HHHcCCHHHHHHHHHHHHhCCC------------------C--------------CCHHHH-------------------
Q 005729          275 FAKAGDASKAMRFLGMAQGVGL------------------S--------------PKTATY-------------------  303 (680)
Q Consensus       275 ~~~~g~~~~A~~~~~~~~~~g~------------------~--------------p~~~~~-------------------  303 (680)
                      +...|+.++|++.++++.....                  .              |+...+                   
T Consensus       191 l~~~g~~~eAl~~l~~~~~~~~~~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~dp~~  270 (1157)
T PRK11447        191 LFSSGRRDEGFAVLEQMAKSPAGRDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQLADPAF  270 (1157)
T ss_pred             HHccCCHHHHHHHHHHHhhCCCchHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhccCcch
Confidence            7777777777777766543210                  0              000000                   


Q ss_pred             --HHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC-CHHHH-------
Q 005729          304 --AAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLP-DEHTY-------  373 (680)
Q Consensus       304 --~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~-~~~~~-------  373 (680)
                        ......+...|++++|+..|++..+.. +.+...+..+...+.+.|++++|+..|++..+..... ....|       
T Consensus       271 ~~~~~G~~~~~~g~~~~A~~~l~~aL~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~  349 (1157)
T PRK11447        271 RARAQGLAAVDSGQGGKAIPELQQAVRAN-PKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVN  349 (1157)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhh
Confidence              011234556677777777777777653 3366677777777777777777777777776643221 11111       


Q ss_pred             -----HHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH-
Q 005729          374 -----SLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMI-  447 (680)
Q Consensus       374 -----~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li-  447 (680)
                           ..+...+.+.|++++|+..|++..... +.+...+..+...+...|++++|++.|++..+.. +.+...+..+. 
T Consensus       350 ~~~~~~~~g~~~~~~g~~~eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~-p~~~~a~~~L~~  427 (1157)
T PRK11447        350 RYWLLIQQGDAALKANNLAQAERLYQQARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMD-PGNTNAVRGLAN  427 (1157)
T ss_pred             hHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence                 112345567777777777777777654 2345566667777777777777777777776543 22333333333 


Q ss_pred             -----------------------------------------HHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 005729          448 -----------------------------------------DTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHF  486 (680)
Q Consensus       448 -----------------------------------------~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~  486 (680)
                                                               ..+...|++++|...|++..+.. +-+...+..+...|.
T Consensus       428 l~~~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~-P~~~~~~~~LA~~~~  506 (1157)
T PRK11447        428 LYRQQSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALD-PGSVWLTYRLAQDLR  506 (1157)
T ss_pred             HHHhcCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence                                                     33344566666666666665543 223445555666666


Q ss_pred             HcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH---------HHHHHHHHHHHh
Q 005729          487 KCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNV---------VTYTTLVDIYGQ  557 (680)
Q Consensus       487 ~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~---------~~~~~li~~~~~  557 (680)
                      +.|++++|...|+++.+.. +.+...+..+...+...++.++|...++.+......++.         ..+..+...+..
T Consensus       507 ~~G~~~~A~~~l~~al~~~-P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~  585 (1157)
T PRK11447        507 QAGQRSQADALMRRLAQQK-PNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRD  585 (1157)
T ss_pred             HcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHH
Confidence            6666666666666665542 223333333333444555555555555544321111111         112234455666


Q ss_pred             cCChHHHHHHHh-------------------hhHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 005729          558 SGRFDDAIECLE-------------------GLSDQAVNAFRVMRTDGLKPS-NLALNSLINAFGEDQRDAEAFAVLQYM  617 (680)
Q Consensus       558 ~g~~~~A~~~~~-------------------~~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m  617 (680)
                      .|+.++|.++++                   +..++|+..|++..+.  .|+ ...+..++.+|...|++++|++.++..
T Consensus       586 ~G~~~eA~~~l~~~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~--~P~~~~a~~~la~~~~~~g~~~eA~~~l~~l  663 (1157)
T PRK11447        586 SGKEAEAEALLRQQPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTR--EPGNADARLGLIEVDIAQGDLAAARAQLAKL  663 (1157)
T ss_pred             CCCHHHHHHHHHhCCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            677777766664                   4556777777777764  344 458888889999999999999999987


Q ss_pred             HHCCCCC-CHHHHHHHHHHHHhcCCcCcHHHHHHHHHHcC
Q 005729          618 KENGLKP-DVVTYTTLMKALIRVDKFHKVPAVYEEMILSG  656 (680)
Q Consensus       618 ~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g  656 (680)
                      .+.  .| +..++..+..++.+.|++++|.+++++++...
T Consensus       664 l~~--~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~  701 (1157)
T PRK11447        664 PAT--ANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQA  701 (1157)
T ss_pred             hcc--CCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhC
Confidence            763  44 45667778888889999999999999988753

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.92  E-value=7.1e-19  Score=207.47  Aligned_cols=497  Identities=11%  Similarity=0.027  Sum_probs=292.0

Q ss_pred             HhhCCCChHHHHHHHHHHHHCCCCCchHH-HHHHHHHHhcccCCHHHHHHh----hCCCCCCHHHHHHHHHHHHHcCCHH
Q 005729          136 LCSSNSSIDLAYAVVSWLQKHNLCYSYEL-LYSILIHALGRSEKLYEAFLL----SQRQRLTPLTYNALISACARNDDLE  210 (680)
Q Consensus       136 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~~li~~~~~~g~~~~A~~~----~~~~~~~~~~~~~li~~~~~~g~~~  210 (680)
                      +....+++++|.+.+..+.+.+  +++.. ............|+.++|+..    ....+.++..+..+...+...|+++
T Consensus       121 ll~~~g~~~eA~~~~~~~l~~~--p~~~~la~~y~~~~~~~~g~~~~A~~~L~~ll~~~P~~~~~~~~LA~ll~~~g~~~  198 (1157)
T PRK11447        121 LLATTGRTEEALASYDKLFNGA--PPELDLAVEYWRLVAKLPAQRPEAINQLQRLNADYPGNTGLRNTLALLLFSSGRRD  198 (1157)
T ss_pred             HHHhCCCHHHHHHHHHHHccCC--CCChHHHHHHHHHHhhCCccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHccCCHH
Confidence            3456789999999999998876  44322 111222223356889999876    4455677889999999999999999


Q ss_pred             HHHHHHHHHHHcCCCCC--hhhHHH-------------HHHHHH-hcCCCC-hHHHHHHHHHHHhCCCCcCHHHHHHHHH
Q 005729          211 KALNLMSKMRQDGYHCD--FINYSL-------------VIQSLT-RTNKID-SSLLQKLYKEIECDKIELDGQLLNDVIV  273 (680)
Q Consensus       211 ~A~~~~~~m~~~g~~p~--~~~~~~-------------ll~~~~-~~g~~~-~~~~~~l~~~~~~~~~~~~~~~~~~li~  273 (680)
                      +|+..|+++........  ...+..             .+..+. ...+.. ...+...+..+......|+.. ......
T Consensus       199 eAl~~l~~~~~~~~~~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~dp~~~-~~~~G~  277 (1157)
T PRK11447        199 EGFAVLEQMAKSPAGRDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQLADPAFR-ARAQGL  277 (1157)
T ss_pred             HHHHHHHHHhhCCCchHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhccCcchH-HHHHHH
Confidence            99999999865421000  000000             000000 000000 000111222211111111111 112234


Q ss_pred             HHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHH------------HH
Q 005729          274 GFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKP-RTKAY------------NA  340 (680)
Q Consensus       274 ~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p-~~~~~------------~~  340 (680)
                      .+...|++++|+..|++..+.. +.+...+..+...+.+.|++++|+..|++..+..... +...|            ..
T Consensus       278 ~~~~~g~~~~A~~~l~~aL~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~~~  356 (1157)
T PRK11447        278 AAVDSGQGGKAIPELQQAVRAN-PKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLLIQ  356 (1157)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHHHH
Confidence            4555666666666666665532 1245556666666666666666666666665532211 11111            11


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHH-------------
Q 005729          341 LLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFI-------------  407 (680)
Q Consensus       341 li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~-------------  407 (680)
                      ....+.+.|++++|...|+++.+.. +.+...+..+...|...|++++|++.|++..+.... +...             
T Consensus       357 ~g~~~~~~g~~~eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~-~~~a~~~L~~l~~~~~~  434 (1157)
T PRK11447        357 QGDAALKANNLAQAERLYQQARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMDPG-NTNAVRGLANLYRQQSP  434 (1157)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhcCH
Confidence            1234455666666666666666543 224455555666666666666666666666543221 1111             


Q ss_pred             -----------------------------HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHH
Q 005729          408 -----------------------------YSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHH  458 (680)
Q Consensus       408 -----------------------------~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~  458 (680)
                                                   +..+...+...|++++|.+.|++..+.. +-+...+..+...|.+.|++++
T Consensus       435 ~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~-P~~~~~~~~LA~~~~~~G~~~~  513 (1157)
T PRK11447        435 EKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALD-PGSVWLTYRLAQDLRQAGQRSQ  513 (1157)
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHH
Confidence                                         2223445567789999999999988764 4456777888889999999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCC---------------------------------
Q 005729          459 AMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERG---------------------------------  505 (680)
Q Consensus       459 A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~---------------------------------  505 (680)
                      |...++++.+.. +.+...+..+...+.+.|+.++|...++.+....                                 
T Consensus       514 A~~~l~~al~~~-P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA  592 (1157)
T PRK11447        514 ADALMRRLAQQK-PNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEA  592 (1157)
T ss_pred             HHHHHHHHHHcC-CCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHH
Confidence            999999987653 2244444444444455666666666655432211                                 


Q ss_pred             ------CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHH
Q 005729          506 ------YFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAF  579 (680)
Q Consensus       506 ------~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~  579 (680)
                            .+.+...+..+...+.+.|++++|...++++.+.. +.+...+..++..|...|++++|.+.+           
T Consensus       593 ~~~l~~~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~-P~~~~a~~~la~~~~~~g~~~eA~~~l-----------  660 (1157)
T PRK11447        593 EALLRQQPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTRE-PGNADARLGLIEVDIAQGDLAAARAQL-----------  660 (1157)
T ss_pred             HHHHHhCCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHH-----------
Confidence                  12333444555555666666666666666666542 124555666666666666666665554           


Q ss_pred             HHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC--CC---CHHHHHHHHHHHHhcCCcCcHHHHHHHHH
Q 005729          580 RVMRTDGLKPS-NLALNSLINAFGEDQRDAEAFAVLQYMKENGL--KP---DVVTYTTLMKALIRVDKFHKVPAVYEEMI  653 (680)
Q Consensus       580 ~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~--~p---~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  653 (680)
                      +...+  ..|+ ..++..+..++...|++++|.++++++....-  .|   +...+..+...+.+.|+.++|...|++.+
T Consensus       661 ~~ll~--~~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al  738 (1157)
T PRK11447        661 AKLPA--TANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYKDAM  738 (1157)
T ss_pred             HHHhc--cCCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            44443  2344 44677888899999999999999999987421  12   23567777889999999999999999987


Q ss_pred             H
Q 005729          654 L  654 (680)
Q Consensus       654 ~  654 (680)
                      .
T Consensus       739 ~  739 (1157)
T PRK11447        739 V  739 (1157)
T ss_pred             h
Confidence            4

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

Probab=99.91  E-value=2.9e-20  Score=185.65  Aligned_cols=434  Identities=16%  Similarity=0.133  Sum_probs=333.9

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCChhhHHHHHH-HHHhcCCCChHHHHHHHHHHHhCCCCcCHHHHHHHHHH
Q 005729          196 YNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQ-SLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVG  274 (680)
Q Consensus       196 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~-~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~~~li~~  274 (680)
                      -..|..-..+.|++++|.+--...-+.+  |+..--..++. .+....+.+...+   +.....+..+--..+|..+.+.
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~  125 (966)
T KOG4626|consen   51 RLELAHRLYQGGDYKQAEKHCNMVGQED--PTNTERLLLLSAIFFQGSRLDKSSA---GSLLAIRKNPQGAEAYSNLANI  125 (966)
T ss_pred             HHHHHHHHHhccCHHHHHHHHhHhhccC--CCcccceeeehhhhhcccchhhhhh---hhhhhhhccchHHHHHHHHHHH
Confidence            5566777788888888888766554442  22222222222 3333333333221   1111222234456788899999


Q ss_pred             HHHcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHH-HHHHHHHHHcCCHH
Q 005729          275 FAKAGDASKAMRFLGMAQGVGLSP-KTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAY-NALLKGYVKMGYLK  352 (680)
Q Consensus       275 ~~~~g~~~~A~~~~~~~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~-~~li~~~~~~g~~~  352 (680)
                      +-..|++++|+++++.+.+.  +| .+..|..+..++...|+.+.|.+.|.+.++.  .|+.... ..+...+-..|+++
T Consensus       126 ~kerg~~~~al~~y~~aiel--~p~fida~inla~al~~~~~~~~a~~~~~~alql--nP~l~ca~s~lgnLlka~Grl~  201 (966)
T KOG4626|consen  126 LKERGQLQDALALYRAAIEL--KPKFIDAYINLAAALVTQGDLELAVQCFFEALQL--NPDLYCARSDLGNLLKAEGRLE  201 (966)
T ss_pred             HHHhchHHHHHHHHHHHHhc--CchhhHHHhhHHHHHHhcCCCcccHHHHHHHHhc--CcchhhhhcchhHHHHhhcccc
Confidence            99999999999999999875  45 4678999999999999999999999998875  4665544 33444555679999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 005729          353 DAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMK  432 (680)
Q Consensus       353 ~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~  432 (680)
                      +|...+.+.++... --...|+.|...+-.+|+...|++.|++..+.++ .-...|-.+...|...+.+++|...|.+..
T Consensus       202 ea~~cYlkAi~~qp-~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkldP-~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl  279 (966)
T KOG4626|consen  202 EAKACYLKAIETQP-CFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLDP-NFLDAYINLGNVYKEARIFDRAVSCYLRAL  279 (966)
T ss_pred             hhHHHHHHHHhhCC-ceeeeehhcchHHhhcchHHHHHHHHHHhhcCCC-cchHHHhhHHHHHHHHhcchHHHHHHHHHH
Confidence            99999988887632 2356788899999999999999999999876532 235578888899999999999999998877


Q ss_pred             HCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHH
Q 005729          433 SSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTT  512 (680)
Q Consensus       433 ~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t  512 (680)
                      ... +...+.+..+...|...|+++.|+..|++.++.. +.=...|+.|..++-..|+..+|.+++++.+... +--...
T Consensus       280 ~lr-pn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~-P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~-p~hada  356 (966)
T KOG4626|consen  280 NLR-PNHAVAHGNLACIYYEQGLLDLAIDTYKRALELQ-PNFPDAYNNLANALKDKGSVTEAVDCYNKALRLC-PNHADA  356 (966)
T ss_pred             hcC-CcchhhccceEEEEeccccHHHHHHHHHHHHhcC-CCchHHHhHHHHHHHhccchHHHHHHHHHHHHhC-CccHHH
Confidence            653 4556788888888999999999999999998764 2236689999999999999999999999988764 445678


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCH
Q 005729          513 YNIMINLLGEQERWEDVKRLLGNMRAQGLLPN-VVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSN  591 (680)
Q Consensus       513 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~  591 (680)
                      .+.|...+...|.+++|..+|....+  +.|. ....+.|...|-+.|++++|+..|+           +..+  ++|+.
T Consensus       357 m~NLgni~~E~~~~e~A~~ly~~al~--v~p~~aaa~nNLa~i~kqqgnl~~Ai~~Yk-----------ealr--I~P~f  421 (966)
T KOG4626|consen  357 MNNLGNIYREQGKIEEATRLYLKALE--VFPEFAAAHNNLASIYKQQGNLDDAIMCYK-----------EALR--IKPTF  421 (966)
T ss_pred             HHHHHHHHHHhccchHHHHHHHHHHh--hChhhhhhhhhHHHHHHhcccHHHHHHHHH-----------HHHh--cCchH
Confidence            88899999999999999999999887  4454 5678889999999999999988765           2222  67887


Q ss_pred             H-HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcCCcCcHHHHHHHHHHcCCCCCHH
Q 005729          592 L-ALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDV-VTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPDRK  662 (680)
Q Consensus       592 ~-~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd~~  662 (680)
                      . .|+.+.+.|-..|+.+.|+..+.+.+.  +.|.. ..++.|...|-..|+..+|+.-|++.++  ++||..
T Consensus       422 Ada~~NmGnt~ke~g~v~~A~q~y~rAI~--~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLk--lkPDfp  490 (966)
T KOG4626|consen  422 ADALSNMGNTYKEMGDVSAAIQCYTRAIQ--INPTFAEAHSNLASIYKDSGNIPEAIQSYRTALK--LKPDFP  490 (966)
T ss_pred             HHHHHhcchHHHHhhhHHHHHHHHHHHHh--cCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHc--cCCCCc
Confidence            5 899999999999999999999999988  66764 5788899999999999999999999987  566653

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.89  E-value=2.5e-17  Score=185.69  Aligned_cols=483  Identities=13%  Similarity=0.033  Sum_probs=276.7

Q ss_pred             HHhhCCCChHHHHHHHHHHHHCCCCCchHHHHHHHHHHhcccCCHHHHHHh----hCCCCCCHHHHHHHHHHHHHcCCHH
Q 005729          135 NLCSSNSSIDLAYAVVSWLQKHNLCYSYELLYSILIHALGRSEKLYEAFLL----SQRQRLTPLTYNALISACARNDDLE  210 (680)
Q Consensus       135 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~----~~~~~~~~~~~~~li~~~~~~g~~~  210 (680)
                      .+....|+++.|+..|+.+++..  |.+..++..|...|.+.|+.++|+..    ....+.|...+..+ ..+   ++++
T Consensus        52 ~~~~~~Gd~~~A~~~l~~Al~~d--P~n~~~~~~LA~~yl~~g~~~~A~~~~~kAv~ldP~n~~~~~~L-a~i---~~~~  125 (987)
T PRK09782         52 LKAQKNNDEATAIREFEYIHQQV--PDNIPLTLYLAEAYRHFGHDDRARLLLEDQLKRHPGDARLERSL-AAI---PVEV  125 (987)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcccHHHHHHH-HHh---ccCh
Confidence            34445589999999999999988  78889999999999999999999877    44555556666655 323   8999


Q ss_pred             HHHHHHHHHHHcCCCCCh-hhHHHHHHH--------HHhcCCCChHHHHHHHHHHHhCCCCcCHHHHHHH-HHHHHHcCC
Q 005729          211 KALNLMSKMRQDGYHCDF-INYSLVIQS--------LTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDV-IVGFAKAGD  280 (680)
Q Consensus       211 ~A~~~~~~m~~~g~~p~~-~~~~~ll~~--------~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~~~l-i~~~~~~g~  280 (680)
                      +|..+|+++....  |+. ..+..+...        |.+.+     .+.+..+ .......|+..+.... ...|.+.|+
T Consensus       126 kA~~~ye~l~~~~--P~n~~~~~~la~~~~~~~~l~y~q~e-----qAl~AL~-lr~~~~~~~~~vL~L~~~rlY~~l~d  197 (987)
T PRK09782        126 KSVTTVEELLAQQ--KACDAVPTLRCRSEVGQNALRLAQLP-----VARAQLN-DATFAASPEGKTLRTDLLQRAIYLKQ  197 (987)
T ss_pred             hHHHHHHHHHHhC--CCChhHHHHHHHHhhccchhhhhhHH-----HHHHHHH-HhhhCCCCCcHHHHHHHHHHHHHHhC
Confidence            9999999999874  443 333333332        43332     2334444 3333334445555555 889999999


Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh-cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Q 005729          281 ASKAMRFLGMAQGVGLSPKTATYAAVITALSN-SGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVS  359 (680)
Q Consensus       281 ~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~-~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~  359 (680)
                      +++|++.+.++.+.+. .+..-...+...|.+ .++ +++..+++.    .++-+...+..+...|.+.|+.++|.++++
T Consensus       198 w~~Ai~lL~~L~k~~p-l~~~~~~~L~~ay~q~l~~-~~a~al~~~----~lk~d~~l~~ala~~yi~~G~~~~A~~~L~  271 (987)
T PRK09782        198 WSQADTLYNEARQQNT-LSAAERRQWFDVLLAGQLD-DRLLALQSQ----GIFTDPQSRITYATALAYRGEKARLQHYLI  271 (987)
T ss_pred             HHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHhhCH-HHHHHHhch----hcccCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            9999999999988752 334445566667776 366 667666543    223577777788888888888888888777


Q ss_pred             HHHHCCCC-CCHHHH------------------------------HHHHHHHHHc-------------------------
Q 005729          360 EMERSGVL-PDEHTY------------------------------SLLIDAYANA-------------------------  383 (680)
Q Consensus       360 ~m~~~g~~-~~~~~~------------------------------~~li~~~~~~-------------------------  383 (680)
                      ++...... |...+|                              -.++..+.+.                         
T Consensus       272 ~~~~~~~~~~~~~~~~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~  351 (987)
T PRK09782        272 ENKPLFTTDAQEKSWLYLLSKYSANPVQALANYTVQFADNRQYVVGATLPVLLKEGQYDAAQKLLATLPANEMLEERYAV  351 (987)
T ss_pred             hCcccccCCCccHHHHHHHHhccCchhhhccchhhhhHHHHHHHHHHHHHHHHhccHHHHHHHHhcCCCcchHHHHHHhh
Confidence            76432111 111111                              0012222233                         


Q ss_pred             --------------------------------------CCHHHHHHHHHHHHHC-C-CCCCHHHHHHHHHHHHhcC----
Q 005729          384 --------------------------------------GRWESARIVLKEMEVS-H-AKPNSFIYSRILAGYRDRG----  419 (680)
Q Consensus       384 --------------------------------------g~~~~A~~~~~~m~~~-~-~~~~~~~~~~ll~~~~~~g----  419 (680)
                                                            |+.++|.++|+..... + ...+......++..|.+.+    
T Consensus       352 ~~~~~~~~~~~~~~~~~y~~~~~~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~  431 (987)
T PRK09782        352 SVATRNKAEALRLARLLYQQEPANLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLAT  431 (987)
T ss_pred             ccccCchhHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccc
Confidence                                                  3333444444333221 0 1112222223444443333    


Q ss_pred             -----------------------------------------------------------CHHHHHHHHHHHHHCCCCCCH
Q 005729          420 -----------------------------------------------------------EWQRTFQVLKEMKSSGVEPDT  440 (680)
Q Consensus       420 -----------------------------------------------------------~~~~A~~l~~~m~~~~~~p~~  440 (680)
                                                                                 +.++|...+.+....  .|+.
T Consensus       432 ~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~~~~~eAi~a~~~Al~~--~Pd~  509 (987)
T PRK09782        432 PAKVAILSKPLPLAEQRQWQSQLPGIADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRDTLPGVALYAWLQAEQR--QPDA  509 (987)
T ss_pred             hHHHHHhccccccchhHHHHhhhhhhhhhHHHHHHhcccCCCCCCHHHHHHHHHHHHhCCcHHHHHHHHHHHHh--CCch
Confidence                                                                       223333333332222  1222


Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 005729          441 HFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLL  520 (680)
Q Consensus       441 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~  520 (680)
                      .....+...+...|++++|...|+++...  .|+...+..+...+.+.|++++|..++++..+.+ +.+...+..+...+
T Consensus       510 ~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~-P~~~~l~~~La~~l  586 (987)
T PRK09782        510 WQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRG-LGDNALYWWLHAQR  586 (987)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CccHHHHHHHHHHH
Confidence            22222222223444444444444444322  2222233333444444455555555554444432 22222222222222


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCH-HHHHHHHH
Q 005729          521 GEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSN-LALNSLIN  599 (680)
Q Consensus       521 ~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~-~~~~~li~  599 (680)
                      ...|++++|...+++.++.  .|+...+..+..++.+.|++++|+..           +++...  ..|+. ..++.+..
T Consensus       587 ~~~Gr~~eAl~~~~~AL~l--~P~~~a~~~LA~~l~~lG~~deA~~~-----------l~~AL~--l~Pd~~~a~~nLG~  651 (987)
T PRK09782        587 YIPGQPELALNDLTRSLNI--APSANAYVARATIYRQRHNVPAAVSD-----------LRAALE--LEPNNSNYQAALGY  651 (987)
T ss_pred             HhCCCHHHHHHHHHHHHHh--CCCHHHHHHHHHHHHHCCCHHHHHHH-----------HHHHHH--hCCCCHHHHHHHHH
Confidence            3335555555555555442  23444455555555555555555444           445554  34554 47788888


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCcCcHHHHHHHHHHcCCCCCH
Q 005729          600 AFGEDQRDAEAFAVLQYMKENGLKP-DVVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPDR  661 (680)
Q Consensus       600 ~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd~  661 (680)
                      ++...|++++|+..+++..+  ..| +...+..+..++...|++++|...+++.++.  .|+.
T Consensus       652 aL~~~G~~eeAi~~l~~AL~--l~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l--~P~~  710 (987)
T PRK09782        652 ALWDSGDIAQSREMLERAHK--GLPDDPALIRQLAYVNQRLDDMAATQHYARLVIDD--IDNQ  710 (987)
T ss_pred             HHHHCCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCC
Confidence            88999999999999998888  345 5678888999999999999999999999874  4544

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.89  E-value=6.2e-20  Score=192.95  Aligned_cols=304  Identities=14%  Similarity=0.123  Sum_probs=154.1

Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC---HHHHHHHHHHHHHcCC
Q 005729          309 ALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPD---EHTYSLLIDAYANAGR  385 (680)
Q Consensus       309 ~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~---~~~~~~li~~~~~~g~  385 (680)
                      .+...|++++|+..|+++.+.+ +.+..++..+...+...|++++|..+++.+.+.+..++   ...+..+...|.+.|+
T Consensus        44 ~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~  122 (389)
T PRK11788         44 NFLLNEQPDKAIDLFIEMLKVD-PETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGL  122 (389)
T ss_pred             HHHhcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCC
Confidence            3445566666666666666543 22444556666666666666666666666555321111   1344555555555566


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHH
Q 005729          386 WESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDR  465 (680)
Q Consensus       386 ~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~  465 (680)
                      +++|+.+|+++.+.. +.+..++..++..+.+.|++++|.+.++.+.+.+..+....                       
T Consensus       123 ~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~-----------------------  178 (389)
T PRK11788        123 LDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVE-----------------------  178 (389)
T ss_pred             HHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHH-----------------------
Confidence            666666555555432 23344555555555555555555555555544321111000                       


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH
Q 005729          466 MLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNV  545 (680)
Q Consensus       466 m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~  545 (680)
                              ....+..+...+.+.|++++|..+|+++.+.. +.+...+..+...+.+.|++++|.++++++.+.+.....
T Consensus       179 --------~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~  249 (389)
T PRK11788        179 --------IAHFYCELAQQALARGDLDAARALLKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLS  249 (389)
T ss_pred             --------HHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHH
Confidence                    01123334444555555555555555555432 223444455555555555555555555555543221113


Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC
Q 005729          546 VTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPD  625 (680)
Q Consensus       546 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  625 (680)
                      .++..++.+|.+.|++++|.+.++           ++.+  ..|+...+..++..+.+.|++++|..+++++.+  ..|+
T Consensus       250 ~~~~~l~~~~~~~g~~~~A~~~l~-----------~~~~--~~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~--~~P~  314 (389)
T PRK11788        250 EVLPKLMECYQALGDEAEGLEFLR-----------RALE--EYPGADLLLALAQLLEEQEGPEAAQALLREQLR--RHPS  314 (389)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHH-----------HHHH--hCCCchHHHHHHHHHHHhCCHHHHHHHHHHHHH--hCcC
Confidence            344555555555555555554433           2222  134444445556666666666666666666555  2455


Q ss_pred             HHHHHHHHHHHHh---cCCcCcHHHHHHHHHHcCCCCCH
Q 005729          626 VVTYTTLMKALIR---VDKFHKVPAVYEEMILSGCTPDR  661 (680)
Q Consensus       626 ~~~~~~l~~~~~~---~g~~~~A~~~~~~m~~~g~~pd~  661 (680)
                      ...+..++..+..   .|+.+++..++++|+++++.||+
T Consensus       315 ~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p  353 (389)
T PRK11788        315 LRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKP  353 (389)
T ss_pred             HHHHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCCC
Confidence            5555555555443   33556666666666655555544

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

Probab=99.88  E-value=8e-19  Score=175.47  Aligned_cols=432  Identities=15%  Similarity=0.138  Sum_probs=306.3

Q ss_pred             CCCChHHHHHHHHHHHHCCCCCchHHHHHHHHHHhcccCCHHHHHHh----hCCCCCCHHHHHHHHHHHHHcCCHHHHHH
Q 005729          139 SNSSIDLAYAVVSWLQKHNLCYSYELLYSILIHALGRSEKLYEAFLL----SQRQRLTPLTYNALISACARNDDLEKALN  214 (680)
Q Consensus       139 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~----~~~~~~~~~~~~~li~~~~~~g~~~~A~~  214 (680)
                      ..|++.+|...-..+-..+  +.+....-.+-.++....+++.....    ....+.-..+|..+.+.+-..|++++|+.
T Consensus        60 q~gd~~~a~~h~nmv~~~d--~t~~~~llll~ai~~q~~r~d~s~a~~~~a~r~~~q~ae~ysn~aN~~kerg~~~~al~  137 (966)
T KOG4626|consen   60 QGGDYKQAEKHCNMVGQED--PTNTERLLLLSAIFFQGSRLDKSSAGSLLAIRKNPQGAEAYSNLANILKERGQLQDALA  137 (966)
T ss_pred             hccCHHHHHHHHhHhhccC--CCcccceeeehhhhhcccchhhhhhhhhhhhhccchHHHHHHHHHHHHHHhchHHHHHH
Confidence            4466666666555554443  22222222233444444444443322    33333345677778888888888888888


Q ss_pred             HHHHHHHcCCCCChhhHHHHHHHHHhcCCCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC
Q 005729          215 LMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGV  294 (680)
Q Consensus       215 ~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  294 (680)
                      +|+.|.+..  |+                                    .+..|..+..++...|+.+.|.+.|...++.
T Consensus       138 ~y~~aiel~--p~------------------------------------fida~inla~al~~~~~~~~a~~~~~~alql  179 (966)
T KOG4626|consen  138 LYRAAIELK--PK------------------------------------FIDAYINLAAALVTQGDLELAVQCFFEALQL  179 (966)
T ss_pred             HHHHHHhcC--ch------------------------------------hhHHHhhHHHHHHhcCCCcccHHHHHHHHhc
Confidence            888777652  32                                    2334555666777777888888877777663


Q ss_pred             CCCCCHHHH-HHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC-HHH
Q 005729          295 GLSPKTATY-AAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPD-EHT  372 (680)
Q Consensus       295 g~~p~~~~~-~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~-~~~  372 (680)
                        .|+.... ..+...+-..|++.+|...|.+.++.. +-=...|..|...+-.+|++..|++-|++..+..  |+ ...
T Consensus       180 --nP~l~ca~s~lgnLlka~Grl~ea~~cYlkAi~~q-p~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkld--P~f~dA  254 (966)
T KOG4626|consen  180 --NPDLYCARSDLGNLLKAEGRLEEAKACYLKAIETQ-PCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLD--PNFLDA  254 (966)
T ss_pred             --CcchhhhhcchhHHHHhhcccchhHHHHHHHHhhC-CceeeeehhcchHHhhcchHHHHHHHHHHhhcCC--CcchHH
Confidence              5665543 344555566788888888888877642 1234567888888888888888888888887753  33 567


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc
Q 005729          373 YSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGK  452 (680)
Q Consensus       373 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~  452 (680)
                      |-.|...|...+.++.|...|.+..... +.....+..+...|..+|+.+.|++.|++..+.. +.-...|+.|..++-.
T Consensus       255 YiNLGnV~ke~~~~d~Avs~Y~rAl~lr-pn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~-P~F~~Ay~NlanALkd  332 (966)
T KOG4626|consen  255 YINLGNVYKEARIFDRAVSCYLRALNLR-PNHAVAHGNLACIYYEQGLLDLAIDTYKRALELQ-PNFPDAYNNLANALKD  332 (966)
T ss_pred             HhhHHHHHHHHhcchHHHHHHHHHHhcC-CcchhhccceEEEEeccccHHHHHHHHHHHHhcC-CCchHHHhHHHHHHHh
Confidence            7788888888888888888888776543 2345567777778888888888888888887653 3336788888888888


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 005729          453 YNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRL  532 (680)
Q Consensus       453 ~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~  532 (680)
                      .|++.+|...|...+... .-.....+.|...|...|.+++|..+|....+-. +--....+.|...|-+.|++++|...
T Consensus       333 ~G~V~ea~~cYnkaL~l~-p~hadam~NLgni~~E~~~~e~A~~ly~~al~v~-p~~aaa~nNLa~i~kqqgnl~~Ai~~  410 (966)
T KOG4626|consen  333 KGSVTEAVDCYNKALRLC-PNHADAMNNLGNIYREQGKIEEATRLYLKALEVF-PEFAAAHNNLASIYKQQGNLDDAIMC  410 (966)
T ss_pred             ccchHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhccchHHHHHHHHHHhhC-hhhhhhhhhHHHHHHhcccHHHHHHH
Confidence            899999999998888753 2346678888899999999999999998887753 33456788888889999999999999


Q ss_pred             HHHHHHCCCCCC-HHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHhcCCHHHH
Q 005729          533 LGNMRAQGLLPN-VVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNL-ALNSLINAFGEDQRDAEA  610 (680)
Q Consensus       533 ~~~m~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~-~~~~li~~~~~~g~~~~A  610 (680)
                      +++.++  ++|+ ...|+.+...|-..|+.+.|+..+.           +..+  +.|... .++.|...|-..|++.+|
T Consensus       411 Ykealr--I~P~fAda~~NmGnt~ke~g~v~~A~q~y~-----------rAI~--~nPt~AeAhsNLasi~kDsGni~~A  475 (966)
T KOG4626|consen  411 YKEALR--IKPTFADALSNMGNTYKEMGDVSAAIQCYT-----------RAIQ--INPTFAEAHSNLASIYKDSGNIPEA  475 (966)
T ss_pred             HHHHHh--cCchHHHHHHhcchHHHHhhhHHHHHHHHH-----------HHHh--cCcHHHHHHhhHHHHhhccCCcHHH
Confidence            998887  5675 4578888888888888888887654           2222  456654 788899999999999999


Q ss_pred             HHHHHHHHHCCCCCCH-HHHHHHHHHH
Q 005729          611 FAVLQYMKENGLKPDV-VTYTTLMKAL  636 (680)
Q Consensus       611 ~~~~~~m~~~g~~p~~-~~~~~l~~~~  636 (680)
                      +.-+++..+  ++||. ..|..++.++
T Consensus       476 I~sY~~aLk--lkPDfpdA~cNllh~l  500 (966)
T KOG4626|consen  476 IQSYRTALK--LKPDFPDAYCNLLHCL  500 (966)
T ss_pred             HHHHHHHHc--cCCCCchhhhHHHHHH
Confidence            999999988  67774 4565566554

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.88  E-value=3e-19  Score=187.72  Aligned_cols=278  Identities=19%  Similarity=0.174  Sum_probs=186.2

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC---HHHHHHHHHHHHHc
Q 005729          272 IVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPR---TKAYNALLKGYVKM  348 (680)
Q Consensus       272 i~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~---~~~~~~li~~~~~~  348 (680)
                      ...+...|++++|++.|.++.+.+ +.+..++..+...+...|++++|..+++.+...+..++   ...+..+...|.+.
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            445678899999999999999864 23566899999999999999999999999987542222   35688899999999


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHhcCCHHHH
Q 005729          349 GYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNS----FIYSRILAGYRDRGEWQRT  424 (680)
Q Consensus       349 g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~----~~~~~ll~~~~~~g~~~~A  424 (680)
                      |++++|..+|+++.+.. +.+..++..++..|.+.|++++|.+.++.+.+.+..+..    ..+..+...+.+.|++++|
T Consensus       121 g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A  199 (389)
T PRK11788        121 GLLDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAA  199 (389)
T ss_pred             CCHHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHH
Confidence            99999999999999763 346789999999999999999999999999876543322    2344555666677777777


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHC
Q 005729          425 FQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQER  504 (680)
Q Consensus       425 ~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  504 (680)
                      ...|+++.+.. +.+...+..+...+.+.|++++|.+.|+++.+.+......+++.++.+|++.|++++|...++++.+.
T Consensus       200 ~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~  278 (389)
T PRK11788        200 RALLKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEE  278 (389)
T ss_pred             HHHHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            77777766543 23344555555556666666666666666554321111234455555555555555555555555543


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 005729          505 GYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYG  556 (680)
Q Consensus       505 ~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~  556 (680)
                      .  |+...+..++..+.+.|++++|..++.++.+.  .|+...++.++..+.
T Consensus       279 ~--p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~l~~~~~  326 (389)
T PRK11788        279 Y--PGADLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFHRLLDYHL  326 (389)
T ss_pred             C--CCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHHHHHHhh
Confidence            2  33334445555555555555555555555442  344444444444443

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

Probab=99.87  E-value=2.8e-17  Score=182.17  Aligned_cols=406  Identities=12%  Similarity=0.013  Sum_probs=278.0

Q ss_pred             HHHHHHHHHhcCCCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 005729          231 YSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITAL  310 (680)
Q Consensus       231 ~~~ll~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~  310 (680)
                      +...-..+.+.|+++.+  ...|.+.+..  .|+...|..+..+|.+.|++++|++.++..++.. +.+...|..+..+|
T Consensus       130 ~k~~G~~~~~~~~~~~A--i~~y~~al~~--~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~a~a~  204 (615)
T TIGR00990       130 LKEKGNKAYRNKDFNKA--IKLYSKAIEC--KPDPVYYSNRAACHNALGDWEKVVEDTTAALELD-PDYSKALNRRANAY  204 (615)
T ss_pred             HHHHHHHHHHcCCHHHH--HHHHHHHHhc--CCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHH
Confidence            33444556667777543  4777766653  4566677777777888888888888887777642 22455777777788


Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHH------------------
Q 005729          311 SNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHT------------------  372 (680)
Q Consensus       311 ~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~------------------  372 (680)
                      ...|++++|+.-|......+-..+. ....++..+........+...++.-...  .|....                  
T Consensus       205 ~~lg~~~eA~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~a~~~~~~~l~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~  281 (615)
T TIGR00990       205 DGLGKYADALLDLTASCIIDGFRNE-QSAQAVERLLKKFAESKAKEILETKPEN--LPSVTFVGNYLQSFRPKPRPAGLE  281 (615)
T ss_pred             HHcCCHHHHHHHHHHHHHhCCCccH-HHHHHHHHHHHHHHHHHHHHHHhcCCCC--CCCHHHHHHHHHHccCCcchhhhh
Confidence            8888888887777665543211121 1112222111111111111111110000  000000                  


Q ss_pred             ------------HHHHHHH---HHHcCCHHHHHHHHHHHHHCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 005729          373 ------------YSLLIDA---YANAGRWESARIVLKEMEVSH--AKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSG  435 (680)
Q Consensus       373 ------------~~~li~~---~~~~g~~~~A~~~~~~m~~~~--~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~  435 (680)
                                  +..+...   ....+++++|.+.|++....+  .+.....+..+...+...|++++|+..+++..+..
T Consensus       282 ~~~~~~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~  361 (615)
T TIGR00990       282 DSNELDEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELD  361 (615)
T ss_pred             cccccccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC
Confidence                        0000000   012367899999999998764  23345678888889999999999999999988764


Q ss_pred             CCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHH
Q 005729          436 VEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNI  515 (680)
Q Consensus       436 ~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~  515 (680)
                       +.....|..+...+...|++++|...|+...+.. +.+...|..+...|...|++++|...|++.++.. +.+...+..
T Consensus       362 -P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~~~  438 (615)
T TIGR00990       362 -PRVTQSYIKRASMNLELGDPDKAEEDFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSHIQ  438 (615)
T ss_pred             -CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHHHH
Confidence             3446788899999999999999999999998764 4467889999999999999999999999999875 556788888


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHH-HH
Q 005729          516 MINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNL-AL  594 (680)
Q Consensus       516 li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~-~~  594 (680)
                      +...+.+.|++++|...+++.++.. +.+...++.+...+...|++++|++.|+...    ++-...  .+...+.. .+
T Consensus       439 la~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al----~l~p~~--~~~~~~~~~l~  511 (615)
T TIGR00990       439 LGVTQYKEGSIASSMATFRRCKKNF-PEAPDVYNYYGELLLDQNKFDEAIEKFDTAI----ELEKET--KPMYMNVLPLI  511 (615)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHHH----hcCCcc--ccccccHHHHH
Confidence            8999999999999999999998752 3367889999999999999999998765222    110000  00111111 22


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCcCcHHHHHHHHHHcC
Q 005729          595 NSLINAFGEDQRDAEAFAVLQYMKENGLKP-DVVTYTTLMKALIRVDKFHKVPAVYEEMILSG  656 (680)
Q Consensus       595 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g  656 (680)
                      +..+..+...|++++|..++++..+.  .| +...+..+...+.+.|++++|.++|++..+..
T Consensus       512 ~~a~~~~~~~~~~~eA~~~~~kAl~l--~p~~~~a~~~la~~~~~~g~~~eAi~~~e~A~~l~  572 (615)
T TIGR00990       512 NKALALFQWKQDFIEAENLCEKALII--DPECDIAVATMAQLLLQQGDVDEALKLFERAAELA  572 (615)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHh
Confidence            22333344579999999999999884  45 45578899999999999999999999998753

>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=2.6e-16  Score=174.45  Aligned_cols=399  Identities=13%  Similarity=0.041  Sum_probs=291.0

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCCChHHHHHHHHHHHhCCCCcCHHHHHHHHHH
Q 005729          195 TYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVG  274 (680)
Q Consensus       195 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~~~li~~  274 (680)
                      .+......|.+.|++++|+..|++....  .|+...|..+-.++.+.|+++.+  ...+....+.. +.+...|..+..+
T Consensus       129 ~~k~~G~~~~~~~~~~~Ai~~y~~al~~--~p~~~~~~n~a~~~~~l~~~~~A--i~~~~~al~l~-p~~~~a~~~~a~a  203 (615)
T TIGR00990       129 KLKEKGNKAYRNKDFNKAIKLYSKAIEC--KPDPVYYSNRAACHNALGDWEKV--VEDTTAALELD-PDYSKALNRRANA  203 (615)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHhCCHHHH--HHHHHHHHHcC-CCCHHHHHHHHHH
Confidence            4566788899999999999999998875  57888888888899999998664  47777766543 3467789999999


Q ss_pred             HHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC--CCCHH----------------
Q 005729          275 FAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGL--KPRTK----------------  336 (680)
Q Consensus       275 ~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~--~p~~~----------------  336 (680)
                      |...|++++|+..|..+...+-..+.. ...++..+...    .+........+...  .|...                
T Consensus       204 ~~~lg~~~eA~~~~~~~~~~~~~~~~~-~~~~~~~~l~~----~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~  278 (615)
T TIGR00990       204 YDGLGKYADALLDLTASCIIDGFRNEQ-SAQAVERLLKK----FAESKAKEILETKPENLPSVTFVGNYLQSFRPKPRPA  278 (615)
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCCccHH-HHHHHHHHHHH----HHHHHHHHHHhcCCCCCCCHHHHHHHHHHccCCcchh
Confidence            999999999999988776543222222 22222221111    11111111111110  00000                


Q ss_pred             --------------HHHHHHHH---HHHcCCHHHHHHHHHHHHHCC-C-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 005729          337 --------------AYNALLKG---YVKMGYLKDAEFVVSEMERSG-V-LPDEHTYSLLIDAYANAGRWESARIVLKEME  397 (680)
Q Consensus       337 --------------~~~~li~~---~~~~g~~~~A~~~~~~m~~~g-~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  397 (680)
                                    .+..+...   ....+++++|.+.|+...+.+ . +.....|+.+...+...|++++|+..|++..
T Consensus       279 ~~~~~~~~~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal  358 (615)
T TIGR00990       279 GLEDSNELDEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSI  358 (615)
T ss_pred             hhhcccccccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence                          00001000   012367899999999998764 2 2345678888899999999999999999998


Q ss_pred             HCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHH
Q 005729          398 VSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTIT  477 (680)
Q Consensus       398 ~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~  477 (680)
                      ... +.+...|..+...+...|++++|...|++..+.. +.+..++..+...+...|++++|...|++..+.. +.+...
T Consensus       359 ~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~  435 (615)
T TIGR00990       359 ELD-PRVTQSYIKRASMNLELGDPDKAEEDFDKALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFS  435 (615)
T ss_pred             HcC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHH
Confidence            764 2346688889999999999999999999988764 5568899999999999999999999999999875 346778


Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH------HHHHH
Q 005729          478 WNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVV------TYTTL  551 (680)
Q Consensus       478 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~------~~~~l  551 (680)
                      +..+...+.+.|++++|+..|++..+.. +.+...|+.+...+...|++++|...+++..+.....+..      .++..
T Consensus       436 ~~~la~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a  514 (615)
T TIGR00990       436 HIQLGVTQYKEGSIASSMATFRRCKKNF-PEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKA  514 (615)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHH
Confidence            8889999999999999999999998764 5568889999999999999999999999998753221111      11222


Q ss_pred             HHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 005729          552 VDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSN-LALNSLINAFGEDQRDAEAFAVLQYMKEN  620 (680)
Q Consensus       552 i~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~  620 (680)
                      ...+...|++++|.+.++           +...  +.|+. ..+..+..++.+.|++++|+++|++..+.
T Consensus       515 ~~~~~~~~~~~eA~~~~~-----------kAl~--l~p~~~~a~~~la~~~~~~g~~~eAi~~~e~A~~l  571 (615)
T TIGR00990       515 LALFQWKQDFIEAENLCE-----------KALI--IDPECDIAVATMAQLLLQQGDVDEALKLFERAAEL  571 (615)
T ss_pred             HHHHHHhhhHHHHHHHHH-----------HHHh--cCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            223334577777766554           4333  24544 47899999999999999999999999873

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.83  E-value=5e-16  Score=171.60  Aligned_cols=287  Identities=9%  Similarity=0.010  Sum_probs=128.3

Q ss_pred             HHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHH
Q 005729          273 VGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLK  352 (680)
Q Consensus       273 ~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~  352 (680)
                      ..+.+.|++++|+.+++....... -+...+..++.++...|++++|...|+++.+.. +.+...+..+...+...|+++
T Consensus        50 ~~~~~~g~~~~A~~l~~~~l~~~p-~~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~-P~~~~a~~~la~~l~~~g~~~  127 (656)
T PRK15174         50 IACLRKDETDVGLTLLSDRVLTAK-NGRDLLRRWVISPLASSQPDAVLQVVNKLLAVN-VCQPEDVLLVASVLLKSKQYA  127 (656)
T ss_pred             HHHHhcCCcchhHHHhHHHHHhCC-CchhHHHHHhhhHhhcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHH
Confidence            334444555555555544444321 112233333344444555555555555554432 223344444445555555555


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 005729          353 DAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMK  432 (680)
Q Consensus       353 ~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~  432 (680)
                      +|...++++.+.. +.+...+..+...|...|++++|...++.+......+ ...+..+ ..+...|++++|...++.+.
T Consensus       128 ~Ai~~l~~Al~l~-P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P~~-~~a~~~~-~~l~~~g~~~eA~~~~~~~l  204 (656)
T PRK15174        128 TVADLAEQAWLAF-SGNSQIFALHLRTLVLMDKELQAISLARTQAQEVPPR-GDMIATC-LSFLNKSRLPEDHDLARALL  204 (656)
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCCC-HHHHHHH-HHHHHcCCHHHHHHHHHHHH
Confidence            5555555554432 1134444445555555555555555555444332211 1122111 22444555555555555544


Q ss_pred             HCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhH----HHHHHHHHHHCCCCC
Q 005729          433 SSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDR----AEELFEEMQERGYFP  508 (680)
Q Consensus       433 ~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~----A~~~~~~m~~~~~~p  508 (680)
                      +....++...+..+...+.+.|++++|...++.+.+.. +.+...+..+...|.+.|++++    |...|++..+.. +.
T Consensus       205 ~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~-P~  282 (656)
T PRK15174        205 PFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFN-SD  282 (656)
T ss_pred             hcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhC-CC
Confidence            33211222233333444445555555555555554433 2234444445555555555543    455555554443 33


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHH
Q 005729          509 CTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIEC  567 (680)
Q Consensus       509 ~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~  567 (680)
                      +...+..+...+.+.|++++|...+++..+... .+...+..+..+|.+.|++++|+..
T Consensus       283 ~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P-~~~~a~~~La~~l~~~G~~~eA~~~  340 (656)
T PRK15174        283 NVRIVTLYADALIRTGQNEKAIPLLQQSLATHP-DLPYVRAMYARALRQVGQYTAASDE  340 (656)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            344455555555555555555555555554321 1233444445555555555554444

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.83  E-value=1.8e-14  Score=162.89  Aligned_cols=479  Identities=11%  Similarity=0.021  Sum_probs=325.9

Q ss_pred             CChHHHHHHHHHHHHCCCCCchHHHHHHHHHH--------hcccCCHHHHHHhhCCCCC--CHH-HHHHHHHHHHHcCCH
Q 005729          141 SSIDLAYAVVSWLQKHNLCYSYELLYSILIHA--------LGRSEKLYEAFLLSQRQRL--TPL-TYNALISACARNDDL  209 (680)
Q Consensus       141 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~--------~~~~g~~~~A~~~~~~~~~--~~~-~~~~li~~~~~~g~~  209 (680)
                      +..+.|..+++.+.+..  |.+..++..+...        |.+.++..+++. .....+  ++. ..-.+...|.+.|++
T Consensus       122 ~~~~kA~~~ye~l~~~~--P~n~~~~~~la~~~~~~~~l~y~q~eqAl~AL~-lr~~~~~~~~~vL~L~~~rlY~~l~dw  198 (987)
T PRK09782        122 PVEVKSVTTVEELLAQQ--KACDAVPTLRCRSEVGQNALRLAQLPVARAQLN-DATFAASPEGKTLRTDLLQRAIYLKQW  198 (987)
T ss_pred             ccChhHHHHHHHHHHhC--CCChhHHHHHHHHhhccchhhhhhHHHHHHHHH-HhhhCCCCCcHHHHHHHHHHHHHHhCH
Confidence            56778888888888887  7777777777776        788877777777 333333  344 444458999999999


Q ss_pred             HHHHHHHHHHHHcCCCCChhhHHHHHHHHHh-cCCCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCCHHHHHHHH
Q 005729          210 EKALNLMSKMRQDGYHCDFINYSLVIQSLTR-TNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMRFL  288 (680)
Q Consensus       210 ~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~-~g~~~~~~~~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~  288 (680)
                      ++|+++++++.+.+. .+......+-.++.. .++   ..+..++..    .+..+...+..++..|.+.|+.++|.+++
T Consensus       199 ~~Ai~lL~~L~k~~p-l~~~~~~~L~~ay~q~l~~---~~a~al~~~----~lk~d~~l~~ala~~yi~~G~~~~A~~~L  270 (987)
T PRK09782        199 SQADTLYNEARQQNT-LSAAERRQWFDVLLAGQLD---DRLLALQSQ----GIFTDPQSRITYATALAYRGEKARLQHYL  270 (987)
T ss_pred             HHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHhhCH---HHHHHHhch----hcccCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            999999999999863 233334455556665 344   223444432    33468889999999999999999999998


Q ss_pred             HHHHhCCCC-CCHHHHHH------------------------------HHHHHHhcCChH--------------------
Q 005729          289 GMAQGVGLS-PKTATYAA------------------------------VITALSNSGRTI--------------------  317 (680)
Q Consensus       289 ~~~~~~g~~-p~~~~~~~------------------------------li~~~~~~g~~~--------------------  317 (680)
                      +.+...... |...+|-.                              ++..+.+.++++                    
T Consensus       271 ~~~~~~~~~~~~~~~~~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~  350 (987)
T PRK09782        271 IENKPLFTTDAQEKSWLYLLSKYSANPVQALANYTVQFADNRQYVVGATLPVLLKEGQYDAAQKLLATLPANEMLEERYA  350 (987)
T ss_pred             HhCcccccCCCccHHHHHHHHhccCchhhhccchhhhhHHHHHHHHHHHHHHHHhccHHHHHHHHhcCCCcchHHHHHHh
Confidence            876532111 11111111                              122223333333                    


Q ss_pred             -------------------------------------------HHHHHHHHHHHc-C-CCCCHHHHHHHHHHHHHcCC--
Q 005729          318 -------------------------------------------EAEAVFEELKES-G-LKPRTKAYNALLKGYVKMGY--  350 (680)
Q Consensus       318 -------------------------------------------~A~~l~~~m~~~-g-~~p~~~~~~~li~~~~~~g~--  350 (680)
                                                                 +|.++|+..... + ...+....+.++..|.+.+.  
T Consensus       351 ~~~~~~~~~~~~~~~~~~y~~~~~~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~  430 (987)
T PRK09782        351 VSVATRNKAEALRLARLLYQQEPANLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLA  430 (987)
T ss_pred             hccccCchhHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCccc
Confidence                                                       333333332220 0 01122233344455554443  


Q ss_pred             -HHHHHHH----------------------HHHHHH-CCC-CC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC
Q 005729          351 -LKDAEFV----------------------VSEMER-SGV-LP--DEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKP  403 (680)
Q Consensus       351 -~~~A~~~----------------------~~~m~~-~g~-~~--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~  403 (680)
                       ..++..+                      .+.... .+. ++  +...|..+..++.. ++.++|+..+.+.....  |
T Consensus       431 ~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~~--P  507 (987)
T PRK09782        431 TPAKVAILSKPLPLAEQRQWQSQLPGIADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQRQ--P  507 (987)
T ss_pred             chHHHHHhccccccchhHHHHhhhhhhhhhHHHHHHhcccCCCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHHhC--C
Confidence             1222111                      111110 001 22  45666767766665 78888888777776653  5


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 005729          404 NSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLID  483 (680)
Q Consensus       404 ~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~  483 (680)
                      +......+...+...|++++|...|+++...  +|+...+..+...+.+.|+.++|...++...+.. +.+...+..+..
T Consensus       508 d~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~-P~~~~l~~~La~  584 (987)
T PRK09782        508 DAWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRG-LGDNALYWWLHA  584 (987)
T ss_pred             chHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CccHHHHHHHHH
Confidence            5544444555667899999999999998654  4555566777888899999999999999998765 223333334444


Q ss_pred             HHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHH
Q 005729          484 CHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDD  563 (680)
Q Consensus       484 ~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~  563 (680)
                      ...+.|++++|...+++..+..  |+...|..+..++.+.|+.++|...+.+..... +.+...++.+..++...|++++
T Consensus       585 ~l~~~Gr~~eAl~~~~~AL~l~--P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~-Pd~~~a~~nLG~aL~~~G~~ee  661 (987)
T PRK09782        585 QRYIPGQPELALNDLTRSLNIA--PSANAYVARATIYRQRHNVPAAVSDLRAALELE-PNNSNYQAALGYALWDSGDIAQ  661 (987)
T ss_pred             HHHhCCCHHHHHHHHHHHHHhC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHH
Confidence            4456699999999999999874  678899999999999999999999999999863 2267788899999999999999


Q ss_pred             HHHHHhhhHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcCC
Q 005729          564 AIECLEGLSDQAVNAFRVMRTDGLKPS-NLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDV-VTYTTLMKALIRVDK  641 (680)
Q Consensus       564 A~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~l~~~~~~~g~  641 (680)
                      |+..++           +..+  ..|+ ...+..+..++...|++++|+..+++..+  +.|+. .+.........+..+
T Consensus       662 Ai~~l~-----------~AL~--l~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~--l~P~~a~i~~~~g~~~~~~~~  726 (987)
T PRK09782        662 SREMLE-----------RAHK--GLPDDPALIRQLAYVNQRLDDMAATQHYARLVID--DIDNQALITPLTPEQNQQRFN  726 (987)
T ss_pred             HHHHHH-----------HHHH--hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--cCCCCchhhhhhhHHHHHHHH
Confidence            988765           2232  3454 45889999999999999999999999998  56754 566677777778888


Q ss_pred             cCcHHHHHHHHHH
Q 005729          642 FHKVPAVYEEMIL  654 (680)
Q Consensus       642 ~~~A~~~~~~m~~  654 (680)
                      ++.|.+-+++...
T Consensus       727 ~~~a~~~~~r~~~  739 (987)
T PRK09782        727 FRRLHEEVGRRWT  739 (987)
T ss_pred             HHHHHHHHHHHhh
Confidence            8888888877654

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.82  E-value=1.2e-15  Score=168.59  Aligned_cols=332  Identities=11%  Similarity=0.072  Sum_probs=193.2

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHH
Q 005729          196 YNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGF  275 (680)
Q Consensus       196 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~~~li~~~  275 (680)
                      ...++..+.+.|++++|+.+++.......... ..+..+..++...|+.+.  +...++.+.... +.+...+..+...+
T Consensus        45 ~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~~~-~~l~~l~~~~l~~g~~~~--A~~~l~~~l~~~-P~~~~a~~~la~~l  120 (656)
T PRK15174         45 IILFAIACLRKDETDVGLTLLSDRVLTAKNGR-DLLRRWVISPLASSQPDA--VLQVVNKLLAVN-VCQPEDVLLVASVL  120 (656)
T ss_pred             HHHHHHHHHhcCCcchhHHHhHHHHHhCCCch-hHHHHHhhhHhhcCCHHH--HHHHHHHHHHhC-CCChHHHHHHHHHH
Confidence            34567778899999999999999887643222 223333334445565543  346666665532 23445566666666


Q ss_pred             HHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 005729          276 AKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAE  355 (680)
Q Consensus       276 ~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~  355 (680)
                      ...|++++|++.++++.+.. +.+...+..+...+...|++++|...++.+..... .+...+..+ ..+...|++++|.
T Consensus       121 ~~~g~~~~Ai~~l~~Al~l~-P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P-~~~~a~~~~-~~l~~~g~~~eA~  197 (656)
T PRK15174        121 LKSKQYATVADLAEQAWLAF-SGNSQIFALHLRTLVLMDKELQAISLARTQAQEVP-PRGDMIATC-LSFLNKSRLPEDH  197 (656)
T ss_pred             HHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCC-CCHHHHHHH-HHHHHcCCHHHHH
Confidence            66667777766666666531 22344556666666666666666666666654432 122233222 2355666666666


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHH----HHHHHHHH
Q 005729          356 FVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQR----TFQVLKEM  431 (680)
Q Consensus       356 ~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~----A~~l~~~m  431 (680)
                      ..++.+.+....++...+..+...+.+.|++++|+..+++..... +.+...+..+...+...|++++    |...|++.
T Consensus       198 ~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~A  276 (656)
T PRK15174        198 DLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHA  276 (656)
T ss_pred             HHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHH
Confidence            666666554322333444444556666666666666666666543 2345555666666666666664    56666666


Q ss_pred             HHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCH-
Q 005729          432 KSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCT-  510 (680)
Q Consensus       432 ~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~-  510 (680)
                      .+.. +.+...+..+...+.+.|++++|...+++..+.. +.+...+..+..+|.+.|++++|...|+++.+.+  |+. 
T Consensus       277 l~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~-P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~--P~~~  352 (656)
T PRK15174        277 LQFN-SDNVRIVTLYADALIRTGQNEKAIPLLQQSLATH-PDLPYVRAMYARALRQVGQYTAASDEFVQLAREK--GVTS  352 (656)
T ss_pred             HhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--ccch
Confidence            5543 3345566666666666666666666666666543 2234455556666666666666666666666543  332 


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 005729          511 TTYNIMINLLGEQERWEDVKRLLGNMRAQ  539 (680)
Q Consensus       511 ~t~~~li~~~~~~g~~~~A~~~~~~m~~~  539 (680)
                      ..+..+..++...|+.++|...++++.+.
T Consensus       353 ~~~~~~a~al~~~G~~deA~~~l~~al~~  381 (656)
T PRK15174        353 KWNRYAAAALLQAGKTSEAESVFEHYIQA  381 (656)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            22333445566666666666666666654

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.81  E-value=4.4e-15  Score=167.67  Aligned_cols=419  Identities=11%  Similarity=0.097  Sum_probs=279.9

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCCChHHHHHHHHHHHhCCCCcCHHHHHHH
Q 005729          192 TPLTYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDV  271 (680)
Q Consensus       192 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~~~l  271 (680)
                      ++..-.-.+......|+.++|++++.+.....                                      +.+...+..+
T Consensus        14 ~~~~~~d~~~ia~~~g~~~~A~~~~~~~~~~~--------------------------------------~~~a~~~~~l   55 (765)
T PRK10049         14 SNNQIADWLQIALWAGQDAEVITVYNRYRVHM--------------------------------------QLPARGYAAV   55 (765)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--------------------------------------CCCHHHHHHH
Confidence            34444455566667777777777776665421                                      2233345555


Q ss_pred             HHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCH
Q 005729          272 IVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYL  351 (680)
Q Consensus       272 i~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~  351 (680)
                      ...+.+.|++++|.++|+...+.. +.+...+..+...+...|++++|+..++++.+.. +.+.. +..+...+...|+.
T Consensus        56 A~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~l~~~g~~~eA~~~l~~~l~~~-P~~~~-~~~la~~l~~~g~~  132 (765)
T PRK10049         56 AVAYRNLKQWQNSLTLWQKALSLE-PQNDDYQRGLILTLADAGQYDEALVKAKQLVSGA-PDKAN-LLALAYVYKRAGRH  132 (765)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHH-HHHHHHHHHHCCCH
Confidence            666677777777777777766542 2235556677777777888888888888777652 33445 77777777778888


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH------HHHHHHHHHHH-----hcCC
Q 005729          352 KDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNS------FIYSRILAGYR-----DRGE  420 (680)
Q Consensus       352 ~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~------~~~~~ll~~~~-----~~g~  420 (680)
                      ++|...++++.+.... +...+..+...+...++.++|++.++....   .|+.      .....++....     ..++
T Consensus       133 ~~Al~~l~~al~~~P~-~~~~~~~la~~l~~~~~~e~Al~~l~~~~~---~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r  208 (765)
T PRK10049        133 WDELRAMTQALPRAPQ-TQQYPTEYVQALRNNRLSAPALGAIDDANL---TPAEKRDLEADAAAELVRLSFMPTRSEKER  208 (765)
T ss_pred             HHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCChHHHHHHHHhCCC---CHHHHHHHHHHHHHHHHHhhcccccChhHH
Confidence            8888888887776422 455556667777777777777777765543   1221      01111222221     1223


Q ss_pred             H---HHHHHHHHHHHHC-CCCCCHH-HH----HHHHHHHHccCCHHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHHHcCC
Q 005729          421 W---QRTFQVLKEMKSS-GVEPDTH-FY----NVMIDTFGKYNCLHHAMAAFDRMLSEGIE-PDTITWNTLIDCHFKCGR  490 (680)
Q Consensus       421 ~---~~A~~l~~~m~~~-~~~p~~~-~~----~~li~~~~~~g~~~~A~~~~~~m~~~~~~-~~~~~~~~li~~~~~~g~  490 (680)
                      +   ++|++.++.+.+. ...|+.. .+    ...+.++...|++++|+..|+.+.+.+.. |+. .-..+...|...|+
T Consensus       209 ~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~  287 (765)
T PRK10049        209 YAIADRALAQYDALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQ  287 (765)
T ss_pred             HHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCC
Confidence            3   6788888887753 1123221 11    11133445678999999999998876532 322 22225678889999


Q ss_pred             hhHHHHHHHHHHHCCCCC---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-----------CCC---HHHHHHHHH
Q 005729          491 YDRAEELFEEMQERGYFP---CTTTYNIMINLLGEQERWEDVKRLLGNMRAQGL-----------LPN---VVTYTTLVD  553 (680)
Q Consensus       491 ~~~A~~~~~~m~~~~~~p---~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~-----------~p~---~~~~~~li~  553 (680)
                      +++|+.+|+++.+.....   ....+..+..++.+.|++++|..+++.+.+...           .|+   ...+..+..
T Consensus       288 ~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~  367 (765)
T PRK10049        288 PEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQ  367 (765)
T ss_pred             cHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHH
Confidence            999999999987653111   134566677788899999999999999887521           123   234566778


Q ss_pred             HHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-HHHHHHH
Q 005729          554 IYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPD-VVTYTTL  632 (680)
Q Consensus       554 ~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~l  632 (680)
                      .+...|++++|++.++           ++... .+-+...+..+...+...|++++|++.+++..+  +.|+ ...+..+
T Consensus       368 ~l~~~g~~~eA~~~l~-----------~al~~-~P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~--l~Pd~~~l~~~~  433 (765)
T PRK10049        368 VAKYSNDLPQAEMRAR-----------ELAYN-APGNQGLRIDYASVLQARGWPRAAENELKKAEV--LEPRNINLEVEQ  433 (765)
T ss_pred             HHHHcCCHHHHHHHHH-----------HHHHh-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh--hCCCChHHHHHH
Confidence            8889999999888765           33332 233445889999999999999999999999998  4565 5677788


Q ss_pred             HHHHHhcCCcCcHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 005729          633 MKALIRVDKFHKVPAVYEEMILSGCTPDRKARAMLRSALR  672 (680)
Q Consensus       633 ~~~~~~~g~~~~A~~~~~~m~~~g~~pd~~~~~~l~~a~~  672 (680)
                      +..+.+.|++++|..+++++++  ..|+......+.+..+
T Consensus       434 a~~al~~~~~~~A~~~~~~ll~--~~Pd~~~~~~~~~~~~  471 (765)
T PRK10049        434 AWTALDLQEWRQMDVLTDDVVA--REPQDPGVQRLARARD  471 (765)
T ss_pred             HHHHHHhCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHH
Confidence            8899999999999999999998  4888887777666654

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

Probab=99.80  E-value=2.2e-14  Score=151.78  Aligned_cols=494  Identities=13%  Similarity=0.104  Sum_probs=327.3

Q ss_pred             ChHHHHHHHHHHHHCCCCCchHHHHHHHHHHhcccCCHHHHHHh-hC---CC---CCCHHHHHHHHHHHHHcCCHHHHHH
Q 005729          142 SIDLAYAVVSWLQKHNLCYSYELLYSILIHALGRSEKLYEAFLL-SQ---RQ---RLTPLTYNALISACARNDDLEKALN  214 (680)
Q Consensus       142 ~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~-~~---~~---~~~~~~~~~li~~~~~~g~~~~A~~  214 (680)
                      ++..+.+++..+-+.+  +.++.+.+.|.+.|.-.|++..++.+ ..   ..   ..-..+|.-+.++|-..|++++|..
T Consensus       251 s~~~~~~ll~~ay~~n--~~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~  328 (1018)
T KOG2002|consen  251 SYKKGVQLLQRAYKEN--NENPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFK  328 (1018)
T ss_pred             HHHHHHHHHHHHHhhc--CCCcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHH
Confidence            5556666666666555  56667788888888888888887766 11   11   1112357778888888888888888


Q ss_pred             HHHHHHHcCCCCChhhHH--HHHHHHHhcCCCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcC----CHHHHHHHH
Q 005729          215 LMSKMRQDGYHCDFINYS--LVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAG----DASKAMRFL  288 (680)
Q Consensus       215 ~~~~m~~~g~~p~~~~~~--~ll~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~~~li~~~~~~g----~~~~A~~~~  288 (680)
                      .|.+..+.  .++.++++  -+-+.+.+.|++..  +...|+.+.... +.+..+...|...|...+    ..++|..+.
T Consensus       329 yY~~s~k~--~~d~~~l~~~GlgQm~i~~~dle~--s~~~fEkv~k~~-p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l  403 (1018)
T KOG2002|consen  329 YYMESLKA--DNDNFVLPLVGLGQMYIKRGDLEE--SKFCFEKVLKQL-PNNYETMKILGCLYAHSAKKQEKRDKASNVL  403 (1018)
T ss_pred             HHHHHHcc--CCCCccccccchhHHHHHhchHHH--HHHHHHHHHHhC-cchHHHHHHHHhHHHhhhhhhHHHHHHHHHH
Confidence            88776654  35554444  34556666776644  346677666542 334556666666666654    456666666


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHH----HcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 005729          289 GMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELK----ESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERS  364 (680)
Q Consensus       289 ~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~----~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  364 (680)
                      .+..+.- ..|...|-.+...+....-+.. +.+|....    ..+-.+-....|.+...+...|++++|...|+.....
T Consensus       404 ~K~~~~~-~~d~~a~l~laql~e~~d~~~s-L~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~  481 (1018)
T KOG2002|consen  404 GKVLEQT-PVDSEAWLELAQLLEQTDPWAS-LDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGK  481 (1018)
T ss_pred             HHHHhcc-cccHHHHHHHHHHHHhcChHHH-HHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhh
Confidence            6666542 3456677766666655544443 66665543    3444567778888888888888888888888877643


Q ss_pred             ---CCCCCH------HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 005729          365 ---GVLPDE------HTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSG  435 (680)
Q Consensus       365 ---g~~~~~------~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~  435 (680)
                         ...+|.      .+-..+...+-..++.+.|.++|..+.... +--+..|..++......+...+|...+++.....
T Consensus       482 ~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilkeh-p~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d  560 (1018)
T KOG2002|consen  482 LLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKEH-PGYIDAYLRLGCMARDKNNLYEASLLLKDALNID  560 (1018)
T ss_pred             hhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHC-chhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcc
Confidence               112222      233345666667778888888888887753 2223345555544455577788888888877654


Q ss_pred             CCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHH------------cCChhHHHHHHHHHH
Q 005729          436 VEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEG-IEPDTITWNTLIDCHFK------------CGRYDRAEELFEEMQ  502 (680)
Q Consensus       436 ~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~-~~~~~~~~~~li~~~~~------------~g~~~~A~~~~~~m~  502 (680)
                       ..++..+..+...+.+...+..|.+-|..+.+.- ..+|+.+.-.|.+.|.+            .+..++|+++|.+.+
T Consensus       561 -~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL  639 (1018)
T KOG2002|consen  561 -SSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVL  639 (1018)
T ss_pred             -cCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHH
Confidence             5566677777778888888888888777776542 23466666566665442            245678888888888


Q ss_pred             HCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHH
Q 005729          503 ERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVM  582 (680)
Q Consensus       503 ~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m  582 (680)
                      ... +-|...-|.+.-.++..|++.+|..+|.+..+... -...+|..+.++|..+|++..|+++|+..          |
T Consensus       640 ~~d-pkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~-~~~dv~lNlah~~~e~~qy~~AIqmYe~~----------l  707 (1018)
T KOG2002|consen  640 RND-PKNMYAANGIGIVLAEKGRFSEARDIFSQVREATS-DFEDVWLNLAHCYVEQGQYRLAIQMYENC----------L  707 (1018)
T ss_pred             hcC-cchhhhccchhhhhhhccCchHHHHHHHHHHHHHh-hCCceeeeHHHHHHHHHHHHHHHHHHHHH----------H
Confidence            776 66778888888888999999999999999887643 24567888889999999998888887622          2


Q ss_pred             HHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH------------------HhcCCcCc
Q 005729          583 RTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKAL------------------IRVDKFHK  644 (680)
Q Consensus       583 ~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~------------------~~~g~~~~  644 (680)
                      ......-+..+.+.|..++.+.|++.+|.+.+.........-....||..+-..                  ...+..+.
T Consensus       708 kkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~p~~~~v~FN~a~v~kkla~s~lr~~k~t~eev~~a~~~le~  787 (1018)
T KOG2002|consen  708 KKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLAPSNTSVKFNLALVLKKLAESILRLEKRTLEEVLEAVKELEE  787 (1018)
T ss_pred             HHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCccchHHhHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHH
Confidence            222334566788889999999999999998888777632222334454433211                  12245677


Q ss_pred             HHHHHHHHHHcCCC
Q 005729          645 VPAVYEEMILSGCT  658 (680)
Q Consensus       645 A~~~~~~m~~~g~~  658 (680)
                      |.++|.+|...+-.
T Consensus       788 a~r~F~~ls~~~d~  801 (1018)
T KOG2002|consen  788 ARRLFTELSKNGDK  801 (1018)
T ss_pred             HHHHHHHHHhcCCC
Confidence            78888888766544

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.79  E-value=1.7e-13  Score=151.91  Aligned_cols=443  Identities=13%  Similarity=0.094  Sum_probs=291.4

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHcCCCCCh--hhHHHHHHHHHhcCCCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHH
Q 005729          200 ISACARNDDLEKALNLMSKMRQDGYHCDF--INYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAK  277 (680)
Q Consensus       200 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~~~~~ll~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~~~li~~~~~  277 (680)
                      +-...+.|+++.|++.|++..+..  |+.  ..+ .++..+...|+.+.  +...+++.. ...+........+...|..
T Consensus        41 aii~~r~Gd~~~Al~~L~qaL~~~--P~~~~av~-dll~l~~~~G~~~~--A~~~~eka~-~p~n~~~~~llalA~ly~~  114 (822)
T PRK14574         41 LIIRARAGDTAPVLDYLQEESKAG--PLQSGQVD-DWLQIAGWAGRDQE--VIDVYERYQ-SSMNISSRGLASAARAYRN  114 (822)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHhhC--ccchhhHH-HHHHHHHHcCCcHH--HHHHHHHhc-cCCCCCHHHHHHHHHHHHH
Confidence            334567777777777777777653  443  233 55666666676643  345555555 1112233334444567778


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Q 005729          278 AGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFV  357 (680)
Q Consensus       278 ~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~  357 (680)
                      .|++++|+++|+++.+.. +-+...+..++..+...++.++|++.++++...  .|+...+..++..+...++..+|++.
T Consensus       115 ~gdyd~Aiely~kaL~~d-P~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~~AL~~  191 (822)
T PRK14574        115 EKRWDQALALWQSSLKKD-PTNPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNYDALQA  191 (822)
T ss_pred             cCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHHHHHHH
Confidence            888888999888888763 223556667778888888888888888888775  45656664444444445666668888


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHH--HHHHHHHHh---------cCC---HHH
Q 005729          358 VSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIY--SRILAGYRD---------RGE---WQR  423 (680)
Q Consensus       358 ~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~--~~ll~~~~~---------~g~---~~~  423 (680)
                      ++++.+.+ +-+...+..+...+.+.|-...|+++.++-... +.+...-+  ...+.-..+         .++   .+.
T Consensus       192 ~ekll~~~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~-f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~  269 (822)
T PRK14574        192 SSEAVRLA-PTSEEVLKNHLEILQRNRIVEPALRLAKENPNL-VSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADK  269 (822)
T ss_pred             HHHHHHhC-CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccc-cCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHH
Confidence            88888774 336777778888888888888888776653211 11111101  000011111         112   344


Q ss_pred             HHHHHHHHHHC-CCCCC-HHHH----HHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHH
Q 005729          424 TFQVLKEMKSS-GVEPD-THFY----NVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEEL  497 (680)
Q Consensus       424 A~~l~~~m~~~-~~~p~-~~~~----~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  497 (680)
                      |+.-++.+... +-.|. ...|    .=.+-++...++..++++.|+.+...+.+....+-..+.++|...+++++|..+
T Consensus       270 ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l  349 (822)
T PRK14574        270 ALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPI  349 (822)
T ss_pred             HHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHH
Confidence            55555555441 11232 2222    223446678888999999999999887665666788889999999999999999


Q ss_pred             HHHHHHCC-----CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-----------CC--CH-HHHHHHHHHHHhc
Q 005729          498 FEEMQERG-----YFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGL-----------LP--NV-VTYTTLVDIYGQS  558 (680)
Q Consensus       498 ~~~m~~~~-----~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~-----------~p--~~-~~~~~li~~~~~~  558 (680)
                      ++.+....     ..++......|.-++...+++++|..+++++.+...           .|  |- ..+..++..+...
T Consensus       350 ~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~  429 (822)
T PRK14574        350 LSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVAL  429 (822)
T ss_pred             HHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHc
Confidence            99886542     123444467788889999999999999999987311           12  22 2334456677788


Q ss_pred             CChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHH
Q 005729          559 GRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKP-DVVTYTTLMKALI  637 (680)
Q Consensus       559 g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~l~~~~~  637 (680)
                      |++.+|.+.++           ++... -+-|......+.+.+...|+..+|..+++.+..  +.| +..+....+.++.
T Consensus       430 gdl~~Ae~~le-----------~l~~~-aP~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~--l~P~~~~~~~~~~~~al  495 (822)
T PRK14574        430 NDLPTAQKKLE-----------DLSST-APANQNLRIALASIYLARDLPRKAEQELKAVES--LAPRSLILERAQAETAM  495 (822)
T ss_pred             CCHHHHHHHHH-----------HHHHh-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhh--hCCccHHHHHHHHHHHH
Confidence            88888877765           33332 234555888899999999999999999977766  455 4567778888889


Q ss_pred             hcCCcCcHHHHHHHHHHcCCCCCHHHHHHHHH
Q 005729          638 RVDKFHKVPAVYEEMILSGCTPDRKARAMLRS  669 (680)
Q Consensus       638 ~~g~~~~A~~~~~~m~~~g~~pd~~~~~~l~~  669 (680)
                      ..+++.+|..+.+++++.  .|+......+.+
T Consensus       496 ~l~e~~~A~~~~~~l~~~--~Pe~~~~~~l~r  525 (822)
T PRK14574        496 ALQEWHQMELLTDDVISR--SPEDIPSQELDR  525 (822)
T ss_pred             hhhhHHHHHHHHHHHHhh--CCCchhHHHHHH
Confidence            999999999999888874  777765554443

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.79  E-value=9.1e-15  Score=165.12  Aligned_cols=408  Identities=12%  Similarity=0.060  Sum_probs=256.4

Q ss_pred             HHHHHHHhcccCCHHHHHHh----hCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhc
Q 005729          166 YSILIHALGRSEKLYEAFLL----SQRQRLTPLTYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRT  241 (680)
Q Consensus       166 ~~~li~~~~~~g~~~~A~~~----~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~  241 (680)
                      ..=.+......|+.++|+.+    ....+.+...+..+...+.+.|++++|+.+|++..+..  |+..            
T Consensus        18 ~~d~~~ia~~~g~~~~A~~~~~~~~~~~~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~--P~~~------------   83 (765)
T PRK10049         18 IADWLQIALWAGQDAEVITVYNRYRVHMQLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLE--PQND------------   83 (765)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCH------------
Confidence            33445556667777777665    22345556678889999999999999999999987652  3321            


Q ss_pred             CCCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHH
Q 005729          242 NKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEA  321 (680)
Q Consensus       242 g~~~~~~~~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~  321 (680)
                                              ..+..++..+...|++++|+..++++.+.. +.+.. +..+...+...|+.++|+.
T Consensus        84 ------------------------~a~~~la~~l~~~g~~~eA~~~l~~~l~~~-P~~~~-~~~la~~l~~~g~~~~Al~  137 (765)
T PRK10049         84 ------------------------DYQRGLILTLADAGQYDEALVKAKQLVSGA-PDKAN-LLALAYVYKRAGRHWDELR  137 (765)
T ss_pred             ------------------------HHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHH-HHHHHHHHHHCCCHHHHHH
Confidence                                    112233444555666666666666665541 22333 6666666666677777777


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH------HHHHHHHHHHH-----HcCCH---H
Q 005729          322 VFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDE------HTYSLLIDAYA-----NAGRW---E  387 (680)
Q Consensus       322 l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~------~~~~~li~~~~-----~~g~~---~  387 (680)
                      .++++.+.. +.+...+..+...+...|..++|.+.++....   .|+.      .....++..+.     ..+++   +
T Consensus       138 ~l~~al~~~-P~~~~~~~~la~~l~~~~~~e~Al~~l~~~~~---~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad  213 (765)
T PRK10049        138 AMTQALPRA-PQTQQYPTEYVQALRNNRLSAPALGAIDDANL---TPAEKRDLEADAAAELVRLSFMPTRSEKERYAIAD  213 (765)
T ss_pred             HHHHHHHhC-CCCHHHHHHHHHHHHHCCChHHHHHHHHhCCC---CHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHH
Confidence            776666643 22444445556666666666666666655443   1111      01111222221     12233   6


Q ss_pred             HHHHHHHHHHHC-CCCCCHH-HH----HHHHHHHHhcCCHHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHHccCCHHHHH
Q 005729          388 SARIVLKEMEVS-HAKPNSF-IY----SRILAGYRDRGEWQRTFQVLKEMKSSGVE-PDTHFYNVMIDTFGKYNCLHHAM  460 (680)
Q Consensus       388 ~A~~~~~~m~~~-~~~~~~~-~~----~~ll~~~~~~g~~~~A~~l~~~m~~~~~~-p~~~~~~~li~~~~~~g~~~~A~  460 (680)
                      +|++.++.+.+. ...|+.. .+    ...+..+...|++++|...|+.+.+.+.+ |+. ....+...|...|++++|+
T Consensus       214 ~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A~  292 (765)
T PRK10049        214 RALAQYDALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKAQ  292 (765)
T ss_pred             HHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHHH
Confidence            677777777643 1122211 11    11133445668888888888888776522 222 2223566788888888888


Q ss_pred             HHHHHHHHCCCCC---CHHHHHHHHHHHHHcCChhHHHHHHHHHHHCC-----------CCCC---HHHHHHHHHHHHhc
Q 005729          461 AAFDRMLSEGIEP---DTITWNTLIDCHFKCGRYDRAEELFEEMQERG-----------YFPC---TTTYNIMINLLGEQ  523 (680)
Q Consensus       461 ~~~~~m~~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~-----------~~p~---~~t~~~li~~~~~~  523 (680)
                      ..|+.+.+.....   ....+..+..++.+.|++++|..+++.+.+..           -.|+   ...+..+...+...
T Consensus       293 ~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~  372 (765)
T PRK10049        293 SILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYS  372 (765)
T ss_pred             HHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHc
Confidence            8888877643111   13445666667888899999999988887652           0123   23455677788889


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHH
Q 005729          524 ERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSN-LALNSLINAFG  602 (680)
Q Consensus       524 g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~-~~~~~li~~~~  602 (680)
                      |+.++|+.+++++.... +-+...+..+...+...|++++|++.++           +...  ..|+. ..+..++..+.
T Consensus       373 g~~~eA~~~l~~al~~~-P~n~~l~~~lA~l~~~~g~~~~A~~~l~-----------~al~--l~Pd~~~l~~~~a~~al  438 (765)
T PRK10049        373 NDLPQAEMRARELAYNA-PGNQGLRIDYASVLQARGWPRAAENELK-----------KAEV--LEPRNINLEVEQAWTAL  438 (765)
T ss_pred             CCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHHHHHHHHH-----------HHHh--hCCCChHHHHHHHHHHH
Confidence            99999999999998763 3367888889999999999988887765           3332  35664 46667777888


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 005729          603 EDQRDAEAFAVLQYMKENGLKPDVVTYTTLMK  634 (680)
Q Consensus       603 ~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~  634 (680)
                      ..|++++|..+++++++  ..|+......+-+
T Consensus       439 ~~~~~~~A~~~~~~ll~--~~Pd~~~~~~~~~  468 (765)
T PRK10049        439 DLQEWRQMDVLTDDVVA--REPQDPGVQRLAR  468 (765)
T ss_pred             HhCCHHHHHHHHHHHHH--hCCCCHHHHHHHH
Confidence            89999999999999998  4666544333333

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.78  E-value=2e-14  Score=138.49  Aligned_cols=441  Identities=15%  Similarity=0.178  Sum_probs=301.5

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcC--CCChHHHHHHHHHHHhCCCCcCHHHHHH
Q 005729          193 PLTYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRTN--KIDSSLLQKLYKEIECDKIELDGQLLND  270 (680)
Q Consensus       193 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g--~~~~~~~~~l~~~~~~~~~~~~~~~~~~  270 (680)
                      +.+-|.|+. ...+|.++.+.-+|+.|.+.|+..+...-..++...|-.+  ...-+ -.+-|-.|...|- ....+|  
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-MISSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFA-EWEEFVGMRNFGE-DSTSSW--  190 (625)
T ss_pred             hcchhHHHH-HHhhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcch-hHHHHhhcccccc-cccccc--
Confidence            445566555 5678899999999999999998888777666665544332  22211 1334444444332 122222  


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCC
Q 005729          271 VIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGY  350 (680)
Q Consensus       271 li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~  350 (680)
                            +.|.+.+  -+|+..     +....||..+|.++|+--..+.|.++|++......+.+..+||.+|.+-.-.  
T Consensus       191 ------K~G~vAd--L~~E~~-----PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~--  255 (625)
T KOG4422|consen  191 ------KSGAVAD--LLFETL-----PKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYS--  255 (625)
T ss_pred             ------ccccHHH--HHHhhc-----CCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhh--
Confidence                  3444433  223322     3456788889999999888888999998888777778888888888765433  


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHH----HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHH-HH
Q 005729          351 LKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWES----ARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQR-TF  425 (680)
Q Consensus       351 ~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~----A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~-A~  425 (680)
                        ...+++.+|....+.||..|+|+++.+..+.|+++.    |.+++.+|.+-|+.|...+|..+|..+++.++..+ +.
T Consensus       256 --~~K~Lv~EMisqkm~Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as  333 (625)
T KOG4422|consen  256 --VGKKLVAEMISQKMTPNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVAS  333 (625)
T ss_pred             --ccHHHHHHHHHhhcCCchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhH
Confidence              226788888888888999999999999888887764    45677888888999999999988888888777643 44


Q ss_pred             HHHHHHHH----CCC----CCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCC----CCCC---HHHHHHHHHHHHHcCC
Q 005729          426 QVLKEMKS----SGV----EPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEG----IEPD---TITWNTLIDCHFKCGR  490 (680)
Q Consensus       426 ~l~~~m~~----~~~----~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~----~~~~---~~~~~~li~~~~~~g~  490 (680)
                      .++.++..    +.+    +.|...|...+..|.+..+.+-|.++..-+....    +.++   ..-|..+....|+...
T Consensus       334 ~~i~dI~N~ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es  413 (625)
T KOG4422|consen  334 SWINDIQNSLTGKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMES  413 (625)
T ss_pred             HHHHHHHHhhccCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHH
Confidence            44444332    222    2345667777888888889998888877665321    2233   2346677888889999


Q ss_pred             hhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC-Ch-HHHHHHH
Q 005729          491 YDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSG-RF-DDAIECL  568 (680)
Q Consensus       491 ~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g-~~-~~A~~~~  568 (680)
                      .+.-...|+.|+-+-+.|+..+...++++..-.|+++-..++|..++..|..-+.....-++..+++.. .. .-+.+-+
T Consensus       414 ~~~~~~~Y~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k~hp~tp~r~Ql  493 (625)
T KOG4422|consen  414 IDVTLKWYEDLVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARDKLHPLTPEREQL  493 (625)
T ss_pred             HHHHHHHHHHhccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCCCCCCChHHHHH
Confidence            999999999999887889999999999999999999999999999998876655555555555555543 21 1111111


Q ss_pred             h--------hhHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC-C---CCCHHHHHHHHHHH
Q 005729          569 E--------GLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENG-L---KPDVVTYTTLMKAL  636 (680)
Q Consensus       569 ~--------~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~---~p~~~~~~~l~~~~  636 (680)
                      .        .+.+.-...-.+|++..  -.....+...-.+.+.|+.++|.+++..+.+.| -   .|......-+++.-
T Consensus       494 ~~~~ak~aad~~e~~e~~~~R~r~~~--~~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~d~a  571 (625)
T KOG4422|consen  494 QVAFAKCAADIKEAYESQPIRQRAQD--WPATSLNCIAILLLRAGRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELMDSA  571 (625)
T ss_pred             HHHHHHHHHHHHHHHHhhHHHHHhcc--CChhHHHHHHHHHHHcchHHHHHHHHHHHHhcCCcCCCCcchhhHHHHHHHH
Confidence            1        11111111223444433  344567778888899999999999999986533 2   23333344566677


Q ss_pred             HhcCCcCcHHHHHHHHHHcCC
Q 005729          637 IRVDKFHKVPAVYEEMILSGC  657 (680)
Q Consensus       637 ~~~g~~~~A~~~~~~m~~~g~  657 (680)
                      .+......|...++-|...+.
T Consensus       572 ~~~~spsqA~~~lQ~a~~~n~  592 (625)
T KOG4422|consen  572 KVSNSPSQAIEVLQLASAFNL  592 (625)
T ss_pred             HhcCCHHHHHHHHHHHHHcCc
Confidence            778888999999999876543

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

Probab=99.77  E-value=2.2e-13  Score=144.37  Aligned_cols=454  Identities=13%  Similarity=0.054  Sum_probs=266.6

Q ss_pred             CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC--CChhhHHHHHHHHHhcCCCChHHHHHHHHHHHhCCCCcCH
Q 005729          188 RQRLTPLTYNALISACARNDDLEKALNLMSKMRQDGYH--CDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDG  265 (680)
Q Consensus       188 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~--p~~~~~~~ll~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~  265 (680)
                      ..+.||++.+.|.+.|.-.|++..++.+...+...-..  .-...|--+-+++-..|+++.+  .+.|-+.....-..-+
T Consensus       265 ~n~~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA--~~yY~~s~k~~~d~~~  342 (1018)
T KOG2002|consen  265 ENNENPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKA--FKYYMESLKADNDNFV  342 (1018)
T ss_pred             hcCCCcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHH--HHHHHHHHccCCCCcc
Confidence            34455666666666666666666666666666553210  1122344455555566666443  2444333332111112


Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC----ChHHHHHHHHHHHHcCCCCCHHHHHHH
Q 005729          266 QLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSG----RTIEAEAVFEELKESGLKPRTKAYNAL  341 (680)
Q Consensus       266 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g----~~~~A~~l~~~m~~~g~~p~~~~~~~l  341 (680)
                      ..+--|..+|.+.|+++.+...|+.+.+.. +-+..+...|...|...+    ..+.|..++.+..+.- +.|...|-.+
T Consensus       343 l~~~GlgQm~i~~~dle~s~~~fEkv~k~~-p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~l~l  420 (1018)
T KOG2002|consen  343 LPLVGLGQMYIKRGDLEESKFCFEKVLKQL-PNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQT-PVDSEAWLEL  420 (1018)
T ss_pred             ccccchhHHHHHhchHHHHHHHHHHHHHhC-cchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcc-cccHHHHHHH
Confidence            333345566666666666666666665531 223344455555555443    3444555555544432 3455556555


Q ss_pred             HHHHHHcCCHHHHHHHHHHH----HHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC---CCCCCH------HHH
Q 005729          342 LKGYVKMGYLKDAEFVVSEM----ERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVS---HAKPNS------FIY  408 (680)
Q Consensus       342 i~~~~~~g~~~~A~~~~~~m----~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~---~~~~~~------~~~  408 (680)
                      ...+....-+.. +..|...    ...+-.+.+...|.+...+...|++++|...|+.....   ...++.      .+-
T Consensus       421 aql~e~~d~~~s-L~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~  499 (1018)
T KOG2002|consen  421 AQLLEQTDPWAS-LDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLK  499 (1018)
T ss_pred             HHHHHhcChHHH-HHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHH
Confidence            555544433222 4444332    23344455666666666666777777777766665443   111111      122


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc
Q 005729          409 SRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKC  488 (680)
Q Consensus       409 ~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~  488 (680)
                      -.+....-..++.+.|.+.|..+.+.. +--+..|..+..+.-..+...+|...+....... ..+...+..+...|.+.
T Consensus       500 YNlarl~E~l~~~~~A~e~Yk~Ilkeh-p~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d-~~np~arsl~G~~~l~k  577 (1018)
T KOG2002|consen  500 YNLARLLEELHDTEVAEEMYKSILKEH-PGYIDAYLRLGCMARDKNNLYEASLLLKDALNID-SSNPNARSLLGNLHLKK  577 (1018)
T ss_pred             HHHHHHHHhhhhhhHHHHHHHHHHHHC-chhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcc-cCCcHHHHHHHHHHHhh
Confidence            334445555566667777777666542 2223444444433344466667777777766543 34555666666677777


Q ss_pred             CChhHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHh------------cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 005729          489 GRYDRAEELFEEMQER-GYFPCTTTYNIMINLLGE------------QERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIY  555 (680)
Q Consensus       489 g~~~~A~~~~~~m~~~-~~~p~~~t~~~li~~~~~------------~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~  555 (680)
                      ..+..|.+-|+..... ...+|.++...|.+.|.+            .+..++|.++|.+.++... -|...-+.+.-.+
T Consensus       578 ~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~dp-kN~yAANGIgiVL  656 (1018)
T KOG2002|consen  578 SEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRNDP-KNMYAANGIGIVL  656 (1018)
T ss_pred             hhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcCc-chhhhccchhhhh
Confidence            7777777766665543 223566666666665532            3446778888888877532 2667777777778


Q ss_pred             HhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-CCCCCCHHHHHHHHH
Q 005729          556 GQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKE-NGLKPDVVTYTTLMK  634 (680)
Q Consensus       556 ~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-~g~~p~~~~~~~l~~  634 (680)
                      +..|++.+|..+|.           +.++... -...+|-.+.++|..+|++..|+++|+...+ ..-.-+..+...|.+
T Consensus       657 A~kg~~~~A~dIFs-----------qVrEa~~-~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lar  724 (1018)
T KOG2002|consen  657 AEKGRFSEARDIFS-----------QVREATS-DFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLAR  724 (1018)
T ss_pred             hhccCchHHHHHHH-----------HHHHHHh-hCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHH
Confidence            88888888777754           4444321 2345799999999999999999999998775 444447788999999


Q ss_pred             HHHhcCCcCcHHHHHHHHHHcCCCCCHHH
Q 005729          635 ALIRVDKFHKVPAVYEEMILSGCTPDRKA  663 (680)
Q Consensus       635 ~~~~~g~~~~A~~~~~~m~~~g~~pd~~~  663 (680)
                      ++.+.|.+.+|.+.+...+..  .|...+
T Consensus       725 a~y~~~~~~eak~~ll~a~~~--~p~~~~  751 (1018)
T KOG2002|consen  725 AWYEAGKLQEAKEALLKARHL--APSNTS  751 (1018)
T ss_pred             HHHHhhhHHHHHHHHHHHHHh--CCccch
Confidence            999999999999998888764  454443

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.75  E-value=5.2e-14  Score=135.63  Aligned_cols=347  Identities=15%  Similarity=0.147  Sum_probs=249.0

Q ss_pred             hCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCCChHHHHHHHHHHHhCCCCcCH
Q 005729          186 SQRQRLTPLTYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDG  265 (680)
Q Consensus       186 ~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~  265 (680)
                      .+..+.++.+|.+||+++|+-...+.|.++|++......+.+..+||.+|.+-.-..      .+++..+|....+.||.
T Consensus       200 ~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~------~K~Lv~EMisqkm~Pnl  273 (625)
T KOG4422|consen  200 FETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSV------GKKLVAEMISQKMTPNL  273 (625)
T ss_pred             HhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhc------cHHHHHHHHHhhcCCch
Confidence            566778889999999999999999999999999998888999999999997654332      36899999999999999


Q ss_pred             HHHHHHHHHHHHcCCHHHH----HHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHH-HHHHHHHHHH----cCC----C
Q 005729          266 QLLNDVIVGFAKAGDASKA----MRFLGMAQGVGLSPKTATYAAVITALSNSGRTIE-AEAVFEELKE----SGL----K  332 (680)
Q Consensus       266 ~~~~~li~~~~~~g~~~~A----~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~-A~~l~~~m~~----~g~----~  332 (680)
                      .++|+++.+..+.|+++.|    ++++.+|++.|+.|...+|..+|..+++.++..+ |..++.++..    ..+    +
T Consensus       274 ~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p  353 (625)
T KOG4422|consen  274 FTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITP  353 (625)
T ss_pred             HhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCC
Confidence            9999999999999988765    5567899999999999999999999999888754 4444444432    222    2


Q ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC----CCCC---HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH
Q 005729          333 PRTKAYNALLKGYVKMGYLKDAEFVVSEMERSG----VLPD---EHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNS  405 (680)
Q Consensus       333 p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g----~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~  405 (680)
                      .|...|...|..|.+..+.+-|.++..-+....    +.|+   ..-|..+....|+....+.....|+.|.-.-.-|+.
T Consensus       354 ~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~  433 (625)
T KOG4422|consen  354 TDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHS  433 (625)
T ss_pred             chhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCc
Confidence            356677888899999999999998887765421    2333   234566788888999999999999999877778888


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccC-C--------HH-----HHHHHH-------H
Q 005729          406 FIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYN-C--------LH-----HAMAAF-------D  464 (680)
Q Consensus       406 ~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g-~--------~~-----~A~~~~-------~  464 (680)
                      .+...++++..-.+.++-.-+++.+++..|..-+.....-++..+++.. .        +.     -|..++       .
T Consensus       434 ~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k~hp~tp~r~Ql~~~~ak~aad~~e~~e~~~~  513 (625)
T KOG4422|consen  434 QTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARDKLHPLTPEREQLQVAFAKCAADIKEAYESQPI  513 (625)
T ss_pred             hhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHHHHHHHHHHhhHH
Confidence            9999999999999999999999999988775555444444444444433 0        00     011111       1


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCC-CC---CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 005729          465 RMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERG-YF---PCTTTYNIMINLLGEQERWEDVKRLLGNMRAQG  540 (680)
Q Consensus       465 ~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~-~~---p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~  540 (680)
                      +|.+.  .......+.+...+.+.|+.++|.++|..+..++ -.   |......-++..-.+.+...+|..+++-|...+
T Consensus       514 R~r~~--~~~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~d~a~~~~spsqA~~~lQ~a~~~n  591 (625)
T KOG4422|consen  514 RQRAQ--DWPATSLNCIAILLLRAGRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELMDSAKVSNSPSQAIEVLQLASAFN  591 (625)
T ss_pred             HHHhc--cCChhHHHHHHHHHHHcchHHHHHHHHHHHHhcCCcCCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Confidence            12222  2334445555556666777777777776664432 11   222223344445555666666666666665543

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.75  E-value=1.3e-12  Score=145.04  Aligned_cols=429  Identities=11%  Similarity=0.045  Sum_probs=281.6

Q ss_pred             hCCCChHHHHHHHHHHHHCCCCCchH-HHHHHHHHHhcccCCHHHHHHh-hC-CC--CCCHHHHHHHHHHHHHcCCHHHH
Q 005729          138 SSNSSIDLAYAVVSWLQKHNLCYSYE-LLYSILIHALGRSEKLYEAFLL-SQ-RQ--RLTPLTYNALISACARNDDLEKA  212 (680)
Q Consensus       138 ~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~~li~~~~~~g~~~~A~~~-~~-~~--~~~~~~~~~li~~~~~~g~~~~A  212 (680)
                      .+.|+++.|+..+..+++.+  |.+. .++ -++..++..|+.++|+.. .. ..  +.+.....++...|...|++++|
T Consensus        45 ~r~Gd~~~Al~~L~qaL~~~--P~~~~av~-dll~l~~~~G~~~~A~~~~eka~~p~n~~~~~llalA~ly~~~gdyd~A  121 (822)
T PRK14574         45 ARAGDTAPVLDYLQEESKAG--PLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQSSMNISSRGLASAARAYRNEKRWDQA  121 (822)
T ss_pred             HhCCCHHHHHHHHHHHHhhC--ccchhhHH-HHHHHHHHcCCcHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHH
Confidence            36788889999999888876  5542 333 777777788888888776 11 11  22233333445677778888888


Q ss_pred             HHHHHHHHHcCCCCChhhHHHHHHHHHhcCCCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 005729          213 LNLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQ  292 (680)
Q Consensus       213 ~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~  292 (680)
                      +++|+++.+..  |+.                                    ...+..++..|...++.++|++.++.+.
T Consensus       122 iely~kaL~~d--P~n------------------------------------~~~l~gLa~~y~~~~q~~eAl~~l~~l~  163 (822)
T PRK14574        122 LALWQSSLKKD--PTN------------------------------------PDLISGMIMTQADAGRGGVVLKQATELA  163 (822)
T ss_pred             HHHHHHHHhhC--CCC------------------------------------HHHHHHHHHHHhhcCCHHHHHHHHHHhc
Confidence            88888887763  332                                    2222334455666677777777777776


Q ss_pred             hCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHH
Q 005729          293 GVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHT  372 (680)
Q Consensus       293 ~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~  372 (680)
                      ..  .|+...+..++..+...++..+|++.++++.+.. +.+...+..++..+.+.|-...|.++..+-... +.+....
T Consensus       164 ~~--dp~~~~~l~layL~~~~~~~~~AL~~~ekll~~~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~-f~~~~~~  239 (822)
T PRK14574        164 ER--DPTVQNYMTLSYLNRATDRNYDALQASSEAVRLA-PTSEEVLKNHLEILQRNRIVEPALRLAKENPNL-VSAEHYR  239 (822)
T ss_pred             cc--CcchHHHHHHHHHHHhcchHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccc-cCHHHHH
Confidence            54  4555555444444444555555777777777763 335666667777777777777776655543321 0111100


Q ss_pred             H--HHHHHHHH---------HcCC---HHHHHHHHHHHHHC-CCCCC-HH----HHHHHHHHHHhcCCHHHHHHHHHHHH
Q 005729          373 Y--SLLIDAYA---------NAGR---WESARIVLKEMEVS-HAKPN-SF----IYSRILAGYRDRGEWQRTFQVLKEMK  432 (680)
Q Consensus       373 ~--~~li~~~~---------~~g~---~~~A~~~~~~m~~~-~~~~~-~~----~~~~ll~~~~~~g~~~~A~~l~~~m~  432 (680)
                      +  ...+.-.+         ...+   .+.|+.-++.+... +..|. ..    ...-.+-++...|++.++++.|+.|.
T Consensus       240 ~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~  319 (822)
T PRK14574        240 QLERDAAAEQVRMAVLPTRSETERFDIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAME  319 (822)
T ss_pred             HHHHHHHHHHHhhcccccccchhhHHHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhh
Confidence            0  00000011         1112   34455555555542 11132 12    22344567788899999999999999


Q ss_pred             HCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCC-----CCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCC-
Q 005729          433 SSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEG-----IEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGY-  506 (680)
Q Consensus       433 ~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~-----~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~-  506 (680)
                      ..+.+....+-..+.++|...++.++|..+|..+....     ..++......|..+|...+++++|..+++++.+.-. 
T Consensus       320 ~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~  399 (822)
T PRK14574        320 AEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPY  399 (822)
T ss_pred             hcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCc
Confidence            88766566688889999999999999999999987642     122344457788899999999999999999987310 


Q ss_pred             ----------CC--CH-HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHhhhHH
Q 005729          507 ----------FP--CT-TTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSD  573 (680)
Q Consensus       507 ----------~p--~~-~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  573 (680)
                                .|  |- ..+..++..+...|+..+|++.++++.... +-|......+.+.+...|.+.+|.+.++    
T Consensus       400 ~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~a-P~n~~l~~~~A~v~~~Rg~p~~A~~~~k----  474 (822)
T PRK14574        400 QVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSSTA-PANQNLRIALASIYLARDLPRKAEQELK----  474 (822)
T ss_pred             EEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHHHHHHHHH----
Confidence                      11  21 223445677889999999999999998763 3388899999999999999998887754    


Q ss_pred             HHHHHHHHHHHCCCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH
Q 005729          574 QAVNAFRVMRTDGLKPSNL-ALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVV  627 (680)
Q Consensus       574 ~a~~~~~~m~~~g~~p~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~  627 (680)
                             ....  +.|+.. +....+.++...|++++|..+.+...+  ..|+..
T Consensus       475 -------~a~~--l~P~~~~~~~~~~~~al~l~e~~~A~~~~~~l~~--~~Pe~~  518 (822)
T PRK14574        475 -------AVES--LAPRSLILERAQAETAMALQEWHQMELLTDDVIS--RSPEDI  518 (822)
T ss_pred             -------HHhh--hCCccHHHHHHHHHHHHhhhhHHHHHHHHHHHHh--hCCCch
Confidence                   2222  356554 677888888889999999999988887  456544

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

Probab=99.73  E-value=1.6e-11  Score=124.67  Aligned_cols=400  Identities=11%  Similarity=0.093  Sum_probs=196.9

Q ss_pred             CCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH
Q 005729          259 DKIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPK--TATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTK  336 (680)
Q Consensus       259 ~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~--~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~  336 (680)
                      +|+..+...|-.=...|-..|..-.+..+....+..|+.-.  ..||+.-...|.+.+.++-|..+|...++- ++-+..
T Consensus       473 ngv~i~rdqWl~eAe~~e~agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alqv-fp~k~s  551 (913)
T KOG0495|consen  473 NGVEINRDQWLKEAEACEDAGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQV-FPCKKS  551 (913)
T ss_pred             cceeecHHHHHHHHHHHhhcCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhh-ccchhH
Confidence            44444444444444444444544444444444444443321  234444445555555555555555444442 223334


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 005729          337 AYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYR  416 (680)
Q Consensus       337 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~  416 (680)
                      .|......--..|..+....+|++.... ++-....|.....-+-..|+...|..++.+..+.... +...|...++.-.
T Consensus       552 lWlra~~~ek~hgt~Esl~Allqkav~~-~pkae~lwlM~ake~w~agdv~~ar~il~~af~~~pn-seeiwlaavKle~  629 (913)
T KOG0495|consen  552 LWLRAAMFEKSHGTRESLEALLQKAVEQ-CPKAEILWLMYAKEKWKAGDVPAARVILDQAFEANPN-SEEIWLAAVKLEF  629 (913)
T ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHHh-CCcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCC-cHHHHHHHHHHhh
Confidence            4444444444444444444444444443 1223333333334444445555555554444443321 3444444444444


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHH
Q 005729          417 DRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEE  496 (680)
Q Consensus       417 ~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  496 (680)
                      ...++++|..+|.+....  .|+...|.--+....-.+..++|.+++++.++.- +.-...|-.+.+.+-+.++++.|.+
T Consensus       630 en~e~eraR~llakar~~--sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~f-p~f~Kl~lmlGQi~e~~~~ie~aR~  706 (913)
T KOG0495|consen  630 ENDELERARDLLAKARSI--SGTERVWMKSANLERYLDNVEEALRLLEEALKSF-PDFHKLWLMLGQIEEQMENIEMARE  706 (913)
T ss_pred             ccccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHhC-CchHHHHHHHhHHHHHHHHHHHHHH
Confidence            444555555555444432  2333333333333333444444554444444331 1112334444444444444444444


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHhhhH----
Q 005729          497 LFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLS----  572 (680)
Q Consensus       497 ~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~----  572 (680)
                      .|..-.+. ++-....|..+.+.=-+.|.+-.|..++++..-.+.+ +...|...|++-.+.|..+.|...+...+    
T Consensus       707 aY~~G~k~-cP~~ipLWllLakleEk~~~~~rAR~ildrarlkNPk-~~~lwle~Ir~ElR~gn~~~a~~lmakALQecp  784 (913)
T KOG0495|consen  707 AYLQGTKK-CPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKNPK-NALLWLESIRMELRAGNKEQAELLMAKALQECP  784 (913)
T ss_pred             HHHhcccc-CCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcCCC-cchhHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            44443332 1223333444444444444444455554444443322 34444444444444454444444332111    


Q ss_pred             ------HHHHHH----------HHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 005729          573 ------DQAVNA----------FRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKAL  636 (680)
Q Consensus       573 ------~~a~~~----------~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~  636 (680)
                            .+++.+          .+.|++  +.-|..+...+...+....+++.|.++|.+..+.+ +.+..+|.-+..-+
T Consensus       785 ~sg~LWaEaI~le~~~~rkTks~DALkk--ce~dphVllaia~lfw~e~k~~kar~Wf~Ravk~d-~d~GD~wa~fykfe  861 (913)
T KOG0495|consen  785 SSGLLWAEAIWLEPRPQRKTKSIDALKK--CEHDPHVLLAIAKLFWSEKKIEKAREWFERAVKKD-PDNGDAWAWFYKFE  861 (913)
T ss_pred             ccchhHHHHHHhccCcccchHHHHHHHh--ccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHccC-CccchHHHHHHHHH
Confidence                  111111          122233  45677778888888888999999999999999843 22457888888999


Q ss_pred             HhcCCcCcHHHHHHHHHHcCCCCCH-HHHHHHHHHH
Q 005729          637 IRVDKFHKVPAVYEEMILSGCTPDR-KARAMLRSAL  671 (680)
Q Consensus       637 ~~~g~~~~A~~~~~~m~~~g~~pd~-~~~~~l~~a~  671 (680)
                      .+.|.-+.-.+++++...  +.|.. ..|..+....
T Consensus       862 l~hG~eed~kev~~~c~~--~EP~hG~~W~avSK~i  895 (913)
T KOG0495|consen  862 LRHGTEEDQKEVLKKCET--AEPTHGELWQAVSKDI  895 (913)
T ss_pred             HHhCCHHHHHHHHHHHhc--cCCCCCcHHHHHhhhH
Confidence            999998999999998876  35543 3444444333

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

Probab=99.69  E-value=3.1e-13  Score=131.03  Aligned_cols=435  Identities=15%  Similarity=0.125  Sum_probs=248.6

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCChhhHHHHH-HHHHhcCCCChHHHHHHHHHHHh----CCCCcCHHHHH
Q 005729          195 TYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVI-QSLTRTNKIDSSLLQKLYKEIEC----DKIELDGQLLN  269 (680)
Q Consensus       195 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll-~~~~~~g~~~~~~~~~l~~~~~~----~~~~~~~~~~~  269 (680)
                      +...|...|..+..+.+|+..|+-..+....|+...+..-+ +.+.+...+..  +.+.|.-...    .+-...+.+.|
T Consensus       203 vl~nlaqqy~~ndm~~ealntyeiivknkmf~nag~lkmnigni~~kkr~fsk--aikfyrmaldqvpsink~~rikil~  280 (840)
T KOG2003|consen  203 VLFNLAQQYEANDMTAEALNTYEIIVKNKMFPNAGILKMNIGNIHFKKREFSK--AIKFYRMALDQVPSINKDMRIKILN  280 (840)
T ss_pred             HHHHHHHHhhhhHHHHHHhhhhhhhhcccccCCCceeeeeecceeeehhhHHH--HHHHHHHHHhhccccchhhHHHHHh
Confidence            34445667777788888888888887776666654332111 11222222222  2233332222    12223345667


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC------------CCHHH
Q 005729          270 DVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLK------------PRTKA  337 (680)
Q Consensus       270 ~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~------------p~~~~  337 (680)
                      .+...+.+.|++++|+.-|+...+.  .|+..+-..|+-++..-|+.+...+.|.+|+.....            |+...
T Consensus       281 nigvtfiq~gqy~dainsfdh~m~~--~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~~~l  358 (840)
T KOG2003|consen  281 NIGVTFIQAGQYDDAINSFDHCMEE--APNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPDDNL  358 (840)
T ss_pred             hcCeeEEecccchhhHhhHHHHHHh--CccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcchHH
Confidence            7777788999999999999987764  688776666666667788999999999999764322            33333


Q ss_pred             HHHHHH-----HHHHcCC--HHHHHHHHHHHHHCCCCCCHHH-------------H--------HHHHHHHHHcCCHHHH
Q 005729          338 YNALLK-----GYVKMGY--LKDAEFVVSEMERSGVLPDEHT-------------Y--------SLLIDAYANAGRWESA  389 (680)
Q Consensus       338 ~~~li~-----~~~~~g~--~~~A~~~~~~m~~~g~~~~~~~-------------~--------~~li~~~~~~g~~~~A  389 (680)
                      .|..|.     -.-+.+.  .++++-.--+++.--+.|+-..             +        -.-..-|.++|+++.|
T Consensus       359 l~eai~nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~la~dlei~ka~~~lk~~d~~~a  438 (840)
T KOG2003|consen  359 LNEAIKNDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLKASQHAELAIDLEINKAGELLKNGDIEGA  438 (840)
T ss_pred             HHHHHhhHHHHHHHHhhhhhHHHHHHHHHHHhccccccchhcccHHHHHHHHHhhhhhhhhhhhhhHHHHHHhccCHHHH
Confidence            333222     1212111  1222211122222112222110             0        0112347789999999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHh--cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHH
Q 005729          390 RIVLKEMEVSHAKPNSFIYSRILAGYRD--RGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRML  467 (680)
Q Consensus       390 ~~~~~~m~~~~~~~~~~~~~~ll~~~~~--~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~  467 (680)
                      +++++-+.+..-+.-...-+.+-..+.-  ..++..|.+.-+...... +-+......-.......|++++|.+.|.+.+
T Consensus       439 ieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~d-ryn~~a~~nkgn~~f~ngd~dka~~~ykeal  517 (840)
T KOG2003|consen  439 IEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNID-RYNAAALTNKGNIAFANGDLDKAAEFYKEAL  517 (840)
T ss_pred             HHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc-ccCHHHhhcCCceeeecCcHHHHHHHHHHHH
Confidence            9999988776544333333333333322  346667776666654332 2333333333334456789999999999888


Q ss_pred             HCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHH
Q 005729          468 SEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVT  547 (680)
Q Consensus       468 ~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~  547 (680)
                      .....-....||. .-.+-..|++++|+++|-++... +..+......+.+.|....+..+|.+++.+.... ++.|+.+
T Consensus       518 ~ndasc~ealfni-glt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~~~q~~sl-ip~dp~i  594 (840)
T KOG2003|consen  518 NNDASCTEALFNI-GLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIELLMQANSL-IPNDPAI  594 (840)
T ss_pred             cCchHHHHHHHHh-cccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhccc-CCCCHHH
Confidence            6432222223332 23456788999999998876443 2345677777888888888999999988877664 4557889


Q ss_pred             HHHHHHHHHhcCChHHHHHHHh-----------------------hhHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH-h
Q 005729          548 YTTLVDIYGQSGRFDDAIECLE-----------------------GLSDQAVNAFRVMRTDGLKPSNLALNSLINAFG-E  603 (680)
Q Consensus       548 ~~~li~~~~~~g~~~~A~~~~~-----------------------~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~-~  603 (680)
                      .+.|.+.|-+.|+-..|.++.-                       ...++++..|++..-  +.|+..-|..++..|. +
T Consensus       595 lskl~dlydqegdksqafq~~ydsyryfp~nie~iewl~ayyidtqf~ekai~y~ekaal--iqp~~~kwqlmiasc~rr  672 (840)
T KOG2003|consen  595 LSKLADLYDQEGDKSQAFQCHYDSYRYFPCNIETIEWLAAYYIDTQFSEKAINYFEKAAL--IQPNQSKWQLMIASCFRR  672 (840)
T ss_pred             HHHHHHHhhcccchhhhhhhhhhcccccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHh--cCccHHHHHHHHHHHHHh
Confidence            9999999999999888877542                       223344444443332  3444444444443332 2


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC
Q 005729          604 DQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALIRVD  640 (680)
Q Consensus       604 ~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g  640 (680)
                      .|+++.|.++++...+. ++-|.....-|++.+...|
T Consensus       673 sgnyqka~d~yk~~hrk-fpedldclkflvri~~dlg  708 (840)
T KOG2003|consen  673 SGNYQKAFDLYKDIHRK-FPEDLDCLKFLVRIAGDLG  708 (840)
T ss_pred             cccHHHHHHHHHHHHHh-CccchHHHHHHHHHhcccc
Confidence            44555555555444432 3334444444444444444

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

Probab=99.68  E-value=8.9e-11  Score=124.17  Aligned_cols=356  Identities=12%  Similarity=0.127  Sum_probs=267.1

Q ss_pred             CCChHHHHHHHHHHHHCCCCCchHHHHHHHHHHhcccCCHHHHHHh----hCCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Q 005729          140 NSSIDLAYAVVSWLQKHNLCYSYELLYSILIHALGRSEKLYEAFLL----SQRQRLTPLTYNALISACARNDDLEKALNL  215 (680)
Q Consensus       140 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~----~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  215 (680)
                      .|+++.|..++..+++++  |.+...|..|...|-..|+..++...    ....+.|..-|-.+..-....|++++|.-.
T Consensus       152 rg~~eeA~~i~~EvIkqd--p~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~d~e~W~~ladls~~~~~i~qA~~c  229 (895)
T KOG2076|consen  152 RGDLEEAEEILMEVIKQD--PRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPKDYELWKRLADLSEQLGNINQARYC  229 (895)
T ss_pred             hCCHHHHHHHHHHHHHhC--ccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcccHHHHHHH
Confidence            489999999999999998  77888999999999999999999765    566777889999999999999999999999


Q ss_pred             HHHHHHcCCCCChhhHHHHHHHHHhcCCCChHHHHHHHHHHHhCCCCcCHHHHHH----HHHHHHHcCCHHHHHHHHHHH
Q 005729          216 MSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLND----VIVGFAKAGDASKAMRFLGMA  291 (680)
Q Consensus       216 ~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~~~----li~~~~~~g~~~~A~~~~~~~  291 (680)
                      |.+..+.. +++...+---...|-+.|+...  +...|.++.....+.|..-...    .++.|...++-+.|.+.++..
T Consensus       230 y~rAI~~~-p~n~~~~~ers~L~~~~G~~~~--Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~  306 (895)
T KOG2076|consen  230 YSRAIQAN-PSNWELIYERSSLYQKTGDLKR--AMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGA  306 (895)
T ss_pred             HHHHHhcC-CcchHHHHHHHHHHHHhChHHH--HHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            99999875 2333333333446677887744  4477777776544444333333    355677778889999988877


Q ss_pred             HhCC-CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcC---------------------------CCCCHHHHHHHHH
Q 005729          292 QGVG-LSPKTATYAAVITALSNSGRTIEAEAVFEELKESG---------------------------LKPRTKAYNALLK  343 (680)
Q Consensus       292 ~~~g-~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g---------------------------~~p~~~~~~~li~  343 (680)
                      ...+ -..+...++.++..+.+..+++.|......+....                           +.++..+ .-++-
T Consensus       307 ~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v-~rl~i  385 (895)
T KOG2076|consen  307 LSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRV-IRLMI  385 (895)
T ss_pred             HhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchh-HhHhh
Confidence            6522 23455678899999999999999999888887622                           2223333 12334


Q ss_pred             HHHHcCCHHHHHHHHHHHHHCC--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH
Q 005729          344 GYVKMGYLKDAEFVVSEMERSG--VLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEW  421 (680)
Q Consensus       344 ~~~~~g~~~~A~~~~~~m~~~g--~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~  421 (680)
                      ++......+....+.....+.+  +.-+...|.-+..+|...|++.+|+.+|..+......-+...|-.+..+|...|.+
T Consensus       386 cL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~  465 (895)
T KOG2076|consen  386 CLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEY  465 (895)
T ss_pred             hhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhH
Confidence            4455555555555666666655  33456788899999999999999999999999877667788999999999999999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHH--------CCCCCCHHHHHHHHHHHHHcCChhH
Q 005729          422 QRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLS--------EGIEPDTITWNTLIDCHFKCGRYDR  493 (680)
Q Consensus       422 ~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~--------~~~~~~~~~~~~li~~~~~~g~~~~  493 (680)
                      ++|.+.|+...... +-+...-..|...+-+.|+.++|.+++..+..        .+..|+....-.....+.+.|+.++
T Consensus       466 e~A~e~y~kvl~~~-p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~~~gk~E~  544 (895)
T KOG2076|consen  466 EEAIEFYEKVLILA-PDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILFQVGKREE  544 (895)
T ss_pred             HHHHHHHHHHHhcC-CCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHHHhhhHHH
Confidence            99999999988764 55667778888899999999999999998652        2234444444555667778888776


Q ss_pred             HHHHHHHHH
Q 005729          494 AEELFEEMQ  502 (680)
Q Consensus       494 A~~~~~~m~  502 (680)
                      =+..-..|+
T Consensus       545 fi~t~~~Lv  553 (895)
T KOG2076|consen  545 FINTASTLV  553 (895)
T ss_pred             HHHHHHHHH
Confidence            555444443

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

Probab=99.64  E-value=3.1e-10  Score=115.54  Aligned_cols=482  Identities=11%  Similarity=0.048  Sum_probs=353.8

Q ss_pred             CChHHHHHHHHHHHHCCCCCchHHHHHHHHHHhcccCCHHHHHH-hhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 005729          141 SSIDLAYAVVSWLQKHNLCYSYELLYSILIHALGRSEKLYEAFL-LSQRQRLTPLTYNALISACARNDDLEKALNLMSKM  219 (680)
Q Consensus       141 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~-~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  219 (680)
                      ...+.|..+.....++.  |..+.+|-.-+..=.....-...+. ..+-.+.++..|-..+    .....+.|+-++.+.
T Consensus       329 hp~d~aK~vvA~Avr~~--P~Sv~lW~kA~dLE~~~~~K~RVlRKALe~iP~sv~LWKaAV----elE~~~darilL~rA  402 (913)
T KOG0495|consen  329 HPPDVAKTVVANAVRFL--PTSVRLWLKAADLESDTKNKKRVLRKALEHIPRSVRLWKAAV----ELEEPEDARILLERA  402 (913)
T ss_pred             CChHHHHHHHHHHHHhC--CCChhhhhhHHhhhhHHHHHHHHHHHHHHhCCchHHHHHHHH----hccChHHHHHHHHHH
Confidence            34577888888888875  6666555433222111111111111 1444556667776544    445667788888888


Q ss_pred             HHcCCCCChhhHHHHHHHHHhcCCCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHH----HHhCC
Q 005729          220 RQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGM----AQGVG  295 (680)
Q Consensus       220 ~~~g~~p~~~~~~~ll~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~----~~~~g  295 (680)
                      .+.  -|...   -|..+|++...+  .-+++++....+ .++-+..+|-.-...--..|+.+...++.++    +...|
T Consensus       403 vec--cp~s~---dLwlAlarLetY--enAkkvLNkaRe-~iptd~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ng  474 (913)
T KOG0495|consen  403 VEC--CPQSM---DLWLALARLETY--ENAKKVLNKARE-IIPTDREIWITAAKLEEANGNVDMVEKIIDRGLSELQANG  474 (913)
T ss_pred             HHh--ccchH---HHHHHHHHHHHH--HHHHHHHHHHHh-hCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcc
Confidence            874  23321   123345555544  335678777765 4677888888888777888999998888764    45688


Q ss_pred             CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHH
Q 005729          296 LSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKP--RTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTY  373 (680)
Q Consensus       296 ~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~  373 (680)
                      +..+...|..-...|-..|..-.+..+....+..|+..  ...||+.-...|.+.+.++-|..+|...++.- +.+...|
T Consensus       475 v~i~rdqWl~eAe~~e~agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alqvf-p~k~slW  553 (913)
T KOG0495|consen  475 VEINRDQWLKEAEACEDAGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQVF-PCKKSLW  553 (913)
T ss_pred             eeecHHHHHHHHHHHhhcCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhhc-cchhHHH
Confidence            89999999999999999999999999999998877643  35689999999999999999999999998753 4467788


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcc
Q 005729          374 SLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKY  453 (680)
Q Consensus       374 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~  453 (680)
                      ...+..=-..|..++...+|++.... ++-....|....+.+-..|+...|..++....+.. +.+...|-.-+......
T Consensus       554 lra~~~ek~hgt~Esl~Allqkav~~-~pkae~lwlM~ake~w~agdv~~ar~il~~af~~~-pnseeiwlaavKle~en  631 (913)
T KOG0495|consen  554 LRAAMFEKSHGTRESLEALLQKAVEQ-CPKAEILWLMYAKEKWKAGDVPAARVILDQAFEAN-PNSEEIWLAAVKLEFEN  631 (913)
T ss_pred             HHHHHHHHhcCcHHHHHHHHHHHHHh-CCcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhC-CCcHHHHHHHHHHhhcc
Confidence            88887777889999999999999875 34566777777888888999999999999988775 45778899999999999


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 005729          454 NCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLL  533 (680)
Q Consensus       454 g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~  533 (680)
                      .+++.|..+|.+....  .++...|.--+..-.-.+..++|.+++++.++.- +.-...|..+.+.+-+.++.+.|...|
T Consensus       632 ~e~eraR~llakar~~--sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~f-p~f~Kl~lmlGQi~e~~~~ie~aR~aY  708 (913)
T KOG0495|consen  632 DELERARDLLAKARSI--SGTERVWMKSANLERYLDNVEEALRLLEEALKSF-PDFHKLWLMLGQIEEQMENIEMAREAY  708 (913)
T ss_pred             ccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHhC-CchHHHHHHHhHHHHHHHHHHHHHHHH
Confidence            9999999999998875  4777788777777777899999999999998872 444667888889999999999999999


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 005729          534 GNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAV  613 (680)
Q Consensus       534 ~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~  613 (680)
                      ..-.+. ++-....|..|.+.-.+.|.+-+|..+++..           +-. -+-+...|-..|.+-.+.|..+.|..+
T Consensus       709 ~~G~k~-cP~~ipLWllLakleEk~~~~~rAR~ildra-----------rlk-NPk~~~lwle~Ir~ElR~gn~~~a~~l  775 (913)
T KOG0495|consen  709 LQGTKK-CPNSIPLWLLLAKLEEKDGQLVRARSILDRA-----------RLK-NPKNALLWLESIRMELRAGNKEQAELL  775 (913)
T ss_pred             Hhcccc-CCCCchHHHHHHHHHHHhcchhhHHHHHHHH-----------Hhc-CCCcchhHHHHHHHHHHcCCHHHHHHH
Confidence            877664 3335677888888888999999999998711           110 112233555555555555555555554


Q ss_pred             HHHHHHC-----------------------------CCCCCHHHHHHHHHHHHhcCCcCcHHHHHHHHHHc
Q 005729          614 LQYMKEN-----------------------------GLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMILS  655 (680)
Q Consensus       614 ~~~m~~~-----------------------------g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  655 (680)
                      +.++.+.                             ....|+.....+...+....++++|.+.|++.++.
T Consensus       776 makALQecp~sg~LWaEaI~le~~~~rkTks~DALkkce~dphVllaia~lfw~e~k~~kar~Wf~Ravk~  846 (913)
T KOG0495|consen  776 MAKALQECPSSGLLWAEAIWLEPRPQRKTKSIDALKKCEHDPHVLLAIAKLFWSEKKIEKAREWFERAVKK  846 (913)
T ss_pred             HHHHHHhCCccchhHHHHHHhccCcccchHHHHHHHhccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence            4443321                             03456666677777788888888999999988875

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

Probab=99.62  E-value=1e-10  Score=123.63  Aligned_cols=476  Identities=14%  Similarity=0.123  Sum_probs=290.5

Q ss_pred             HHHhcccCCHHHHHHh----hCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCCC
Q 005729          170 IHALGRSEKLYEAFLL----SQRQRLTPLTYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRTNKID  245 (680)
Q Consensus       170 i~~~~~~g~~~~A~~~----~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~  245 (680)
                      .+.+...|++++|..+    ....+.+...|.+|...|-..|+.++++..+-...... +-|..-|..+-.-..+.|.+.
T Consensus       146 AN~lfarg~~eeA~~i~~EvIkqdp~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~-p~d~e~W~~ladls~~~~~i~  224 (895)
T KOG2076|consen  146 ANNLFARGDLEEAEEILMEVIKQDPRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLN-PKDYELWKRLADLSEQLGNIN  224 (895)
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHhCccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHhcccHH
Confidence            3444445888888766    55666777888888888888888888888776555543 234456666666666677663


Q ss_pred             hHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHH----HHHHHHHHHHhcCChHHHHH
Q 005729          246 SSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTA----TYAAVITALSNSGRTIEAEA  321 (680)
Q Consensus       246 ~~~~~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~----~~~~li~~~~~~g~~~~A~~  321 (680)
                        .|.-.|.+.+... +++....-.-+..|-+.|+...|++-|.++.....+.|..    .--.+++.+...++.+.|.+
T Consensus       225 --qA~~cy~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~  301 (895)
T KOG2076|consen  225 --QARYCYSRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAK  301 (895)
T ss_pred             --HHHHHHHHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHH
Confidence              3456777766653 3344444445567777788888888887777653211222    22234556666777777777


Q ss_pred             HHHHHHHcC-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHH--------------------------
Q 005729          322 VFEELKESG-LKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYS--------------------------  374 (680)
Q Consensus       322 l~~~m~~~g-~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~--------------------------  374 (680)
                      .++.....+ -..+...++.++..|.+...++.+...+..+......+|..-|.                          
T Consensus       302 ~le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~  381 (895)
T KOG2076|consen  302 ALEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVI  381 (895)
T ss_pred             HHHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhH
Confidence            777766521 23355667777777888888888877777776654555554440                          


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc
Q 005729          375 LLIDAYANAGRWESARIVLKEMEVSH--AKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGK  452 (680)
Q Consensus       375 ~li~~~~~~g~~~~A~~~~~~m~~~~--~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~  452 (680)
                      -++-++......+....+........  +.-+...|.-+..+|.+.|++++|+.+|..+......-+...|..+..+|..
T Consensus       382 rl~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~  461 (895)
T KOG2076|consen  382 RLMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYME  461 (895)
T ss_pred             hHhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHH
Confidence            12223333344444444444444444  3334556777777888888888888888887766555566777777888888


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHH--------CCCCCCHHHHHHHHHHHHhcC
Q 005729          453 YNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQE--------RGYFPCTTTYNIMINLLGEQE  524 (680)
Q Consensus       453 ~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~--------~~~~p~~~t~~~li~~~~~~g  524 (680)
                      .|..+.|.+.|+..+... +-+...--.|...+.+.|+.++|.+.++.+..        .+..|+..........+.+.|
T Consensus       462 l~e~e~A~e~y~kvl~~~-p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~~~g  540 (895)
T KOG2076|consen  462 LGEYEEAIEFYEKVLILA-PDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILFQVG  540 (895)
T ss_pred             HhhHHHHHHHHHHHHhcC-CCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHHHhh
Confidence            888888888888777653 23444555666677778888888888777542        224445555555566667777


Q ss_pred             CHHHHHHHHHHHHHCCC-----CC-----------------CHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHH
Q 005729          525 RWEDVKRLLGNMRAQGL-----LP-----------------NVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVM  582 (680)
Q Consensus       525 ~~~~A~~~~~~m~~~~~-----~p-----------------~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m  582 (680)
                      +.++-..+...|+....     -|                 ...+...++.+-.+.++.........    .. ..+..-
T Consensus       541 k~E~fi~t~~~Lv~~~~~~~~~f~~~~k~r~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~l~----d~-~~~~~~  615 (895)
T KOG2076|consen  541 KREEFINTASTLVDDFLKKRYIFPRNKKKRRRAIAGTTSKRYSELLKQIIRAREKATDDNVMEKALS----DG-TEFRAV  615 (895)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHhhccccccccchhHHHHHHHHhccCchHHhhhccc----ch-hhhhhh
Confidence            77765555555543210     00                 11122223333333333222221111    00 111111


Q ss_pred             HHCCCCCCHH--HHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CCCHH----HHHHHHHHHHhcCCcCcHHHHHHHHHHc
Q 005729          583 RTDGLKPSNL--ALNSLINAFGEDQRDAEAFAVLQYMKENGL-KPDVV----TYTTLMKALIRVDKFHKVPAVYEEMILS  655 (680)
Q Consensus       583 ~~~g~~p~~~--~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~~----~~~~l~~~~~~~g~~~~A~~~~~~m~~~  655 (680)
                      ...|+..+..  .+.-++.++++.+++++|+.+...+.+... .-+..    .-...+.+.+..+++..|..+++.|+..
T Consensus       616 e~~~Lsiddwfel~~e~i~~L~k~~r~qeAl~vv~~a~~~~~f~~~~~~~k~l~~~~l~~s~~~~d~~~a~~~lR~~i~~  695 (895)
T KOG2076|consen  616 ELRGLSIDDWFELFRELILSLAKLQRVQEALSVVFTALEAYIFFQDSEIRKELQFLGLKASLYARDPGDAFSYLRSVITQ  695 (895)
T ss_pred             hhccCcHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhhhhhhccHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Confidence            2223333332  456778899999999999999999886432 22332    2334556778899999999999999975

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

Probab=99.62  E-value=2.8e-12  Score=124.47  Aligned_cols=428  Identities=11%  Similarity=0.063  Sum_probs=253.4

Q ss_pred             HHHHHhcccCCHHHHHHh-----hCCCCCCH-HHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCChhhHHHHHH----H
Q 005729          168 ILIHALGRSEKLYEAFLL-----SQRQRLTP-LTYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQ----S  237 (680)
Q Consensus       168 ~li~~~~~~g~~~~A~~~-----~~~~~~~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~----~  237 (680)
                      .|..-|.......+|+..     ....-+|. ..--.+.+.+.+...+.+|+..|+.....-...+..+--.+++    .
T Consensus       206 nlaqqy~~ndm~~ealntyeiivknkmf~nag~lkmnigni~~kkr~fskaikfyrmaldqvpsink~~rikil~nigvt  285 (840)
T KOG2003|consen  206 NLAQQYEANDMTAEALNTYEIIVKNKMFPNAGILKMNIGNIHFKKREFSKAIKFYRMALDQVPSINKDMRIKILNNIGVT  285 (840)
T ss_pred             HHHHHhhhhHHHHHHhhhhhhhhcccccCCCceeeeeecceeeehhhHHHHHHHHHHHHhhccccchhhHHHHHhhcCee
Confidence            345556556666666543     12222222 2222355667788888888888887766532223233222222    3


Q ss_pred             HHhcCCCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCC------------CCCHHHHHH
Q 005729          238 LTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGL------------SPKTATYAA  305 (680)
Q Consensus       238 ~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~------------~p~~~~~~~  305 (680)
                      +.+.|++++++  .-|+.+.+.  .|+..+--.|+-++...|+.++..+.|.+|...-.            .|+....+-
T Consensus       286 fiq~gqy~dai--nsfdh~m~~--~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~~~ll~e  361 (840)
T KOG2003|consen  286 FIQAGQYDDAI--NSFDHCMEE--APNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPDDNLLNE  361 (840)
T ss_pred             EEecccchhhH--hhHHHHHHh--CccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcchHHHHH
Confidence            55678887754  677776654  56666555566666677888888888888764321            233333332


Q ss_pred             HH-----HHHHhcCC--hHHHHHHHHHHHHcCCCCCHHH-------------H--------HHHHHHHHHcCCHHHHHHH
Q 005729          306 VI-----TALSNSGR--TIEAEAVFEELKESGLKPRTKA-------------Y--------NALLKGYVKMGYLKDAEFV  357 (680)
Q Consensus       306 li-----~~~~~~g~--~~~A~~l~~~m~~~g~~p~~~~-------------~--------~~li~~~~~~g~~~~A~~~  357 (680)
                      .|     .-.-+.+.  .+.++-.-.+++.--+.|+-..             +        ..-..-|.++|+++.|.++
T Consensus       362 ai~nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~la~dlei~ka~~~lk~~d~~~aiei  441 (840)
T KOG2003|consen  362 AIKNDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLKASQHAELAIDLEINKAGELLKNGDIEGAIEI  441 (840)
T ss_pred             HHhhHHHHHHHHhhhhhHHHHHHHHHHHhccccccchhcccHHHHHHHHHhhhhhhhhhhhhhHHHHHHhccCHHHHHHH
Confidence            22     11111111  1122222222222112222110             0        1112246788999999999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHH------------------------------------HHcCCHHHHHHHHHHHHHCCC
Q 005729          358 VSEMERSGVLPDEHTYSLLIDAY------------------------------------ANAGRWESARIVLKEMEVSHA  401 (680)
Q Consensus       358 ~~~m~~~g~~~~~~~~~~li~~~------------------------------------~~~g~~~~A~~~~~~m~~~~~  401 (680)
                      ++-+.+..-+.-...-+.|...+                                    ...|++++|.+.|++.....-
T Consensus       442 lkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~dryn~~a~~nkgn~~f~ngd~dka~~~ykeal~nda  521 (840)
T KOG2003|consen  442 LKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNIDRYNAAALTNKGNIAFANGDLDKAAEFYKEALNNDA  521 (840)
T ss_pred             HHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhcccccCHHHhhcCCceeeecCcHHHHHHHHHHHHcCch
Confidence            88877653221111111111111                                    123677788888877765432


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 005729          402 KPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTL  481 (680)
Q Consensus       402 ~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~l  481 (680)
                      .-.. .+-.+.-.+-..|+.++|++.|-++... +..+..+...+...|-...+..+|.+++.+.... ++.|.....-|
T Consensus       522 sc~e-alfniglt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~~~q~~sl-ip~dp~ilskl  598 (840)
T KOG2003|consen  522 SCTE-ALFNIGLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIELLMQANSL-IPNDPAILSKL  598 (840)
T ss_pred             HHHH-HHHHhcccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhccc-CCCCHHHHHHH
Confidence            2112 2222333456678888888888776432 2346667777778888888888888887766543 35577788888


Q ss_pred             HHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH-hcCC
Q 005729          482 IDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYG-QSGR  560 (680)
Q Consensus       482 i~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~-~~g~  560 (680)
                      ...|-+.|+-..|++++-+--.. ++-+..+...|...|....-++++..+|++..-  +.|+..-|-.++..|. +.|+
T Consensus       599 ~dlydqegdksqafq~~ydsyry-fp~nie~iewl~ayyidtqf~ekai~y~ekaal--iqp~~~kwqlmiasc~rrsgn  675 (840)
T KOG2003|consen  599 ADLYDQEGDKSQAFQCHYDSYRY-FPCNIETIEWLAAYYIDTQFSEKAINYFEKAAL--IQPNQSKWQLMIASCFRRSGN  675 (840)
T ss_pred             HHHhhcccchhhhhhhhhhcccc-cCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHh--cCccHHHHHHHHHHHHHhccc
Confidence            88888888888888876654433 456777888888888888888899999888765  6788888887776554 5788


Q ss_pred             hHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 005729          561 FDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMK  618 (680)
Q Consensus       561 ~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~  618 (680)
                      +.+|.+.|+           ...+. ++-|...+..|++.+...|- .++.++-+.+.
T Consensus       676 yqka~d~yk-----------~~hrk-fpedldclkflvri~~dlgl-~d~key~~kle  720 (840)
T KOG2003|consen  676 YQKAFDLYK-----------DIHRK-FPEDLDCLKFLVRIAGDLGL-KDAKEYADKLE  720 (840)
T ss_pred             HHHHHHHHH-----------HHHHh-CccchHHHHHHHHHhccccc-hhHHHHHHHHH
Confidence            888777654           33332 55677788888888877664 34444444443

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

Probab=99.59  E-value=1.2e-10  Score=114.23  Aligned_cols=386  Identities=14%  Similarity=0.085  Sum_probs=266.9

Q ss_pred             CCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHH-
Q 005729          260 KIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAY-  338 (680)
Q Consensus       260 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~-  338 (680)
                      +...|...+-.....+.+.|....|++.|...... .+-.-..|..|.....   +.    +....+.. |.+.|.... 
T Consensus       159 ~~~~D~fllYL~Gvv~k~~~~~s~A~~sfv~~v~~-~P~~W~AWleL~~lit---~~----e~~~~l~~-~l~~~~h~M~  229 (559)
T KOG1155|consen  159 GGEKDEFLLYLYGVVLKELGLLSLAIDSFVEVVNR-YPWFWSAWLELSELIT---DI----EILSILVV-GLPSDMHWMK  229 (559)
T ss_pred             cccchhHHHHHHHHHHHhhchHHHHHHHHHHHHhc-CCcchHHHHHHHHhhc---hH----HHHHHHHh-cCcccchHHH
Confidence            44455555544455566677777777777665532 1223333433333221   11    11111111 122121111 


Q ss_pred             -HHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC--CCCHHHHHHHHHHH
Q 005729          339 -NALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHA--KPNSFIYSRILAGY  415 (680)
Q Consensus       339 -~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~--~~~~~~~~~ll~~~  415 (680)
                       --+..++-...+.+++.+-.......|+..+...-+....++-...++++|+.+|+++.+..+  --|..+|..++-.-
T Consensus       230 ~~F~~~a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~  309 (559)
T KOG1155|consen  230 KFFLKKAYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVK  309 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHH
Confidence             123345555667888888888888888776666666666777788999999999999988743  23566777666443


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHH
Q 005729          416 RDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAE  495 (680)
Q Consensus       416 ~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~  495 (680)
                      -....    +..+.+-...--+-.+.|+..+.+-|+-.++.++|...|++.++.+ +.....|+.+.+-|....+...|.
T Consensus       310 ~~~sk----Ls~LA~~v~~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLN-p~~~~aWTLmGHEyvEmKNt~AAi  384 (559)
T KOG1155|consen  310 NDKSK----LSYLAQNVSNIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLN-PKYLSAWTLMGHEYVEMKNTHAAI  384 (559)
T ss_pred             hhhHH----HHHHHHHHHHhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcC-cchhHHHHHhhHHHHHhcccHHHH
Confidence            22221    1112111111113445678888889999999999999999999876 346778999999999999999999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHhhhHHH
Q 005729          496 ELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLP-NVVTYTTLVDIYGQSGRFDDAIECLEGLSDQ  574 (680)
Q Consensus       496 ~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  574 (680)
                      +-+++.++-. +.|-..|-.|.++|.-.+...-|+-.|++..+.  +| |...|.+|.++|.+.++.++|+++|.+.   
T Consensus       385 ~sYRrAvdi~-p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~--kPnDsRlw~aLG~CY~kl~~~~eAiKCykra---  458 (559)
T KOG1155|consen  385 ESYRRAVDIN-PRDYRAWYGLGQAYEIMKMHFYALYYFQKALEL--KPNDSRLWVALGECYEKLNRLEEAIKCYKRA---  458 (559)
T ss_pred             HHHHHHHhcC-chhHHHHhhhhHHHHHhcchHHHHHHHHHHHhc--CCCchHHHHHHHHHHHHhccHHHHHHHHHHH---
Confidence            9999999986 788999999999999999999999999999984  55 8999999999999999999999887633   


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH----CCCCCCH--HHHHHHHHHHHhcCCcCcHHHH
Q 005729          575 AVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKE----NGLKPDV--VTYTTLMKALIRVDKFHKVPAV  648 (680)
Q Consensus       575 a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~----~g~~p~~--~~~~~l~~~~~~~g~~~~A~~~  648 (680)
                              ...| ..+...|..|...|-+.++.++|..+|+.-++    .|...+.  ....-|..-+.+.+++++|..+
T Consensus       459 --------i~~~-dte~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Y  529 (559)
T KOG1155|consen  459 --------ILLG-DTEGSALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYY  529 (559)
T ss_pred             --------Hhcc-ccchHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHH
Confidence                    2222 33557899999999999999999999888765    3433332  2222355667899999999988


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHHHHh
Q 005729          649 YEEMILSGCTPDRKARAMLRSALRYMKQ  676 (680)
Q Consensus       649 ~~~m~~~g~~pd~~~~~~l~~a~~~~k~  676 (680)
                      ......-  .+..+.-++|.+-++....
T Consensus       530 a~~~~~~--~~e~eeak~LlReir~~~~  555 (559)
T KOG1155|consen  530 ATLVLKG--ETECEEAKALLREIRKIQA  555 (559)
T ss_pred             HHHHhcC--CchHHHHHHHHHHHHHhcC
Confidence            8877653  6666666777777765543

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

Probab=99.57  E-value=3.6e-09  Score=104.02  Aligned_cols=460  Identities=14%  Similarity=0.098  Sum_probs=281.1

Q ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCCChHHHHHHHHHHHhCCCCcCHHHH
Q 005729          189 QRLTPLTYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLL  268 (680)
Q Consensus       189 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~  268 (680)
                      ...+...|...+..=.+++.+..|..++++....=...|..-|..+. .=-..|++  +.++++|+....  ..|+...|
T Consensus       103 d~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVdqlWyKY~y-mEE~LgNi--~gaRqiferW~~--w~P~eqaW  177 (677)
T KOG1915|consen  103 DYRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVDQLWYKYIY-MEEMLGNI--AGARQIFERWME--WEPDEQAW  177 (677)
T ss_pred             ccccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHHHHHHHHHH-HHHHhccc--HHHHHHHHHHHc--CCCcHHHH
Confidence            34555677777777777788888888888777653333433332221 22234555  345778877765  37888888


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHc-CC-CCCHHHHHHHHHHHH
Q 005729          269 NDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKES-GL-KPRTKAYNALLKGYV  346 (680)
Q Consensus       269 ~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~-g~-~p~~~~~~~li~~~~  346 (680)
                      ++.|..-.+-+..+.|..++++..-  +.|++.+|.-....-.++|....|..+|+...+. |- ..+...|++....-.
T Consensus       178 ~sfI~fElRykeieraR~IYerfV~--~HP~v~~wikyarFE~k~g~~~~aR~VyerAie~~~~d~~~e~lfvaFA~fEe  255 (677)
T KOG1915|consen  178 LSFIKFELRYKEIERARSIYERFVL--VHPKVSNWIKYARFEEKHGNVALARSVYERAIEFLGDDEEAEILFVAFAEFEE  255 (677)
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHHhe--ecccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHH
Confidence            8888888888888888888887765  3588888888888888888888888888776653 10 112334444444445


Q ss_pred             HcCCHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHHcCCHHHHHHH--------HHHHHHCCCCCCHHHHHHHHHHHH
Q 005729          347 KMGYLKDAEFVVSEMERSGVLPD--EHTYSLLIDAYANAGRWESARIV--------LKEMEVSHAKPNSFIYSRILAGYR  416 (680)
Q Consensus       347 ~~g~~~~A~~~~~~m~~~g~~~~--~~~~~~li~~~~~~g~~~~A~~~--------~~~m~~~~~~~~~~~~~~ll~~~~  416 (680)
                      ++..++.|.-+|+-.++.= +.+  ...|..+...=-+-|+.......        |+.+...+ +.|-.+|--.++.-.
T Consensus       256 ~qkE~ERar~iykyAld~~-pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v~~n-p~nYDsWfdylrL~e  333 (677)
T KOG1915|consen  256 RQKEYERARFIYKYALDHI-PKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEVSKN-PYNYDSWFDYLRLEE  333 (677)
T ss_pred             HHHHHHHHHHHHHHHHHhc-CcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHHHHhC-CCCchHHHHHHHHHH
Confidence            5667777887777776642 212  33444444443444554433322        33333332 456667777777777


Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCH--HHHHHHHH-----H---HHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH-
Q 005729          417 DRGEWQRTFQVLKEMKSSGVEPDT--HFYNVMID-----T---FGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCH-  485 (680)
Q Consensus       417 ~~g~~~~A~~l~~~m~~~~~~p~~--~~~~~li~-----~---~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~-  485 (680)
                      ..|+.+...++|+..... ++|-.  ..|...|-     +   -....+.+.+.++|+..++. ++....||.-+--.| 
T Consensus       334 ~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l~l-IPHkkFtFaKiWlmyA  411 (677)
T KOG1915|consen  334 SVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACLDL-IPHKKFTFAKIWLMYA  411 (677)
T ss_pred             hcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhh-cCcccchHHHHHHHHH
Confidence            778888888888887754 34421  11111111     1   13456777788888777763 233444544443333 


Q ss_pred             ---HHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChH
Q 005729          486 ---FKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFD  562 (680)
Q Consensus       486 ---~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~  562 (680)
                         .++.++..|.+++...+.  ..|...+|...|..=.+.++++.+..++.+.++.+.. +..+|......-...|+.+
T Consensus       412 ~feIRq~~l~~ARkiLG~AIG--~cPK~KlFk~YIelElqL~efDRcRkLYEkfle~~Pe-~c~~W~kyaElE~~Lgdtd  488 (677)
T KOG1915|consen  412 QFEIRQLNLTGARKILGNAIG--KCPKDKLFKGYIELELQLREFDRCRKLYEKFLEFSPE-NCYAWSKYAELETSLGDTD  488 (677)
T ss_pred             HHHHHHcccHHHHHHHHHHhc--cCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhcChH-hhHHHHHHHHHHHHhhhHH
Confidence               356777788877776543  4677777887777777888888888888888875422 6677777777777777777


Q ss_pred             HHHHHHhhhHHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH----
Q 005729          563 DAIECLEGLSDQAVNAFRVMRTD-GLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALI----  637 (680)
Q Consensus       563 ~A~~~~~~~~~~a~~~~~~m~~~-g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~----  637 (680)
                      .|..+|+           -..+. .+.-....|-+.|+.-...|.++.|..+++++.+.  .+...+|.++..--.    
T Consensus       489 RaRaife-----------lAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~r--t~h~kvWisFA~fe~s~~~  555 (677)
T KOG1915|consen  489 RARAIFE-----------LAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDR--TQHVKVWISFAKFEASASE  555 (677)
T ss_pred             HHHHHHH-----------HHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHh--cccchHHHhHHHHhccccc
Confidence            7776654           22221 11222346777777777788888888888888763  334445555543222    


Q ss_pred             -hcC-----------CcCcHHHHHHHHHHcC--CCCCHHHHHHHHHHHHHHHh
Q 005729          638 -RVD-----------KFHKVPAVYEEMILSG--CTPDRKARAMLRSALRYMKQ  676 (680)
Q Consensus       638 -~~g-----------~~~~A~~~~~~m~~~g--~~pd~~~~~~l~~a~~~~k~  676 (680)
                       +.|           ....|..+|++....-  ..| ....-+|+.+.+.+..
T Consensus       556 ~~~~~~~~~~e~~~~~~~~AR~iferAn~~~k~~~~-KeeR~~LLEaw~~~E~  607 (677)
T KOG1915|consen  556 GQEDEDLAELEITDENIKRARKIFERANTYLKESTP-KEERLMLLEAWKNMEE  607 (677)
T ss_pred             cccccchhhhhcchhHHHHHHHHHHHHHHHHHhcCc-HHHHHHHHHHHHHHHH
Confidence             223           3456677777665331  122 4455566666665544

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

Probab=99.55  E-value=3.2e-10  Score=111.22  Aligned_cols=361  Identities=13%  Similarity=0.096  Sum_probs=260.4

Q ss_pred             CCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCCChHHHHHHHHHHHhCCCCcCHH
Q 005729          187 QRQRLTPLTYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQ  266 (680)
Q Consensus       187 ~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~  266 (680)
                      .....|..-+......+.+.|...+|+..|......    -+..|.+-+...--..+.      ...... ..+.+.|..
T Consensus       158 ~~~~~D~fllYL~Gvv~k~~~~~s~A~~sfv~~v~~----~P~~W~AWleL~~lit~~------e~~~~l-~~~l~~~~h  226 (559)
T KOG1155|consen  158 CGGEKDEFLLYLYGVVLKELGLLSLAIDSFVEVVNR----YPWFWSAWLELSELITDI------EILSIL-VVGLPSDMH  226 (559)
T ss_pred             hcccchhHHHHHHHHHHHhhchHHHHHHHHHHHHhc----CCcchHHHHHHHHhhchH------HHHHHH-HhcCcccch
Confidence            344556666677777788899999999999887753    233344333221111111      111111 122232211


Q ss_pred             HH--HHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC--CCCHHHHHHHH
Q 005729          267 LL--NDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGL--KPRTKAYNALL  342 (680)
Q Consensus       267 ~~--~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~--~p~~~~~~~li  342 (680)
                      .+  --+..+|-...+.+++++-.+.....|+.-+...-+....+.....++++|+.+|+++.+...  --|..+|..++
T Consensus       227 ~M~~~F~~~a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~L  306 (559)
T KOG1155|consen  227 WMKKFFLKKAYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVL  306 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHH
Confidence            11  123445666678888988888888888766655555556666778899999999999998742  13778888776


Q ss_pred             HHHHHcCCHHH-HHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH
Q 005729          343 KGYVKMGYLKD-AEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEW  421 (680)
Q Consensus       343 ~~~~~~g~~~~-A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~  421 (680)
                      -.--...++.- |..++ .+-    +--+.|+.++.+-|.-.++.++|...|+...+.+. .....|+.+..-|...++.
T Consensus       307 Yv~~~~skLs~LA~~v~-~id----KyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp-~~~~aWTLmGHEyvEmKNt  380 (559)
T KOG1155|consen  307 YVKNDKSKLSYLAQNVS-NID----KYRPETCCIIANYYSLRSEHEKAVMYFKRALKLNP-KYLSAWTLMGHEYVEMKNT  380 (559)
T ss_pred             HHHhhhHHHHHHHHHHH-Hhc----cCCccceeeehhHHHHHHhHHHHHHHHHHHHhcCc-chhHHHHHhhHHHHHhccc
Confidence            54333222221 12111 122    22456788888999999999999999999988753 4567899999999999999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHH
Q 005729          422 QRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEM  501 (680)
Q Consensus       422 ~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  501 (680)
                      ..|.+-++...+.. +.|-..|-.|..+|.-.+...-|+-.|++..+.. +-|...|.+|.++|.+.++.++|++.|.+.
T Consensus       381 ~AAi~sYRrAvdi~-p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~k-PnDsRlw~aLG~CY~kl~~~~eAiKCykra  458 (559)
T KOG1155|consen  381 HAAIESYRRAVDIN-PRDYRAWYGLGQAYEIMKMHFYALYYFQKALELK-PNDSRLWVALGECYEKLNRLEEAIKCYKRA  458 (559)
T ss_pred             HHHHHHHHHHHhcC-chhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHhccHHHHHHHHHHH
Confidence            99999999998875 7788999999999999999999999999998875 568899999999999999999999999999


Q ss_pred             HHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCCC--HHHHHHHHHHHHhcCChHHHHHH
Q 005729          502 QERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQ----GLLPN--VVTYTTLVDIYGQSGRFDDAIEC  567 (680)
Q Consensus       502 ~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~----~~~p~--~~~~~~li~~~~~~g~~~~A~~~  567 (680)
                      ...| ..+...+..|.+.+-+.++.++|.+.+.+-++.    |...+  .....-|..-+.+.+++++|...
T Consensus       459 i~~~-dte~~~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Y  529 (559)
T KOG1155|consen  459 ILLG-DTEGSALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYY  529 (559)
T ss_pred             Hhcc-ccchHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHH
Confidence            9887 456789999999999999999999999887652    33322  22223355667788888887653

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.54  E-value=4.3e-11  Score=124.86  Aligned_cols=280  Identities=13%  Similarity=0.117  Sum_probs=214.5

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHH--HHHHHHHHcCCHHHHH
Q 005729          278 AGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYN--ALLKGYVKMGYLKDAE  355 (680)
Q Consensus       278 ~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~--~li~~~~~~g~~~~A~  355 (680)
                      .|++++|.+......+..-. ....|........+.|+++.|.+.+.++.+.  .|+...+.  .....+...|++++|.
T Consensus        97 eGd~~~A~k~l~~~~~~~~~-p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~Al  173 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHAEQ-PVVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAAR  173 (398)
T ss_pred             CCCHHHHHHHHHHHHhcccc-hHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHHH
Confidence            59999999888776553211 1233444455558899999999999999875  45543332  3467888999999999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH-------HHHHHHHHHHHhcCCHHHHHHHH
Q 005729          356 FVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNS-------FIYSRILAGYRDRGEWQRTFQVL  428 (680)
Q Consensus       356 ~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~-------~~~~~ll~~~~~~g~~~~A~~l~  428 (680)
                      ..++++.+.. +-+...+..+...|.+.|++++|.+++..+.+.+..++.       .+|..++.......+.+...+++
T Consensus       174 ~~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w  252 (398)
T PRK10747        174 HGVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWW  252 (398)
T ss_pred             HHHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHH
Confidence            9999998876 336788889999999999999999999999987654322       13333344444455566666666


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCC
Q 005729          429 KEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFP  508 (680)
Q Consensus       429 ~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p  508 (680)
                      +.+.+. .+.+......+...+...|+.++|.+++++..+.  .++...  .++.+.+..++.+++.+..+...+.. +-
T Consensus       253 ~~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l--~~l~~~l~~~~~~~al~~~e~~lk~~-P~  326 (398)
T PRK10747        253 KNQSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERL--VLLIPRLKTNNPEQLEKVLRQQIKQH-GD  326 (398)
T ss_pred             HhCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHH--HHHHhhccCCChHHHHHHHHHHHhhC-CC
Confidence            665433 2567888899999999999999999999999874  445422  23444456699999999999998875 56


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHh
Q 005729          509 CTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLE  569 (680)
Q Consensus       509 ~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~  569 (680)
                      |...+..+...|.+.+++++|.+.|+.+.+.  .|+...+..+...+.+.|+.++|.++++
T Consensus       327 ~~~l~l~lgrl~~~~~~~~~A~~~le~al~~--~P~~~~~~~La~~~~~~g~~~~A~~~~~  385 (398)
T PRK10747        327 TPLLWSTLGQLLMKHGEWQEASLAFRAALKQ--RPDAYDYAWLADALDRLHKPEEAAAMRR  385 (398)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            6777889999999999999999999999984  6899999999999999999999988876

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.53  E-value=8.2e-11  Score=122.75  Aligned_cols=253  Identities=11%  Similarity=0.049  Sum_probs=132.9

Q ss_pred             HHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHH
Q 005729          381 ANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAM  460 (680)
Q Consensus       381 ~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~  460 (680)
                      .+.|+++.|.+.+.++.+................+...|+++.|.+.++++.+.. +-+......+...|.+.|++++|.
T Consensus       129 ~~~g~~~~A~~~l~~A~~~~~~~~~~~~l~~a~l~l~~g~~~~Al~~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~  207 (398)
T PRK10747        129 QQRGDEARANQHLERAAELADNDQLPVEITRVRIQLARNENHAARHGVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLL  207 (398)
T ss_pred             HHCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHH
Confidence            4555555555555555443211111111122344455555555555555555443 334445555555555555555555


Q ss_pred             HHHHHHHHCCCCCCH-------HHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 005729          461 AAFDRMLSEGIEPDT-------ITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLL  533 (680)
Q Consensus       461 ~~~~~m~~~~~~~~~-------~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~  533 (680)
                      +++..+.+.+..++.       ..|..++.......+.+...++++.+.+. .+.+......+...+...|+.++|..++
T Consensus       208 ~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L  286 (398)
T PRK10747        208 DILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWKNQSRK-TRHQVALQVAMAEHLIECDDHDTAQQII  286 (398)
T ss_pred             HHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            555555544322111       12222222223333444555555554333 2345666666667777777777777777


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcCCHHHHHH
Q 005729          534 GNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSN-LALNSLINAFGEDQRDAEAFA  612 (680)
Q Consensus       534 ~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~-~~~~~li~~~~~~g~~~~A~~  612 (680)
                      .+..+.  .++....  ++.+....++.+++.+.++           ...+  ..|+. ..+.++...|.+.+++++|.+
T Consensus       287 ~~~l~~--~~~~~l~--~l~~~l~~~~~~~al~~~e-----------~~lk--~~P~~~~l~l~lgrl~~~~~~~~~A~~  349 (398)
T PRK10747        287 LDGLKR--QYDERLV--LLIPRLKTNNPEQLEKVLR-----------QQIK--QHGDTPLLWSTLGQLLMKHGEWQEASL  349 (398)
T ss_pred             HHHHhc--CCCHHHH--HHHhhccCCChHHHHHHHH-----------HHHh--hCCCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            766663  3343221  2222334466666555543           2222  12333 356667777777777777777


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHhcCCcCcHHHHHHHHHH
Q 005729          613 VLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMIL  654 (680)
Q Consensus       613 ~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  654 (680)
                      .|+.+.+  ..|+..++..+..++.+.|+.++|.++|++-+.
T Consensus       350 ~le~al~--~~P~~~~~~~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        350 AFRAALK--QRPDAYDYAWLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             HHHHHHh--cCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            7777776  457777777777777777777777777776543

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

Probab=99.53  E-value=5.6e-09  Score=102.75  Aligned_cols=441  Identities=13%  Similarity=0.118  Sum_probs=323.5

Q ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCCChHHHHHHHHHHHhCCCCcCHHHH
Q 005729          189 QRLTPLTYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLL  268 (680)
Q Consensus       189 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~  268 (680)
                      ...+...|--....=...+++..|..+|++....+ ..+...|...+..=.++..+.  -|+.+++..+..- +.-...|
T Consensus        69 nR~~~~~WikYaqwEesq~e~~RARSv~ERALdvd-~r~itLWlkYae~Emknk~vN--hARNv~dRAvt~l-PRVdqlW  144 (677)
T KOG1915|consen   69 NRLNMQVWIKYAQWEESQKEIQRARSVFERALDVD-YRNITLWLKYAEFEMKNKQVN--HARNVWDRAVTIL-PRVDQLW  144 (677)
T ss_pred             HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHhcc-cccchHHHHHHHHHHhhhhHh--HHHHHHHHHHHhc-chHHHHH
Confidence            34455677777776777889999999999998764 345555555555555556553  3578888876542 2233456


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHc
Q 005729          269 NDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKM  348 (680)
Q Consensus       269 ~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~  348 (680)
                      -..+.+--..|++..|.++|++-.+.  .|+...|++.|+.-.+-+.++.|..+|++..-.  .|++.+|--....-.+.
T Consensus       145 yKY~ymEE~LgNi~gaRqiferW~~w--~P~eqaW~sfI~fElRykeieraR~IYerfV~~--HP~v~~wikyarFE~k~  220 (677)
T KOG1915|consen  145 YKYIYMEEMLGNIAGARQIFERWMEW--EPDEQAWLSFIKFELRYKEIERARSIYERFVLV--HPKVSNWIKYARFEEKH  220 (677)
T ss_pred             HHHHHHHHHhcccHHHHHHHHHHHcC--CCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhee--cccHHHHHHHHHHHHhc
Confidence            66677777889999999999998885  899999999999999999999999999998863  69999999999999999


Q ss_pred             CCHHHHHHHHHHHHHC-CC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHH
Q 005729          349 GYLKDAEFVVSEMERS-GV-LPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPN-SFIYSRILAGYRDRGEWQRTF  425 (680)
Q Consensus       349 g~~~~A~~~~~~m~~~-g~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~g~~~~A~  425 (680)
                      |+...+..+|....+. |- .-+...+.+....=.++..++.|.-+|+-....-++.. ...|......--+-|+.....
T Consensus       221 g~~~~aR~VyerAie~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIE  300 (677)
T KOG1915|consen  221 GNVALARSVYERAIEFLGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIE  300 (677)
T ss_pred             CcHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhH
Confidence            9999999999988753 21 11233444445545567788899999988876532221 345555554445556654443


Q ss_pred             HH--------HHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCH--HHHHHHHH--------HHHH
Q 005729          426 QV--------LKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDT--ITWNTLID--------CHFK  487 (680)
Q Consensus       426 ~l--------~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~--~~~~~li~--------~~~~  487 (680)
                      +.        |+.+.+.+ +-|-.+|--.+..-...|+.+...++|++....- +|-.  ..|...|.        .=..
T Consensus       301 d~Iv~KRk~qYE~~v~~n-p~nYDsWfdylrL~e~~g~~~~Ire~yErAIanv-pp~~ekr~W~RYIYLWinYalyeEle  378 (677)
T KOG1915|consen  301 DAIVGKRKFQYEKEVSKN-PYNYDSWFDYLRLEESVGDKDRIRETYERAIANV-PPASEKRYWRRYIYLWINYALYEELE  378 (677)
T ss_pred             HHHhhhhhhHHHHHHHhC-CCCchHHHHHHHHHHhcCCHHHHHHHHHHHHccC-CchhHHHHHHHHHHHHHHHHHHHHHH
Confidence            32        33444443 6677888888888888899999999999998653 3321  12222222        1135


Q ss_pred             cCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHH----HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHH
Q 005729          488 CGRYDRAEELFEEMQERGYFPCTTTYNIMINLL----GEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDD  563 (680)
Q Consensus       488 ~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~----~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~  563 (680)
                      ..+.+.+.++|+..++. ++....||..+--.|    .++.++..|.+++...+  |..|...+|...|..-.+.+++|.
T Consensus       379 ~ed~ertr~vyq~~l~l-IPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AI--G~cPK~KlFk~YIelElqL~efDR  455 (677)
T KOG1915|consen  379 AEDVERTRQVYQACLDL-IPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAI--GKCPKDKLFKGYIELELQLREFDR  455 (677)
T ss_pred             hhhHHHHHHHHHHHHhh-cCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHh--ccCCchhHHHHHHHHHHHHhhHHH
Confidence            78899999999999884 455667776655444    46788999999999887  467889999999999999999998


Q ss_pred             HHHHHhhhHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHhcCC
Q 005729          564 AIECLEGLSDQAVNAFRVMRTDGLKPSN-LALNSLINAFGEDQRDAEAFAVLQYMKENG-LKPDVVTYTTLMKALIRVDK  641 (680)
Q Consensus       564 A~~~~~~~~~~a~~~~~~m~~~g~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~g-~~p~~~~~~~l~~~~~~~g~  641 (680)
                      ...+++..           .+  ..|.. .+|......-...|+.+.|..+|+-++... +......|.+.|+--...|.
T Consensus       456 cRkLYEkf-----------le--~~Pe~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E  522 (677)
T KOG1915|consen  456 CRKLYEKF-----------LE--FSPENCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGE  522 (677)
T ss_pred             HHHHHHHH-----------Hh--cChHhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcch
Confidence            88876643           33  34544 588888888888999999999999998743 22234577777777788999


Q ss_pred             cCcHHHHHHHHHHc
Q 005729          642 FHKVPAVYEEMILS  655 (680)
Q Consensus       642 ~~~A~~~~~~m~~~  655 (680)
                      +++|..+|+++++.
T Consensus       523 ~ekaR~LYerlL~r  536 (677)
T KOG1915|consen  523 FEKARALYERLLDR  536 (677)
T ss_pred             HHHHHHHHHHHHHh
Confidence            99999999999864

>TIGR00540 hemY_coli hemY protein

Probab=99.52  E-value=8.4e-11  Score=123.38  Aligned_cols=289  Identities=8%  Similarity=-0.027  Sum_probs=152.3

Q ss_pred             cCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 005729          348 MGYLKDAEFVVSEMERSGVLPD-EHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQ  426 (680)
Q Consensus       348 ~g~~~~A~~~~~~m~~~g~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~  426 (680)
                      .|+++.|.+.+.+..+..  |+ ...+-.....+.+.|+.+.|.+.+.+..+....+...........+...|+++.|..
T Consensus        97 ~g~~~~A~~~l~~~~~~~--~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~Al~  174 (409)
T TIGR00540        97 EGDYAKAEKLIAKNADHA--AEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAARH  174 (409)
T ss_pred             CCCHHHHHHHHHHHhhcC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHHHH
Confidence            345555555554444331  22 222222334444445555555555554433222111222223444445555555555


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHH-HHHH---HHHHcCChhHHHHHHHHHH
Q 005729          427 VLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWN-TLID---CHFKCGRYDRAEELFEEMQ  502 (680)
Q Consensus       427 l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~-~li~---~~~~~g~~~~A~~~~~~m~  502 (680)
                      .++.+.+.. +-+......+...+...|+++.|.+.+..+.+.+.. +...+. .-..   ++...+..+++.+.+..+.
T Consensus       175 ~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~-~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~~  252 (409)
T TIGR00540       175 GVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLF-DDEEFADLEQKAEIGLLDEAMADEGIDGLLNWW  252 (409)
T ss_pred             HHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHH
Confidence            555555443 334444555555555555555555555555554422 222221 1111   1122222222333444443


Q ss_pred             HCC---CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH--HhcCChHHHHHHHhhhHHHHHH
Q 005729          503 ERG---YFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIY--GQSGRFDDAIECLEGLSDQAVN  577 (680)
Q Consensus       503 ~~~---~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~--~~~g~~~~A~~~~~~~~~~a~~  577 (680)
                      +..   .+.+...+..+...+...|+.++|.+++++..+.........+ .++..+  ...++.+.+.+.++        
T Consensus       253 ~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~pd~~~~~~-~~l~~~~~l~~~~~~~~~~~~e--------  323 (409)
T TIGR00540       253 KNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKLGDDRAISL-PLCLPIPRLKPEDNEKLEKLIE--------  323 (409)
T ss_pred             HHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhCCCcccchh-HHHHHhhhcCCCChHHHHHHHH--------
Confidence            331   1236677777777888888888888888888775322111111 122222  22345554444432        


Q ss_pred             HHHHHHHCCCCCCH---HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCcCcHHHHHHHHHH
Q 005729          578 AFRVMRTDGLKPSN---LALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMIL  654 (680)
Q Consensus       578 ~~~~m~~~g~~p~~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  654 (680)
                         +..+  ..|+.   ....++.+.|.+.|++++|.++|+........||...+.++...+.+.|+.++|.++|++.+.
T Consensus       324 ---~~lk--~~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~l~  398 (409)
T TIGR00540       324 ---KQAK--NVDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQDSLG  398 (409)
T ss_pred             ---HHHH--hCCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence               2222  23443   456788999999999999999999544333678998888999999999999999999998653

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.

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

Probab=99.52  E-value=1.1e-13  Score=137.78  Aligned_cols=262  Identities=17%  Similarity=0.174  Sum_probs=94.8

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHc
Q 005729          270 DVIVGFAKAGDASKAMRFLGMAQGVGLSP-KTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKM  348 (680)
Q Consensus       270 ~li~~~~~~g~~~~A~~~~~~~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~  348 (680)
                      .+...+.+.|++++|+++++.......+| |..-|..+.......+++++|++.++++...+.. +...+..++.. ...
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~~~   90 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-LQD   90 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccc-ccc
Confidence            34566777888888888885544332123 3444555566666778888888888888776432 55566666666 677


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 005729          349 GYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSH-AKPNSFIYSRILAGYRDRGEWQRTFQV  427 (680)
Q Consensus       349 g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~-~~~~~~~~~~ll~~~~~~g~~~~A~~l  427 (680)
                      +++++|.+++....+.  .++...+..++..+.+.++++++.++++.+.... .+.+...|..+...+.+.|+.++|...
T Consensus        91 ~~~~~A~~~~~~~~~~--~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~  168 (280)
T PF13429_consen   91 GDPEEALKLAEKAYER--DGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRD  168 (280)
T ss_dssp             -----------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHH
T ss_pred             cccccccccccccccc--ccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            8888888877766554  2455666777777888888888888888766432 245666777777777888888888888


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCC
Q 005729          428 LKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYF  507 (680)
Q Consensus       428 ~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~  507 (680)
                      +++..+.. +.|......++..+...|+.+++..++....+.. +.|...|..+..+|...|+.++|+.+|++..+.. +
T Consensus       169 ~~~al~~~-P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~-p  245 (280)
T PF13429_consen  169 YRKALELD-PDDPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN-P  245 (280)
T ss_dssp             HHHHHHH--TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS-T
T ss_pred             HHHHHHcC-CCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhcccccccccccccccccccc-c
Confidence            88877653 3356677777777777777777777777666543 3445566777777777788888888887777654 5


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 005729          508 PCTTTYNIMINLLGEQERWEDVKRLLGNMRA  538 (680)
Q Consensus       508 p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~  538 (680)
                      .|......+..++.+.|+.++|.++..++.+
T Consensus       246 ~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  246 DDPLWLLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             T-HHHHHHHHHHHT-----------------
T ss_pred             ccccccccccccccccccccccccccccccc
Confidence            5677777777777777877777777766543

>TIGR00540 hemY_coli hemY protein

Probab=99.51  E-value=1e-10  Score=122.67  Aligned_cols=289  Identities=13%  Similarity=0.061  Sum_probs=209.9

Q ss_pred             HHcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHH
Q 005729          276 AKAGDASKAMRFLGMAQGVGLSPK-TATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDA  354 (680)
Q Consensus       276 ~~~g~~~~A~~~~~~~~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A  354 (680)
                      ...|+++.|.+.+....+.  .|+ ...+-.......+.|+.+.|.+.+.+..+....++....-.....+...|+++.|
T Consensus        95 ~~~g~~~~A~~~l~~~~~~--~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~A  172 (409)
T TIGR00540        95 LAEGDYAKAEKLIAKNADH--AAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAA  172 (409)
T ss_pred             HhCCCHHHHHHHHHHHhhc--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHH
Confidence            4579999999999887765  344 3445556678888999999999999987653222233444457888889999999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH---HHhcCCHHHHHHHHHHH
Q 005729          355 EFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAG---YRDRGEWQRTFQVLKEM  431 (680)
Q Consensus       355 ~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~---~~~~g~~~~A~~l~~~m  431 (680)
                      ...++.+.+.. +-+...+..+...|...|++++|.+++..+.+.+..........-..+   ....+..+++.+.+..+
T Consensus       173 l~~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~  251 (409)
T TIGR00540       173 RHGVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMADEGIDGLLNW  251 (409)
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHH
Confidence            99999999876 336778889999999999999999999999988654333221111111   12333333334455554


Q ss_pred             HHCC---CCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHH---HHHHHHHHHHcCChhHHHHHHHHHHHCC
Q 005729          432 KSSG---VEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTIT---WNTLIDCHFKCGRYDRAEELFEEMQERG  505 (680)
Q Consensus       432 ~~~~---~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~---~~~li~~~~~~g~~~~A~~~~~~m~~~~  505 (680)
                      .+..   .+.+...+..+...+...|+.++|.+++++..+..  ||...   ...........++.+.+.+.++...+..
T Consensus       252 ~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~--pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~  329 (409)
T TIGR00540       252 WKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKL--GDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKNV  329 (409)
T ss_pred             HHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhC--CCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHhC
Confidence            4432   12378888999999999999999999999999864  33321   1222222334577888999998888763


Q ss_pred             CCCCH--HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHhh
Q 005729          506 YFPCT--TTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEG  570 (680)
Q Consensus       506 ~~p~~--~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~  570 (680)
                       +-|.  ....++...+.+.|++++|.+.|+........|+...+..+...+.+.|+.++|.++++.
T Consensus       330 -p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~  395 (409)
T TIGR00540       330 -DDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQD  395 (409)
T ss_pred             -CCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence             4444  566788999999999999999999644444578988899999999999999999988763

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.

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

Probab=99.49  E-value=2.3e-13  Score=135.58  Aligned_cols=261  Identities=15%  Similarity=0.145  Sum_probs=102.5

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcc
Q 005729          375 LLIDAYANAGRWESARIVLKEMEVSH-AKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKY  453 (680)
Q Consensus       375 ~li~~~~~~g~~~~A~~~~~~m~~~~-~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~  453 (680)
                      .+...+.+.|++++|++++++..... .+.+...|..+.......++++.|.+.++++...+ +-+...+..++.. ...
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~-~~~~~~~~~l~~l-~~~   90 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASD-KANPQDYERLIQL-LQD   90 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccccc-ccc
Confidence            44667777788888888886544333 23344555556666667788888888888887665 3355566666666 678


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 005729          454 NCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERG-YFPCTTTYNIMINLLGEQERWEDVKRL  532 (680)
Q Consensus       454 g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~-~~p~~~t~~~li~~~~~~g~~~~A~~~  532 (680)
                      +++++|.+++....+..  ++...+..++..+.+.++++++.++++.+.... .+.+...|..+...+.+.|+.++|...
T Consensus        91 ~~~~~A~~~~~~~~~~~--~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~  168 (280)
T PF13429_consen   91 GDPEEALKLAEKAYERD--GDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRD  168 (280)
T ss_dssp             -----------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHH
T ss_pred             ccccccccccccccccc--cccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            88888888887765542  556667788888888999999999998876542 345677788888888899999999999


Q ss_pred             HHHHHHCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 005729          533 LGNMRAQGLLP-NVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAF  611 (680)
Q Consensus       533 ~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~  611 (680)
                      +++.++.  .| |......++..+...|+.+++.++++....        -    ...|...|..+..+|...|+.++|+
T Consensus       169 ~~~al~~--~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~--------~----~~~~~~~~~~la~~~~~lg~~~~Al  234 (280)
T PF13429_consen  169 YRKALEL--DPDDPDARNALAWLLIDMGDYDEAREALKRLLK--------A----APDDPDLWDALAAAYLQLGRYEEAL  234 (280)
T ss_dssp             HHHHHHH---TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHH--------H-----HTSCCHCHHHHHHHHHHT-HHHHH
T ss_pred             HHHHHHc--CCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHH--------H----CcCHHHHHHHHHHHhcccccccccc
Confidence            9999885  34 577888888899989988887766542221        1    1234456788899999999999999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCCcCcHHHHHHHHHH
Q 005729          612 AVLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMIL  654 (680)
Q Consensus       612 ~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  654 (680)
                      .++++..+.. +.|+.+...+.+++.+.|+.++|.+++++..+
T Consensus       235 ~~~~~~~~~~-p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  235 EYLEKALKLN-PDDPLWLLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             HHHHHHHHHS-TT-HHHHHHHHHHHT-----------------
T ss_pred             cccccccccc-cccccccccccccccccccccccccccccccc
Confidence            9999988732 33778888899999999999999998887654

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

Probab=99.47  E-value=5.9e-10  Score=110.03  Aligned_cols=229  Identities=12%  Similarity=0.088  Sum_probs=157.7

Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhH
Q 005729          414 GYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDR  493 (680)
Q Consensus       414 ~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~  493 (680)
                      .+.-.|+...|..-|+....... .+...|..+..+|....+.++.++.|+...+.. +-+..+|..-.+.+.-.+++++
T Consensus       335 F~fL~g~~~~a~~d~~~~I~l~~-~~~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ld-p~n~dvYyHRgQm~flL~q~e~  412 (606)
T KOG0547|consen  335 FHFLKGDSLGAQEDFDAAIKLDP-AFNSLYIKRAAAYADENQSEKMWKDFNKAEDLD-PENPDVYYHRGQMRFLLQQYEE  412 (606)
T ss_pred             hhhhcCCchhhhhhHHHHHhcCc-ccchHHHHHHHHHhhhhccHHHHHHHHHHHhcC-CCCCchhHhHHHHHHHHHHHHH
Confidence            34556777788888888776642 223337777778888888888888888887765 3356667666777777788888


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHhhhHH
Q 005729          494 AEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSD  573 (680)
Q Consensus       494 A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  573 (680)
                      |..=|++.+... +.+...|..+.-+..+.+++++++..|++.++. ++.-+.+|+-....+...++++.|.+.|+...+
T Consensus       413 A~aDF~Kai~L~-pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~  490 (606)
T KOG0547|consen  413 AIADFQKAISLD-PENAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIE  490 (606)
T ss_pred             HHHHHHHHhhcC-hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHh
Confidence            888888887765 555666777766777888888888888888876 555678888888888888888888877652221


Q ss_pred             HHHHHHHHHHHCCCCCCHH--HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCcCcHHHHHH
Q 005729          574 QAVNAFRVMRTDGLKPSNL--ALNSLINAFGEDQRDAEAFAVLQYMKENGLKPD-VVTYTTLMKALIRVDKFHKVPAVYE  650 (680)
Q Consensus       574 ~a~~~~~~m~~~g~~p~~~--~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~  650 (680)
                          +=.  .++++..+..  +--.++..-. .+++..|+.++++..+  +.|- ...|.+|.....+.|+.++|+++|+
T Consensus       491 ----LE~--~~~~~~v~~~plV~Ka~l~~qw-k~d~~~a~~Ll~KA~e--~Dpkce~A~~tlaq~~lQ~~~i~eAielFE  561 (606)
T KOG0547|consen  491 ----LEP--REHLIIVNAAPLVHKALLVLQW-KEDINQAENLLRKAIE--LDPKCEQAYETLAQFELQRGKIDEAIELFE  561 (606)
T ss_pred             ----hcc--ccccccccchhhhhhhHhhhch-hhhHHHHHHHHHHHHc--cCchHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence                100  0011111121  1122222222 3888889998888887  4553 4578888888888999999999988


Q ss_pred             HHHHc
Q 005729          651 EMILS  655 (680)
Q Consensus       651 ~m~~~  655 (680)
                      +....
T Consensus       562 ksa~l  566 (606)
T KOG0547|consen  562 KSAQL  566 (606)
T ss_pred             HHHHH
Confidence            87654

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

Probab=99.46  E-value=2.5e-09  Score=107.70  Aligned_cols=498  Identities=11%  Similarity=0.018  Sum_probs=310.1

Q ss_pred             ChHHHHHHHHHHHHCCCCCchHHHHHHHHHHhcccCCHHHHHHh---hCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Q 005729          142 SIDLAYAVVSWLQKHNLCYSYELLYSILIHALGRSEKLYEAFLL---SQRQRLTPLTYNALISACARNDDLEKALNLMSK  218 (680)
Q Consensus       142 ~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~---~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  218 (680)
                      .+..|.-+-.++...+..|.+   ---+..+|.--|++..|..+   ......|..+..-....+.+..++++|+.++.+
T Consensus        31 ~y~~a~f~adkV~~l~~dp~d---~~~~aq~l~~~~~y~ra~~lit~~~le~~d~~cryL~~~~l~~lk~~~~al~vl~~  107 (611)
T KOG1173|consen   31 RYKTALFWADKVAGLTNDPAD---IYWLAQVLYLGRQYERAAHLITTYKLEKRDIACRYLAAKCLVKLKEWDQALLVLGR  107 (611)
T ss_pred             hhhHHHHHHHHHHhccCChHH---HHHHHHHHHhhhHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            344455455555444422222   23355566666666666554   445567788888889999999999999999874


Q ss_pred             HHHcCCCCChhhHHHHHHHHHhcCCCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCC
Q 005729          219 MRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSP  298 (680)
Q Consensus       219 m~~~g~~p~~~~~~~ll~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p  298 (680)
                      -..   .-+.+.|...=.    .+..+...+.    ++.  ++......+-.--..|......++|.+.|.+...    .
T Consensus       108 ~~~---~~~~f~yy~~~~----~~~l~~n~~~----~~~--~~~~essic~lRgk~y~al~n~~~ar~~Y~~Al~----~  170 (611)
T KOG1173|consen  108 GHV---ETNPFSYYEKDA----ANTLELNSAG----EDL--MINLESSICYLRGKVYVALDNREEARDKYKEALL----A  170 (611)
T ss_pred             cch---hhcchhhcchhh----hceeccCccc----ccc--cccchhceeeeeeehhhhhccHHHHHHHHHHHHh----c
Confidence            311   112222110000    0000000000    000  0011111111111235555667788888877664    3


Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC----CCCHHHHHHHHHHH-HHcCCHHHHHHHHHHHHHCCCCCCHHHH
Q 005729          299 KTATYAAVITALSNSGRTIEAEAVFEELKESGL----KPRTKAYNALLKGY-VKMGYLKDAEFVVSEMERSGVLPDEHTY  373 (680)
Q Consensus       299 ~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~----~p~~~~~~~li~~~-~~~g~~~~A~~~~~~m~~~g~~~~~~~~  373 (680)
                      |...|..+...-...  .-.+.+.|+.+.....    ..+......+.... ++..+ ++....-.+-.-.+..-+....
T Consensus       171 D~~c~Ea~~~lvs~~--mlt~~Ee~~ll~~l~~a~~~~ed~e~l~~lyel~~~k~~n-~~~~~r~~~~sl~~l~~~~dll  247 (611)
T KOG1173|consen  171 DAKCFEAFEKLVSAH--MLTAQEEFELLESLDLAMLTKEDVERLEILYELKLCKNRN-EESLTRNEDESLIGLAENLDLL  247 (611)
T ss_pred             chhhHHHHHHHHHHH--hcchhHHHHHHhcccHHhhhhhHHHHHHHHHHhhhhhhcc-ccccccCchhhhhhhhhcHHHH
Confidence            444443332221111  1111122222222111    11222222222211 11110 0111111101111233456666


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcc
Q 005729          374 SLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKY  453 (680)
Q Consensus       374 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~  453 (680)
                      ....+-+...+++.+..++.+.+.+.. ++....+..-|.++...|+..+-+.+=.+|.+.- +....+|-++.--|...
T Consensus       248 ~~~ad~~y~~c~f~~c~kit~~lle~d-pfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~y-P~~a~sW~aVg~YYl~i  325 (611)
T KOG1173|consen  248 AEKADRLYYGCRFKECLKITEELLEKD-PFHLPCLPLHIACLYELGKSNKLFLLSHKLVDLY-PSKALSWFAVGCYYLMI  325 (611)
T ss_pred             HHHHHHHHHcChHHHHHHHhHHHHhhC-CCCcchHHHHHHHHHHhcccchHHHHHHHHHHhC-CCCCcchhhHHHHHHHh
Confidence            677778888999999999999998764 5666677777789999999888888888888763 66778999999999889


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 005729          454 NCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLL  533 (680)
Q Consensus       454 g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~  533 (680)
                      |...+|++.|.+..... +.=...|-....+|+-.|..|+|+..+....+.- +-....+--+.--|.+.++.+.|.++|
T Consensus       326 ~k~seARry~SKat~lD-~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~-~G~hlP~LYlgmey~~t~n~kLAe~Ff  403 (611)
T KOG1173|consen  326 GKYSEARRYFSKATTLD-PTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARLM-PGCHLPSLYLGMEYMRTNNLKLAEKFF  403 (611)
T ss_pred             cCcHHHHHHHHHHhhcC-ccccHHHHHHhHHhhhcchHHHHHHHHHHHHHhc-cCCcchHHHHHHHHHHhccHHHHHHHH
Confidence            99999999999876543 1224578899999999999999999998876541 112223333444577889999999999


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 005729          534 GNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAV  613 (680)
Q Consensus       534 ~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~  613 (680)
                      .+.... .+.|+.+++-+.-...+.+.+.+|...|+...    ...+......+ --..+++.|.++|.+.+++++|+..
T Consensus       404 ~~A~ai-~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l----~~ik~~~~e~~-~w~p~~~NLGH~~Rkl~~~~eAI~~  477 (611)
T KOG1173|consen  404 KQALAI-APSDPLVLHELGVVAYTYEEYPEALKYFQKAL----EVIKSVLNEKI-FWEPTLNNLGHAYRKLNKYEEAIDY  477 (611)
T ss_pred             HHHHhc-CCCcchhhhhhhheeehHhhhHHHHHHHHHHH----HHhhhcccccc-chhHHHHhHHHHHHHHhhHHHHHHH
Confidence            998874 23378889999888888999999998887433    22222222111 1334789999999999999999999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHhcCCcCcHHHHHHHHHHcCCCCCHH-HHHHHHHHHHHHH
Q 005729          614 LQYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPDRK-ARAMLRSALRYMK  675 (680)
Q Consensus       614 ~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd~~-~~~~l~~a~~~~k  675 (680)
                      +++.... .+-|..++.++.-.|...|+++.|.+.|.+.+.  +.||.. +..+|..|++.++
T Consensus       478 ~q~aL~l-~~k~~~~~asig~iy~llgnld~Aid~fhKaL~--l~p~n~~~~~lL~~aie~~~  537 (611)
T KOG1173|consen  478 YQKALLL-SPKDASTHASIGYIYHLLGNLDKAIDHFHKALA--LKPDNIFISELLKLAIEDSE  537 (611)
T ss_pred             HHHHHHc-CCCchhHHHHHHHHHHHhcChHHHHHHHHHHHh--cCCccHHHHHHHHHHHHhhh
Confidence            9999984 244888999999999999999999999999886  689984 5566666766643

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

Probab=99.46  E-value=7.4e-10  Score=103.91  Aligned_cols=275  Identities=16%  Similarity=0.157  Sum_probs=212.5

Q ss_pred             HcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC---CHHHHHHHHHHHHHcCCHHH
Q 005729          277 KAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKP---RTKAYNALLKGYVKMGYLKD  353 (680)
Q Consensus       277 ~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p---~~~~~~~li~~~~~~g~~~~  353 (680)
                      -.++.++|++.|-+|.+.. +-+..+--+|.+.|-+.|..+.|+++.+.+.++.--+   .....-.|..-|...|-++.
T Consensus        47 Ls~Q~dKAvdlF~e~l~~d-~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DR  125 (389)
T COG2956          47 LSNQPDKAVDLFLEMLQED-PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDR  125 (389)
T ss_pred             hhcCcchHHHHHHHHHhcC-chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhH
Confidence            3578999999999998742 2234456688899999999999999999998752111   12234566777889999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHhcCCHHHHHHHHH
Q 005729          354 AEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNS----FIYSRILAGYRDRGEWQRTFQVLK  429 (680)
Q Consensus       354 A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~----~~~~~ll~~~~~~g~~~~A~~l~~  429 (680)
                      |+.+|..+.+.+ ..-......|+..|-...+|++|+++-+++.+.+..+..    ..|.-+...+....+.+.|..++.
T Consensus       126 AE~~f~~L~de~-efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~  204 (389)
T COG2956         126 AEDIFNQLVDEG-EFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLK  204 (389)
T ss_pred             HHHHHHHHhcch-hhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHH
Confidence            999999998764 335667788999999999999999999999887655543    356667777777889999999999


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCC
Q 005729          430 EMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPC  509 (680)
Q Consensus       430 ~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~  509 (680)
                      +..+.+ +..+..-..+.+.+...|+++.|.+.++.+.+.+..--..+...|..+|.+.|+.++....+.++.+..  +.
T Consensus       205 kAlqa~-~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~--~g  281 (389)
T COG2956         205 KALQAD-KKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETN--TG  281 (389)
T ss_pred             HHHhhC-ccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHcc--CC
Confidence            988764 334445556678889999999999999999988655556678899999999999999999999998874  34


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 005729          510 TTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQS  558 (680)
Q Consensus       510 ~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~  558 (680)
                      ...-..+...-....-.+.|...+.+-+..  +|+...+..+++.-..-
T Consensus       282 ~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r--~Pt~~gf~rl~~~~l~d  328 (389)
T COG2956         282 ADAELMLADLIELQEGIDAAQAYLTRQLRR--KPTMRGFHRLMDYHLAD  328 (389)
T ss_pred             ccHHHHHHHHHHHhhChHHHHHHHHHHHhh--CCcHHHHHHHHHhhhcc
Confidence            444455555555555567777777666654  68999999999876543

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

Probab=99.44  E-value=8.3e-10  Score=103.56  Aligned_cols=289  Identities=16%  Similarity=0.153  Sum_probs=136.4

Q ss_pred             cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH------HHHHHHHHHHHHcCCH
Q 005729          313 SGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDE------HTYSLLIDAYANAGRW  386 (680)
Q Consensus       313 ~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~------~~~~~li~~~~~~g~~  386 (680)
                      +++.++|.++|-+|.+.. +....+--+|.+.|-+.|..+.|+.+.+.+.++   ||.      .....|..-|...|-+
T Consensus        48 s~Q~dKAvdlF~e~l~~d-~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~s---pdlT~~qr~lAl~qL~~Dym~aGl~  123 (389)
T COG2956          48 SNQPDKAVDLFLEMLQED-PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLES---PDLTFEQRLLALQQLGRDYMAAGLL  123 (389)
T ss_pred             hcCcchHHHHHHHHHhcC-chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcC---CCCchHHHHHHHHHHHHHHHHhhhh
Confidence            355666666666666532 223334445556666666666666666666553   221      1223344445555555


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHH
Q 005729          387 ESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRM  466 (680)
Q Consensus       387 ~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  466 (680)
                      |.|+.+|..+.+.+ ..-......++..|-...+|++|+++-+++.+.+-.+...-   +                    
T Consensus       124 DRAE~~f~~L~de~-efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~e---I--------------------  179 (389)
T COG2956         124 DRAEDIFNQLVDEG-EFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVE---I--------------------  179 (389)
T ss_pred             hHHHHHHHHHhcch-hhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhH---H--------------------
Confidence            55555555554332 12233344444445444555555544444444332211100   0                    


Q ss_pred             HHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH
Q 005729          467 LSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVV  546 (680)
Q Consensus       467 ~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~  546 (680)
                              ...|..+...+....+.++|..++.+..+.+ +-++..--.+.+.....|+++.|.+.++...+.+..--..
T Consensus       180 --------AqfyCELAq~~~~~~~~d~A~~~l~kAlqa~-~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~e  250 (389)
T COG2956         180 --------AQFYCELAQQALASSDVDRARELLKKALQAD-KKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSE  250 (389)
T ss_pred             --------HHHHHHHHHHHhhhhhHHHHHHHHHHHHhhC-ccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHH
Confidence                    1123334444444555666666666655543 3333333344455556666666666666666654433445


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH
Q 005729          547 TYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDV  626 (680)
Q Consensus       547 ~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  626 (680)
                      +...|..+|.+.|+.++....+.           .+.+.  .+....-..+...-....-.+.|..++.+-..  -+|+.
T Consensus       251 vl~~L~~~Y~~lg~~~~~~~fL~-----------~~~~~--~~g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~--r~Pt~  315 (389)
T COG2956         251 VLEMLYECYAQLGKPAEGLNFLR-----------RAMET--NTGADAELMLADLIELQEGIDAAQAYLTRQLR--RKPTM  315 (389)
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHH-----------HHHHc--cCCccHHHHHHHHHHHhhChHHHHHHHHHHHh--hCCcH
Confidence            55666666666666665555433           22221  12222222222222223334444444333333  25666


Q ss_pred             HHHHHHHHHHHh---cCCcCcHHHHHHHHH
Q 005729          627 VTYTTLMKALIR---VDKFHKVPAVYEEMI  653 (680)
Q Consensus       627 ~~~~~l~~~~~~---~g~~~~A~~~~~~m~  653 (680)
                      ..+..++..-..   .|..++-...+++|+
T Consensus       316 ~gf~rl~~~~l~daeeg~~k~sL~~lr~mv  345 (389)
T COG2956         316 RGFHRLMDYHLADAEEGRAKESLDLLRDMV  345 (389)
T ss_pred             HHHHHHHHhhhccccccchhhhHHHHHHHH
Confidence            666666654432   233444455555554

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

Probab=99.42  E-value=1.2e-09  Score=107.99  Aligned_cols=404  Identities=13%  Similarity=0.026  Sum_probs=259.8

Q ss_pred             hhCCCChHHHHHHHHHHHHCCCCCchHHHHHHHHHHhcccCCHHHHHHh----hCCCCCCHHHHHHHHHHHHHcCCHHHH
Q 005729          137 CSSNSSIDLAYAVVSWLQKHNLCYSYELLYSILIHALGRSEKLYEAFLL----SQRQRLTPLTYNALISACARNDDLEKA  212 (680)
Q Consensus       137 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~----~~~~~~~~~~~~~li~~~~~~g~~~~A  212 (680)
                      |-+.+.++.|...+.|++...  |..+..|+.+..+|..-|++.+..+.    .+..+.-+.+++.-.+++-..|++++|
T Consensus       125 ~f~~kkY~eAIkyY~~AI~l~--p~epiFYsNraAcY~~lgd~~~Vied~TkALEl~P~Y~KAl~RRA~A~E~lg~~~ea  202 (606)
T KOG0547|consen  125 FFRNKKYDEAIKYYTQAIELC--PDEPIFYSNRAACYESLGDWEKVIEDCTKALELNPDYVKALLRRASAHEQLGKFDEA  202 (606)
T ss_pred             hhhcccHHHHHHHHHHHHhcC--CCCchhhhhHHHHHHHHhhHHHHHHHHHHHhhcCcHHHHHHHHHHHHHHhhccHHHH
Confidence            346789999999999999874  66578899999999999999998876    333333345677777788888888888


Q ss_pred             HHHHHHHHHcCCCCChhhHHHHHHHHHhcCCCChHHHHHHHHHHHhCC--CCcCHHHHHHHHHHHHHc--------CC-H
Q 005729          213 LNLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDK--IELDGQLLNDVIVGFAKA--------GD-A  281 (680)
Q Consensus       213 ~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~~~~~~l~~~~~~~~--~~~~~~~~~~li~~~~~~--------g~-~  281 (680)
                      +.=..-.--.|-.-|..+-..+=+.+-+.+.      ...-+.+.+++  +-|.....++....+...        ++ -
T Consensus       203 l~D~tv~ci~~~F~n~s~~~~~eR~Lkk~a~------~ka~e~~k~nr~p~lPS~~fi~syf~sF~~~~~~~~~~~~~ks  276 (606)
T KOG0547|consen  203 LFDVTVLCILEGFQNASIEPMAERVLKKQAM------KKAKEKLKENRPPVLPSATFIASYFGSFHADPKPLFDNKSDKS  276 (606)
T ss_pred             HHhhhHHHHhhhcccchhHHHHHHHHHHHHH------HHHHHhhcccCCCCCCcHHHHHHHHhhccccccccccCCCccc
Confidence            7543332222111222222111112222111      11122222222  234443333333322110        00 1


Q ss_pred             ----HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHc---CCCC---C------HHHHHHHHHHH
Q 005729          282 ----SKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKES---GLKP---R------TKAYNALLKGY  345 (680)
Q Consensus       282 ----~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~---g~~p---~------~~~~~~li~~~  345 (680)
                          .++++.+..-..                    ..+..|.+.+.+-...   ....   |      ..+.+.-...+
T Consensus       277 Da~l~~~l~~l~~~~~--------------------e~Y~~a~~~~te~~~~~~~~~~~n~~d~~le~~A~al~~~gtF~  336 (606)
T KOG0547|consen  277 DAALAEALEALEKGLE--------------------EGYLKAYDKATEECLGSESSLSVNEIDAELEYMAEALLLRGTFH  336 (606)
T ss_pred             hhhHHHHHHHHHhhCc--------------------hhHHHHHHHHHHHhhhhhhhccccccchhHHHHHHHHHHhhhhh
Confidence                111111111110                    1122233322221110   0000   1      12222222334


Q ss_pred             HHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 005729          346 VKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTF  425 (680)
Q Consensus       346 ~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~  425 (680)
                      .-.|+...|..-|+..+.....+ ...|--+...|....+.++..+.|.+....+. .+..+|..-...+.-.+++++|.
T Consensus       337 fL~g~~~~a~~d~~~~I~l~~~~-~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp-~n~dvYyHRgQm~flL~q~e~A~  414 (606)
T KOG0547|consen  337 FLKGDSLGAQEDFDAAIKLDPAF-NSLYIKRAAAYADENQSEKMWKDFNKAEDLDP-ENPDVYYHRGQMRFLLQQYEEAI  414 (606)
T ss_pred             hhcCCchhhhhhHHHHHhcCccc-chHHHHHHHHHhhhhccHHHHHHHHHHHhcCC-CCCchhHhHHHHHHHHHHHHHHH
Confidence            55789999999999999875443 33377888899999999999999999987763 46677777778888889999999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCC
Q 005729          426 QVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERG  505 (680)
Q Consensus       426 ~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  505 (680)
                      .=|++..... +.+...|..+..+..+.+.+++++..|++..+. ++.-+..|+.....+...+++++|.+.|+..++..
T Consensus       415 aDF~Kai~L~-pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE  492 (606)
T KOG0547|consen  415 ADFQKAISLD-PENAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELE  492 (606)
T ss_pred             HHHHHHhhcC-hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhc
Confidence            9999988775 556777888888888999999999999999876 35567789999999999999999999999987642


Q ss_pred             -----CCCCHHHHHH-HHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHhhhHH
Q 005729          506 -----YFPCTTTYNI-MINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSD  573 (680)
Q Consensus       506 -----~~p~~~t~~~-li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  573 (680)
                           +..+..++.. -+-.+.-.+++..|..++.+..+.+.+ ....|..|...-.+.|++++|+++|+....
T Consensus       493 ~~~~~~~v~~~plV~Ka~l~~qwk~d~~~a~~Ll~KA~e~Dpk-ce~A~~tlaq~~lQ~~~i~eAielFEksa~  565 (606)
T KOG0547|consen  493 PREHLIIVNAAPLVHKALLVLQWKEDINQAENLLRKAIELDPK-CEQAYETLAQFELQRGKIDEAIELFEKSAQ  565 (606)
T ss_pred             cccccccccchhhhhhhHhhhchhhhHHHHHHHHHHHHccCch-HHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence                 2222222211 111222458999999999999985433 467899999999999999999999874443

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

Probab=99.42  E-value=2.1e-09  Score=104.18  Aligned_cols=294  Identities=15%  Similarity=0.145  Sum_probs=159.3

Q ss_pred             cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Q 005729          313 SGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIV  392 (680)
Q Consensus       313 ~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~  392 (680)
                      .|++..|+++..+-.+.+-. ....|..-..+--..|+.+.+..++.+.-+.--.++...+-+........|+.+.|..-
T Consensus        97 eG~~~qAEkl~~rnae~~e~-p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~  175 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQ-PVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAAREN  175 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcc-hHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHH
Confidence            57777777777776655432 23344444555566677777777777776653344556666666777777777777777


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCC
Q 005729          393 LKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIE  472 (680)
Q Consensus       393 ~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~  472 (680)
                      ++++.+.+ +-+.........+|.+.|+|.....++..|.+.|.-.+...-                            .
T Consensus       176 v~~ll~~~-pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~----------------------------~  226 (400)
T COG3071         176 VDQLLEMT-PRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAA----------------------------R  226 (400)
T ss_pred             HHHHHHhC-cCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHH----------------------------H
Confidence            77766654 235556666677777777777777777777766643332110                            0


Q ss_pred             CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 005729          473 PDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLV  552 (680)
Q Consensus       473 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li  552 (680)
                      ....+|+.+++-....+..+.-...+++...+ .+.++..-..++.-+.+.|+.++|.++..+..+.+..|.   ...+ 
T Consensus       227 le~~a~~glL~q~~~~~~~~gL~~~W~~~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~---L~~~-  301 (400)
T COG3071         227 LEQQAWEGLLQQARDDNGSEGLKTWWKNQPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR---LCRL-  301 (400)
T ss_pred             HHHHHHHHHHHHHhccccchHHHHHHHhccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh---HHHH-
Confidence            01123333333333333333333344443322 133344444455555555555555555555555544443   1111 


Q ss_pred             HHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 005729          553 DIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTL  632 (680)
Q Consensus       553 ~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l  632 (680)
                      -.+.+-++...-++..+          +.....+..|  ..+.+|...|.+.+.|.+|.+.|+...+  ..|+..+|..+
T Consensus       302 ~~~l~~~d~~~l~k~~e----------~~l~~h~~~p--~L~~tLG~L~~k~~~w~kA~~~leaAl~--~~~s~~~~~~l  367 (400)
T COG3071         302 IPRLRPGDPEPLIKAAE----------KWLKQHPEDP--LLLSTLGRLALKNKLWGKASEALEAALK--LRPSASDYAEL  367 (400)
T ss_pred             HhhcCCCCchHHHHHHH----------HHHHhCCCCh--hHHHHHHHHHHHhhHHHHHHHHHHHHHh--cCCChhhHHHH
Confidence            11223333333222222          1222223333  4566666666666666666666665555  45666666666


Q ss_pred             HHHHHhcCCcCcHHHHHHHHHHc
Q 005729          633 MKALIRVDKFHKVPAVYEEMILS  655 (680)
Q Consensus       633 ~~~~~~~g~~~~A~~~~~~m~~~  655 (680)
                      ..++.+.|+..+|.+..++.+..
T Consensus       368 a~~~~~~g~~~~A~~~r~e~L~~  390 (400)
T COG3071         368 ADALDQLGEPEEAEQVRREALLL  390 (400)
T ss_pred             HHHHHHcCChHHHHHHHHHHHHH
Confidence            66666666666666666665533

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

Probab=99.40  E-value=1e-10  Score=119.99  Aligned_cols=202  Identities=17%  Similarity=0.107  Sum_probs=93.8

Q ss_pred             CHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 005729          439 DTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMIN  518 (680)
Q Consensus       439 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~  518 (680)
                      .+.+|.++..+|.-.++.+.|++.|++..+.. +....+|+.+..-+.....+|+|...|+..+... +-+-..|..+.-
T Consensus       420 sPesWca~GNcfSLQkdh~~Aik~f~RAiQld-p~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~-~rhYnAwYGlG~  497 (638)
T KOG1126|consen  420 SPESWCALGNCFSLQKDHDTAIKCFKRAIQLD-PRFAYAYTLLGHESIATEEFDKAMKSFRKALGVD-PRHYNAWYGLGT  497 (638)
T ss_pred             CcHHHHHhcchhhhhhHHHHHHHHHHHhhccC-CccchhhhhcCChhhhhHHHHhHHHHHHhhhcCC-chhhHHHHhhhh
Confidence            34444444444444444444444444444432 1134444444444444455555555554443322 111223333344


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCH-HHHHHH
Q 005729          519 LLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSN-LALNSL  597 (680)
Q Consensus       519 ~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~-~~~~~l  597 (680)
                      .|.+.++++.|+-.|+++.+-+.. +.+....+...+.+.|+.|+|+++++.    |       ..  +.|.. ..--..
T Consensus       498 vy~Kqek~e~Ae~~fqkA~~INP~-nsvi~~~~g~~~~~~k~~d~AL~~~~~----A-------~~--ld~kn~l~~~~~  563 (638)
T KOG1126|consen  498 VYLKQEKLEFAEFHFQKAVEINPS-NSVILCHIGRIQHQLKRKDKALQLYEK----A-------IH--LDPKNPLCKYHR  563 (638)
T ss_pred             heeccchhhHHHHHHHhhhcCCcc-chhHHhhhhHHHHHhhhhhHHHHHHHH----H-------Hh--cCCCCchhHHHH
Confidence            445555555555555555443211 344444455555555555555555431    1       11  11111 111122


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCcCcHHHHHHHHHHcCCC
Q 005729          598 INAFGEDQRDAEAFAVLQYMKENGLKPD-VVTYTTLMKALIRVDKFHKVPAVYEEMILSGCT  658 (680)
Q Consensus       598 i~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~  658 (680)
                      +..+...+++++|+..++++++  +.|+ ...|..+...|-+.|+.+.|+.-+.-|.+...+
T Consensus       564 ~~il~~~~~~~eal~~LEeLk~--~vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~ldpk  623 (638)
T KOG1126|consen  564 ASILFSLGRYVEALQELEELKE--LVPQESSVFALLGKIYKRLGNTDLALLHFSWALDLDPK  623 (638)
T ss_pred             HHHHHhhcchHHHHHHHHHHHH--hCcchHHHHHHHHHHHHHHccchHHHHhhHHHhcCCCc
Confidence            3334445666666666666666  4443 345555556666666666666666655554333

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

Probab=99.39  E-value=3.2e-09  Score=102.86  Aligned_cols=282  Identities=14%  Similarity=0.125  Sum_probs=228.4

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Q 005729          278 AGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFV  357 (680)
Q Consensus       278 ~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~  357 (680)
                      .|++.+|.+...+-.+.+-. ....|..-..+--+.|+.+.+-+.+.+..+..-.++...+-+........|++..|..-
T Consensus        97 eG~~~qAEkl~~rnae~~e~-p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~  175 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQ-PVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAAREN  175 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcc-hHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHH
Confidence            59999999999988877633 35567777788889999999999999998864466778888888899999999999999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHH-------HHHHHHHHHHhcCCHHHHHHHHHH
Q 005729          358 VSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSF-------IYSRILAGYRDRGEWQRTFQVLKE  430 (680)
Q Consensus       358 ~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~-------~~~~ll~~~~~~g~~~~A~~l~~~  430 (680)
                      ++++.+.+. .+.........+|.+.|++.+...++.++.+.+.-.+..       +|..++.-....+..+.-...++.
T Consensus       176 v~~ll~~~p-r~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~  254 (400)
T COG3071         176 VDQLLEMTP-RHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKN  254 (400)
T ss_pred             HHHHHHhCc-CChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHh
Confidence            999988764 367888999999999999999999999999988765543       677777777666666666666666


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCH
Q 005729          431 MKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCT  510 (680)
Q Consensus       431 m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~  510 (680)
                      .... .+.++..-.+++.-+.++|+.++|.++..+..+.+..++..    ..-.+.+-++...-++..+.-.+.. +.++
T Consensus       255 ~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L~----~~~~~l~~~d~~~l~k~~e~~l~~h-~~~p  328 (400)
T COG3071         255 QPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRLC----RLIPRLRPGDPEPLIKAAEKWLKQH-PEDP  328 (400)
T ss_pred             ccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhHH----HHHhhcCCCCchHHHHHHHHHHHhC-CCCh
Confidence            5443 24566777788899999999999999999999887666522    2234556777777777777766542 4556


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHh
Q 005729          511 TTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLE  569 (680)
Q Consensus       511 ~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~  569 (680)
                      -.+.++...|.+.+.|.+|...|+...+  ..|+..+|+.+.+++.+.|+..+|.++.+
T Consensus       329 ~L~~tLG~L~~k~~~w~kA~~~leaAl~--~~~s~~~~~~la~~~~~~g~~~~A~~~r~  385 (400)
T COG3071         329 LLLSTLGRLALKNKLWGKASEALEAALK--LRPSASDYAELADALDQLGEPEEAEQVRR  385 (400)
T ss_pred             hHHHHHHHHHHHhhHHHHHHHHHHHHHh--cCCChhhHHHHHHHHHHcCChHHHHHHHH
Confidence            8888999999999999999999998887  57899999999999999999999988765

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

Probab=99.39  E-value=4.9e-07  Score=92.67  Aligned_cols=457  Identities=12%  Similarity=0.151  Sum_probs=218.6

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHc-CCCCChhhHHHHHHHHHhcCCCChHHHHHHHHHHHhCCCCcCHHHHHHHHH
Q 005729          195 TYNALISACARNDDLEKALNLMSKMRQD-GYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIV  273 (680)
Q Consensus       195 ~~~~li~~~~~~g~~~~A~~~~~~m~~~-g~~p~~~~~~~ll~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~~~li~  273 (680)
                      .|-..+..+.++|++..-...|++.... .+.-....|...+.-....+-..  .+..+++.-.+    .+...-+.-|.
T Consensus       104 Iwl~Ylq~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPe--ts~rvyrRYLk----~~P~~~eeyie  177 (835)
T KOG2047|consen  104 IWLDYLQFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPE--TSIRVYRRYLK----VAPEAREEYIE  177 (835)
T ss_pred             HHHHHHHHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChH--HHHHHHHHHHh----cCHHHHHHHHH
Confidence            5555555555555555555555554432 22223334444444333333321  12244444332    23333445555


Q ss_pred             HHHHcCCHHHHHHHHHHHHhCC------CCCCHHHHHHHHHHHHhcCChHH---HHHHHHHHHHcCCCCC--HHHHHHHH
Q 005729          274 GFAKAGDASKAMRFLGMAQGVG------LSPKTATYAAVITALSNSGRTIE---AEAVFEELKESGLKPR--TKAYNALL  342 (680)
Q Consensus       274 ~~~~~g~~~~A~~~~~~~~~~g------~~p~~~~~~~li~~~~~~g~~~~---A~~l~~~m~~~g~~p~--~~~~~~li  342 (680)
                      .+++.+++++|.+.+.......      .+.+-..|.-+.+..+++-+.-.   ...+++.+...  -+|  ...|++|.
T Consensus       178 ~L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~r--ftDq~g~Lw~SLA  255 (835)
T KOG2047|consen  178 YLAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRR--FTDQLGFLWCSLA  255 (835)
T ss_pred             HHHhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhccc--CcHHHHHHHHHHH
Confidence            5555566666555554443211      12233344444444444333221   22223332221  122  23455566


Q ss_pred             HHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcC----------------------CHHHHHHHHHHHHHCC
Q 005729          343 KGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAG----------------------RWESARIVLKEMEVSH  400 (680)
Q Consensus       343 ~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g----------------------~~~~A~~~~~~m~~~~  400 (680)
                      +.|.+.|.++.|..+|++....  ..++.-++.+.+.|+.-.                      +++-.+.-|+.+...+
T Consensus       256 dYYIr~g~~ekarDvyeeai~~--v~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~rr  333 (835)
T KOG2047|consen  256 DYYIRSGLFEKARDVYEEAIQT--VMTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFESLMNRR  333 (835)
T ss_pred             HHHHHhhhhHHHHHHHHHHHHh--heehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhcc
Confidence            6666666666666666555443  122333333333333211                      1112222233322211


Q ss_pred             -----------CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC------CHHHHHHHHHHHHccCCHHHHHHHH
Q 005729          401 -----------AKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEP------DTHFYNVMIDTFGKYNCLHHAMAAF  463 (680)
Q Consensus       401 -----------~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p------~~~~~~~li~~~~~~g~~~~A~~~~  463 (680)
                                 -+.++..|..-+..+  .|+..+-...|.+..+. +.|      -...|..+.+.|-..|+++.|..+|
T Consensus       334 ~~~lNsVlLRQn~~nV~eW~kRV~l~--e~~~~~~i~tyteAv~~-vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvif  410 (835)
T KOG2047|consen  334 PLLLNSVLLRQNPHNVEEWHKRVKLY--EGNAAEQINTYTEAVKT-VDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIF  410 (835)
T ss_pred             chHHHHHHHhcCCccHHHHHhhhhhh--cCChHHHHHHHHHHHHc-cCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHH
Confidence                       122333444333332  44555566666665543 122      1245677777788888888888888


Q ss_pred             HHHHHCCCCCC---HHHHHHHHHHHHHcCChhHHHHHHHHHHHCC-----------CCC------CHHHHHHHHHHHHhc
Q 005729          464 DRMLSEGIEPD---TITWNTLIDCHFKCGRYDRAEELFEEMQERG-----------YFP------CTTTYNIMINLLGEQ  523 (680)
Q Consensus       464 ~~m~~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~-----------~~p------~~~t~~~li~~~~~~  523 (680)
                      ++..+...+.-   ..+|..-...=.++.+++.|+++.++.....           .++      +...|...++.--..
T Consensus       411 eka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~  490 (835)
T KOG2047|consen  411 EKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESL  490 (835)
T ss_pred             HHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHh
Confidence            87776533211   2344444555556677777877777654321           111      223455555555566


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHh----------------------------hhHHHH
Q 005729          524 ERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLE----------------------------GLSDQA  575 (680)
Q Consensus       524 g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~----------------------------~~~~~a  575 (680)
                      |-++....+++++++..+. ++.+.......+....-++++.++|+                            ...+.|
T Consensus       491 gtfestk~vYdriidLria-TPqii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEra  569 (835)
T KOG2047|consen  491 GTFESTKAVYDRIIDLRIA-TPQIIINYAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLERA  569 (835)
T ss_pred             ccHHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHHH
Confidence            7777777888887776543 34444444444445555666666655                            224556


Q ss_pred             HHHHHHHHHCCCCCCHHH--HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH--HHHHHHHHHHHhcCCcCcHHHHHHH
Q 005729          576 VNAFRVMRTDGLKPSNLA--LNSLINAFGEDQRDAEAFAVLQYMKENGLKPDV--VTYTTLMKALIRVDKFHKVPAVYEE  651 (680)
Q Consensus       576 ~~~~~~m~~~g~~p~~~~--~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~~~~~l~~~~~~~g~~~~A~~~~~~  651 (680)
                      ..+|++..+ |++|...-  |-.....--+.|-...|+.++++.-. ++++..  ..|+..|.--...=-.....++|++
T Consensus       570 RdLFEqaL~-~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat~-~v~~a~~l~myni~I~kaae~yGv~~TR~iYek  647 (835)
T KOG2047|consen  570 RDLFEQALD-GCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERATS-AVKEAQRLDMYNIYIKKAAEIYGVPRTREIYEK  647 (835)
T ss_pred             HHHHHHHHh-cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHHHHHHhCCcccHHHHHH
Confidence            666666665 55555432  22222222234666666666666543 233322  3455544322222224555666666


Q ss_pred             HHHcCCCCCHHHHHHHHH
Q 005729          652 MILSGCTPDRKARAMLRS  669 (680)
Q Consensus       652 m~~~g~~pd~~~~~~l~~  669 (680)
                      .++.  -||.....+.++
T Consensus       648 aIe~--Lp~~~~r~mclr  663 (835)
T KOG2047|consen  648 AIES--LPDSKAREMCLR  663 (835)
T ss_pred             HHHh--CChHHHHHHHHH
Confidence            6663  566665555444

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

Probab=99.35  E-value=1.5e-09  Score=114.49  Aligned_cols=273  Identities=15%  Similarity=0.199  Sum_probs=192.1

Q ss_pred             HHHHHHHHcCCCCChhhHHHHHHHHHhcCCCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Q 005729          214 NLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQG  293 (680)
Q Consensus       214 ~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  293 (680)
                      +++-.|...|+.|+.+||..+|..||..|+.+.+   -+|..|..+..+.+...++.++.+....++.+.+.        
T Consensus        11 nfla~~e~~gi~PnRvtyqsLiarYc~~gdieaa---tif~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk--------   79 (1088)
T KOG4318|consen   11 NFLALHEISGILPNRVTYQSLIARYCTKGDIEAA---TIFPFMEIKSLPVREGVFRGLVASHKEANDAENPK--------   79 (1088)
T ss_pred             hHHHHHHHhcCCCchhhHHHHHHHHcccCCCccc---cchhhhhcccccccchhHHHHHhcccccccccCCC--------
Confidence            3556677788889888999998888888888654   27888887777888888888888888888877664        


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH-HCCCCCCHHH
Q 005729          294 VGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEME-RSGVLPDEHT  372 (680)
Q Consensus       294 ~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~g~~~~~~~  372 (680)
                         .|...||..|..+|...|++.. ++..++           ..-.+...+...|.-..-..++..+. ..+.-||..+
T Consensus        80 ---ep~aDtyt~Ll~ayr~hGDli~-fe~veq-----------dLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n  144 (1088)
T KOG4318|consen   80 ---EPLADTYTNLLKAYRIHGDLIL-FEVVEQ-----------DLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAEN  144 (1088)
T ss_pred             ---CCchhHHHHHHHHHHhccchHH-HHHHHH-----------HHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHH
Confidence               5778888999999999988765 222222           11223344555555555555554432 2233444433


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHCCC-CCCHHHHHHHHHHHHhc-CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 005729          373 YSLLIDAYANAGRWESARIVLKEMEVSHA-KPNSFIYSRILAGYRDR-GEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTF  450 (680)
Q Consensus       373 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~-~~~~~~~~~ll~~~~~~-g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~  450 (680)
                         .+......|-|+.+++++..+....- .|..+    .++-+... ..+++-....+...+   .|++.+|..+++.-
T Consensus       145 ---~illlv~eglwaqllkll~~~Pvsa~~~p~~v----fLrqnv~~ntpvekLl~~cksl~e---~~~s~~l~a~l~~a  214 (1088)
T KOG4318|consen  145 ---AILLLVLEGLWAQLLKLLAKVPVSAWNAPFQV----FLRQNVVDNTPVEKLLNMCKSLVE---APTSETLHAVLKRA  214 (1088)
T ss_pred             ---HHHHHHHHHHHHHHHHHHhhCCcccccchHHH----HHHHhccCCchHHHHHHHHHHhhc---CCChHHHHHHHHHH
Confidence               45556677888888888766643211 11111    23333222 223333333333332   69999999999999


Q ss_pred             HccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 005729          451 GKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQER  525 (680)
Q Consensus       451 ~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~  525 (680)
                      .-.|+++.|..++.+|.+.|++.+..-|-.|+-+   .++..-+..+...|.+.|+.|+..|+...+..+..+|.
T Consensus       215 laag~~d~Ak~ll~emke~gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~  286 (1088)
T KOG4318|consen  215 LAAGDVDGAKNLLYEMKEKGFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQ  286 (1088)
T ss_pred             HhcCchhhHHHHHHHHHHcCCCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchh
Confidence            9999999999999999999999888888888766   78888899999999999999999999988888887655

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

Probab=99.34  E-value=7.2e-10  Score=113.94  Aligned_cols=264  Identities=9%  Similarity=0.044  Sum_probs=141.1

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCChHHHHHHH-HHHHHcCCCCCHHHHHHHH
Q 005729          266 QLLNDVIVGFAKAGDASKAMRFLGMAQGVG--LSPKTATYAAVITALSNSGRTIEAEAVF-EELKESGLKPRTKAYNALL  342 (680)
Q Consensus       266 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~g--~~p~~~~~~~li~~~~~~g~~~~A~~l~-~~m~~~g~~p~~~~~~~li  342 (680)
                      .+...+..+|...+++++|.++|+.+.+..  ...+...|.+.+.-+-+.    -++..+ +.+.+. -+-...+|.++.
T Consensus       354 wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~----v~Ls~Laq~Li~~-~~~sPesWca~G  428 (638)
T KOG1126|consen  354 WVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDE----VALSYLAQDLIDT-DPNSPESWCALG  428 (638)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhh----HHHHHHHHHHHhh-CCCCcHHHHHhc
Confidence            455555566666666666666666665432  012344454444332111    111111 222222 123445666666


Q ss_pred             HHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHH
Q 005729          343 KGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQ  422 (680)
Q Consensus       343 ~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~  422 (680)
                      ++|.-+++.+.|++.|++..+.+. ....+|+.+.+-+.....+|.|...|+....... .+-..|-.+.-.|.+.++++
T Consensus       429 NcfSLQkdh~~Aik~f~RAiQldp-~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~~-rhYnAwYGlG~vy~Kqek~e  506 (638)
T KOG1126|consen  429 NCFSLQKDHDTAIKCFKRAIQLDP-RFAYAYTLLGHESIATEEFDKAMKSFRKALGVDP-RHYNAWYGLGTVYLKQEKLE  506 (638)
T ss_pred             chhhhhhHHHHHHHHHHHhhccCC-ccchhhhhcCChhhhhHHHHhHHHHHHhhhcCCc-hhhHHHHhhhhheeccchhh
Confidence            666666666666666666665431 1456666666666666666666666665543211 12223344555566666666


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHH
Q 005729          423 RTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQ  502 (680)
Q Consensus       423 ~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  502 (680)
                      .|+-.|.+..+.+ +.+.+....+...+-+.|+.++|+.++++..... +.|+..--..+..+...+++++|+..++++.
T Consensus       507 ~Ae~~fqkA~~IN-P~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld-~kn~l~~~~~~~il~~~~~~~eal~~LEeLk  584 (638)
T KOG1126|consen  507 FAEFHFQKAVEIN-PSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLD-PKNPLCKYHRASILFSLGRYVEALQELEELK  584 (638)
T ss_pred             HHHHHHHhhhcCC-ccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcC-CCCchhHHHHHHHHHhhcchHHHHHHHHHHH
Confidence            6666666665554 4445555555556666666666666666665544 2233333344445555666666666666665


Q ss_pred             HCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 005729          503 ERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQ  539 (680)
Q Consensus       503 ~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~  539 (680)
                      +.- +-+...|..+...|.+.|+.+.|+.-|.-+.+.
T Consensus       585 ~~v-P~es~v~~llgki~k~~~~~~~Al~~f~~A~~l  620 (638)
T KOG1126|consen  585 ELV-PQESSVFALLGKIYKRLGNTDLALLHFSWALDL  620 (638)
T ss_pred             HhC-cchHHHHHHHHHHHHHHccchHHHHhhHHHhcC
Confidence            542 333445555556666666666666666655554

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

Probab=99.33  E-value=5.1e-09  Score=110.50  Aligned_cols=64  Identities=16%  Similarity=0.127  Sum_probs=51.5

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHC--CCCCCHHHHHHHHHHHHhcCCcCcHHHHHHHHHHc
Q 005729          592 LALNSLINAFGEDQRDAEAFAVLQYMKEN--GLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMILS  655 (680)
Q Consensus       592 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~--g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  655 (680)
                      ..|..||+-+..+.+.+.|..+.++....  .+..|..-+..+.+.+.+.+....+..+++++.+.
T Consensus       492 g~ya~Li~l~~~hdkle~Al~~~~e~d~~d~s~~Ld~~~m~~l~dLL~r~~~l~dl~tiL~e~ks~  557 (1088)
T KOG4318|consen  492 GLYALLIKLMDLHDKLEYALSFVDEIDTRDESIHLDLPLMTSLQDLLQRLAILYDLSTILYEDKSS  557 (1088)
T ss_pred             hHHHHHhhhHHHHHHHHHHHhchhhhcccchhhhcccHhHHHHHHHHHHhHHHHHHHHHHhhhhHH
Confidence            35788889899999999999988887642  23446667888889999999999999999998864

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.28  E-value=1.7e-07  Score=90.99  Aligned_cols=249  Identities=14%  Similarity=0.155  Sum_probs=162.5

Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 005729          401 AKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDT-HFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWN  479 (680)
Q Consensus       401 ~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~  479 (680)
                      ++-|......+.+.+...|+.++|...|++....+  |+. .......-.+.+.|+.+....+...+.... +-+...|-
T Consensus       228 lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~d--py~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wf  304 (564)
T KOG1174|consen  228 LRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCAN--PDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWF  304 (564)
T ss_pred             CCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCC--hhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhh
Confidence            44556666777777777777777777777765432  221 111112222345566666666666555432 12333444


Q ss_pred             HHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhc
Q 005729          480 TLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLP-NVVTYTTLVDIYGQS  558 (680)
Q Consensus       480 ~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p-~~~~~~~li~~~~~~  558 (680)
                      .-.......++++.|+.+-++.++.+ +-+...|-.-...+...|+.++|.-.|+..+..  .| +...|..|+..|...
T Consensus       305 V~~~~l~~~K~~~rAL~~~eK~I~~~-~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~L--ap~rL~~Y~GL~hsYLA~  381 (564)
T KOG1174|consen  305 VHAQLLYDEKKFERALNFVEKCIDSE-PRNHEALILKGRLLIALERHTQAVIAFRTAQML--APYRLEIYRGLFHSYLAQ  381 (564)
T ss_pred             hhhhhhhhhhhHHHHHHHHHHHhccC-cccchHHHhccHHHHhccchHHHHHHHHHHHhc--chhhHHHHHHHHHHHHhh
Confidence            44444555667777777777666554 334455555555666777777777777766653  33 566777777777777


Q ss_pred             CChHHHHHHHh-------------------------hhHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHhcCCHHHHHH
Q 005729          559 GRFDDAIECLE-------------------------GLSDQAVNAFRVMRTDGLKPSNL-ALNSLINAFGEDQRDAEAFA  612 (680)
Q Consensus       559 g~~~~A~~~~~-------------------------~~~~~a~~~~~~m~~~g~~p~~~-~~~~li~~~~~~g~~~~A~~  612 (680)
                      |++.+|.-.-+                         ..-++|.+++++-.+  +.|+.. ..+.+...|...|+.++++.
T Consensus       382 ~~~kEA~~~An~~~~~~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~--~~P~Y~~AV~~~AEL~~~Eg~~~D~i~  459 (564)
T KOG1174|consen  382 KRFKEANALANWTIRLFQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLK--INPIYTPAVNLIAELCQVEGPTKDIIK  459 (564)
T ss_pred             chHHHHHHHHHHHHHHhhcchhhhhhhcceeeccCchhHHHHHHHHHhhhc--cCCccHHHHHHHHHHHHhhCccchHHH
Confidence            77776654332                         223455555554443  567654 67788888999999999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHhcCCcCcHHHHHHHHHHcCCCCCH
Q 005729          613 VLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPDR  661 (680)
Q Consensus       613 ~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd~  661 (680)
                      +++....  ..||....+.|.+.+...+.+.+|.+.|...++.  .|..
T Consensus       460 LLe~~L~--~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~--dP~~  504 (564)
T KOG1174|consen  460 LLEKHLI--IFPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQ--DPKS  504 (564)
T ss_pred             HHHHHHh--hccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhc--Cccc
Confidence            9999988  6899999999999999999999999999999874  4444

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=99.25  E-value=5e-07  Score=92.94  Aligned_cols=434  Identities=13%  Similarity=0.113  Sum_probs=278.5

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCCChHHHHHHHHHHHhCCCCcCHHHHHHHHH
Q 005729          194 LTYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIV  273 (680)
Q Consensus       194 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~~~li~  273 (680)
                      ..|..++..| ..+++.+.+.+.+...+. ..-...|....--.++..|+.+++  ......-.. +-..+.++|..+.-
T Consensus         9 ~lF~~~lk~y-E~kQYkkgLK~~~~iL~k-~~eHgeslAmkGL~L~~lg~~~ea--~~~vr~glr-~d~~S~vCwHv~gl   83 (700)
T KOG1156|consen    9 ALFRRALKCY-ETKQYKKGLKLIKQILKK-FPEHGESLAMKGLTLNCLGKKEEA--YELVRLGLR-NDLKSHVCWHVLGL   83 (700)
T ss_pred             HHHHHHHHHH-HHHHHHhHHHHHHHHHHh-CCccchhHHhccchhhcccchHHH--HHHHHHHhc-cCcccchhHHHHHH
Confidence            3445555544 567888888888887763 222223332222234455555433  232222222 23446688998888


Q ss_pred             HHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHH
Q 005729          274 GFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKD  353 (680)
Q Consensus       274 ~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~  353 (680)
                      .+....++++|++.|......+ +-|...|.-+--.-++.|+++........+.+.. +.....|..+..++.-.|+...
T Consensus        84 ~~R~dK~Y~eaiKcy~nAl~~~-~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~-~~~ra~w~~~Avs~~L~g~y~~  161 (700)
T KOG1156|consen   84 LQRSDKKYDEAIKCYRNALKIE-KDNLQILRDLSLLQIQMRDYEGYLETRNQLLQLR-PSQRASWIGFAVAQHLLGEYKM  161 (700)
T ss_pred             HHhhhhhHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhh-hhhHHHHHHHHHHHHHHHHHHH
Confidence            8888899999999999998864 4456777777777788888888888888877653 3355678888888889999999


Q ss_pred             HHHHHHHHHHCC-CCCCHHHHHHHH------HHHHHcCCHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHhcCCHHHHH
Q 005729          354 AEFVVSEMERSG-VLPDEHTYSLLI------DAYANAGRWESARIVLKEMEVSHAKPNSF-IYSRILAGYRDRGEWQRTF  425 (680)
Q Consensus       354 A~~~~~~m~~~g-~~~~~~~~~~li------~~~~~~g~~~~A~~~~~~m~~~~~~~~~~-~~~~ll~~~~~~g~~~~A~  425 (680)
                      |..++++..+.. -.|+...+.-..      ....+.|..++|++.+..-...  ..|.. .-..-...+.+.++.++|.
T Consensus       162 A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~--i~Dkla~~e~ka~l~~kl~~lEeA~  239 (700)
T KOG1156|consen  162 ALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQ--IVDKLAFEETKADLLMKLGQLEEAV  239 (700)
T ss_pred             HHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhH--HHHHHHHhhhHHHHHHHHhhHHhHH
Confidence            999999988654 245655554332      3455678888888877665432  12322 2334556788999999999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHH-HHHHHccCCHHHHH-HHHHHHHHCCCCCCHHHHHHH-HHHHHHcCChhHHHHHHHHHH
Q 005729          426 QVLKEMKSSGVEPDTHFYNVM-IDTFGKYNCLHHAM-AAFDRMLSEGIEPDTITWNTL-IDCHFKCGRYDRAEELFEEMQ  502 (680)
Q Consensus       426 ~l~~~m~~~~~~p~~~~~~~l-i~~~~~~g~~~~A~-~~~~~m~~~~~~~~~~~~~~l-i~~~~~~g~~~~A~~~~~~m~  502 (680)
                      .++..+...  .||..-|... ..++.+..+.-++. .+|....+.-  |....-..+ +.......-.+..-+++..+.
T Consensus       240 ~~y~~Ll~r--nPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y--~r~e~p~Rlplsvl~~eel~~~vdkyL~~~l  315 (700)
T KOG1156|consen  240 KVYRRLLER--NPDNLDYYEGLEKALGKIKDMLEALKALYAILSEKY--PRHECPRRLPLSVLNGEELKEIVDKYLRPLL  315 (700)
T ss_pred             HHHHHHHhh--CchhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcC--cccccchhccHHHhCcchhHHHHHHHHHHHh
Confidence            999999887  4666555544 44554333333444 6666665431  111111111 111111222344556777788


Q ss_pred             HCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC--CC------------CCCHH--HHHHHHHHHHhcCChHHHHH
Q 005729          503 ERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQ--GL------------LPNVV--TYTTLVDIYGQSGRFDDAIE  566 (680)
Q Consensus       503 ~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~--~~------------~p~~~--~~~~li~~~~~~g~~~~A~~  566 (680)
                      ++|+++   ++..+...|-.-...+-..++...+...  |-            +|...  ++-.++..|-+.|+++.|..
T Consensus       316 ~Kg~p~---vf~dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt~y~laqh~D~~g~~~~A~~  392 (700)
T KOG1156|consen  316 SKGVPS---VFKDLRSLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTLYFLAQHYDKLGDYEVALE  392 (700)
T ss_pred             hcCCCc---hhhhhHHHHhchhHhHHHHHHHHHHHhhcccccCCCcccccccCCchHHHHHHHHHHHHHHHcccHHHHHH
Confidence            888654   3444444443333333223333333221  11            34433  44567788999999999998


Q ss_pred             HHhhhHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCcCcH
Q 005729          567 CLEGLSDQAVNAFRVMRTDGLKPSNL-ALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALIRVDKFHKV  645 (680)
Q Consensus       567 ~~~~~~~~a~~~~~~m~~~g~~p~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A  645 (680)
                      .+++.++             ..|+.+ -|..-.+.+.+.|++++|..++++..+.. .+|..+-..-+.-..++.+.++|
T Consensus       393 yId~AId-------------HTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD-~aDR~INsKcAKYmLrAn~i~eA  458 (700)
T KOG1156|consen  393 YIDLAID-------------HTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELD-TADRAINSKCAKYMLRANEIEEA  458 (700)
T ss_pred             HHHHHhc-------------cCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhcc-chhHHHHHHHHHHHHHccccHHH
Confidence            8764332             467765 77777889999999999999999999864 45666655777778899999999


Q ss_pred             HHHHHHHHHcCC
Q 005729          646 PAVYEEMILSGC  657 (680)
Q Consensus       646 ~~~~~~m~~~g~  657 (680)
                      .++.....+.|.
T Consensus       459 ~~~~skFTr~~~  470 (700)
T KOG1156|consen  459 EEVLSKFTREGF  470 (700)
T ss_pred             HHHHHHhhhccc
Confidence            999998888774

>PF13041 PPR_2: PPR repeat family

Probab=99.25  E-value=1.6e-11  Score=85.85  Aligned_cols=50  Identities=32%  Similarity=0.567  Sum_probs=48.3

Q ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHh
Q 005729          191 LTPLTYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTR  240 (680)
Q Consensus       191 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~  240 (680)
                      ||.++||++|++|++.|++++|+++|++|.+.|+.||..||+.+|++||+
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            68999999999999999999999999999999999999999999999875

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.24  E-value=9.8e-09  Score=106.81  Aligned_cols=244  Identities=20%  Similarity=0.271  Sum_probs=166.0

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHC-----C-CCCCHH-HHHHHHHHHHccCCHHHHHHHHHHHHHC-----CC--
Q 005729          406 FIYSRILAGYRDRGEWQRTFQVLKEMKSS-----G-VEPDTH-FYNVMIDTFGKYNCLHHAMAAFDRMLSE-----GI--  471 (680)
Q Consensus       406 ~~~~~ll~~~~~~g~~~~A~~l~~~m~~~-----~-~~p~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~-----~~--  471 (680)
                      .+...+...|...|+++.|..+++...+.     | ..|... ..+.+...|...+.+++|..+|+++...     |-  
T Consensus       200 ~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h  279 (508)
T KOG1840|consen  200 RTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDH  279 (508)
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCC
Confidence            34444666666666666666666654432     1 122222 2234667778888888888888877642     21  


Q ss_pred             CCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHC-----CC-CCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHHC---CC
Q 005729          472 EPDTITWNTLIDCHFKCGRYDRAEELFEEMQER-----GY-FPCT-TTYNIMINLLGEQERWEDVKRLLGNMRAQ---GL  541 (680)
Q Consensus       472 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-----~~-~p~~-~t~~~li~~~~~~g~~~~A~~~~~~m~~~---~~  541 (680)
                      +.-..+++.|...|++.|++++|..++++..+-     |. .|.+ ..++.+...|+..+++++|..++.+..+.   -+
T Consensus       280 ~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~  359 (508)
T KOG1840|consen  280 PAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAP  359 (508)
T ss_pred             HHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhc
Confidence            112346777888899999999988888776532     21 2222 23556677788899999999999877653   12


Q ss_pred             CCC----HHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 005729          542 LPN----VVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYM  617 (680)
Q Consensus       542 ~p~----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  617 (680)
                      .++    ..+++.|...|.+.|++++|.++++.    |+...+........-....++.|...|.+.+++.+|.++|.+.
T Consensus       360 g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~----ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~  435 (508)
T KOG1840|consen  360 GEDNVNLAKIYANLAELYLKMGKYKEAEELYKK----AIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEA  435 (508)
T ss_pred             cccchHHHHHHHHHHHHHHHhcchhHHHHHHHH----HHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHH
Confidence            222    46899999999999999999988873    3333333322212222347889999999999999999998876


Q ss_pred             HH----CCC-CCC-HHHHHHHHHHHHhcCCcCcHHHHHHHHH
Q 005729          618 KE----NGL-KPD-VVTYTTLMKALIRVDKFHKVPAVYEEMI  653 (680)
Q Consensus       618 ~~----~g~-~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~m~  653 (680)
                      ..    .|. .|+ ..+|..|...|.+.|+++.|.++.+...
T Consensus       436 ~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  436 KDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             HHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            53    332 233 3588899999999999999999988877

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.23  E-value=1.3e-08  Score=98.30  Aligned_cols=61  Identities=20%  Similarity=0.216  Sum_probs=24.4

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 005729          266 QLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELK  327 (680)
Q Consensus       266 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~  327 (680)
                      ..+..+...|...|++++|.+.+++..+.. +.+...+..+...+...|++++|.+.+++..
T Consensus        32 ~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al   92 (234)
T TIGR02521        32 KIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRAL   92 (234)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            334444444444444444444444443321 1122333333344444444444444444433

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.

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=99.22  E-value=1.1e-06  Score=90.59  Aligned_cols=454  Identities=13%  Similarity=0.086  Sum_probs=271.9

Q ss_pred             CCCChHHHHHHHHHHHHCCCCCchHHHHHHHHHHhcccCCHHHHHHh----hCCCCCCHHHHHHHHHHHHHcCCHHHHHH
Q 005729          139 SNSSIDLAYAVVSWLQKHNLCYSYELLYSILIHALGRSEKLYEAFLL----SQRQRLTPLTYNALISACARNDDLEKALN  214 (680)
Q Consensus       139 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~----~~~~~~~~~~~~~li~~~~~~g~~~~A~~  214 (680)
                      ..+.+..++.+...+++..  +....+.....-.+...|+-++|...    ......+.+.|..+.-.+...+++++|+.
T Consensus        19 E~kQYkkgLK~~~~iL~k~--~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d~~S~vCwHv~gl~~R~dK~Y~eaiK   96 (700)
T KOG1156|consen   19 ETKQYKKGLKLIKQILKKF--PEHGESLAMKGLTLNCLGKKEEAYELVRLGLRNDLKSHVCWHVLGLLQRSDKKYDEAIK   96 (700)
T ss_pred             HHHHHHhHHHHHHHHHHhC--CccchhHHhccchhhcccchHHHHHHHHHHhccCcccchhHHHHHHHHhhhhhHHHHHH
Confidence            4455556666666666632  44456677777778888999999776    55666778999999999999999999999


Q ss_pred             HHHHHHHcCCCCChhhHHHHHHHHHhcCCCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC
Q 005729          215 LMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGV  294 (680)
Q Consensus       215 ~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  294 (680)
                      .|+.....+ +-|...+.-+--.-...+++....  ..-....+ -.+.....|..++.++.-.|+...|..+.+...+.
T Consensus        97 cy~nAl~~~-~dN~qilrDlslLQ~QmRd~~~~~--~tr~~LLq-l~~~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t  172 (700)
T KOG1156|consen   97 CYRNALKIE-KDNLQILRDLSLLQIQMRDYEGYL--ETRNQLLQ-LRPSQRASWIGFAVAQHLLGEYKMALEILEEFEKT  172 (700)
T ss_pred             HHHHHHhcC-CCcHHHHHHHHHHHHHHHhhhhHH--HHHHHHHH-hhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            999999875 233344433322223334332111  11111111 11335567888888888999999999999888765


Q ss_pred             C-CCCCHHHHHHH------HHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC
Q 005729          295 G-LSPKTATYAAV------ITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVL  367 (680)
Q Consensus       295 g-~~p~~~~~~~l------i~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~  367 (680)
                      . -.|+...|.-.      .....+.|..++|.+.+..-... +......-..-...+.+.+++++|..++..++..  .
T Consensus       173 ~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~-i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~r--n  249 (700)
T KOG1156|consen  173 QNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQ-IVDKLAFEETKADLLMKLGQLEEAVKVYRRLLER--N  249 (700)
T ss_pred             hccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhH-HHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhh--C
Confidence            4 24565554433      24556778888888877665432 2112222344556788999999999999999987  4


Q ss_pred             CCHHHHHHHH-HHHHHcCCHHHHH-HHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH-HHHHHHHHHHHHCCCCCCHHHHH
Q 005729          368 PDEHTYSLLI-DAYANAGRWESAR-IVLKEMEVSHAKPNSFIYSRILAGYRDRGEW-QRTFQVLKEMKSSGVEPDTHFYN  444 (680)
Q Consensus       368 ~~~~~~~~li-~~~~~~g~~~~A~-~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~-~~A~~l~~~m~~~~~~p~~~~~~  444 (680)
                      ||..-|.... .++.+-.+.-++. .+|....+.-  |.......+-........+ +..-.++..+.+.|+++-.   .
T Consensus       250 Pdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y--~r~e~p~Rlplsvl~~eel~~~vdkyL~~~l~Kg~p~vf---~  324 (700)
T KOG1156|consen  250 PDNLDYYEGLEKALGKIKDMLEALKALYAILSEKY--PRHECPRRLPLSVLNGEELKEIVDKYLRPLLSKGVPSVF---K  324 (700)
T ss_pred             chhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcC--cccccchhccHHHhCcchhHHHHHHHHHHHhhcCCCchh---h
Confidence            6666665554 4443344444444 6666655431  1111111111111111222 3334566667777865532   3


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHH----HCC----------CCCCHHHHH--HHHHHHHHcCChhHHHHHHHHHHHCCCCC
Q 005729          445 VMIDTFGKYNCLHHAMAAFDRML----SEG----------IEPDTITWN--TLIDCHFKCGRYDRAEELFEEMQERGYFP  508 (680)
Q Consensus       445 ~li~~~~~~g~~~~A~~~~~~m~----~~~----------~~~~~~~~~--~li~~~~~~g~~~~A~~~~~~m~~~~~~p  508 (680)
                      .+...|-.-...+-..++.-.+.    ..|          -+|....|.  -++..|-+.|+++.|..+++...++  .|
T Consensus       325 dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt~y~laqh~D~~g~~~~A~~yId~AIdH--TP  402 (700)
T KOG1156|consen  325 DLRSLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAIDH--TP  402 (700)
T ss_pred             hhHHHHhchhHhHHHHHHHHHHHhhcccccCCCcccccccCCchHHHHHHHHHHHHHHHcccHHHHHHHHHHHhcc--Cc
Confidence            33333322111111111111111    111          145555554  4677888999999999999999887  35


Q ss_pred             CH-HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHhhhHH---HHHHHHHHHHH
Q 005729          509 CT-TTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSD---QAVNAFRVMRT  584 (680)
Q Consensus       509 ~~-~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~a~~~~~~m~~  584 (680)
                      +. ..|..-.+.+...|+.++|..++++..+.+ .+|...-.--+.-..++.+.++|.++......   .|..-+..|. 
T Consensus       403 TliEly~~KaRI~kH~G~l~eAa~~l~ea~elD-~aDR~INsKcAKYmLrAn~i~eA~~~~skFTr~~~~~~~~L~~mq-  480 (700)
T KOG1156|consen  403 TLIELYLVKARIFKHAGLLDEAAAWLDEAQELD-TADRAINSKCAKYMLRANEIEEAEEVLSKFTREGFGAVNNLAEMQ-  480 (700)
T ss_pred             hHHHHHHHHHHHHHhcCChHHHHHHHHHHHhcc-chhHHHHHHHHHHHHHccccHHHHHHHHHhhhcccchhhhHHHhh-
Confidence            43 445566688899999999999999998864 34666555667777788888888877542221   1122222222 


Q ss_pred             CCCCCCHHHHHHH--HHHHHhcCCHHHHHHHHHHH
Q 005729          585 DGLKPSNLALNSL--INAFGEDQRDAEAFAVLQYM  617 (680)
Q Consensus       585 ~g~~p~~~~~~~l--i~~~~~~g~~~~A~~~~~~m  617 (680)
                             -+|-.+  ..+|.+.|++.+|++=|...
T Consensus       481 -------cmWf~~E~g~ay~r~~k~g~ALKkfh~i  508 (700)
T KOG1156|consen  481 -------CMWFQLEDGEAYLRQNKLGLALKKFHEI  508 (700)
T ss_pred             -------hHHHhHhhhHHHHHHHHHHHHHHHHhhH
Confidence                   123222  35567777777776655544

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.21  E-value=1.7e-08  Score=97.46  Aligned_cols=199  Identities=14%  Similarity=0.052  Sum_probs=89.2

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 005729          301 ATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAY  380 (680)
Q Consensus       301 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~  380 (680)
                      ..+..+...+...|++++|.+.+++..+.. +.+...+..+...+...|++++|.+.+++..+.. +.+...+..+...|
T Consensus        32 ~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~  109 (234)
T TIGR02521        32 KIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTFL  109 (234)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHH
Confidence            344445555555555555555555554432 2233444444555555555555555555544432 11333444444444


Q ss_pred             HHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHH
Q 005729          381 ANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAM  460 (680)
Q Consensus       381 ~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~  460 (680)
                      ...|++++|.+.+++.......                                  ......+..+...+...|++++|.
T Consensus       110 ~~~g~~~~A~~~~~~~~~~~~~----------------------------------~~~~~~~~~l~~~~~~~g~~~~A~  155 (234)
T TIGR02521       110 CQQGKYEQAMQQFEQAIEDPLY----------------------------------PQPARSLENAGLCALKAGDFDKAE  155 (234)
T ss_pred             HHcccHHHHHHHHHHHHhcccc----------------------------------ccchHHHHHHHHHHHHcCCHHHHH
Confidence            4455555555544444432110                                  111223333344444444444444


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 005729          461 AAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMR  537 (680)
Q Consensus       461 ~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~  537 (680)
                      ..+.+..+.. +.+...+..+...+...|++++|..++++..+.. +.+...+..+...+...|+.++|..+.+.+.
T Consensus       156 ~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~  230 (234)
T TIGR02521       156 KYLTRALQID-PQRPESLLELAELYYLRGQYKDARAYLERYQQTY-NQTAESLWLGIRIARALGDVAAAQRYGAQLQ  230 (234)
T ss_pred             HHHHHHHHhC-cCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            4444444332 1123344444445555555555555555544431 2333444444444444555555555444443

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.

>PRK12370 invasion protein regulator; Provisional

Probab=99.21  E-value=1.2e-08  Score=111.40  Aligned_cols=216  Identities=13%  Similarity=0.023  Sum_probs=127.4

Q ss_pred             CHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHH---------hcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcC
Q 005729          280 DASKAMRFLGMAQGVGLSPK-TATYAAVITALS---------NSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMG  349 (680)
Q Consensus       280 ~~~~A~~~~~~~~~~g~~p~-~~~~~~li~~~~---------~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g  349 (680)
                      +.++|++.|++..+.  .|+ ...|..+..++.         ..+++++|...+++..+.+ +.+...+..+...+...|
T Consensus       276 ~~~~A~~~~~~Al~l--dP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ld-P~~~~a~~~lg~~~~~~g  352 (553)
T PRK12370        276 SLQQALKLLTQCVNM--SPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELD-HNNPQALGLLGLINTIHS  352 (553)
T ss_pred             HHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcc
Confidence            356777777777664  343 334444444333         2234667777777777654 335666666666777777


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 005729          350 YLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLK  429 (680)
Q Consensus       350 ~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~  429 (680)
                      ++++|...+++..+.+ +.+...+..+...|...|++++|+..+++..+.++. +...+..++..+...|++++|...++
T Consensus       353 ~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~-~~~~~~~~~~~~~~~g~~eeA~~~~~  430 (553)
T PRK12370        353 EYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTINECLKLDPT-RAAAGITKLWITYYHTGIDDAIRLGD  430 (553)
T ss_pred             CHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-ChhhHHHHHHHHHhccCHHHHHHHHH
Confidence            7777777777777664 224556666777777777777777777777665433 22222233334555677777777777


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHH
Q 005729          430 EMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQE  503 (680)
Q Consensus       430 ~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  503 (680)
                      ++.+...+-+...+..+..++...|+.++|...+.++.... +.+....+.+...|+..|  ++|...++.+.+
T Consensus       431 ~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~  501 (553)
T PRK12370        431 ELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQE-ITGLIAVNLLYAEYCQNS--ERALPTIREFLE  501 (553)
T ss_pred             HHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhcc-chhHHHHHHHHHHHhccH--HHHHHHHHHHHH
Confidence            76554312234445566666667777777777776665432 122333444555555555  366666655543

>PRK12370 invasion protein regulator; Provisional

Probab=99.20  E-value=2.9e-08  Score=108.41  Aligned_cols=234  Identities=10%  Similarity=0.022  Sum_probs=170.5

Q ss_pred             CHHHHHHHHHHHHh-----cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH---------cCCHHHHHHHHHHHHHC
Q 005729          299 KTATYAAVITALSN-----SGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVK---------MGYLKDAEFVVSEMERS  364 (680)
Q Consensus       299 ~~~~~~~li~~~~~-----~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~---------~g~~~~A~~~~~~m~~~  364 (680)
                      +...|...+.+...     .+..++|.++|++..+.. +-+...|..+..++..         .+++++|...+++..+.
T Consensus       255 ~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~ld-P~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~l  333 (553)
T PRK12370        255 SIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVNMS-PNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATEL  333 (553)
T ss_pred             ChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhc
Confidence            44555555555322     234678999999998763 2245566666555442         24478999999999987


Q ss_pred             CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 005729          365 GVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYN  444 (680)
Q Consensus       365 g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~  444 (680)
                      +. -+...+..+...+...|++++|...|++..+.+ +.+...+..+...+...|++++|...+++..+.. +.+...+.
T Consensus       334 dP-~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~-P~~~~~~~  410 (553)
T PRK12370        334 DH-NNPQALGLLGLINTIHSEYIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTINECLKLD-PTRAAAGI  410 (553)
T ss_pred             CC-CCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCChhhHH
Confidence            53 378888889899999999999999999998875 3456678888899999999999999999998874 22333344


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC
Q 005729          445 VMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQE  524 (680)
Q Consensus       445 ~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g  524 (680)
                      .++..+...|++++|...+.++.+...+-+...+..+..+|...|+.++|...+.++.... +.+....+.+...++..|
T Consensus       411 ~~~~~~~~~g~~eeA~~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g  489 (553)
T PRK12370        411 TKLWITYYHTGIDDAIRLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQE-ITGLIAVNLLYAEYCQNS  489 (553)
T ss_pred             HHHHHHHhccCHHHHHHHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhcc-chhHHHHHHHHHHHhccH
Confidence            4455566788999999999998765423345567778888899999999999999876652 233444555666667777


Q ss_pred             CHHHHHHHHHHHHHC
Q 005729          525 RWEDVKRLLGNMRAQ  539 (680)
Q Consensus       525 ~~~~A~~~~~~m~~~  539 (680)
                        ++|...++.+.+.
T Consensus       490 --~~a~~~l~~ll~~  502 (553)
T PRK12370        490 --ERALPTIREFLES  502 (553)
T ss_pred             --HHHHHHHHHHHHH
Confidence              4788877777654

>PF13041 PPR_2: PPR repeat family

Probab=99.19  E-value=4.9e-11  Score=83.34  Aligned_cols=49  Identities=35%  Similarity=0.689  Sum_probs=22.5

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 005729          298 PKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYV  346 (680)
Q Consensus       298 p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~  346 (680)
                      ||+.+||++|++|++.|++++|.++|++|.+.|+.||..||+.+|++|+
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~   49 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLC   49 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHc
Confidence            3444444444444444444444444444444444444444444444443

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.18  E-value=2.1e-06  Score=87.54  Aligned_cols=449  Identities=16%  Similarity=0.109  Sum_probs=239.3

Q ss_pred             HHHHhcccCCHHHHHHh----hCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHH--hcC
Q 005729          169 LIHALGRSEKLYEAFLL----SQRQRLTPLTYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLT--RTN  242 (680)
Q Consensus       169 li~~~~~~g~~~~A~~~----~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~--~~g  242 (680)
                      =++.+.+.|.+++|...    ....+.+...+..=+-++++.++|++|+.+.+.=... ...+.+.   +=++||  +.+
T Consensus        18 ~ln~~~~~~e~e~a~k~~~Kil~~~pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~-~~~~~~~---fEKAYc~Yrln   93 (652)
T KOG2376|consen   18 DLNRHGKNGEYEEAVKTANKILSIVPDDEDAIRCKVVALIQLDKYEDALKLIKKNGAL-LVINSFF---FEKAYCEYRLN   93 (652)
T ss_pred             HHHHhccchHHHHHHHHHHHHHhcCCCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchh-hhcchhh---HHHHHHHHHcc
Confidence            35778888888888765    4555667778888888888888899888665442211 0011111   234444  344


Q ss_pred             CCChHHHHHHHHHHHhCCCCc-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCChHHHH
Q 005729          243 KIDSSLLQKLYKEIECDKIEL-DGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSP-KTATYAAVITALSNSGRTIEAE  320 (680)
Q Consensus       243 ~~~~~~~~~l~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p-~~~~~~~li~~~~~~g~~~~A~  320 (680)
                      +.+.++  ..+.     |..+ |..+...-...+.+.|++++|+++|+.+.+.+..- +..--..++.+-.       +.
T Consensus        94 k~Deal--k~~~-----~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a-------~l  159 (652)
T KOG2376|consen   94 KLDEAL--KTLK-----GLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAA-------AL  159 (652)
T ss_pred             cHHHHH--HHHh-----cccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHH-------hh
Confidence            443322  2222     2222 33355555566677777777777777776654221 1111111111100       01


Q ss_pred             HHHHHHHHcCCCCCHHHHHHH---HHHHHHcCCHHHHHHHHHHHHHCC-------CCCCHH-------HHHHHHHHHHHc
Q 005729          321 AVFEELKESGLKPRTKAYNAL---LKGYVKMGYLKDAEFVVSEMERSG-------VLPDEH-------TYSLLIDAYANA  383 (680)
Q Consensus       321 ~l~~~m~~~g~~p~~~~~~~l---i~~~~~~g~~~~A~~~~~~m~~~g-------~~~~~~-------~~~~li~~~~~~  383 (680)
                      .. +.+......| ..+|..+   ...+...|++.+|+++++...+.+       -.-+..       .-.-|...+-..
T Consensus       160 ~~-~~~q~v~~v~-e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~  237 (652)
T KOG2376|consen  160 QV-QLLQSVPEVP-EDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQ  237 (652)
T ss_pred             hH-HHHHhccCCC-cchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHh
Confidence            11 0122222222 2233333   334556778888888887773211       011111       112344556677


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHhcCCHH-HHHHHHHHHHHC-----------CCCCCHHHHHHHH
Q 005729          384 GRWESARIVLKEMEVSHAKPNS----FIYSRILAGYRDRGEWQ-RTFQVLKEMKSS-----------GVEPDTHFYNVMI  447 (680)
Q Consensus       384 g~~~~A~~~~~~m~~~~~~~~~----~~~~~ll~~~~~~g~~~-~A~~l~~~m~~~-----------~~~p~~~~~~~li  447 (680)
                      |+.++|..+|........ +|.    ..-|.++..-....-++ .++..++.....           .-.-....-+.++
T Consensus       238 Gqt~ea~~iy~~~i~~~~-~D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL  316 (652)
T KOG2376|consen  238 GQTAEASSIYVDIIKRNP-ADEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALL  316 (652)
T ss_pred             cchHHHHHHHHHHHHhcC-CCchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence            888888888877776653 333    22233333222221111 111122211110           0000111112222


Q ss_pred             HHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH--cCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 005729          448 DTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFK--CGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQER  525 (680)
Q Consensus       448 ~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~--~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~  525 (680)
                      ..|.  +..+.+.++-.....  ..|. ..+.+++....+  ...+.+|.+++...-+..-.-.......++......|+
T Consensus       317 ~l~t--nk~~q~r~~~a~lp~--~~p~-~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~~p~~s~~v~L~~aQl~is~gn  391 (652)
T KOG2376|consen  317 ALFT--NKMDQVRELSASLPG--MSPE-SLFPILLQEATKVREKKHKKAIELLLQFADGHPEKSKVVLLLRAQLKISQGN  391 (652)
T ss_pred             HHHh--hhHHHHHHHHHhCCc--cCch-HHHHHHHHHHHHHHHHHHhhhHHHHHHHhccCCchhHHHHHHHHHHHHhcCC
Confidence            2222  223333333332221  1233 334444443332  23477888888877665422224556667778889999


Q ss_pred             HHHHHHHHH--------HHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 005729          526 WEDVKRLLG--------NMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSL  597 (680)
Q Consensus       526 ~~~A~~~~~--------~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l  597 (680)
                      ++.|.+++.        .+.+.+..  +.+-.+++..|.+.++-+.|..++.    +|+..|..-.... .--..+|.-+
T Consensus       392 ~~~A~~il~~~~~~~~ss~~~~~~~--P~~V~aiv~l~~~~~~~~~a~~vl~----~Ai~~~~~~~t~s-~~l~~~~~~a  464 (652)
T KOG2376|consen  392 PEVALEILSLFLESWKSSILEAKHL--PGTVGAIVALYYKIKDNDSASAVLD----SAIKWWRKQQTGS-IALLSLMREA  464 (652)
T ss_pred             HHHHHHHHHHHhhhhhhhhhhhccC--hhHHHHHHHHHHhccCCccHHHHHH----HHHHHHHHhcccc-hHHHhHHHHH
Confidence            999999999        55554444  4566778888889888888887765    6666666544321 1111244445


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCcCcHHHHHHHH
Q 005729          598 INAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEM  652 (680)
Q Consensus       598 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m  652 (680)
                      ...-.+.|+.++|..+++++.+.. ++|..+...++.+|++.. .+.|..+-+.+
T Consensus       465 a~f~lr~G~~~ea~s~leel~k~n-~~d~~~l~~lV~a~~~~d-~eka~~l~k~L  517 (652)
T KOG2376|consen  465 AEFKLRHGNEEEASSLLEELVKFN-PNDTDLLVQLVTAYARLD-PEKAESLSKKL  517 (652)
T ss_pred             hHHHHhcCchHHHHHHHHHHHHhC-CchHHHHHHHHHHHHhcC-HHHHHHHhhcC
Confidence            555567899999999999999853 568889999999998874 56776665543

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

Probab=99.17  E-value=1.2e-05  Score=82.89  Aligned_cols=500  Identities=12%  Similarity=0.127  Sum_probs=265.6

Q ss_pred             CCChHHHHHHHHHHHHCCCCCchHHHHHHHHHHhcccCCHHHHHHh-hCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Q 005729          140 NSSIDLAYAVVSWLQKHNLCYSYELLYSILIHALGRSEKLYEAFLL-SQRQRLTPLTYNALISACARNDDLEKALNLMSK  218 (680)
Q Consensus       140 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~-~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  218 (680)
                      .+.+...+..|..++..=.......+|...+......|-..-+..+ ..-...++..-+--|..++..++.++|-+.+..
T Consensus       115 Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~~P~~~eeyie~L~~~d~~~eaa~~la~  194 (835)
T KOG2047|consen  115 QGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKVAPEAREEYIEYLAKSDRLDEAAQRLAT  194 (835)
T ss_pred             cchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhccchHHHHHHHHH
Confidence            3445555555555443321111223444445555555555445444 222233444566667777788888888887777


Q ss_pred             HHHcC------CCCChhhHHHHHHHHHhcCCCChHH-HHHHHHHHHhCCCCcC--HHHHHHHHHHHHHcCCHHHHHHHHH
Q 005729          219 MRQDG------YHCDFINYSLVIQSLTRTNKIDSSL-LQKLYKEIECDKIELD--GQLLNDVIVGFAKAGDASKAMRFLG  289 (680)
Q Consensus       219 m~~~g------~~p~~~~~~~ll~~~~~~g~~~~~~-~~~l~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~A~~~~~  289 (680)
                      .....      -+.+...|.-+-...++..+....+ ...++..+..+  -+|  ...|++|.+.|.+.|.+++|.++|+
T Consensus       195 vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~r--ftDq~g~Lw~SLAdYYIr~g~~ekarDvye  272 (835)
T KOG2047|consen  195 VLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRR--FTDQLGFLWCSLADYYIRSGLFEKARDVYE  272 (835)
T ss_pred             hcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhccc--CcHHHHHHHHHHHHHHHHhhhhHHHHHHHH
Confidence            64321      1233444544444444433221110 11222222221  233  4689999999999999999999998


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHhc----------------C------ChHHHHHHHHHHHHcCC-----------CCCHH
Q 005729          290 MAQGVGLSPKTATYAAVITALSNS----------------G------RTIEAEAVFEELKESGL-----------KPRTK  336 (680)
Q Consensus       290 ~~~~~g~~p~~~~~~~li~~~~~~----------------g------~~~~A~~l~~~m~~~g~-----------~p~~~  336 (680)
                      +....  .-.+.-|..+.+.|.+-                +      +++-...-|+.+...+.           +-++.
T Consensus       273 eai~~--v~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~rr~~~lNsVlLRQn~~nV~  350 (835)
T KOG2047|consen  273 EAIQT--VMTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFESLMNRRPLLLNSVLLRQNPHNVE  350 (835)
T ss_pred             HHHHh--heehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhccchHHHHHHHhcCCccHH
Confidence            87653  12333344444444321                1      12223334444433220           12233


Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC------CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC---HHH
Q 005729          337 AYNALLKGYVKMGYLKDAEFVVSEMERSGVLP------DEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPN---SFI  407 (680)
Q Consensus       337 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~---~~~  407 (680)
                      .|..-+.  +..|+..+-...+.+..+. +.|      -...|..+...|-..|+++.|..+|++..+...+.-   ..+
T Consensus       351 eW~kRV~--l~e~~~~~~i~tyteAv~~-vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~V~y~~v~dLa~v  427 (835)
T KOG2047|consen  351 EWHKRVK--LYEGNAAEQINTYTEAVKT-VDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKATKVPYKTVEDLAEV  427 (835)
T ss_pred             HHHhhhh--hhcCChHHHHHHHHHHHHc-cCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhcCCccchHHHHHH
Confidence            3333222  2345666777777777653 222      235688889999999999999999999876543322   345


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCC-----------CCC------CHHHHHHHHHHHHccCCHHHHHHHHHHHHHCC
Q 005729          408 YSRILAGYRDRGEWQRTFQVLKEMKSSG-----------VEP------DTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEG  470 (680)
Q Consensus       408 ~~~ll~~~~~~g~~~~A~~l~~~m~~~~-----------~~p------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  470 (680)
                      |..-...-.+..+++.|+++.+.....-           .++      +...|...++.--..|-++....+|+++.+..
T Consensus       428 w~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gtfestk~vYdriidLr  507 (835)
T KOG2047|consen  428 WCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESLGTFESTKAVYDRIIDLR  507 (835)
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHHHHHHh
Confidence            6666666677788899998887764321           111      22344555555566788888889999988765


Q ss_pred             CCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHh---cCCHHHHHHHHHHHHHCCCCCCHH
Q 005729          471 IEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCT-TTYNIMINLLGE---QERWEDVKRLLGNMRAQGLLPNVV  546 (680)
Q Consensus       471 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~-~t~~~li~~~~~---~g~~~~A~~~~~~m~~~~~~p~~~  546 (680)
                      +...... -.....+-.+.-++++.+.+++-+..--.|++ ..|+..+..+.+   ....+.|..+|++.++ |.+|...
T Consensus       508 iaTPqii-~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEraRdLFEqaL~-~Cpp~~a  585 (835)
T KOG2047|consen  508 IATPQII-INYAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLERARDLFEQALD-GCPPEHA  585 (835)
T ss_pred             cCCHHHH-HHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHh-cCCHHHH
Confidence            4322222 12222233455678888888766554334443 345555544432   3457888888888888 5555432


Q ss_pred             --HHHHHHHHHHhcCChHHHHHHHhhhH-----HHHHHHHHHHH-----HCCCCCCHHHHHHH----------------H
Q 005729          547 --TYTTLVDIYGQSGRFDDAIECLEGLS-----DQAVNAFRVMR-----TDGLKPSNLALNSL----------------I  598 (680)
Q Consensus       547 --~~~~li~~~~~~g~~~~A~~~~~~~~-----~~a~~~~~~m~-----~~g~~p~~~~~~~l----------------i  598 (680)
                        .|......=.+.|....|+.+++...     .+-+.+|+-..     ..|+..+...|.-.                .
T Consensus       586 KtiyLlYA~lEEe~GLar~amsiyerat~~v~~a~~l~myni~I~kaae~yGv~~TR~iYekaIe~Lp~~~~r~mclrFA  665 (835)
T KOG2047|consen  586 KTIYLLYAKLEEEHGLARHAMSIYERATSAVKEAQRLDMYNIYIKKAAEIYGVPRTREIYEKAIESLPDSKAREMCLRFA  665 (835)
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhCCcccHHHHHHHHHhCChHHHHHHHHHHH
Confidence              22222222233466666666665211     00111111111     01333333333222                2


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHhcCCcCcHHHHHHHHH
Q 005729          599 NAFGEDQRDAEAFAVLQYMKENGLKP--DVVTYTTLMKALIRVDKFHKVPAVYEEMI  653 (680)
Q Consensus       599 ~~~~~~g~~~~A~~~~~~m~~~g~~p--~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  653 (680)
                      ..-++.|..+.|..++..--+. ..|  +...|.+.=.--.+.|+    .+.+++|+
T Consensus       666 dlEtklGEidRARaIya~~sq~-~dPr~~~~fW~twk~FEvrHGn----edT~keML  717 (835)
T KOG2047|consen  666 DLETKLGEIDRARAIYAHGSQI-CDPRVTTEFWDTWKEFEVRHGN----EDTYKEML  717 (835)
T ss_pred             HHhhhhhhHHHHHHHHHhhhhc-CCCcCChHHHHHHHHHHHhcCC----HHHHHHHH
Confidence            2334567777777776655553 233  44556666555566776    33445554

>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala

Probab=99.17  E-value=1e-06  Score=93.06  Aligned_cols=68  Identities=13%  Similarity=0.058  Sum_probs=50.1

Q ss_pred             HHHhcccCCHHHHHHh---hCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHH
Q 005729          170 IHALGRSEKLYEAFLL---SQRQRLT-PLTYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLT  239 (680)
Q Consensus       170 i~~~~~~g~~~~A~~~---~~~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~  239 (680)
                      +..+...|++.+|+..   ....-.| ..........+.+.|+.++|..+|+.+.+.+  |+...|...+..+.
T Consensus        11 ~~il~e~g~~~~AL~~L~~~~~~I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN--Pdn~~Yy~~L~~~~   82 (517)
T PF12569_consen   11 NSILEEAGDYEEALEHLEKNEKQILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN--PDNYDYYRGLEEAL   82 (517)
T ss_pred             HHHHHHCCCHHHHHHHHHhhhhhCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCcHHHHHHHHHHH
Confidence            3456778999999887   2333344 4556677888999999999999999999986  77777765554443

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 [], [].

>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala

Probab=99.16  E-value=9.1e-07  Score=93.49  Aligned_cols=298  Identities=16%  Similarity=0.167  Sum_probs=206.2

Q ss_pred             HHHHHcCCHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHc---
Q 005729          273 VGFAKAGDASKAMRFLGMAQGVGLSPKT-ATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKM---  348 (680)
Q Consensus       273 ~~~~~~g~~~~A~~~~~~~~~~g~~p~~-~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~---  348 (680)
                      ..+...|++++|++.++.-...  .+|. ..+......+.+.|+.++|..+|..+++.+ +.|..-|..+..+..-.   
T Consensus        12 ~il~e~g~~~~AL~~L~~~~~~--I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN-Pdn~~Yy~~L~~~~g~~~~~   88 (517)
T PF12569_consen   12 SILEEAGDYEEALEHLEKNEKQ--ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN-PDNYDYYRGLEEALGLQLQL   88 (517)
T ss_pred             HHHHHCCCHHHHHHHHHhhhhh--CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHhhhccc
Confidence            3456789999999999775543  3454 455677899999999999999999999986 23444455555555322   


Q ss_pred             --CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCH-HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 005729          349 --GYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRW-ESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTF  425 (680)
Q Consensus       349 --g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~-~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~  425 (680)
                        .+.+...++++++...-  |.......+.-.+.....+ ..+...+..+...|++   .+++.+-..|.......-..
T Consensus        89 ~~~~~~~~~~~y~~l~~~y--p~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvP---slF~~lk~Ly~d~~K~~~i~  163 (517)
T PF12569_consen   89 SDEDVEKLLELYDELAEKY--PRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVP---SLFSNLKPLYKDPEKAAIIE  163 (517)
T ss_pred             ccccHHHHHHHHHHHHHhC--ccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCc---hHHHHHHHHHcChhHHHHHH
Confidence              25677788888887653  3322222222122221222 2345556666777754   34555556666555555555


Q ss_pred             HHHHHHHHC----C----------CCCCH--HHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHHc
Q 005729          426 QVLKEMKSS----G----------VEPDT--HFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPD-TITWNTLIDCHFKC  488 (680)
Q Consensus       426 ~l~~~m~~~----~----------~~p~~--~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~-~~~~~~li~~~~~~  488 (680)
                      +++......    +          -+|..  .++..+...|...|++++|.+..+..+++.  |+ +..|..-...|-+.
T Consensus       164 ~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~ht--Pt~~ely~~KarilKh~  241 (517)
T PF12569_consen  164 SLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHT--PTLVELYMTKARILKHA  241 (517)
T ss_pred             HHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcC--CCcHHHHHHHHHHHHHC
Confidence            666655422    1          12444  345666778889999999999999999874  54 67888889999999


Q ss_pred             CChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH--------HHHHHHHHHHhcCC
Q 005729          489 GRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVV--------TYTTLVDIYGQSGR  560 (680)
Q Consensus       489 g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~--------~~~~li~~~~~~g~  560 (680)
                      |++.+|.+.++.....+ .-|...=+..+..+.+.|++++|.+++....+.+..|...        -......+|.+.|+
T Consensus       242 G~~~~Aa~~~~~Ar~LD-~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~  320 (517)
T PF12569_consen  242 GDLKEAAEAMDEARELD-LADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGD  320 (517)
T ss_pred             CCHHHHHHHHHHHHhCC-hhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhh
Confidence            99999999999999887 5677777788888999999999999999988776544221        12445678999999


Q ss_pred             hHHHHHHHhhhHHHHHHHHHHHHHC
Q 005729          561 FDDAIECLEGLSDQAVNAFRVMRTD  585 (680)
Q Consensus       561 ~~~A~~~~~~~~~~a~~~~~~m~~~  585 (680)
                      +..|++.|.    ...++|..+...
T Consensus       321 ~~~ALk~~~----~v~k~f~~~~~D  341 (517)
T PF12569_consen  321 YGLALKRFH----AVLKHFDDFEED  341 (517)
T ss_pred             HHHHHHHHH----HHHHHHHHHhcc
Confidence            999998765    344566666653

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 [], [].

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.15  E-value=5.4e-08  Score=101.34  Aligned_cols=242  Identities=15%  Similarity=0.150  Sum_probs=167.3

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHC-----C-CCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHHC-----C--
Q 005729          370 EHTYSLLIDAYANAGRWESARIVLKEMEVS-----H-AKPNSF-IYSRILAGYRDRGEWQRTFQVLKEMKSS-----G--  435 (680)
Q Consensus       370 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-----~-~~~~~~-~~~~ll~~~~~~g~~~~A~~l~~~m~~~-----~--  435 (680)
                      ..+...+...|...|++++|+.+++...+.     | ..|... ..+.+...|...+++++|..+|+++...     |  
T Consensus       199 ~~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~  278 (508)
T KOG1840|consen  199 LRTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGED  278 (508)
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCC
Confidence            344555777777777777777777766443     1 122222 2334667777888888888888877542     2  


Q ss_pred             CCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHC-----CC-CCCH-HHHHHHHHHHHHcCChhHHHHHHHHHHHC---C
Q 005729          436 VEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSE-----GI-EPDT-ITWNTLIDCHFKCGRYDRAEELFEEMQER---G  505 (680)
Q Consensus       436 ~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-----~~-~~~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~---~  505 (680)
                      .+--..+++.|...|.+.|++++|...+++..+.     +. .+.+ ..++.++..|+..+++++|..+++...+.   -
T Consensus       279 h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~  358 (508)
T KOG1840|consen  279 HPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDA  358 (508)
T ss_pred             CHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhh
Confidence            1223456677777888889888888877765532     11 1222 24667778888999999999999876532   1


Q ss_pred             CCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CC--CC-CHHHHHHHHHHHHhcCChHHHHHHHhhhHHH
Q 005729          506 YFPC----TTTYNIMINLLGEQERWEDVKRLLGNMRAQ----GL--LP-NVVTYTTLVDIYGQSGRFDDAIECLEGLSDQ  574 (680)
Q Consensus       506 ~~p~----~~t~~~li~~~~~~g~~~~A~~~~~~m~~~----~~--~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  574 (680)
                      ..++    ..+++.|...|.+.|++++|.+++++++..    +.  .+ ....++.+...|.+.+++.+|.++|.    +
T Consensus       359 ~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~----~  434 (508)
T KOG1840|consen  359 PGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFE----E  434 (508)
T ss_pred             ccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHH----H
Confidence            1122    357889999999999999999999988753    12  12 24567888999999999999998876    4


Q ss_pred             HHHHHHHHHHCCC-CCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 005729          575 AVNAFRVMRTDGL-KPSN-LALNSLINAFGEDQRDAEAFAVLQYMK  618 (680)
Q Consensus       575 a~~~~~~m~~~g~-~p~~-~~~~~li~~~~~~g~~~~A~~~~~~m~  618 (680)
                      +..+.   +..|. .|+. .+|..|...|...|+++.|+++.+...
T Consensus       435 ~~~i~---~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  435 AKDIM---KLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             HHHHH---HHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            44444   33332 2444 489999999999999999999988776

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.14  E-value=1.4e-08  Score=95.41  Aligned_cols=229  Identities=15%  Similarity=0.103  Sum_probs=148.5

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc
Q 005729          304 AAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANA  383 (680)
Q Consensus       304 ~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~  383 (680)
                      +.+..+|.+.|.+.+|.+-|+...+.  .|-+.||-.|-+.|.+..+.+.|+.++.+-.+. .+-|+....-+.+.+-..
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~-fP~~VT~l~g~ARi~eam  303 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS-FPFDVTYLLGQARIHEAM  303 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc-CCchhhhhhhhHHHHHHH
Confidence            45667777777777777777776654  455566666777777777777777777776654 122333334455666667


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHH
Q 005729          384 GRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAF  463 (680)
Q Consensus       384 g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~  463 (680)
                      ++.++|.++|+...+.. +.++.....+...|.-.++.+.|+..|+.+.+.| .-+...|+.+.-+|.-.++++-++.-|
T Consensus       304 ~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG-~~speLf~NigLCC~yaqQ~D~~L~sf  381 (478)
T KOG1129|consen  304 EQQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRILQMG-AQSPELFCNIGLCCLYAQQIDLVLPSF  381 (478)
T ss_pred             HhHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHHHhc-CCChHHHhhHHHHHHhhcchhhhHHHH
Confidence            77777777777766543 3345555555666666777777777777777777 345666666666666667777777777


Q ss_pred             HHHHHCCCCCC--HHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 005729          464 DRMLSEGIEPD--TITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRA  538 (680)
Q Consensus       464 ~~m~~~~~~~~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~  538 (680)
                      .+....--.|+  ...|-.+-......|++..|.+.|+-.+.++ .-+...+|.|.-.-.+.|++++|..++.....
T Consensus       382 ~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d-~~h~ealnNLavL~~r~G~i~~Arsll~~A~s  457 (478)
T KOG1129|consen  382 QRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSD-AQHGEALNNLAVLAARSGDILGARSLLNAAKS  457 (478)
T ss_pred             HHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccC-cchHHHHHhHHHHHhhcCchHHHHHHHHHhhh
Confidence            76665432222  3456666666666777777777777766654 44456667666666677777777777766655

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.13  E-value=6.5e-06  Score=78.68  Aligned_cols=445  Identities=12%  Similarity=0.047  Sum_probs=255.1

Q ss_pred             CCCChHHHHHHHHHHHHCCCCCchHHHHHHHHHHhcccCCHHHHHHh----hCCCCCCHHHHHHHHHHHHHcCCHHHHHH
Q 005729          139 SNSSIDLAYAVVSWLQKHNLCYSYELLYSILIHALGRSEKLYEAFLL----SQRQRLTPLTYNALISACARNDDLEKALN  214 (680)
Q Consensus       139 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~----~~~~~~~~~~~~~li~~~~~~g~~~~A~~  214 (680)
                      +..++..|..+++.-...+-. ..+.+--=+...+.+-|++++|...    .....++...|-.|.-.+.-.|.+.+|..
T Consensus        34 s~rDytGAislLefk~~~~~E-EE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~~~~~~el~vnLAcc~FyLg~Y~eA~~  112 (557)
T KOG3785|consen   34 SNRDYTGAISLLEFKLNLDRE-EEDSLQLWIAHCYFHLGDYEEALNVYTFLMNKDDAPAELGVNLACCKFYLGQYIEAKS  112 (557)
T ss_pred             hcccchhHHHHHHHhhccchh-hhHHHHHHHHHHHHhhccHHHHHHHHHHHhccCCCCcccchhHHHHHHHHHHHHHHHH
Confidence            346788888888776644311 1111222355677778888888766    33444555666666666677788888877


Q ss_pred             HHHHHHHcCCCCChhhHHHHHHHHHhcCCCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC
Q 005729          215 LMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGV  294 (680)
Q Consensus       215 ~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  294 (680)
                      +-.+..+     ++..-..++...-+.++-  .....++..+..     ...---+|.......-.+++|++++.+.+..
T Consensus       113 ~~~ka~k-----~pL~~RLlfhlahklndE--k~~~~fh~~LqD-----~~EdqLSLAsvhYmR~HYQeAIdvYkrvL~d  180 (557)
T KOG3785|consen  113 IAEKAPK-----TPLCIRLLFHLAHKLNDE--KRILTFHSSLQD-----TLEDQLSLASVHYMRMHYQEAIDVYKRVLQD  180 (557)
T ss_pred             HHhhCCC-----ChHHHHHHHHHHHHhCcH--HHHHHHHHHHhh-----hHHHHHhHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            7655432     222222233333333332  111233333321     1122234444444555688889988888764


Q ss_pred             CCCCCHHHHHHHH-HHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHH
Q 005729          295 GLSPKTATYAAVI-TALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTY  373 (680)
Q Consensus       295 g~~p~~~~~~~li-~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~  373 (680)
                        .|.-...|..+ -+|.+..-++-+.+++.-..+. ++.+...-|.......+.=.-..|++-.+.+.+.+-. .   |
T Consensus       181 --n~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q-~pdStiA~NLkacn~fRl~ngr~ae~E~k~ladN~~~-~---~  253 (557)
T KOG3785|consen  181 --NPEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQ-FPDSTIAKNLKACNLFRLINGRTAEDEKKELADNIDQ-E---Y  253 (557)
T ss_pred             --ChhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHh-CCCcHHHHHHHHHHHhhhhccchhHHHHHHHHhcccc-c---c
Confidence              45656666544 4556677777777777766653 3334445555444444433333444444444443211 0   1


Q ss_pred             HHHHHHHHHc-----CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHH---
Q 005729          374 SLLIDAYANA-----GRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNV---  445 (680)
Q Consensus       374 ~~li~~~~~~-----g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~---  445 (680)
                       -.+.-+++.     ..-+.|++++--+.+.    -+..-..++--|.+.+++.+|..+.+++.    +.++.-|..   
T Consensus       254 -~f~~~l~rHNLVvFrngEgALqVLP~L~~~----IPEARlNL~iYyL~q~dVqeA~~L~Kdl~----PttP~EyilKgv  324 (557)
T KOG3785|consen  254 -PFIEYLCRHNLVVFRNGEGALQVLPSLMKH----IPEARLNLIIYYLNQNDVQEAISLCKDLD----PTTPYEYILKGV  324 (557)
T ss_pred             -hhHHHHHHcCeEEEeCCccHHHhchHHHhh----ChHhhhhheeeecccccHHHHHHHHhhcC----CCChHHHHHHHH
Confidence             122223332     2346677776655432    12233445566788999999998887764    222222222   


Q ss_pred             ----HHHHHHccCCHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 005729          446 ----MIDTFGKYNCLHHAMAAFDRMLSEGIEPDTI-TWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLL  520 (680)
Q Consensus       446 ----li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~  520 (680)
                          +..-......+.-|.+.|+..-+.+..-|.. --..+...+.-..++++.+-+++.+...-...|...|| +..+.
T Consensus       325 v~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~sYF~NdD~Fn~N-~AQAk  403 (557)
T KOG3785|consen  325 VFAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIESYFTNDDDFNLN-LAQAK  403 (557)
T ss_pred             HHHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcchhhhH-HHHHH
Confidence                2222222334666777777665555443333 23455666666778899988888887654334444444 67888


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHHHHH-HHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHH-HHHHHH
Q 005729          521 GEQERWEDVKRLLGNMRAQGLLPNVVTYT-TLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNL-ALNSLI  598 (680)
Q Consensus       521 ~~~g~~~~A~~~~~~m~~~~~~p~~~~~~-~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~-~~~~li  598 (680)
                      +..|.+.+|+++|-.+....++ |..+|. .|.++|.+.+++.-|++++              ....-..+.. ....+.
T Consensus       404 ~atgny~eaEelf~~is~~~ik-n~~~Y~s~LArCyi~nkkP~lAW~~~--------------lk~~t~~e~fsLLqlIA  468 (557)
T KOG3785|consen  404 LATGNYVEAEELFIRISGPEIK-NKILYKSMLARCYIRNKKPQLAWDMM--------------LKTNTPSERFSLLQLIA  468 (557)
T ss_pred             HHhcChHHHHHHHhhhcChhhh-hhHHHHHHHHHHHHhcCCchHHHHHH--------------HhcCCchhHHHHHHHHH
Confidence            8999999999999887655444 455554 5568888999998887654              3322222223 334455


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 005729          599 NAFGEDQRDAEAFAVLQYMKENGLKPDVVTYT  630 (680)
Q Consensus       599 ~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~  630 (680)
                      +-|.+.+.+=-|-+.|+.+..  +.|++.-|.
T Consensus       469 n~CYk~~eFyyaaKAFd~lE~--lDP~pEnWe  498 (557)
T KOG3785|consen  469 NDCYKANEFYYAAKAFDELEI--LDPTPENWE  498 (557)
T ss_pred             HHHHHHHHHHHHHHhhhHHHc--cCCCccccC
Confidence            778889998888888988877  567766553

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

Probab=99.13  E-value=4.8e-07  Score=91.67  Aligned_cols=287  Identities=15%  Similarity=0.109  Sum_probs=216.5

Q ss_pred             CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 005729          296 LSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSL  375 (680)
Q Consensus       296 ~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~  375 (680)
                      ...+......-.+-+...+++.+..++++.+.+.. ++....+..-|.++...|+..+-..+=.++.+.- +-.+.+|-+
T Consensus       240 l~~~~dll~~~ad~~y~~c~f~~c~kit~~lle~d-pfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~y-P~~a~sW~a  317 (611)
T KOG1173|consen  240 LAENLDLLAEKADRLYYGCRFKECLKITEELLEKD-PFHLPCLPLHIACLYELGKSNKLFLLSHKLVDLY-PSKALSWFA  317 (611)
T ss_pred             hhhcHHHHHHHHHHHHHcChHHHHHHHhHHHHhhC-CCCcchHHHHHHHHHHhcccchHHHHHHHHHHhC-CCCCcchhh
Confidence            34566666677777888999999999999988763 5666777777778888888888777777777653 446788998


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCC
Q 005729          376 LIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNC  455 (680)
Q Consensus       376 li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~  455 (680)
                      +.--|.-.|+..+|.+.|.+....+. .=...|-.....|+-.|..+.|+..+...-+.= +-..--+--+.--|.+.+.
T Consensus       318 Vg~YYl~i~k~seARry~SKat~lD~-~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~-~G~hlP~LYlgmey~~t~n  395 (611)
T KOG1173|consen  318 VGCYYLMIGKYSEARRYFSKATTLDP-TFGPAWLAFGHSFAGEGEHDQAMAAYFTAARLM-PGCHLPSLYLGMEYMRTNN  395 (611)
T ss_pred             HHHHHHHhcCcHHHHHHHHHHhhcCc-cccHHHHHHhHHhhhcchHHHHHHHHHHHHHhc-cCCcchHHHHHHHHHHhcc
Confidence            88888888999999999988765432 234578888889999999999998887765531 1111122334456788899


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHC--CC----CCCHHHHHHHHHHHHhcCCHHHH
Q 005729          456 LHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQER--GY----FPCTTTYNIMINLLGEQERWEDV  529 (680)
Q Consensus       456 ~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--~~----~p~~~t~~~li~~~~~~g~~~~A  529 (680)
                      .+.|.+.|.+..... +-|+...+-+.-.....+.+.+|..+|+..++.  .+    .--..+++.|..+|.+.+.+++|
T Consensus       396 ~kLAe~Ff~~A~ai~-P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eA  474 (611)
T KOG1173|consen  396 LKLAEKFFKQALAIA-PSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEA  474 (611)
T ss_pred             HHHHHHHHHHHHhcC-CCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHH
Confidence            999999999887654 457778888887788889999999999887632  11    12345688888899999999999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 005729          530 KRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAF  601 (680)
Q Consensus       530 ~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~  601 (680)
                      ...+++.+... +-+..++.++.-.|...|+++.|++.|.           +..  .+.|+..+-..++..+
T Consensus       475 I~~~q~aL~l~-~k~~~~~asig~iy~llgnld~Aid~fh-----------KaL--~l~p~n~~~~~lL~~a  532 (611)
T KOG1173|consen  475 IDYYQKALLLS-PKDASTHASIGYIYHLLGNLDKAIDHFH-----------KAL--ALKPDNIFISELLKLA  532 (611)
T ss_pred             HHHHHHHHHcC-CCchhHHHHHHHHHHHhcChHHHHHHHH-----------HHH--hcCCccHHHHHHHHHH
Confidence            99999998863 3488999999999999999999988765           222  3678877666666543

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.12  E-value=1.1e-08  Score=96.00  Aligned_cols=233  Identities=10%  Similarity=-0.001  Sum_probs=186.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHH-HHHHHHHH
Q 005729          408 YSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITW-NTLIDCHF  486 (680)
Q Consensus       408 ~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~-~~li~~~~  486 (680)
                      -+.+.++|.+.|.+.+|.+.+..-.+.  .|-+.||..|-+.|.+..+.+.|+.+|.+-.+.  .|-.+|| .-+...+-
T Consensus       226 k~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~--fP~~VT~l~g~ARi~e  301 (478)
T KOG1129|consen  226 KQQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS--FPFDVTYLLGQARIHE  301 (478)
T ss_pred             HHHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc--CCchhhhhhhhHHHHH
Confidence            356788999999999999998887766  677888999999999999999999999988875  3444444 45667777


Q ss_pred             HcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHH
Q 005729          487 KCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIE  566 (680)
Q Consensus       487 ~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~  566 (680)
                      ..++.++|.++++...+.. +.++.....+...|.-.++.+-|+.+++++++.|+. ++..|+.+.-+|.-.+++|-++.
T Consensus       302 am~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L~  379 (478)
T KOG1129|consen  302 AMEQQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVLP  379 (478)
T ss_pred             HHHhHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhHH
Confidence            8899999999999988875 667777777888888899999999999999999876 78899999999999999888877


Q ss_pred             HHhhhHHHHHHHHHHHHHCCCCCCH--HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCcCc
Q 005729          567 CLEGLSDQAVNAFRVMRTDGLKPSN--LALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALIRVDKFHK  644 (680)
Q Consensus       567 ~~~~~~~~a~~~~~~m~~~g~~p~~--~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~  644 (680)
                      .|+           .....--.|+.  .+|-.+.......|++..|.+.|+-....+ ..+...++.|.-.-.+.|++++
T Consensus       380 sf~-----------RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d-~~h~ealnNLavL~~r~G~i~~  447 (478)
T KOG1129|consen  380 SFQ-----------RALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSD-AQHGEALNNLAVLAARSGDILG  447 (478)
T ss_pred             HHH-----------HHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccC-cchHHHHHhHHHHHhhcCchHH
Confidence            655           22222122333  368888888888999999999999888653 3356788888888899999999


Q ss_pred             HHHHHHHHHHcCCCCC
Q 005729          645 VPAVYEEMILSGCTPD  660 (680)
Q Consensus       645 A~~~~~~m~~~g~~pd  660 (680)
                      |..+++....  +.|+
T Consensus       448 Arsll~~A~s--~~P~  461 (478)
T KOG1129|consen  448 ARSLLNAAKS--VMPD  461 (478)
T ss_pred             HHHHHHHhhh--hCcc
Confidence            9999998765  3444

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.09  E-value=6.3e-06  Score=80.42  Aligned_cols=292  Identities=13%  Similarity=0.055  Sum_probs=200.8

Q ss_pred             cCChHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHH
Q 005729          313 SGRTIEAEAVFEELKES-GLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARI  391 (680)
Q Consensus       313 ~g~~~~A~~l~~~m~~~-g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~  391 (680)
                      .++...|...+-.+... -++-|+.....+.+.+...|+.++|+..|++....+.. +........-.+.+.|+.+....
T Consensus       209 ~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~dpy-~i~~MD~Ya~LL~~eg~~e~~~~  287 (564)
T KOG1174|consen  209 NFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCANPD-NVEAMDLYAVLLGQEGGCEQDSA  287 (564)
T ss_pred             hcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCChh-hhhhHHHHHHHHHhccCHhhHHH
Confidence            45555555554444332 24557777888888888999999999888887765311 22233333444567888888888


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCC
Q 005729          392 VLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGI  471 (680)
Q Consensus       392 ~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~  471 (680)
                      +...+.... +-....|-.-.......+++..|+.+-++..+.. +.+...|..-...+...+..++|.-.|....... 
T Consensus       288 L~~~Lf~~~-~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~-~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~La-  364 (564)
T KOG1174|consen  288 LMDYLFAKV-KYTASHWFVHAQLLYDEKKFERALNFVEKCIDSE-PRNHEALILKGRLLIALERHTQAVIAFRTAQMLA-  364 (564)
T ss_pred             HHHHHHhhh-hcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccC-cccchHHHhccHHHHhccchHHHHHHHHHHHhcc-
Confidence            777776432 1233344444455566788888888888877654 4455556555667778889999998898877653 


Q ss_pred             CCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHH-HHHHh-cCCHHHHHHHHHHHHHCCCCCC-HHHH
Q 005729          472 EPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMI-NLLGE-QERWEDVKRLLGNMRAQGLLPN-VVTY  548 (680)
Q Consensus       472 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li-~~~~~-~g~~~~A~~~~~~m~~~~~~p~-~~~~  548 (680)
                      +-+...|.-|+.+|...|++.+|..+-+..... ++.+..+...+. ..|.. ..--++|.+++++.++.  .|+ ....
T Consensus       365 p~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~--~P~Y~~AV  441 (564)
T KOG1174|consen  365 PYRLEIYRGLFHSYLAQKRFKEANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKI--NPIYTPAV  441 (564)
T ss_pred             hhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHHHHhhhcc--CCccHHHH
Confidence            346788999999999999999998877766544 234555555542 33332 22347788888887764  555 3456


Q ss_pred             HHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH
Q 005729          549 TTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDV  626 (680)
Q Consensus       549 ~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  626 (680)
                      +.+...+...|+.++++.+++....             ..||....+.|.+.+...+.+++|.+.|.....  +.|+.
T Consensus       442 ~~~AEL~~~Eg~~~D~i~LLe~~L~-------------~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr--~dP~~  504 (564)
T KOG1174|consen  442 NLIAELCQVEGPTKDIIKLLEKHLI-------------IFPDVNLHNHLGDIMRAQNEPQKAMEYYYKALR--QDPKS  504 (564)
T ss_pred             HHHHHHHHhhCccchHHHHHHHHHh-------------hccccHHHHHHHHHHHHhhhHHHHHHHHHHHHh--cCccc
Confidence            6777888889999988887663221             468888889999999999999999999998887  55653

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.08  E-value=8.3e-06  Score=85.92  Aligned_cols=387  Identities=13%  Similarity=0.148  Sum_probs=198.3

Q ss_pred             CCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-CHHHH
Q 005729          260 KIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKP-RTKAY  338 (680)
Q Consensus       260 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p-~~~~~  338 (680)
                      .+.-|..+|..|.-+...+|+++.+.+.|++.... .--....|+.+-..|...|.-..|..+++.-....-.| +...+
T Consensus       318 ~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~-~~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~~  396 (799)
T KOG4162|consen  318 KFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPF-SFGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISVL  396 (799)
T ss_pred             hhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHh-hhhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchHH
Confidence            34456666666666666666666666666665432 12234456666666666666666666666544332122 33333


Q ss_pred             HHHHHHHHH-cCCHHHHHHHHHHHHHC--CC--CCCHHHHHHHHHHHHHcC-----------CHHHHHHHHHHHHHCCCC
Q 005729          339 NALLKGYVK-MGYLKDAEFVVSEMERS--GV--LPDEHTYSLLIDAYANAG-----------RWESARIVLKEMEVSHAK  402 (680)
Q Consensus       339 ~~li~~~~~-~g~~~~A~~~~~~m~~~--g~--~~~~~~~~~li~~~~~~g-----------~~~~A~~~~~~m~~~~~~  402 (680)
                      -..-..|.+ .+.++++..+-.+....  +.  ......|..+.-+|...-           ...++++.+++..+.+..
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            322233332 24455555555544431  10  112334444444443221           123455555555544321


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 005729          403 PNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLI  482 (680)
Q Consensus       403 ~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li  482 (680)
                       |......+.--|+..++.+.|.+..++..+.+-..+...|..|.-.+...+++.+|+.+.+...+.. ..|......-+
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 -DPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEF-GDNHVLMDGKI  554 (799)
T ss_pred             -CchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHh-hhhhhhchhhh
Confidence             2222222333455556666666666666665445566666666666666666666666666655431 11222222223


Q ss_pred             HHHHHcCChhHHHHHHHHHHHC-------------C--------C-------CCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 005729          483 DCHFKCGRYDRAEELFEEMQER-------------G--------Y-------FPCTTTYNIMINLLGEQERWEDVKRLLG  534 (680)
Q Consensus       483 ~~~~~~g~~~~A~~~~~~m~~~-------------~--------~-------~p~~~t~~~li~~~~~~g~~~~A~~~~~  534 (680)
                      +.-..-++.++|+.....+...             |        .       .-...++..+......  +.+.+..-..
T Consensus       555 ~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~--~~~~~~se~~  632 (799)
T KOG4162|consen  555 HIELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVAS--QLKSAGSELK  632 (799)
T ss_pred             hhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHh--hhhhcccccc
Confidence            3333456666666655444321             0        0       0000111111100000  0000000000


Q ss_pred             HHHHCCCC--CC------HHHHHHHHHHHHhcCChHHHHHHHh-----------------------hhHHHHHHHHHHHH
Q 005729          535 NMRAQGLL--PN------VVTYTTLVDIYGQSGRFDDAIECLE-----------------------GLSDQAVNAFRVMR  583 (680)
Q Consensus       535 ~m~~~~~~--p~------~~~~~~li~~~~~~g~~~~A~~~~~-----------------------~~~~~a~~~~~~m~  583 (680)
                       +......  |+      ...|......+.+.+..++|..++.                       +..++|.+.|....
T Consensus       633 -Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~~~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al  711 (799)
T KOG4162|consen  633 -LPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKIDPLSASVYYLRGLLLEVKGQLEEAKEAFLVAL  711 (799)
T ss_pred             -cCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhcchhhHHHHHHhhHHHHHHHhhHHHHHHHHHHH
Confidence             0000011  11      1233445556666666666653332                       44456666666655


Q ss_pred             HCCCCCCHH-HHHHHHHHHHhcCCHHHHHH--HHHHHHHCCCCCCHHHHHHHHHHHHhcCCcCcHHHHHHHHHHc
Q 005729          584 TDGLKPSNL-ALNSLINAFGEDQRDAEAFA--VLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMILS  655 (680)
Q Consensus       584 ~~g~~p~~~-~~~~li~~~~~~g~~~~A~~--~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  655 (680)
                      .  +.|+.+ ...++..++.+.|+..-|..  ++..+.+.+ +-+...|..+...+.+.|+.++|.+.|....+.
T Consensus       712 ~--ldP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~d-p~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qL  783 (799)
T KOG4162|consen  712 A--LDPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLD-PLNHEAWYYLGEVFKKLGDSKQAAECFQAALQL  783 (799)
T ss_pred             h--cCCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHccchHHHHHHHHHHHhh
Confidence            5  567765 78888888888887777777  888888843 337788888999999999999998888887764

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=99.02  E-value=6.8e-05  Score=79.39  Aligned_cols=467  Identities=14%  Similarity=0.159  Sum_probs=233.2

Q ss_pred             CCChHHHHHHHHHHHHCCCCCchHHHHHHHHHHhcccCCHHHHHHh-------------hC-CCCCCHHHHHHHHHHHHH
Q 005729          140 NSSIDLAYAVVSWLQKHNLCYSYELLYSILIHALGRSEKLYEAFLL-------------SQ-RQRLTPLTYNALISACAR  205 (680)
Q Consensus       140 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~-------------~~-~~~~~~~~~~~li~~~~~  205 (680)
                      -|+.+.|+.-.+.+..       ..+|..|.+++.+-.+++-|...             .+ ...++ ..--.+...-..
T Consensus       741 iG~MD~AfksI~~IkS-------~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~-e~eakvAvLAie  812 (1416)
T KOG3617|consen  741 IGSMDAAFKSIQFIKS-------DSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE-EDEAKVAVLAIE  812 (1416)
T ss_pred             eccHHHHHHHHHHHhh-------hHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc-chhhHHHHHHHH
Confidence            4667777766554432       24677787777777776666543             00 00111 111112222346


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCCHHHHH
Q 005729          206 NDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAM  285 (680)
Q Consensus       206 ~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~  285 (680)
                      .|..++|..+|++.++.+         .+=+.|-..|.++++.  ++-+.-  ..+.. ..+|-.-...+-..++.+.|+
T Consensus       813 LgMlEeA~~lYr~ckR~D---------LlNKlyQs~g~w~eA~--eiAE~~--DRiHL-r~Tyy~yA~~Lear~Di~~Al  878 (1416)
T KOG3617|consen  813 LGMLEEALILYRQCKRYD---------LLNKLYQSQGMWSEAF--EIAETK--DRIHL-RNTYYNYAKYLEARRDIEAAL  878 (1416)
T ss_pred             HhhHHHHHHHHHHHHHHH---------HHHHHHHhcccHHHHH--HHHhhc--cceeh-hhhHHHHHHHHHhhccHHHHH
Confidence            678888888888877632         2233344455554332  211110  11111 223444444455556677776


Q ss_pred             HHHHHHH----------hCC---------CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 005729          286 RFLGMAQ----------GVG---------LSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYV  346 (680)
Q Consensus       286 ~~~~~~~----------~~g---------~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~  346 (680)
                      +.|++.-          ...         -..|...|.-....+-..|+.+.|+.+|....+         |-.+++..|
T Consensus       879 eyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D---------~fs~VrI~C  949 (1416)
T KOG3617|consen  879 EYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD---------YFSMVRIKC  949 (1416)
T ss_pred             HHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh---------hhhheeeEe
Confidence            6665421          110         012333344444455556666666666665543         445666667


Q ss_pred             HcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC------
Q 005729          347 KMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGE------  420 (680)
Q Consensus       347 ~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~------  420 (680)
                      -.|+.++|-++-++-.      |......|.+.|-..|++.+|...|.+...         +...|+.|-.++.      
T Consensus       950 ~qGk~~kAa~iA~esg------d~AAcYhlaR~YEn~g~v~~Av~FfTrAqa---------fsnAIRlcKEnd~~d~L~n 1014 (1416)
T KOG3617|consen  950 IQGKTDKAARIAEESG------DKAACYHLARMYENDGDVVKAVKFFTRAQA---------FSNAIRLCKENDMKDRLAN 1014 (1416)
T ss_pred             eccCchHHHHHHHhcc------cHHHHHHHHHHhhhhHHHHHHHHHHHHHHH---------HHHHHHHHHhcCHHHHHHH
Confidence            7777777776654422      556667788888888888888888876642         3333333322221      


Q ss_pred             ---------HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHH--------HHHH--CCCCCCHHHHHHH
Q 005729          421 ---------WQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFD--------RMLS--EGIEPDTITWNTL  481 (680)
Q Consensus       421 ---------~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~--------~m~~--~~~~~~~~~~~~l  481 (680)
                               .-.|-..|++.   |.     -....+..|-+.|.+.+|+++-=        +++.  .....|+...+..
T Consensus      1015 lal~s~~~d~v~aArYyEe~---g~-----~~~~AVmLYHkAGm~~kALelAF~tqQf~aL~lIa~DLd~~sDp~ll~Rc 1086 (1416)
T KOG3617|consen 1015 LALMSGGSDLVSAARYYEEL---GG-----YAHKAVMLYHKAGMIGKALELAFRTQQFSALDLIAKDLDAGSDPKLLRRC 1086 (1416)
T ss_pred             HHhhcCchhHHHHHHHHHHc---ch-----hhhHHHHHHHhhcchHHHHHHHHhhcccHHHHHHHHhcCCCCCHHHHHHH
Confidence                     12222223221   10     01122334555666655554311        1111  1223455556666


Q ss_pred             HHHHHHcCChhHHHHHHHHHHH--------------------------CCCCCCHH----HHHHHHHHHHhcCCHHHHHH
Q 005729          482 IDCHFKCGRYDRAEELFEEMQE--------------------------RGYFPCTT----TYNIMINLLGEQERWEDVKR  531 (680)
Q Consensus       482 i~~~~~~g~~~~A~~~~~~m~~--------------------------~~~~p~~~----t~~~li~~~~~~g~~~~A~~  531 (680)
                      .+-++...++++|..++-...+                          ++-.|+..    ....+...|.+.|.+..|-+
T Consensus      1087 adFF~~~~qyekAV~lL~~ar~~~~AlqlC~~~nv~vtee~aE~mTp~Kd~~~~e~~R~~vLeqvae~c~qQG~Yh~AtK 1166 (1416)
T KOG3617|consen 1087 ADFFENNQQYEKAVNLLCLAREFSGALQLCKNRNVRVTEEFAELMTPTKDDMPNEQERKQVLEQVAELCLQQGAYHAATK 1166 (1416)
T ss_pred             HHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhcCCCchhHHHHHhcCcCcCCCccHHHHHHHHHHHHHHHHhccchHHHHH
Confidence            6666666666666655422111                          11123332    23444556666666655544


Q ss_pred             HHHHH----------HHCC-----------------------------CCCCHHHHHHHHHHHHhcCChHHHHHHHh---
Q 005729          532 LLGNM----------RAQG-----------------------------LLPNVVTYTTLVDIYGQSGRFDDAIECLE---  569 (680)
Q Consensus       532 ~~~~m----------~~~~-----------------------------~~p~~~~~~~li~~~~~~g~~~~A~~~~~---  569 (680)
                      -|.+.          ++.|                             ..-++.+...++..|.|..-++.--.+|+   
T Consensus      1167 KfTQAGdKl~AMraLLKSGdt~KI~FFAn~sRqkEiYImAANyLQtlDWq~~pq~mK~I~tFYTKgqafd~LanFY~~cA 1246 (1416)
T KOG3617|consen 1167 KFTQAGDKLSAMRALLKSGDTQKIRFFANTSRQKEIYIMAANYLQTLDWQDNPQTMKDIETFYTKGQAFDHLANFYKSCA 1246 (1416)
T ss_pred             HHhhhhhHHHHHHHHHhcCCcceEEEEeeccccceeeeehhhhhhhcccccChHHHhhhHhhhhcchhHHHHHHHHHHHH
Confidence            44321          1221                             23344444444444444333332222221   


Q ss_pred             --------------hhHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh-----------cCCHHHHHHHHHHHHHCCCCC
Q 005729          570 --------------GLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGE-----------DQRDAEAFAVLQYMKENGLKP  624 (680)
Q Consensus       570 --------------~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~-----------~g~~~~A~~~~~~m~~~g~~p  624 (680)
                                    +..++|-+.+.+..+++.  ....|+.|=.-..+           ..+..+.++-.+.|.+...-|
T Consensus      1247 qiEiee~q~ydKa~gAl~eA~kCl~ka~~k~~--~~t~l~~Lq~~~a~vk~~l~~~q~~~eD~~~~i~qc~~lleep~ld 1324 (1416)
T KOG3617|consen 1247 QIEIEELQTYDKAMGALEEAAKCLLKAEQKNM--STTGLDALQEDLAKVKVQLRKLQIMKEDAADGIRQCTTLLEEPILD 1324 (1416)
T ss_pred             HhhHHHHhhhhHHhHHHHHHHHHHHHHHhhcc--hHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHhhCcCCC
Confidence                          334455555555444321  11123333222111           235555666666666654444


Q ss_pred             C----HHHHHHHHHHHHhcCCcCcHHHHHHHHHHcCCCCCHH
Q 005729          625 D----VVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPDRK  662 (680)
Q Consensus       625 ~----~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd~~  662 (680)
                      |    ...|..|+..+....+|..|-+.+++|.++-..-|..
T Consensus      1325 ~~Ir~~~~~a~lie~~v~~k~y~~AyRal~el~~k~p~~~~s 1366 (1416)
T KOG3617|consen 1325 DIIRCTRLFALLIEDHVSRKNYKPAYRALTELQKKVPNVDLS 1366 (1416)
T ss_pred             CcchhHHHHHHHHHHHHhhhhccHHHHHHHHHhhcCCccchh
Confidence            3    3578889999999999999999999999874444433

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=99.00  E-value=5.1e-06  Score=86.37  Aligned_cols=194  Identities=19%  Similarity=0.287  Sum_probs=129.2

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH
Q 005729          342 LKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEW  421 (680)
Q Consensus       342 i~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~  421 (680)
                      +.+......+.+|+.+++.+.....  -..-|..+.+.|+..|+++.|.++|.+..         .++-.|.+|.+.|+|
T Consensus       739 ieaai~akew~kai~ildniqdqk~--~s~yy~~iadhyan~~dfe~ae~lf~e~~---------~~~dai~my~k~~kw  807 (1636)
T KOG3616|consen  739 IEAAIGAKEWKKAISILDNIQDQKT--ASGYYGEIADHYANKGDFEIAEELFTEAD---------LFKDAIDMYGKAGKW  807 (1636)
T ss_pred             HHHHhhhhhhhhhHhHHHHhhhhcc--ccccchHHHHHhccchhHHHHHHHHHhcc---------hhHHHHHHHhccccH
Confidence            3444556678888888887776532  23456677788888888888888886542         355667888888888


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHH
Q 005729          422 QRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEM  501 (680)
Q Consensus       422 ~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  501 (680)
                      +.|.++-.+..  |.......|..-..-+-+.|.+.+|+++|-.+.    .|+     ..|.+|-+.|..+..+++.++-
T Consensus       808 ~da~kla~e~~--~~e~t~~~yiakaedldehgkf~eaeqlyiti~----~p~-----~aiqmydk~~~~ddmirlv~k~  876 (1636)
T KOG3616|consen  808 EDAFKLAEECH--GPEATISLYIAKAEDLDEHGKFAEAEQLYITIG----EPD-----KAIQMYDKHGLDDDMIRLVEKH  876 (1636)
T ss_pred             HHHHHHHHHhc--CchhHHHHHHHhHHhHHhhcchhhhhheeEEcc----Cch-----HHHHHHHhhCcchHHHHHHHHh
Confidence            88888776653  334455666666666777888888887775543    344     2466777888888777776653


Q ss_pred             HHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHh
Q 005729          502 QERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLE  569 (680)
Q Consensus       502 ~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~  569 (680)
                      -..   .-..|...+..-+...|+...|+.-|-+..+         |.+-+++|-..+.+++|.++-+
T Consensus       877 h~d---~l~dt~~~f~~e~e~~g~lkaae~~flea~d---------~kaavnmyk~s~lw~dayriak  932 (1636)
T KOG3616|consen  877 HGD---HLHDTHKHFAKELEAEGDLKAAEEHFLEAGD---------FKAAVNMYKASELWEDAYRIAK  932 (1636)
T ss_pred             Chh---hhhHHHHHHHHHHHhccChhHHHHHHHhhhh---------HHHHHHHhhhhhhHHHHHHHHh
Confidence            211   1134555666667777888877776654432         4556677777777777776654

>PRK11189 lipoprotein NlpI; Provisional

Probab=98.96  E-value=7.4e-07  Score=89.03  Aligned_cols=232  Identities=13%  Similarity=0.012  Sum_probs=136.7

Q ss_pred             CCHHHHHHHHHHHHHCCC-CC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHH
Q 005729          384 GRWESARIVLKEMEVSHA-KP--NSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAM  460 (680)
Q Consensus       384 g~~~~A~~~~~~m~~~~~-~~--~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~  460 (680)
                      +..+.++.-+.++..... .|  ....|..+...|...|++++|...|++..+.. +.+...|+.+...+...|+++.|.
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            344555555555554321 11  13346666666777777777777777776654 455677778888888888888888


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 005729          461 AAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQG  540 (680)
Q Consensus       461 ~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~  540 (680)
                      ..|+...+.. +-+...|..+..++...|++++|.+.|++..+..  |+..........+...++.++|...+.+.... 
T Consensus       119 ~~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~--P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~-  194 (296)
T PRK11189        119 EAFDSVLELD-PTYNYAYLNRGIALYYGGRYELAQDDLLAFYQDD--PNDPYRALWLYLAESKLDPKQAKENLKQRYEK-  194 (296)
T ss_pred             HHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHccCCHHHHHHHHHHHHhh-
Confidence            8888877654 2345677777777888888888888888887764  33221122222234567788888888665543 


Q ss_pred             CCCCHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 005729          541 LLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKP-SNLALNSLINAFGEDQRDAEAFAVLQYMKE  619 (680)
Q Consensus       541 ~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  619 (680)
                      ..++... ..+  .....|+...+ +.++.    +.+.++.-.+  +.| ....|..+...+.+.|++++|+..|++..+
T Consensus       195 ~~~~~~~-~~~--~~~~lg~~~~~-~~~~~----~~~~~~~~~~--l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~  264 (296)
T PRK11189        195 LDKEQWG-WNI--VEFYLGKISEE-TLMER----LKAGATDNTE--LAERLCETYFYLAKYYLSLGDLDEAAALFKLALA  264 (296)
T ss_pred             CCccccH-HHH--HHHHccCCCHH-HHHHH----HHhcCCCcHH--HHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            2233221 122  22334554432 12110    0000000000  112 234788888999999999999999999988


Q ss_pred             CCCCCCHHHHHH
Q 005729          620 NGLKPDVVTYTT  631 (680)
Q Consensus       620 ~g~~p~~~~~~~  631 (680)
                      .+ +||.+-+..
T Consensus       265 ~~-~~~~~e~~~  275 (296)
T PRK11189        265 NN-VYNFVEHRY  275 (296)
T ss_pred             hC-CchHHHHHH
Confidence            43 235544443

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=98.95  E-value=3.9e-05  Score=81.07  Aligned_cols=408  Identities=14%  Similarity=0.049  Sum_probs=258.3

Q ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCCChHHHHHHHHHHHhCCCCc-CHHH
Q 005729          189 QRLTPLTYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIEL-DGQL  267 (680)
Q Consensus       189 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~~~~~~l~~~~~~~~~~~-~~~~  267 (680)
                      ...++..|..+.-++.+.|+++.+.+.|++....- .-....|..+-..+...|..  ..+..+++........| |...
T Consensus       319 ~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~-~~~~e~w~~~als~saag~~--s~Av~ll~~~~~~~~~ps~~s~  395 (799)
T KOG4162|consen  319 FQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFS-FGEHERWYQLALSYSAAGSD--SKAVNLLRESLKKSEQPSDISV  395 (799)
T ss_pred             hcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhh-hhhHHHHHHHHHHHHHhccc--hHHHHHHHhhcccccCCCcchH
Confidence            34678889999999999999999999999977643 23455666666677777764  33456666554432223 3344


Q ss_pred             HHHHHHHHH-HcCCHHHHHHHHHHHHhC--CC--CCCHHHHHHHHHHHHhc-----------CChHHHHHHHHHHHHcCC
Q 005729          268 LNDVIVGFA-KAGDASKAMRFLGMAQGV--GL--SPKTATYAAVITALSNS-----------GRTIEAEAVFEELKESGL  331 (680)
Q Consensus       268 ~~~li~~~~-~~g~~~~A~~~~~~~~~~--g~--~p~~~~~~~li~~~~~~-----------g~~~~A~~l~~~m~~~g~  331 (680)
                      +-..-..|. +.+.+++++++..++...  |.  ......|..+.-+|...           ....++++.+++..+.+.
T Consensus       396 ~Lmasklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d~  475 (799)
T KOG4162|consen  396 LLMASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFDP  475 (799)
T ss_pred             HHHHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcCC
Confidence            433334444 447888888887777652  11  12233455554444332           124567888888877653


Q ss_pred             -CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 005729          332 -KPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSR  410 (680)
Q Consensus       332 -~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~  410 (680)
                       .|+...|  +.--|+..++++.|.+..++..+.+-.-+...|..|.-.+...+++.+|+.+.+.....-. -|......
T Consensus       476 ~dp~~if~--lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~~-~N~~l~~~  552 (799)
T KOG4162|consen  476 TDPLVIFY--LALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFG-DNHVLMDG  552 (799)
T ss_pred             CCchHHHH--HHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhh-hhhhhchh
Confidence             3333333  4456778889999999999999886677899999999999999999999999887765421 11111222


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHC---------------------CC-------CCCHHHHHHHHHHHHccCCHHHHHHH
Q 005729          411 ILAGYRDRGEWQRTFQVLKEMKSS---------------------GV-------EPDTHFYNVMIDTFGKYNCLHHAMAA  462 (680)
Q Consensus       411 ll~~~~~~g~~~~A~~l~~~m~~~---------------------~~-------~p~~~~~~~li~~~~~~g~~~~A~~~  462 (680)
                      -+..-...++.++++.....+...                     |.       .-...++..+.......+....-...
T Consensus       553 ~~~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~~~~~se~~  632 (799)
T KOG4162|consen  553 KIHIELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQLKSAGSELK  632 (799)
T ss_pred             hhhhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHhhhhhcccccc
Confidence            222223345555555444433210                     00       00112222222111110000000000


Q ss_pred             HHHHHHCCC--CCC------HHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 005729          463 FDRMLSEGI--EPD------TITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLG  534 (680)
Q Consensus       463 ~~~m~~~~~--~~~------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~  534 (680)
                         +.+...  .|+      ...|......+.+.+..++|...+.+..... +-....|......+...|.+++|.+.|.
T Consensus       633 ---Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~~-~l~~~~~~~~G~~~~~~~~~~EA~~af~  708 (799)
T KOG4162|consen  633 ---LPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKID-PLSASVYYLRGLLLEVKGQLEEAKEAFL  708 (799)
T ss_pred             ---cCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhcc-hhhHHHHHHhhHHHHHHHhhHHHHHHHH
Confidence               111111  112      2346667778888999999999998887764 5567777777788889999999999999


Q ss_pred             HHHHCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHH
Q 005729          535 NMRAQGLLP-NVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPS-NLALNSLINAFGEDQRDAEAFA  612 (680)
Q Consensus       535 ~m~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~  612 (680)
                      .....  .| ++....++..++.+.|+..-|..         ..+...+.+  +.|+ ...|-.+...+-+.|+.++|.+
T Consensus       709 ~Al~l--dP~hv~s~~Ala~~lle~G~~~la~~---------~~~L~dalr--~dp~n~eaW~~LG~v~k~~Gd~~~Aae  775 (799)
T KOG4162|consen  709 VALAL--DPDHVPSMTALAELLLELGSPRLAEK---------RSLLSDALR--LDPLNHEAWYYLGEVFKKLGDSKQAAE  775 (799)
T ss_pred             HHHhc--CCCCcHHHHHHHHHHHHhCCcchHHH---------HHHHHHHHh--hCCCCHHHHHHHHHHHHHccchHHHHH
Confidence            98874  45 57789999999999997665543         123445555  3444 4599999999999999999999


Q ss_pred             HHHHHHH
Q 005729          613 VLQYMKE  619 (680)
Q Consensus       613 ~~~~m~~  619 (680)
                      .|....+
T Consensus       776 cf~aa~q  782 (799)
T KOG4162|consen  776 CFQAALQ  782 (799)
T ss_pred             HHHHHHh
Confidence            9999887

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.94  E-value=2.5e-05  Score=74.49  Aligned_cols=338  Identities=15%  Similarity=0.118  Sum_probs=182.5

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHH-HHHHHHHHcC
Q 005729          306 VITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYS-LLIDAYANAG  384 (680)
Q Consensus       306 li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~-~li~~~~~~g  384 (680)
                      +...+...|++..|+.-|....+.+ +.+-.++-.-...|...|+-.-|+.-+.+.++.  +||-..-. .-...+.+.|
T Consensus        44 lGk~lla~~Q~sDALt~yHaAve~d-p~~Y~aifrRaT~yLAmGksk~al~Dl~rVlel--KpDF~~ARiQRg~vllK~G  120 (504)
T KOG0624|consen   44 LGKELLARGQLSDALTHYHAAVEGD-PNNYQAIFRRATVYLAMGKSKAALQDLSRVLEL--KPDFMAARIQRGVVLLKQG  120 (504)
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHcCC-chhHHHHHHHHHHHhhhcCCccchhhHHHHHhc--CccHHHHHHHhchhhhhcc
Confidence            3444455555555655555555431 111222222234455556655566555555554  34432211 1223455666


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHH
Q 005729          385 RWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFD  464 (680)
Q Consensus       385 ~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~  464 (680)
                      .+++|..-|+.+.+.....+.     ...++.+.-..++-+.+                ...+..+...|+...|+....
T Consensus       121 ele~A~~DF~~vl~~~~s~~~-----~~eaqskl~~~~e~~~l----------------~~ql~s~~~~GD~~~ai~~i~  179 (504)
T KOG0624|consen  121 ELEQAEADFDQVLQHEPSNGL-----VLEAQSKLALIQEHWVL----------------VQQLKSASGSGDCQNAIEMIT  179 (504)
T ss_pred             cHHHHHHHHHHHHhcCCCcch-----hHHHHHHHHhHHHHHHH----------------HHHHHHHhcCCchhhHHHHHH
Confidence            666666666666655321110     01111111111111111                122233344566666666666


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC
Q 005729          465 RMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPN  544 (680)
Q Consensus       465 ~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~  544 (680)
                      .+++.. +.|...|..-..+|...|.+.+|+.=++...+.. .-+..++.-+-..+...|+.+.++...++-++  +.||
T Consensus       180 ~llEi~-~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs-~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLK--ldpd  255 (504)
T KOG0624|consen  180 HLLEIQ-PWDASLRQARAKCYIAEGEPKKAIHDLKQASKLS-QDNTEGHYKISQLLYTVGDAENSLKEIRECLK--LDPD  255 (504)
T ss_pred             HHHhcC-cchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHhhhhHHHHHHHHHHHHc--cCcc
Confidence            666654 3566666666667777777777766665554443 33455555566666677777777766666665  3454


Q ss_pred             HHHHHHHHHHHHhcCCh----HHHHHHHh-hhHHHHHHHHHHHHHCCCCCCHH---HHHHHHHHHHhcCCHHHHHHHHHH
Q 005729          545 VVTYTTLVDIYGQSGRF----DDAIECLE-GLSDQAVNAFRVMRTDGLKPSNL---ALNSLINAFGEDQRDAEAFAVLQY  616 (680)
Q Consensus       545 ~~~~~~li~~~~~~g~~----~~A~~~~~-~~~~~a~~~~~~m~~~g~~p~~~---~~~~li~~~~~~g~~~~A~~~~~~  616 (680)
                      ....-..   |-+..++    +.|.+.++ +...++++..++..+....-..+   .+..+-.++...|++.+|++...+
T Consensus       256 HK~Cf~~---YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~e  332 (504)
T KOG0624|consen  256 HKLCFPF---YKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKE  332 (504)
T ss_pred             hhhHHHH---HHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHHHH
Confidence            3322111   1111111    11111111 22233333444444432221122   344556677788999999999999


Q ss_pred             HHHCCCCCC-HHHHHHHHHHHHhcCCcCcHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHhh
Q 005729          617 MKENGLKPD-VVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPDRKARAMLRSALRYMKQT  677 (680)
Q Consensus       617 m~~~g~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd~~~~~~l~~a~~~~k~~  677 (680)
                      ..+  +.|| ..++.--..+|.-...++.|+.-|++..+.+ ..+.....-+.+|-|..|+.
T Consensus       333 vL~--~d~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e~n-~sn~~~reGle~Akrlkkqs  391 (504)
T KOG0624|consen  333 VLD--IDPDDVQVLCDRAEAYLGDEMYDDAIHDYEKALELN-ESNTRAREGLERAKRLKKQS  391 (504)
T ss_pred             HHh--cCchHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHHHHh
Confidence            988  5665 7899999999999999999999999998853 33445666777777766654

>PRK11189 lipoprotein NlpI; Provisional

Probab=98.93  E-value=1.1e-06  Score=87.76  Aligned_cols=193  Identities=12%  Similarity=0.068  Sum_probs=84.2

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 005729          338 YNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRD  417 (680)
Q Consensus       338 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~  417 (680)
                      |..+...|...|+.++|...|++..+... .+...|+.+...|...|++++|...|++..+..+ -+..+|..+..++..
T Consensus        67 ~~~~g~~~~~~g~~~~A~~~~~~Al~l~P-~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P-~~~~a~~~lg~~l~~  144 (296)
T PRK11189         67 HYERGVLYDSLGLRALARNDFSQALALRP-DMADAYNYLGIYLTQAGNFDAAYEAFDSVLELDP-TYNYAYLNRGIALYY  144 (296)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHH
Confidence            44444444455555555555555444331 2344555555555555555555555555544321 123344444445555


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHH
Q 005729          418 RGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEEL  497 (680)
Q Consensus       418 ~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  497 (680)
                      .|++++|.+.|+...+..  |+..........+...++.++|...|....... .++...|   .......|+.+.+ +.
T Consensus       145 ~g~~~eA~~~~~~al~~~--P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~~-~~~~~~~---~~~~~~lg~~~~~-~~  217 (296)
T PRK11189        145 GGRYELAQDDLLAFYQDD--PNDPYRALWLYLAESKLDPKQAKENLKQRYEKL-DKEQWGW---NIVEFYLGKISEE-TL  217 (296)
T ss_pred             CCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHccCCHHHHHHHHHHHHhhC-CccccHH---HHHHHHccCCCHH-HH
Confidence            555555555555544432  221111111112223445555555554433221 1121111   1122224444333 23


Q ss_pred             HHHHHHC---CC---CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 005729          498 FEEMQER---GY---FPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQ  539 (680)
Q Consensus       498 ~~~m~~~---~~---~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~  539 (680)
                      +..+.+.   ..   +.....|..+...+.+.|++++|...|++..+.
T Consensus       218 ~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~  265 (296)
T PRK11189        218 MERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALAN  265 (296)
T ss_pred             HHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            3333211   00   012245666666666666666666666666654

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.91  E-value=9.2e-06  Score=77.67  Aligned_cols=374  Identities=13%  Similarity=0.056  Sum_probs=199.0

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHH-HHHHHHH
Q 005729          269 NDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNA-LLKGYVK  347 (680)
Q Consensus       269 ~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~-li~~~~~  347 (680)
                      -.+..++.+.|++++|+..+..+.... .++...+..|..++.-.|++.+|..+-.+..      +....+. |+..--+
T Consensus        61 lWia~C~fhLgdY~~Al~~Y~~~~~~~-~~~~el~vnLAcc~FyLg~Y~eA~~~~~ka~------k~pL~~RLlfhlahk  133 (557)
T KOG3785|consen   61 LWIAHCYFHLGDYEEALNVYTFLMNKD-DAPAELGVNLACCKFYLGQYIEAKSIAEKAP------KTPLCIRLLFHLAHK  133 (557)
T ss_pred             HHHHHHHHhhccHHHHHHHHHHHhccC-CCCcccchhHHHHHHHHHHHHHHHHHHhhCC------CChHHHHHHHHHHHH
Confidence            345556667778888877777665532 4555566666666666777777776655432      2233333 3344445


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHH-HHHHHhcCCHHHHHH
Q 005729          348 MGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRI-LAGYRDRGEWQRTFQ  426 (680)
Q Consensus       348 ~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~l-l~~~~~~g~~~~A~~  426 (680)
                      .++-++-..+.+.+.+.     ..-..+|.....-.-.+.+|+++|+.....+  |.-...|.. .-+|.+..-++-+.+
T Consensus       134 lndEk~~~~fh~~LqD~-----~EdqLSLAsvhYmR~HYQeAIdvYkrvL~dn--~ey~alNVy~ALCyyKlDYydvsqe  206 (557)
T KOG3785|consen  134 LNDEKRILTFHSSLQDT-----LEDQLSLASVHYMRMHYQEAIDVYKRVLQDN--PEYIALNVYMALCYYKLDYYDVSQE  206 (557)
T ss_pred             hCcHHHHHHHHHHHhhh-----HHHHHhHHHHHHHHHHHHHHHHHHHHHHhcC--hhhhhhHHHHHHHHHhcchhhhHHH
Confidence            66666666665555532     2333344554444556778888888777543  344444433 345566777777777


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcC-----ChhHHHHHHHHH
Q 005729          427 VLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCG-----RYDRAEELFEEM  501 (680)
Q Consensus       427 l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g-----~~~~A~~~~~~m  501 (680)
                      +++-..+.- +.++...|....-..+.=.-..|+.-...+...+-. .    -..+.-+++++     .-+.|++++-.+
T Consensus       207 vl~vYL~q~-pdStiA~NLkacn~fRl~ngr~ae~E~k~ladN~~~-~----~~f~~~l~rHNLVvFrngEgALqVLP~L  280 (557)
T KOG3785|consen  207 VLKVYLRQF-PDSTIAKNLKACNLFRLINGRTAEDEKKELADNIDQ-E----YPFIEYLCRHNLVVFRNGEGALQVLPSL  280 (557)
T ss_pred             HHHHHHHhC-CCcHHHHHHHHHHHhhhhccchhHHHHHHHHhcccc-c----chhHHHHHHcCeEEEeCCccHHHhchHH
Confidence            777655541 233334444333333322222333333333332210 0    11233334432     346677776666


Q ss_pred             HHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC-------hHHHHHHHh-----
Q 005729          502 QERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGR-------FDDAIECLE-----  569 (680)
Q Consensus       502 ~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~-------~~~A~~~~~-----  569 (680)
                      .+.  .|  ..-..++-.|.+.+++.+|..+.+++.-  ..|-......++  +...|+       +.-|...|+     
T Consensus       281 ~~~--IP--EARlNL~iYyL~q~dVqeA~~L~Kdl~P--ttP~EyilKgvv--~aalGQe~gSreHlKiAqqffqlVG~S  352 (557)
T KOG3785|consen  281 MKH--IP--EARLNLIIYYLNQNDVQEAISLCKDLDP--TTPYEYILKGVV--FAALGQETGSREHLKIAQQFFQLVGES  352 (557)
T ss_pred             Hhh--Ch--HhhhhheeeecccccHHHHHHHHhhcCC--CChHHHHHHHHH--HHHhhhhcCcHHHHHHHHHHHHHhccc
Confidence            553  22  2233455567899999999988876542  223233332222  222332       233333333     


Q ss_pred             --------------------hhHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHH
Q 005729          570 --------------------GLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTY  629 (680)
Q Consensus       570 --------------------~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~  629 (680)
                                          ...++.+..++.++.. +..|...--.+..+++..|.+.+|.++|-+.....++ |..+|
T Consensus       353 a~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~sY-F~NdD~Fn~N~AQAk~atgny~eaEelf~~is~~~ik-n~~~Y  430 (557)
T KOG3785|consen  353 ALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIESY-FTNDDDFNLNLAQAKLATGNYVEAEELFIRISGPEIK-NKILY  430 (557)
T ss_pred             ccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHH-hcCcchhhhHHHHHHHHhcChHHHHHHHhhhcChhhh-hhHHH
Confidence                                1123333334444432 2223333335778888899999999998776543333 45566


Q ss_pred             H-HHHHHHHhcCCcCcHHHHHHHHHHcCCCCCH-HHHHHHHHHHHHHH
Q 005729          630 T-TLMKALIRVDKFHKVPAVYEEMILSGCTPDR-KARAMLRSALRYMK  675 (680)
Q Consensus       630 ~-~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd~-~~~~~l~~a~~~~k  675 (680)
                      . .|.++|.+.++..-|++++-++   +...+. .....+.+-|.+..
T Consensus       431 ~s~LArCyi~nkkP~lAW~~~lk~---~t~~e~fsLLqlIAn~CYk~~  475 (557)
T KOG3785|consen  431 KSMLARCYIRNKKPQLAWDMMLKT---NTPSERFSLLQLIANDCYKAN  475 (557)
T ss_pred             HHHHHHHHHhcCCchHHHHHHHhc---CCchhHHHHHHHHHHHHHHHH
Confidence            5 4557888998888886655443   322232 23455666665544

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.89  E-value=5.7e-05  Score=79.94  Aligned_cols=181  Identities=17%  Similarity=0.172  Sum_probs=113.8

Q ss_pred             CCCChHHHHHHHHHHHHCCCCCchHHHHHHHHHHhcccCCHHHHHHh-hCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHH
Q 005729          139 SNSSIDLAYAVVSWLQKHNLCYSYELLYSILIHALGRSEKLYEAFLL-SQRQRL-TPLTYNALISACARNDDLEKALNLM  216 (680)
Q Consensus       139 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~-~~~~~~-~~~~~~~li~~~~~~g~~~~A~~~~  216 (680)
                      ..|-+++|..++++-.+.+          .|=..|-..|.+++|+++ ....+. =..||......+-..++.+.|++.|
T Consensus       812 eLgMlEeA~~lYr~ckR~D----------LlNKlyQs~g~w~eA~eiAE~~DRiHLr~Tyy~yA~~Lear~Di~~Aleyy  881 (1416)
T KOG3617|consen  812 ELGMLEEALILYRQCKRYD----------LLNKLYQSQGMWSEAFEIAETKDRIHLRNTYYNYAKYLEARRDIEAALEYY  881 (1416)
T ss_pred             HHhhHHHHHHHHHHHHHHH----------HHHHHHHhcccHHHHHHHHhhccceehhhhHHHHHHHHHhhccHHHHHHHH
Confidence            3344455555555443322          233456678999999988 222222 2247777788888889999999999


Q ss_pred             HHHHHcCCCCChhhHHHHHHHHHhcCCCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCC
Q 005729          217 SKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGL  296 (680)
Q Consensus       217 ~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~  296 (680)
                      ++...    + .+....+|.-+      ... .++....      ..|...|..-....-..|+.+.|+.+|.....   
T Consensus       882 EK~~~----h-afev~rmL~e~------p~~-~e~Yv~~------~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D---  940 (1416)
T KOG3617|consen  882 EKAGV----H-AFEVFRMLKEY------PKQ-IEQYVRR------KRDESLYSWWGQYLESVGEMDAALSFYSSAKD---  940 (1416)
T ss_pred             HhcCC----h-HHHHHHHHHhC------hHH-HHHHHHh------ccchHHHHHHHHHHhcccchHHHHHHHHHhhh---
Confidence            87431    1 11111122111      001 1111122      23556666667777778999999999987764   


Q ss_pred             CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 005729          297 SPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEME  362 (680)
Q Consensus       297 ~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~  362 (680)
                            |-++++..|-.|+.++|-++-++-.      |....-.|.+.|-..|++.+|..+|.+..
T Consensus       941 ------~fs~VrI~C~qGk~~kAa~iA~esg------d~AAcYhlaR~YEn~g~v~~Av~FfTrAq  994 (1416)
T KOG3617|consen  941 ------YFSMVRIKCIQGKTDKAARIAEESG------DKAACYHLARMYENDGDVVKAVKFFTRAQ  994 (1416)
T ss_pred             ------hhhheeeEeeccCchHHHHHHHhcc------cHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence                  6677888888899888888776533      44555668888888888888888887654

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=98.87  E-value=2.2e-05  Score=81.38  Aligned_cols=299  Identities=11%  Similarity=0.027  Sum_probs=153.1

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhCCC-CCCHH-HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 005729          267 LLNDVIVGFAKAGDASKAMRFLGMAQGVGL-SPKTA-TYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKG  344 (680)
Q Consensus       267 ~~~~li~~~~~~g~~~~A~~~~~~~~~~g~-~p~~~-~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~  344 (680)
                      .|..+...+...|+.+++.+.+....+... ..+.. ........+...|++++|.+++++..+.. +.+...+.. ...
T Consensus         8 a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~-~~~   85 (355)
T cd05804           8 GHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDY-PRDLLALKL-HLG   85 (355)
T ss_pred             HHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHH-hHH
Confidence            344444455555666665555554433211 11211 12222334556677777777777766642 233333332 212


Q ss_pred             HHH----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 005729          345 YVK----MGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGE  420 (680)
Q Consensus       345 ~~~----~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~  420 (680)
                      +..    .+..+.+.+.+..... ...........+...+...|++++|.+.+++..+.. +.+...+..+...+...|+
T Consensus        86 ~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g~  163 (355)
T cd05804          86 AFGLGDFSGMRDHVARVLPLWAP-ENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQGR  163 (355)
T ss_pred             HHHhcccccCchhHHHHHhccCc-CCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCC
Confidence            222    3344444444443111 112223344455566777777777777777777654 3345566677777777777


Q ss_pred             HHHHHHHHHHHHHCCC-CCCH--HHHHHHHHHHHccCCHHHHHHHHHHHHHCCC-CCCHHHH-H--HHHHHHHHcCChhH
Q 005729          421 WQRTFQVLKEMKSSGV-EPDT--HFYNVMIDTFGKYNCLHHAMAAFDRMLSEGI-EPDTITW-N--TLIDCHFKCGRYDR  493 (680)
Q Consensus       421 ~~~A~~l~~~m~~~~~-~p~~--~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~-~~~~~~~-~--~li~~~~~~g~~~~  493 (680)
                      +++|...+++...... .++.  ..|..+...+...|++++|..++++...... .+..... +  .++.-+...|..+.
T Consensus       164 ~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~  243 (355)
T cd05804         164 FKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDV  243 (355)
T ss_pred             HHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCCh
Confidence            7777777777665421 1222  3344666777777888888888877653321 1111111 1  22222333443333


Q ss_pred             HHHH--H-HHHHHCC-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC------C--CHHHHHHHHHHHHhcCCh
Q 005729          494 AEEL--F-EEMQERG-YFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLL------P--NVVTYTTLVDIYGQSGRF  561 (680)
Q Consensus       494 A~~~--~-~~m~~~~-~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~------p--~~~~~~~li~~~~~~g~~  561 (680)
                      +.++  . ....... .............++...|+.++|..++..+......      .  .........-++...|+.
T Consensus       244 ~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~  323 (355)
T cd05804         244 GDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLAALKGRASSADDNKQPARDVGLPLAEALYAFAEGNY  323 (355)
T ss_pred             HHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCH
Confidence            2222  1 1111110 0111122224566677888899999888887653211      0  122223333456688999


Q ss_pred             HHHHHHHh
Q 005729          562 DDAIECLE  569 (680)
Q Consensus       562 ~~A~~~~~  569 (680)
                      ++|.+.+.
T Consensus       324 ~~A~~~L~  331 (355)
T cd05804         324 ATALELLG  331 (355)
T ss_pred             HHHHHHHH
Confidence            99988776

A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been speculated that StaR could be a flavoprotein hydroxylating a tyrosine sidechain. Some family members have been annotated as proteins containing tetratricopeptide (TPR) repeats, which may at least indicate mostly alpha-helical secondary structure.

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=98.87  E-value=1.4e-05  Score=82.70  Aligned_cols=312  Identities=11%  Similarity=0.002  Sum_probs=190.1

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC-CCCH-HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 005729          300 TATYAAVITALSNSGRTIEAEAVFEELKESGL-KPRT-KAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLI  377 (680)
Q Consensus       300 ~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~-~p~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li  377 (680)
                      ...|..+...+...|+.+++.+.+....+... ..+. .........+...|++++|.+++++..+.. +.+...+.. .
T Consensus         6 ~~a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~-~   83 (355)
T cd05804           6 ALGHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDY-PRDLLALKL-H   83 (355)
T ss_pred             HHHHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHH-h
Confidence            44566677777778888887777777654322 1222 222233445677899999999999988764 334445443 2


Q ss_pred             HHHHH----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcc
Q 005729          378 DAYAN----AGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKY  453 (680)
Q Consensus       378 ~~~~~----~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~  453 (680)
                      ..+..    .+..+.+.+.+.. .....+........+...+...|++++|...+++..+.. +.+...+..+...+...
T Consensus        84 ~~~~~~~~~~~~~~~~~~~l~~-~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~  161 (355)
T cd05804          84 LGAFGLGDFSGMRDHVARVLPL-WAPENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQ  161 (355)
T ss_pred             HHHHHhcccccCchhHHHHHhc-cCcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHc
Confidence            23333    4555555555554 111222234455566778899999999999999998875 55677888899999999


Q ss_pred             CCHHHHHHHHHHHHHCCC-CCCH--HHHHHHHHHHHHcCChhHHHHHHHHHHHCCC-CCCHHHH-H--HHHHHHHhcCCH
Q 005729          454 NCLHHAMAAFDRMLSEGI-EPDT--ITWNTLIDCHFKCGRYDRAEELFEEMQERGY-FPCTTTY-N--IMINLLGEQERW  526 (680)
Q Consensus       454 g~~~~A~~~~~~m~~~~~-~~~~--~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~-~p~~~t~-~--~li~~~~~~g~~  526 (680)
                      |++++|...+++..+... .++.  ..|..+...+...|++++|..++++...... .+..... +  .++..+...|..
T Consensus       162 g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~  241 (355)
T cd05804         162 GRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHV  241 (355)
T ss_pred             CCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCC
Confidence            999999999999887532 1232  3456788889999999999999999864431 1222211 1  223333444433


Q ss_pred             HHHHHH--H-HHHHHCCC-CCCHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCC-CCHHHHHHHHHHH
Q 005729          527 EDVKRL--L-GNMRAQGL-LPNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLK-PSNLALNSLINAF  601 (680)
Q Consensus       527 ~~A~~~--~-~~m~~~~~-~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~-p~~~~~~~li~~~  601 (680)
                      ..+.++  + ........ ............++...|+.++|...++.....+..    |...+.. ...........++
T Consensus       242 ~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~~~~~----~~~~~~~~~~~~~~~l~A~~~  317 (355)
T cd05804         242 DVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLAALKGRASS----ADDNKQPARDVGLPLAEALYA  317 (355)
T ss_pred             ChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhc----cCchhhhHHhhhHHHHHHHHH
Confidence            333332  1 11111100 111222235677788899999998887644333221    0001111 1112233344456


Q ss_pred             HhcCCHHHHHHHHHHHHH
Q 005729          602 GEDQRDAEAFAVLQYMKE  619 (680)
Q Consensus       602 ~~~g~~~~A~~~~~~m~~  619 (680)
                      ...|++++|.+.+.....
T Consensus       318 ~~~g~~~~A~~~L~~al~  335 (355)
T cd05804         318 FAEGNYATALELLGPVRD  335 (355)
T ss_pred             HHcCCHHHHHHHHHHHHH
Confidence            678999999998887765

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.

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=98.87  E-value=2e-06  Score=77.76  Aligned_cols=191  Identities=16%  Similarity=0.059  Sum_probs=85.5

Q ss_pred             HHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 005729          446 MIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQER  525 (680)
Q Consensus       446 li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~  525 (680)
                      |.-.|...|+...|.+-+++.++.. +.+..+|..+...|.+.|..+.|.+.|++..... +-+....|....-+|..|+
T Consensus        41 Lal~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~FLC~qg~  118 (250)
T COG3063          41 LALGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFLCAQGR  118 (250)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHHHhCCC
Confidence            3344444555555555555544443 2233344445555555555555555555544433 2333444444444455555


Q ss_pred             HHHHHHHHHHHHHCCC-CCCHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHh
Q 005729          526 WEDVKRLLGNMRAQGL-LPNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSN-LALNSLINAFGE  603 (680)
Q Consensus       526 ~~~A~~~~~~m~~~~~-~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~-~~~~~li~~~~~  603 (680)
                      +++|.+.|++....-. .--..+|..+.-+..+.|+.+.|.+.++..           .+  ..|+. .+.-.+.....+
T Consensus       119 ~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~ra-----------L~--~dp~~~~~~l~~a~~~~~  185 (250)
T COG3063         119 PEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRA-----------LE--LDPQFPPALLELARLHYK  185 (250)
T ss_pred             hHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHH-----------HH--hCcCCChHHHHHHHHHHh
Confidence            5555555555444311 112334444444444555555444443311           11  12222 234444444455


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCcCcHHHHHHHH
Q 005729          604 DQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEM  652 (680)
Q Consensus       604 ~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m  652 (680)
                      .|++..|..+++.....|. ++.......|+.--+.|+.+.+.++=..+
T Consensus       186 ~~~y~~Ar~~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL  233 (250)
T COG3063         186 AGDYAPARLYLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQL  233 (250)
T ss_pred             cccchHHHHHHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHH
Confidence            5555555555555444332 44444444444445555544444443333

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.86  E-value=6.4e-06  Score=76.91  Aligned_cols=292  Identities=14%  Similarity=0.096  Sum_probs=160.4

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHH-HHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH-
Q 005729          267 LLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAA-VITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKG-  344 (680)
Q Consensus       267 ~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~-li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~-  344 (680)
                      ..+.|..+|....++..|-+.++++...  .|...-|.. -...+.+.+.+..|+++...|.+.   ++...-..-+.+ 
T Consensus        46 gLSlLgyCYY~~Q~f~~AA~CYeQL~ql--~P~~~qYrlY~AQSLY~A~i~ADALrV~~~~~D~---~~L~~~~lqLqaA  120 (459)
T KOG4340|consen   46 GLSLLGYCYYRLQEFALAAECYEQLGQL--HPELEQYRLYQAQSLYKACIYADALRVAFLLLDN---PALHSRVLQLQAA  120 (459)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhh--ChHHHHHHHHHHHHHHHhcccHHHHHHHHHhcCC---HHHHHHHHHHHHH
Confidence            3444555566666666666666666543  344444432 245566667777777776666542   222211111111 


Q ss_pred             -HHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHH
Q 005729          345 -YVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQR  423 (680)
Q Consensus       345 -~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~  423 (680)
                       .-..+++..+..++++....|   +..+.+...-...+.|++++|.+-|....+.+--.....|+..+ +..+.++++.
T Consensus       121 IkYse~Dl~g~rsLveQlp~en---~Ad~~in~gCllykegqyEaAvqkFqaAlqvsGyqpllAYniAL-aHy~~~qyas  196 (459)
T KOG4340|consen  121 IKYSEGDLPGSRSLVEQLPSEN---EADGQINLGCLLYKEGQYEAAVQKFQAALQVSGYQPLLAYNLAL-AHYSSRQYAS  196 (459)
T ss_pred             HhcccccCcchHHHHHhccCCC---ccchhccchheeeccccHHHHHHHHHHHHhhcCCCchhHHHHHH-HHHhhhhHHH
Confidence             123456666666666655322   44444444455556777777777777666554333444555443 3345566777


Q ss_pred             HHHHHHHHHHCCCC-------------CCH---------------HHHHHHHHHHHccCCHHHHHHHHHHHHH-CCCCCC
Q 005729          424 TFQVLKEMKSSGVE-------------PDT---------------HFYNVMIDTFGKYNCLHHAMAAFDRMLS-EGIEPD  474 (680)
Q Consensus       424 A~~l~~~m~~~~~~-------------p~~---------------~~~~~li~~~~~~g~~~~A~~~~~~m~~-~~~~~~  474 (680)
                      |++...++.++|++             ||+               ..+|.-...+.+.|+.+.|.+.+..|.- .....|
T Consensus       197 ALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elD  276 (459)
T KOG4340|consen  197 ALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELD  276 (459)
T ss_pred             HHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHHHHHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCC
Confidence            77777766665532             111               1122223334677888888888877752 223456


Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-CCHHHHHHHHH
Q 005729          475 TITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLL-PNVVTYTTLVD  553 (680)
Q Consensus       475 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~-p~~~~~~~li~  553 (680)
                      ++|...+.-.= ..+++.+..+-+.-+.+.. +-...||..++-.||++.-++-|-.++.+-...-++ .+...|+ |++
T Consensus       277 PvTLHN~Al~n-~~~~p~~g~~KLqFLL~~n-PfP~ETFANlLllyCKNeyf~lAADvLAEn~~lTyk~L~~Yly~-LLd  353 (459)
T KOG4340|consen  277 PVTLHNQALMN-MDARPTEGFEKLQFLLQQN-PFPPETFANLLLLYCKNEYFDLAADVLAENAHLTYKFLTPYLYD-LLD  353 (459)
T ss_pred             chhhhHHHHhc-ccCCccccHHHHHHHHhcC-CCChHHHHHHHHHHhhhHHHhHHHHHHhhCcchhHHHhhHHHHH-HHH
Confidence            66665543322 2455555665555555554 334678888888899988888888887654332111 1333443 334


Q ss_pred             HHHh-cCChHHHHHHHhh
Q 005729          554 IYGQ-SGRFDDAIECLEG  570 (680)
Q Consensus       554 ~~~~-~g~~~~A~~~~~~  570 (680)
                      ++.. .-..++|.+-+++
T Consensus       354 aLIt~qT~pEea~KKL~~  371 (459)
T KOG4340|consen  354 ALITCQTAPEEAFKKLDG  371 (459)
T ss_pred             HHHhCCCCHHHHHHHHHH
Confidence            4333 3456666665553

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=98.85  E-value=2.2e-06  Score=77.41  Aligned_cols=184  Identities=16%  Similarity=0.132  Sum_probs=81.2

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCH
Q 005729          377 IDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCL  456 (680)
Q Consensus       377 i~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~  456 (680)
                      .-+|...|+...|.+-+++.++.. +.+..+|..+...|.+.|+.+.|.+-|++..+.. +-+..+.|.....+|..|.+
T Consensus        42 al~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~FLC~qg~~  119 (250)
T COG3063          42 ALGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFLCAQGRP  119 (250)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHHHhCCCh
Confidence            334444444444444444444332 1223344444444444444444444444444332 22333444444444444444


Q ss_pred             HHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 005729          457 HHAMAAFDRMLSEG-IEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGN  535 (680)
Q Consensus       457 ~~A~~~~~~m~~~~-~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~  535 (680)
                      ++|...|++....- ..--..+|..+.-+..+.|+.+.|.+.|++.++.. +-...+...+.....+.|++-.|..+++.
T Consensus       120 ~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~d-p~~~~~~l~~a~~~~~~~~y~~Ar~~~~~  198 (250)
T COG3063         120 EEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELD-PQFPPALLELARLHYKAGDYAPARLYLER  198 (250)
T ss_pred             HHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhC-cCCChHHHHHHHHHHhcccchHHHHHHHH
Confidence            45544444444321 11122344444444445555555555555555443 22334444444455555555555555555


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHhcCChHHH
Q 005729          536 MRAQGLLPNVVTYTTLVDIYGQSGRFDDA  564 (680)
Q Consensus       536 m~~~~~~p~~~~~~~li~~~~~~g~~~~A  564 (680)
                      ....+. ++..+....|+.--..|+.+.+
T Consensus       199 ~~~~~~-~~A~sL~L~iriak~~gd~~~a  226 (250)
T COG3063         199 YQQRGG-AQAESLLLGIRIAKRLGDRAAA  226 (250)
T ss_pred             HHhccc-ccHHHHHHHHHHHHHhccHHHH
Confidence            444432 4444444444444444444443

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.84  E-value=2.6e-07  Score=93.97  Aligned_cols=241  Identities=15%  Similarity=0.161  Sum_probs=158.3

Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHH
Q 005729          416 RDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAE  495 (680)
Q Consensus       416 ~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~  495 (680)
                      .+.|++.+|.-.|+...+.. +-+...|..|.......++-..|+..+.+..+.. +-+....-.|.-.|...|.-..|+
T Consensus       296 m~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~Ld-P~NleaLmaLAVSytNeg~q~~Al  373 (579)
T KOG1125|consen  296 MKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELD-PTNLEALMALAVSYTNEGLQNQAL  373 (579)
T ss_pred             HhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcC-CccHHHHHHHHHHHhhhhhHHHHH
Confidence            44555556666666555443 4455566666666666666666666666666554 234555566666666666666666


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHH---------HHHHhcCCHHHHHHHHHHHHH-CCCCCCHHHHHHHHHHHHhcCChHHHH
Q 005729          496 ELFEEMQERGYFPCTTTYNIMI---------NLLGEQERWEDVKRLLGNMRA-QGLLPNVVTYTTLVDIYGQSGRFDDAI  565 (680)
Q Consensus       496 ~~~~~m~~~~~~p~~~t~~~li---------~~~~~~g~~~~A~~~~~~m~~-~~~~p~~~~~~~li~~~~~~g~~~~A~  565 (680)
                      ++++.-+... +|-  .|...-         ..+.....+....++|-++.. .+..+|+.+...|.-.|--.|++++|+
T Consensus       374 ~~L~~Wi~~~-p~y--~~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdrai  450 (579)
T KOG1125|consen  374 KMLDKWIRNK-PKY--VHLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAV  450 (579)
T ss_pred             HHHHHHHHhC-ccc--hhccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHH
Confidence            6666654432 000  000000         011112223344555555544 354578889999999999999999999


Q ss_pred             HHHhhhHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHhcCCcC
Q 005729          566 ECLEGLSDQAVNAFRVMRTDGLKPSNL-ALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVV-TYTTLMKALIRVDKFH  643 (680)
Q Consensus       566 ~~~~~~~~~a~~~~~~m~~~g~~p~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-~~~~l~~~~~~~g~~~  643 (680)
                      ++|+           ...+  .+|+.. .||.|...++...+.++|+..|+++++  +.|+.+ ...-|.-.|+..|.|+
T Consensus       451 Dcf~-----------~AL~--v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALq--LqP~yVR~RyNlgIS~mNlG~yk  515 (579)
T KOG1125|consen  451 DCFE-----------AALQ--VKPNDYLLWNRLGATLANGNRSEEAISAYNRALQ--LQPGYVRVRYNLGISCMNLGAYK  515 (579)
T ss_pred             HHHH-----------HHHh--cCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHh--cCCCeeeeehhhhhhhhhhhhHH
Confidence            8865           3333  567665 899999999999999999999999998  788754 5666788899999999


Q ss_pred             cHHHHHHHHHHc---------CCCCCHHHHHHHHHHHHHHHh
Q 005729          644 KVPAVYEEMILS---------GCTPDRKARAMLRSALRYMKQ  676 (680)
Q Consensus       644 ~A~~~~~~m~~~---------g~~pd~~~~~~l~~a~~~~k~  676 (680)
                      +|.+.|-+.+..         +..++..+|..|+.++..+++
T Consensus       516 EA~~hlL~AL~mq~ks~~~~~~~~~se~iw~tLR~als~~~~  557 (579)
T KOG1125|consen  516 EAVKHLLEALSMQRKSRNHNKAPMASENIWQTLRLALSAMNR  557 (579)
T ss_pred             HHHHHHHHHHHhhhcccccccCCcchHHHHHHHHHHHHHcCC
Confidence            999998877632         233445789999988886654

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.81  E-value=7.8e-05  Score=75.75  Aligned_cols=382  Identities=13%  Similarity=0.046  Sum_probs=220.6

Q ss_pred             CCCChHHHHHHHHHHHHCCCCCchHHHHHHHHHHhcccCCHHHHHHh----hCCCCCCHHHHHHHHHHHHHcCCHHHHHH
Q 005729          139 SNSSIDLAYAVVSWLQKHNLCYSYELLYSILIHALGRSEKLYEAFLL----SQRQRLTPLTYNALISACARNDDLEKALN  214 (680)
Q Consensus       139 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~----~~~~~~~~~~~~~li~~~~~~g~~~~A~~  214 (680)
                      +.++++.|...|...+...  |++..+|+.-..+|++.|++.+|.+-    ....+.-+..|+-...++.-.|++++|+.
T Consensus        14 s~~d~~~ai~~~t~ai~l~--p~nhvlySnrsaa~a~~~~~~~al~da~k~~~l~p~w~kgy~r~Gaa~~~lg~~~eA~~   91 (539)
T KOG0548|consen   14 SSGDFETAIRLFTEAIMLS--PTNHVLYSNRSAAYASLGSYEKALKDATKTRRLNPDWAKGYSRKGAALFGLGDYEEAIL   91 (539)
T ss_pred             ccccHHHHHHHHHHHHccC--CCccchhcchHHHHHHHhhHHHHHHHHHHHHhcCCchhhHHHHhHHHHHhcccHHHHHH
Confidence            6689999999999999877  77889999999999999999999865    45555567899999999999999999999


Q ss_pred             HHHHHHHcCCCCChhhHHHHHHHHHhcCCCChHH-HHHHHHHHHhC---CCCcCHHHHHHHHHHHHHc----------CC
Q 005729          215 LMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSL-LQKLYKEIECD---KIELDGQLLNDVIVGFAKA----------GD  280 (680)
Q Consensus       215 ~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~~~-~~~l~~~~~~~---~~~~~~~~~~~li~~~~~~----------g~  280 (680)
                      -|.+-.+.. +-+...++-+..+.......+... .-.++..+...   ........|..++..+-+.          ..
T Consensus        92 ay~~GL~~d-~~n~~L~~gl~~a~~~~~~~~~~~~~p~~~~~l~~~p~t~~~~~~~~~~~~l~~~~~~p~~l~~~l~d~r  170 (539)
T KOG0548|consen   92 AYSEGLEKD-PSNKQLKTGLAQAYLEDYAADQLFTKPYFHEKLANLPLTNYSLSDPAYVKILEIIQKNPTSLKLYLNDPR  170 (539)
T ss_pred             HHHHHhhcC-CchHHHHHhHHHhhhHHHHhhhhccCcHHHHHhhcChhhhhhhccHHHHHHHHHhhcCcHhhhcccccHH
Confidence            999977653 223344444444431110000000 00111111100   0001111222222221110          01


Q ss_pred             HHHHHHHHHH-----HHhCC-------CCC------------C----------HHHHHHHHHHHHhcCChHHHHHHHHHH
Q 005729          281 ASKAMRFLGM-----AQGVG-------LSP------------K----------TATYAAVITALSNSGRTIEAEAVFEEL  326 (680)
Q Consensus       281 ~~~A~~~~~~-----~~~~g-------~~p------------~----------~~~~~~li~~~~~~g~~~~A~~l~~~m  326 (680)
                      +..|.-.+..     +...|       ..|            |          ..-...+.+...+..++..|++-+...
T Consensus       171 ~m~a~~~l~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~d~~ee~~~k~~a~~ek~lgnaaykkk~f~~a~q~y~~a  250 (539)
T KOG0548|consen  171 LMKADGQLKGVDELLFYASGIEILASMAEPCKQEHNGFPIIEDNTEERRVKEKAHKEKELGNAAYKKKDFETAIQHYAKA  250 (539)
T ss_pred             HHHHHHHHhcCccccccccccccCCCCCCcccccCCCCCccchhHHHHHHHHhhhHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence            1111111100     00000       011            0          012344566666667777777777776


Q ss_pred             HHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHH-------HHHHHHHcCCHHHHHHHHHHHHHC
Q 005729          327 KESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSL-------LIDAYANAGRWESARIVLKEMEVS  399 (680)
Q Consensus       327 ~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~-------li~~~~~~g~~~~A~~~~~~m~~~  399 (680)
                      .+..  -+..-++....+|...|.+.++...-....+.|-. ...-|+.       +..+|.+.++++.++..|.+....
T Consensus       251 ~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre-~rad~klIak~~~r~g~a~~k~~~~~~ai~~~~kaLte  327 (539)
T KOG0548|consen  251 LELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRE-LRADYKLIAKALARLGNAYTKREDYEGAIKYYQKALTE  327 (539)
T ss_pred             HhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHH-HHHHHHHHHHHHHHhhhhhhhHHhHHHHHHHHHHHhhh
Confidence            6654  35555666667777777777666666655554422 1112222       233555566677777777665443


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHH
Q 005729          400 HAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDT-HFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITW  478 (680)
Q Consensus       400 ~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~  478 (680)
                      ...|+         ...+....+++....+...-.  .|.. .-...-...+.+.|++..|...|.++++.. +-|...|
T Consensus       328 ~Rt~~---------~ls~lk~~Ek~~k~~e~~a~~--~pe~A~e~r~kGne~Fk~gdy~~Av~~YteAIkr~-P~Da~lY  395 (539)
T KOG0548|consen  328 HRTPD---------LLSKLKEAEKALKEAERKAYI--NPEKAEEEREKGNEAFKKGDYPEAVKHYTEAIKRD-PEDARLY  395 (539)
T ss_pred             hcCHH---------HHHHHHHHHHHHHHHHHHHhh--ChhHHHHHHHHHHHHHhccCHHHHHHHHHHHHhcC-CchhHHH
Confidence            32222         122223334444433333222  1221 111222456677888888888888888775 4577788


Q ss_pred             HHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 005729          479 NTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQ  539 (680)
Q Consensus       479 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~  539 (680)
                      .....+|.+.|.+..|+.-.+..++.. ++....|..-..++....++++|.+.|.+.++.
T Consensus       396 sNRAac~~kL~~~~~aL~Da~~~ieL~-p~~~kgy~RKg~al~~mk~ydkAleay~eale~  455 (539)
T KOG0548|consen  396 SNRAACYLKLGEYPEALKDAKKCIELD-PNFIKAYLRKGAALRAMKEYDKALEAYQEALEL  455 (539)
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHhcC-chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            888888888888888888877777764 444555666666666677888888888888775

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.79  E-value=3.1e-05  Score=80.72  Aligned_cols=228  Identities=18%  Similarity=0.197  Sum_probs=109.1

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHc
Q 005729          269 NDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKM  348 (680)
Q Consensus       269 ~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~  348 (680)
                      -+.|..|.+.|.+.+|.+....-..  +..|......+..++.+..-++.|-++|+++...    +     -.+.+|-+-
T Consensus       619 laaiqlyika~~p~~a~~~a~n~~~--l~~de~il~~ia~alik~elydkagdlfeki~d~----d-----kale~fkkg  687 (1636)
T KOG3616|consen  619 LAAIQLYIKAGKPAKAARAALNDEE--LLADEEILEHIAAALIKGELYDKAGDLFEKIHDF----D-----KALECFKKG  687 (1636)
T ss_pred             HHHHHHHHHcCCchHHHHhhcCHHH--hhccHHHHHHHHHHHHhhHHHHhhhhHHHHhhCH----H-----HHHHHHHcc
Confidence            3457788888888888775421111  1345555555566666666666666666665421    1     122222222


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHH-HHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 005729          349 GYLKDAEFVVSEMERSGVLPDEHT-YSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQV  427 (680)
Q Consensus       349 g~~~~A~~~~~~m~~~g~~~~~~~-~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l  427 (680)
                      .-+-+|.++-+-.-    +..+++ -......+...|+++.|+..|-+..         .....+.+.....+|.+|+.+
T Consensus       688 daf~kaielarfaf----p~evv~lee~wg~hl~~~~q~daainhfiea~---------~~~kaieaai~akew~kai~i  754 (1636)
T KOG3616|consen  688 DAFGKAIELARFAF----PEEVVKLEEAWGDHLEQIGQLDAAINHFIEAN---------CLIKAIEAAIGAKEWKKAISI  754 (1636)
T ss_pred             cHHHHHHHHHHhhC----cHHHhhHHHHHhHHHHHHHhHHHHHHHHHHhh---------hHHHHHHHHhhhhhhhhhHhH
Confidence            22334433322211    101111 1112233444555555555443321         122233444455566666666


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCC
Q 005729          428 LKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYF  507 (680)
Q Consensus       428 ~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~  507 (680)
                      ++.+....  .-..-|..+.+-|+..|+++.|+++|.+.-         .++-.|.+|.+.|+++.|.++-.+..  |..
T Consensus       755 ldniqdqk--~~s~yy~~iadhyan~~dfe~ae~lf~e~~---------~~~dai~my~k~~kw~da~kla~e~~--~~e  821 (1636)
T KOG3616|consen  755 LDNIQDQK--TASGYYGEIADHYANKGDFEIAEELFTEAD---------LFKDAIDMYGKAGKWEDAFKLAEECH--GPE  821 (1636)
T ss_pred             HHHhhhhc--cccccchHHHHHhccchhHHHHHHHHHhcc---------hhHHHHHHHhccccHHHHHHHHHHhc--Cch
Confidence            66555432  222344555556666666666666654321         24445556666666666665544432  212


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHH
Q 005729          508 PCTTTYNIMINLLGEQERWEDVKRLL  533 (680)
Q Consensus       508 p~~~t~~~li~~~~~~g~~~~A~~~~  533 (680)
                      .....|..-..-+-++|++.+|++++
T Consensus       822 ~t~~~yiakaedldehgkf~eaeqly  847 (1636)
T KOG3616|consen  822 ATISLYIAKAEDLDEHGKFAEAEQLY  847 (1636)
T ss_pred             hHHHHHHHhHHhHHhhcchhhhhhee
Confidence            22333444444445555555555554

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.77  E-value=8.9e-05  Score=87.21  Aligned_cols=374  Identities=12%  Similarity=0.017  Sum_probs=225.9

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Q 005729          269 NDVIVGFAKAGDASKAMRFLGMAQGVGLSPK-TATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVK  347 (680)
Q Consensus       269 ~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~  347 (680)
                      ......|...|++.+|...+.....   .+. ..............|++..+...++.+.......+..........+..
T Consensus       345 ~raa~~~~~~g~~~~Al~~a~~a~d---~~~~~~ll~~~a~~l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~  421 (903)
T PRK04841        345 RAAAEAWLAQGFPSEAIHHALAAGD---AQLLRDILLQHGWSLFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQS  421 (903)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHCCC---HHHHHHHHHHhHHHHHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHH
Confidence            3344456666777766654443321   100 011122233455677887777777665321111122223344555667


Q ss_pred             cCCHHHHHHHHHHHHHCCC------CCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH----HHHHHHHHHH
Q 005729          348 MGYLKDAEFVVSEMERSGV------LPD--EHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNS----FIYSRILAGY  415 (680)
Q Consensus       348 ~g~~~~A~~~~~~m~~~g~------~~~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~----~~~~~ll~~~  415 (680)
                      .|+++++..++....+.--      .+.  ......+...+...|++++|...+++........+.    ...+.+...+
T Consensus       422 ~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~  501 (903)
T PRK04841        422 QHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVH  501 (903)
T ss_pred             CCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHH
Confidence            8999999999987754210      111  122233345567899999999999987753222222    2445566777


Q ss_pred             HhcCCHHHHHHHHHHHHHCCC---CC--CHHHHHHHHHHHHccCCHHHHHHHHHHHHHC----CCC--C-CHHHHHHHHH
Q 005729          416 RDRGEWQRTFQVLKEMKSSGV---EP--DTHFYNVMIDTFGKYNCLHHAMAAFDRMLSE----GIE--P-DTITWNTLID  483 (680)
Q Consensus       416 ~~~g~~~~A~~l~~~m~~~~~---~p--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----~~~--~-~~~~~~~li~  483 (680)
                      ...|++++|...+.+.....-   .+  ...++..+...+...|+++.|...+++....    +..  + ....+..+..
T Consensus       502 ~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~  581 (903)
T PRK04841        502 HCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQ  581 (903)
T ss_pred             HHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHH
Confidence            889999999999988764210   11  1234556677788899999999998876542    211  1 2234555666


Q ss_pred             HHHHcCChhHHHHHHHHHHHC--CCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-CCHHHH-----HHHHH
Q 005729          484 CHFKCGRYDRAEELFEEMQER--GYFP--CTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLL-PNVVTY-----TTLVD  553 (680)
Q Consensus       484 ~~~~~g~~~~A~~~~~~m~~~--~~~p--~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~-p~~~~~-----~~li~  553 (680)
                      .+...|++++|...+.+....  ...+  ....+..+...+...|+.++|...+.++...... .....+     ...+.
T Consensus       582 ~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~  661 (903)
T PRK04841        582 LLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLI  661 (903)
T ss_pred             HHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHH
Confidence            777889999999999887543  1112  2334445666778899999999999887543111 011111     11223


Q ss_pred             HHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCC---HHHHHHHHHHHHhcCCHHHHHHHHHHHHH----CCCCCC-
Q 005729          554 IYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPS---NLALNSLINAFGEDQRDAEAFAVLQYMKE----NGLKPD-  625 (680)
Q Consensus       554 ~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~----~g~~p~-  625 (680)
                      .+...|+.+.|...+..           .........   ...+..+..++...|+.++|..++++...    .|..++ 
T Consensus       662 ~~~~~g~~~~A~~~l~~-----------~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~  730 (903)
T PRK04841        662 YWQMTGDKEAAANWLRQ-----------APKPEFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNENARSLRLMSDL  730 (903)
T ss_pred             HHHHCCCHHHHHHHHHh-----------cCCCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHH
Confidence            44557777777766431           111100011   11245677788899999999999998875    233332 


Q ss_pred             HHHHHHHHHHHHhcCCcCcHHHHHHHHHHcC
Q 005729          626 VVTYTTLMKALIRVDKFHKVPAVYEEMILSG  656 (680)
Q Consensus       626 ~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g  656 (680)
                      ..+...+..++.+.|+.++|.+.+.+.++..
T Consensus       731 a~~~~~la~a~~~~G~~~~A~~~L~~Al~la  761 (903)
T PRK04841        731 NRNLILLNQLYWQQGRKSEAQRVLLEALKLA  761 (903)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHh
Confidence            2456677788999999999999999998754

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.76  E-value=0.00037  Score=75.78  Aligned_cols=493  Identities=13%  Similarity=0.057  Sum_probs=244.4

Q ss_pred             CChHHHHHHHHHHHHCCCCCchHHHHHHHHHHhcccCCHHHHHHh----hCCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Q 005729          141 SSIDLAYAVVSWLQKHNLCYSYELLYSILIHALGRSEKLYEAFLL----SQRQRLTPLTYNALISACARNDDLEKALNLM  216 (680)
Q Consensus       141 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~----~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~  216 (680)
                      .+...++..|-+.++.+  +.....|+.|...|....+...|.+.    .+....+..++-.....|++..+++.|..+.
T Consensus       472 K~~~~al~ali~alrld--~~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLDatdaeaaaa~adtyae~~~we~a~~I~  549 (1238)
T KOG1127|consen  472 KNSALALHALIRALRLD--VSLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELDATDAEAAAASADTYAEESTWEEAFEIC  549 (1238)
T ss_pred             hhHHHHHHHHHHHHhcc--cchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCchhhhhHHHHHHHhhccccHHHHHHHH
Confidence            34555665555555555  45556788888888877766667665    4555666778888889999999999988883


Q ss_pred             HHHHHcCCCCChhhHHHHHHH--HHhcCCCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC
Q 005729          217 SKMRQDGYHCDFINYSLVIQS--LTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGV  294 (680)
Q Consensus       217 ~~m~~~g~~p~~~~~~~ll~~--~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  294 (680)
                      -...+.. +.-...++-+-.+  +.+.++...++  .-|+...+. -+.|...|..+..+|..+|.+..|+++|.+....
T Consensus       550 l~~~qka-~a~~~k~nW~~rG~yyLea~n~h~aV--~~fQsALR~-dPkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~L  625 (1238)
T KOG1127|consen  550 LRAAQKA-PAFACKENWVQRGPYYLEAHNLHGAV--CEFQSALRT-DPKDYNLWLGLGEAYPESGRYSHALKVFTKASLL  625 (1238)
T ss_pred             HHHhhhc-hHHHHHhhhhhccccccCccchhhHH--HHHHHHhcC-CchhHHHHHHHHHHHHhcCceehHHHhhhhhHhc
Confidence            3322211 0001111111111  12222222221  222222221 2457788899999999999999999999887763


Q ss_pred             CCCCCHH-HHHHHHHHHHhcCChHHHHHHHHHHHHcC------CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH-----
Q 005729          295 GLSPKTA-TYAAVITALSNSGRTIEAEAVFEELKESG------LKPRTKAYNALLKGYVKMGYLKDAEFVVSEME-----  362 (680)
Q Consensus       295 g~~p~~~-~~~~li~~~~~~g~~~~A~~l~~~m~~~g------~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~-----  362 (680)
                        .|+.. .---..-..+..|.+.+|++.+......-      ..--..++..+...+.-.|-..++..+++.-+     
T Consensus       626 --rP~s~y~~fk~A~~ecd~GkYkeald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~~  703 (1238)
T KOG1127|consen  626 --RPLSKYGRFKEAVMECDNGKYKEALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIESFIV  703 (1238)
T ss_pred             --CcHhHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHH
Confidence              44432 22223344567888999988888775421      11112233333333333343333333333322     


Q ss_pred             --HCCCCCCHHHHHHHHHHHHHcCCHH------HHHH-HHHHHHHCCCC--------------------CCHHHHHHHHH
Q 005729          363 --RSGVLPDEHTYSLLIDAYANAGRWE------SARI-VLKEMEVSHAK--------------------PNSFIYSRILA  413 (680)
Q Consensus       363 --~~g~~~~~~~~~~li~~~~~~g~~~------~A~~-~~~~m~~~~~~--------------------~~~~~~~~ll~  413 (680)
                        .....-+...|-.+-+++.-.-..+      .... ++.+....+.-                    .+..+|..++.
T Consensus       704 ~l~h~~~~~~~~Wi~asdac~~f~q~e~~~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~hlsl~~~~~~WyNLGi  783 (1238)
T KOG1127|consen  704 SLIHSLQSDRLQWIVASDACYIFSQEEPSIVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIAHLSLAIHMYPWYNLGI  783 (1238)
T ss_pred             HHHHhhhhhHHHHHHHhHHHHHHHHhcccchHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhHHHHHhhccchHHHHhH
Confidence              2111112222322222211000000      0000 01111111111                    11223333333


Q ss_pred             HHHh----c----CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 005729          414 GYRD----R----GEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCH  485 (680)
Q Consensus       414 ~~~~----~----g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~  485 (680)
                      .|.+    .    .+...|...+.+..+.. ..+..+|+.|.-. ...|.+.-+...|-.-.... +....+|..+.-.+
T Consensus       784 nylr~f~~l~et~~~~~~Ai~c~KkaV~L~-ann~~~WnaLGVl-sg~gnva~aQHCfIks~~se-p~~~~~W~NlgvL~  860 (1238)
T KOG1127|consen  784 NYLRYFLLLGETMKDACTAIRCCKKAVSLC-ANNEGLWNALGVL-SGIGNVACAQHCFIKSRFSE-PTCHCQWLNLGVLV  860 (1238)
T ss_pred             HHHHHHHHcCCcchhHHHHHHHHHHHHHHh-hccHHHHHHHHHh-hccchhhhhhhhhhhhhhcc-ccchhheeccceeE
Confidence            3322    1    12234555555544432 2344445444433 44455555555554443332 34556676666667


Q ss_pred             HHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH--HH--CCCCCCHHHHHHHHHHHHhcCCh
Q 005729          486 FKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNM--RA--QGLLPNVVTYTTLVDIYGQSGRF  561 (680)
Q Consensus       486 ~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m--~~--~~~~p~~~~~~~li~~~~~~g~~  561 (680)
                      .++.+++.|...|...+... +-|...|..........|+.-+...+|..-  ..  .|--++..-+.+........|+.
T Consensus       861 l~n~d~E~A~~af~~~qSLd-P~nl~~WlG~Ali~eavG~ii~~~~lfaHs~el~~~~gka~~f~Yw~c~te~h~~Ng~~  939 (1238)
T KOG1127|consen  861 LENQDFEHAEPAFSSVQSLD-PLNLVQWLGEALIPEAVGRIIERLILFAHSDELCSKEGKAKKFQYWLCATEIHLQNGNI  939 (1238)
T ss_pred             EecccHHHhhHHHHhhhhcC-chhhHHHHHHHHhHHHHHHHHHHHHHHHhhHHhhccccccchhhHHHHHHHHHHhccch
Confidence            77777777777777776654 445566655555555667777777666652  11  13333443333333344455565


Q ss_pred             HHHHHHHhhhHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCCCHHHHH----HHHHHH
Q 005729          562 DDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKEN-GLKPDVVTYT----TLMKAL  636 (680)
Q Consensus       562 ~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-g~~p~~~~~~----~l~~~~  636 (680)
                      ++-+...+......+. .++... |..-+...|...+...-+.+.+.+|.++..+.... ..+-|...|+    .+.+.+
T Consensus       940 e~~I~t~~ki~sAs~a-l~~yf~-~~p~~~fAy~~~gstlEhL~ey~~a~ela~RliglLe~k~d~sqynvak~~~gRL~ 1017 (1238)
T KOG1127|consen  940 EESINTARKISSASLA-LSYYFL-GHPQLCFAYAANGSTLEHLEEYRAALELATRLIGLLELKLDESQYNVAKPDAGRLE 1017 (1238)
T ss_pred             HHHHHHhhhhhhhHHH-HHHHHh-cCcchhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhh
Confidence            5554443322221111 112211 22333346777777777777777777766665420 0122334444    334455


Q ss_pred             HhcCCcCcHHH
Q 005729          637 IRVDKFHKVPA  647 (680)
Q Consensus       637 ~~~g~~~~A~~  647 (680)
                      +..|.++.|..
T Consensus      1018 lslgefe~A~~ 1028 (1238)
T KOG1127|consen 1018 LSLGEFESAKK 1028 (1238)
T ss_pred             hhhcchhhHhh
Confidence            56666665543

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.75  E-value=0.00011  Score=86.33  Aligned_cols=339  Identities=14%  Similarity=0.036  Sum_probs=210.9

Q ss_pred             HHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC------CCCH--HHHHHHHHHHH
Q 005729          275 FAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGL------KPRT--KAYNALLKGYV  346 (680)
Q Consensus       275 ~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~------~p~~--~~~~~li~~~~  346 (680)
                      ....|+++.+.++++.+.......+..........+...|++++|...+....+.--      .+..  .....+...+.
T Consensus       384 l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~  463 (903)
T PRK04841        384 LFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAI  463 (903)
T ss_pred             HHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHH
Confidence            445677777777766552111111222223445556678999999998887654210      1111  12222334556


Q ss_pred             HcCCHHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC---CC--CHHHHHHHHHHHHh
Q 005729          347 KMGYLKDAEFVVSEMERSGVLPDE----HTYSLLIDAYANAGRWESARIVLKEMEVSHA---KP--NSFIYSRILAGYRD  417 (680)
Q Consensus       347 ~~g~~~~A~~~~~~m~~~g~~~~~----~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~---~~--~~~~~~~ll~~~~~  417 (680)
                      ..|++++|...+++..+.-...+.    ...+.+...+...|++++|...+.+......   .+  ...++..+...+..
T Consensus       464 ~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~  543 (903)
T PRK04841        464 NDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFA  543 (903)
T ss_pred             hCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHH
Confidence            789999999999887753111121    3445666777889999999999888764211   11  12345566777888


Q ss_pred             cCCHHHHHHHHHHHHH----CCCC--C-CHHHHHHHHHHHHccCCHHHHHHHHHHHHHCC--CCC--CHHHHHHHHHHHH
Q 005729          418 RGEWQRTFQVLKEMKS----SGVE--P-DTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEG--IEP--DTITWNTLIDCHF  486 (680)
Q Consensus       418 ~g~~~~A~~l~~~m~~----~~~~--p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~--~~~--~~~~~~~li~~~~  486 (680)
                      .|++++|...+++...    .+..  + ....+..+...+...|++++|...+.+.....  ..+  ....+..+...+.
T Consensus       544 ~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~  623 (903)
T PRK04841        544 QGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISL  623 (903)
T ss_pred             CCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHH
Confidence            9999999999887654    2211  1 23344556667777899999999988875431  112  2334555667788


Q ss_pred             HcCChhHHHHHHHHHHHCCC-CCCHHHH-----HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC---HHHHHHHHHHHHh
Q 005729          487 KCGRYDRAEELFEEMQERGY-FPCTTTY-----NIMINLLGEQERWEDVKRLLGNMRAQGLLPN---VVTYTTLVDIYGQ  557 (680)
Q Consensus       487 ~~g~~~~A~~~~~~m~~~~~-~p~~~t~-----~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~---~~~~~~li~~~~~  557 (680)
                      ..|++++|.+.+.+...... ......+     ...+..+...|+.+.|..++...........   ...+..+..++..
T Consensus       624 ~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~  703 (903)
T PRK04841        624 ARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQIL  703 (903)
T ss_pred             HcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHH
Confidence            89999999999988754210 0111111     1122444568899999999877654221111   1124567778889


Q ss_pred             cCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 005729          558 SGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSN-LALNSLINAFGEDQRDAEAFAVLQYMKEN  620 (680)
Q Consensus       558 ~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~  620 (680)
                      .|++++|...++..    +...   ...|..++. .++..+..++.+.|+.++|...+.+..+.
T Consensus       704 ~g~~~~A~~~l~~a----l~~~---~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~l  760 (903)
T PRK04841        704 LGQFDEAEIILEEL----NENA---RSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEALKL  760 (903)
T ss_pred             cCCHHHHHHHHHHH----HHHH---HHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            99999999877633    3222   222333332 36777888899999999999999999874

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.75  E-value=9.5e-05  Score=75.17  Aligned_cols=398  Identities=15%  Similarity=0.106  Sum_probs=235.1

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCCChHHHHHHHHHHHhCCCCcC-HHHHHHHHHHHHHc
Q 005729          200 ISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELD-GQLLNDVIVGFAKA  278 (680)
Q Consensus       200 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~~~~~~l~~~~~~~~~~~~-~~~~~~li~~~~~~  278 (680)
                      .++.+..|+++.|+.+|-+..... ++|.+.|+--..+++..|++..++    -+.-....+.|+ ..-|+....++.-.
T Consensus         9 gnaa~s~~d~~~ai~~~t~ai~l~-p~nhvlySnrsaa~a~~~~~~~al----~da~k~~~l~p~w~kgy~r~Gaa~~~l   83 (539)
T KOG0548|consen    9 GNAAFSSGDFETAIRLFTEAIMLS-PTNHVLYSNRSAAYASLGSYEKAL----KDATKTRRLNPDWAKGYSRKGAALFGL   83 (539)
T ss_pred             HHhhcccccHHHHHHHHHHHHccC-CCccchhcchHHHHHHHhhHHHHH----HHHHHHHhcCCchhhHHHHhHHHHHhc
Confidence            345677899999999999998876 348888988888999999885542    222333344555 56788888888899


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHH---HHHHHHHHHHc---CCCCCHHHHHHHHHHHHHc----
Q 005729          279 GDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIE---AEAVFEELKES---GLKPRTKAYNALLKGYVKM----  348 (680)
Q Consensus       279 g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~---A~~l~~~m~~~---g~~p~~~~~~~li~~~~~~----  348 (680)
                      |++++|+..|.+-++.. +.+...++-+..++.......+   --.++..+...   ........|..++..+-+.    
T Consensus        84 g~~~eA~~ay~~GL~~d-~~n~~L~~gl~~a~~~~~~~~~~~~~p~~~~~l~~~p~t~~~~~~~~~~~~l~~~~~~p~~l  162 (539)
T KOG0548|consen   84 GDYEEAILAYSEGLEKD-PSNKQLKTGLAQAYLEDYAADQLFTKPYFHEKLANLPLTNYSLSDPAYVKILEIIQKNPTSL  162 (539)
T ss_pred             ccHHHHHHHHHHHhhcC-CchHHHHHhHHHhhhHHHHhhhhccCcHHHHHhhcChhhhhhhccHHHHHHHHHhhcCcHhh
Confidence            99999999999888752 2345566666666611100000   00011111100   0000112233333322211    


Q ss_pred             ------CCHHHHHHHHHHH-----HHCC-------CCC------------C----------HHHHHHHHHHHHHcCCHHH
Q 005729          349 ------GYLKDAEFVVSEM-----ERSG-------VLP------------D----------EHTYSLLIDAYANAGRWES  388 (680)
Q Consensus       349 ------g~~~~A~~~~~~m-----~~~g-------~~~------------~----------~~~~~~li~~~~~~g~~~~  388 (680)
                            .++..+...+...     ...|       ..|            |          ..-...+.++..+..+++.
T Consensus       163 ~~~l~d~r~m~a~~~l~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~d~~ee~~~k~~a~~ek~lgnaaykkk~f~~  242 (539)
T KOG0548|consen  163 KLYLNDPRLMKADGQLKGVDELLFYASGIEILASMAEPCKQEHNGFPIIEDNTEERRVKEKAHKEKELGNAAYKKKDFET  242 (539)
T ss_pred             hcccccHHHHHHHHHHhcCccccccccccccCCCCCCcccccCCCCCccchhHHHHHHHHhhhHHHHHHHHHHHhhhHHH
Confidence                  0111111111100     0000       111            0          1123445666667777888


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHH-------HHHHHHccCCHHHHHH
Q 005729          389 ARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNV-------MIDTFGKYNCLHHAMA  461 (680)
Q Consensus       389 A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~-------li~~~~~~g~~~~A~~  461 (680)
                      |++-++......  .+..-++....+|...|.+.++....+...+.|. -...-|+.       +..+|.+.++.+.+..
T Consensus       243 a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gr-e~rad~klIak~~~r~g~a~~k~~~~~~ai~  319 (539)
T KOG0548|consen  243 AIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGR-ELRADYKLIAKALARLGNAYTKREDYEGAIK  319 (539)
T ss_pred             HHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhH-HHHHHHHHHHHHHHHhhhhhhhHHhHHHHHH
Confidence            888887777654  4555666777778888888777777766665552 22222222       3335566677888888


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 005729          462 AFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCT-TTYNIMINLLGEQERWEDVKRLLGNMRAQG  540 (680)
Q Consensus       462 ~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~-~t~~~li~~~~~~g~~~~A~~~~~~m~~~~  540 (680)
                      .|.+.......|+.         ..+....+++....+...-.+  |.. .-...-...+.+.|++..|...+.++++..
T Consensus       320 ~~~kaLte~Rt~~~---------ls~lk~~Ek~~k~~e~~a~~~--pe~A~e~r~kGne~Fk~gdy~~Av~~YteAIkr~  388 (539)
T KOG0548|consen  320 YYQKALTEHRTPDL---------LSKLKEAEKALKEAERKAYIN--PEKAEEEREKGNEAFKKGDYPEAVKHYTEAIKRD  388 (539)
T ss_pred             HHHHHhhhhcCHHH---------HHHHHHHHHHHHHHHHHHhhC--hhHHHHHHHHHHHHHhccCHHHHHHHHHHHHhcC
Confidence            88876654333322         223334455555544443322  221 111222456678899999999999999875


Q ss_pred             CCCCHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 005729          541 LLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNL-ALNSLINAFGEDQRDAEAFAVLQYMKE  619 (680)
Q Consensus       541 ~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~  619 (680)
                       +-|...|..-.-+|.+.|.+..|++-.+...+             ..|+.. .|..=..++....+++.|.+.|++..+
T Consensus       389 -P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ie-------------L~p~~~kgy~RKg~al~~mk~ydkAleay~eale  454 (539)
T KOG0548|consen  389 -PEDARLYSNRAACYLKLGEYPEALKDAKKCIE-------------LDPNFIKAYLRKGAALRAMKEYDKALEAYQEALE  454 (539)
T ss_pred             -CchhHHHHHHHHHHHHHhhHHHHHHHHHHHHh-------------cCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence             33788999999999999999988865432211             245543 666667777778899999999999988


Q ss_pred             CCCCCCHHHHHHHH
Q 005729          620 NGLKPDVVTYTTLM  633 (680)
Q Consensus       620 ~g~~p~~~~~~~l~  633 (680)
                      .  .|+..-+..-+
T Consensus       455 ~--dp~~~e~~~~~  466 (539)
T KOG0548|consen  455 L--DPSNAEAIDGY  466 (539)
T ss_pred             c--CchhHHHHHHH
Confidence            4  46554333333

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.74  E-value=0.0003  Score=72.31  Aligned_cols=375  Identities=12%  Similarity=0.090  Sum_probs=198.3

Q ss_pred             cccCCHHHHHHhhCC-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCCChHHHHHH
Q 005729          174 GRSEKLYEAFLLSQR-QRLTPLTYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKL  252 (680)
Q Consensus       174 ~~~g~~~~A~~~~~~-~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~~~~~~l  252 (680)
                      .+.++.++|+....+ .+.+..+...-...+.+.|++++|+.+|+.+.+.+.. +.. -....+..+....      ..+
T Consensus        90 Yrlnk~Dealk~~~~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~d-d~d-~~~r~nl~a~~a~------l~~  161 (652)
T KOG2376|consen   90 YRLNKLDEALKTLKGLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSD-DQD-EERRANLLAVAAA------LQV  161 (652)
T ss_pred             HHcccHHHHHHHHhcccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCc-hHH-HHHHHHHHHHHHh------hhH
Confidence            356777777766332 2333446666667788888888888888888776432 111 1111111111000      011


Q ss_pred             HHHHHhCCCCcCHHHHHH---HHHHHHHcCCHHHHHHHHHHHHhCC--------CC-CCHH-----HHHHHHHHHHhcCC
Q 005729          253 YKEIECDKIELDGQLLND---VIVGFAKAGDASKAMRFLGMAQGVG--------LS-PKTA-----TYAAVITALSNSGR  315 (680)
Q Consensus       253 ~~~~~~~~~~~~~~~~~~---li~~~~~~g~~~~A~~~~~~~~~~g--------~~-p~~~-----~~~~li~~~~~~g~  315 (680)
                       ..+......+ ..+|..   ....+...|++.+|+++++...+.+        .. -+..     .-.-+.-++-..|+
T Consensus       162 -~~~q~v~~v~-e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gq  239 (652)
T KOG2376|consen  162 -QLLQSVPEVP-EDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQ  239 (652)
T ss_pred             -HHHHhccCCC-cchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcc
Confidence             0122222222 222322   3445667788999998888773221        11 0111     11233445667888


Q ss_pred             hHHHHHHHHHHHHcCCCCCHHH----HHHHHHHHHHcCCHH-HHHHHHHHHHHCCC----------CCCHHHH-HHHHHH
Q 005729          316 TIEAEAVFEELKESGLKPRTKA----YNALLKGYVKMGYLK-DAEFVVSEMERSGV----------LPDEHTY-SLLIDA  379 (680)
Q Consensus       316 ~~~A~~l~~~m~~~g~~p~~~~----~~~li~~~~~~g~~~-~A~~~~~~m~~~g~----------~~~~~~~-~~li~~  379 (680)
                      -.+|..+|...++... +|...    -|.|+..-....-++ .++..++.......          ....... +.++..
T Consensus       240 t~ea~~iy~~~i~~~~-~D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l  318 (652)
T KOG2376|consen  240 TAEASSIYVDIIKRNP-ADEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLAL  318 (652)
T ss_pred             hHHHHHHHHHHHHhcC-CCchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            8888888888887653 34322    233332211111111 11111111111000          0011111 222222


Q ss_pred             HHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHH
Q 005729          380 YANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRD-RGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHH  458 (680)
Q Consensus       380 ~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~-~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~  458 (680)
                      |  .+..+.+.++......  ..|....-+.+..++.. .....++.+++...-+..-.-...+.-.++......|+++.
T Consensus       319 ~--tnk~~q~r~~~a~lp~--~~p~~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~~p~~s~~v~L~~aQl~is~gn~~~  394 (652)
T KOG2376|consen  319 F--TNKMDQVRELSASLPG--MSPESLFPILLQEATKVREKKHKKAIELLLQFADGHPEKSKVVLLLRAQLKISQGNPEV  394 (652)
T ss_pred             H--hhhHHHHHHHHHhCCc--cCchHHHHHHHHHHHHHHHHHHhhhHHHHHHHhccCCchhHHHHHHHHHHHHhcCCHHH
Confidence            2  2334444444433321  12333333333333322 22467777777776655322224555666777788999999


Q ss_pred             HHHHHH--------HHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHC--CCCCCHHHHHHHHH----HHHhcC
Q 005729          459 AMAAFD--------RMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQER--GYFPCTTTYNIMIN----LLGEQE  524 (680)
Q Consensus       459 A~~~~~--------~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--~~~p~~~t~~~li~----~~~~~g  524 (680)
                      |.+++.        .+.+.+..|-.+  .++...|.+.++-+.|..++.+....  .-.+.......++.    .-.+.|
T Consensus       395 A~~il~~~~~~~~ss~~~~~~~P~~V--~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G  472 (652)
T KOG2376|consen  395 ALEILSLFLESWKSSILEAKHLPGTV--GAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHG  472 (652)
T ss_pred             HHHHHHHHhhhhhhhhhhhccChhHH--HHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcC
Confidence            999998        666666555544  45666777777777777777766432  11222334444443    335679


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHH
Q 005729          525 RWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIEC  567 (680)
Q Consensus       525 ~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~  567 (680)
                      +-++|..+++++.+.+ ++|..+...++.+|++. +++.|..+
T Consensus       473 ~~~ea~s~leel~k~n-~~d~~~l~~lV~a~~~~-d~eka~~l  513 (652)
T KOG2376|consen  473 NEEEASSLLEELVKFN-PNDTDLLVQLVTAYARL-DPEKAESL  513 (652)
T ss_pred             chHHHHHHHHHHHHhC-CchHHHHHHHHHHHHhc-CHHHHHHH
Confidence            9999999999999863 56889999999999887 56666654

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.73  E-value=0.00025  Score=67.90  Aligned_cols=315  Identities=14%  Similarity=0.125  Sum_probs=163.2

Q ss_pred             cCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHH-HH
Q 005729          263 LDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPK-TATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAY-NA  340 (680)
Q Consensus       263 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~-~~  340 (680)
                      .++.-.--+-..+...|++.+|+.-|....+.  .|+ -.++---...|...|+-..|+.=+...++.  +||-..- ..
T Consensus        36 advekhlElGk~lla~~Q~sDALt~yHaAve~--dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlel--KpDF~~ARiQ  111 (504)
T KOG0624|consen   36 ADVEKHLELGKELLARGQLSDALTHYHAAVEG--DPNNYQAIFRRATVYLAMGKSKAALQDLSRVLEL--KPDFMAARIQ  111 (504)
T ss_pred             HHHHHHHHHHHHHHHhhhHHHHHHHHHHHHcC--CchhHHHHHHHHHHHhhhcCCccchhhHHHHHhc--CccHHHHHHH
Confidence            44555556677788889999999999888764  333 334445567888899999999988888875  6774322 22


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 005729          341 LLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGE  420 (680)
Q Consensus       341 li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~  420 (680)
                      -...+.++|.+++|..-|+..++..  |+..+   ...++.+.-..++-..+.                ..+..+...|+
T Consensus       112 Rg~vllK~Gele~A~~DF~~vl~~~--~s~~~---~~eaqskl~~~~e~~~l~----------------~ql~s~~~~GD  170 (504)
T KOG0624|consen  112 RGVVLLKQGELEQAEADFDQVLQHE--PSNGL---VLEAQSKLALIQEHWVLV----------------QQLKSASGSGD  170 (504)
T ss_pred             hchhhhhcccHHHHHHHHHHHHhcC--CCcch---hHHHHHHHHhHHHHHHHH----------------HHHHHHhcCCc
Confidence            2345789999999999999998864  22111   111111111111111111                11222333444


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHH
Q 005729          421 WQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEE  500 (680)
Q Consensus       421 ~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  500 (680)
                      ...|+....++.+.. +.|...|..-..+|...|++..|+.-+....+.. .-+..++--+-..+...|+.+.++...++
T Consensus       171 ~~~ai~~i~~llEi~-~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs-~DnTe~~ykis~L~Y~vgd~~~sL~~iRE  248 (504)
T KOG0624|consen  171 CQNAIEMITHLLEIQ-PWDASLRQARAKCYIAEGEPKKAIHDLKQASKLS-QDNTEGHYKISQLLYTVGDAENSLKEIRE  248 (504)
T ss_pred             hhhHHHHHHHHHhcC-cchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHhhhhHHHHHHHHHH
Confidence            444444444444432 3344444444444444555444444444433332 12233333334444444444444444444


Q ss_pred             HHHCCCCCCHHH----HHHH---------HHHHHhcCCHHHHHHHHHHHHHCCCCCC---HHHHHHHHHHHHhcCChHHH
Q 005729          501 MQERGYFPCTTT----YNIM---------INLLGEQERWEDVKRLLGNMRAQGLLPN---VVTYTTLVDIYGQSGRFDDA  564 (680)
Q Consensus       501 m~~~~~~p~~~t----~~~l---------i~~~~~~g~~~~A~~~~~~m~~~~~~p~---~~~~~~li~~~~~~g~~~~A  564 (680)
                      -++.+  ||...    |..+         +......++|.++..-.+...+......   ...+..+-.+|...|++.+|
T Consensus       249 CLKld--pdHK~Cf~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eA  326 (504)
T KOG0624|consen  249 CLKLD--PDHKLCFPFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEA  326 (504)
T ss_pred             HHccC--cchhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHH
Confidence            44331  22211    1100         1112344556666666666555432211   22333444555566666666


Q ss_pred             HHHHhhhHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 005729          565 IECLEGLSDQAVNAFRVMRTDGLKPS-NLALNSLINAFGEDQRDAEAFAVLQYMKE  619 (680)
Q Consensus       565 ~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~  619 (680)
                      +......           .+  +.|+ ..++.--..+|.-...+++|+.-|+.+.+
T Consensus       327 iqqC~ev-----------L~--~d~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e  369 (504)
T KOG0624|consen  327 IQQCKEV-----------LD--IDPDDVQVLCDRAEAYLGDEMYDDAIHDYEKALE  369 (504)
T ss_pred             HHHHHHH-----------Hh--cCchHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh
Confidence            6543311           11  3454 33666666666666667777776666665

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.73  E-value=0.0001  Score=79.75  Aligned_cols=401  Identities=13%  Similarity=0.173  Sum_probs=244.1

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHc
Q 005729          199 LISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKA  278 (680)
Q Consensus       199 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~~~li~~~~~~  278 (680)
                      |+.-.-+.++.+--+.+++...+.|. .|..+++++.+.|..+++-.+..    +        .-+...=+..+.-||..
T Consensus       844 Lv~EvEkRNRLklLlp~LE~~i~eG~-~d~a~hnAlaKIyIDSNNnPE~f----L--------keN~yYDs~vVGkYCEK  910 (1666)
T KOG0985|consen  844 LVEEVEKRNRLKLLLPWLESLIQEGS-QDPATHNALAKIYIDSNNNPERF----L--------KENPYYDSKVVGKYCEK  910 (1666)
T ss_pred             HHHHHHhhhhHHHHHHHHHHHHhccC-cchHHHhhhhheeecCCCChHHh----c--------ccCCcchhhHHhhhhcc
Confidence            44445567777777888888888874 58888888888877766554321    0        11111112233446665


Q ss_pred             CCHHHHHHHHHHHHh----CCCCCCHHHHHHHHHHHHhcCChHHH-----------HHHHHHHHHcCCC--CCHHHHHHH
Q 005729          279 GDASKAMRFLGMAQG----VGLSPKTATYAAVITALSNSGRTIEA-----------EAVFEELKESGLK--PRTKAYNAL  341 (680)
Q Consensus       279 g~~~~A~~~~~~~~~----~g~~p~~~~~~~li~~~~~~g~~~~A-----------~~l~~~m~~~g~~--p~~~~~~~l  341 (680)
                      .++.-|.-.|++-.-    .++.-....|....+-+.+..+.+--           .++.++..+.+++  .|..-....
T Consensus       911 RDP~lA~vaYerGqcD~elI~vcNeNSlfK~~aRYlv~R~D~~LW~~VL~e~n~~rRqLiDqVv~tal~E~~dPe~vS~t  990 (1666)
T KOG0985|consen  911 RDPHLACVAYERGQCDLELINVCNENSLFKSQARYLVERSDPDLWAKVLNEENPYRRQLIDQVVQTALPETQDPEEVSVT  990 (1666)
T ss_pred             cCCceEEEeecccCCcHHHHHhcCchhHHHHHHHHHHhccChHHHHHHHhccChHHHHHHHHHHHhcCCccCChHHHHHH
Confidence            555444333322100    00011112233333333333333222           2333333333332  244445556


Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHCC--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC
Q 005729          342 LKGYVKMGYLKDAEFVVSEMERSG--VLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRG  419 (680)
Q Consensus       342 i~~~~~~g~~~~A~~~~~~m~~~g--~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g  419 (680)
                      +.++...+-..+-+++++++.-.+  +.-+....|.|+-.-.+. +.....+..+++..-+ .|      .+...+...+
T Consensus       991 VkAfMtadLp~eLIELLEKIvL~~S~Fse~~nLQnLLiLtAika-d~trVm~YI~rLdnyD-a~------~ia~iai~~~ 1062 (1666)
T KOG0985|consen  991 VKAFMTADLPNELIELLEKIVLDNSVFSENRNLQNLLILTAIKA-DRTRVMEYINRLDNYD-AP------DIAEIAIENQ 1062 (1666)
T ss_pred             HHHHHhcCCcHHHHHHHHHHhcCCcccccchhhhhhHHHHHhhc-ChHHHHHHHHHhccCC-ch------hHHHHHhhhh
Confidence            777777888888888888876322  122333445555444443 4445555555554332 12      2345566777


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHH
Q 005729          420 EWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFE  499 (680)
Q Consensus       420 ~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~  499 (680)
                      -+++|+.+|++.     ..+....+.|++-   .+.++.|.+.-++..      ....|..+..+-.+.|...+|++-|-
T Consensus      1063 LyEEAF~ifkkf-----~~n~~A~~VLie~---i~~ldRA~efAe~~n------~p~vWsqlakAQL~~~~v~dAieSyi 1128 (1666)
T KOG0985|consen 1063 LYEEAFAIFKKF-----DMNVSAIQVLIEN---IGSLDRAYEFAERCN------EPAVWSQLAKAQLQGGLVKDAIESYI 1128 (1666)
T ss_pred             HHHHHHHHHHHh-----cccHHHHHHHHHH---hhhHHHHHHHHHhhC------ChHHHHHHHHHHHhcCchHHHHHHHH
Confidence            888899988874     3455666666654   345666666555443      45679999999999999999988775


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHH
Q 005729          500 EMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAF  579 (680)
Q Consensus       500 ~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~  579 (680)
                      +.      -|+..|.-+++...+.|.|++..+++....+..-+|.  +-+.|+-+|++.+++.+-.+++.          
T Consensus      1129 ka------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~--id~eLi~AyAkt~rl~elE~fi~---------- 1190 (1666)
T KOG0985|consen 1129 KA------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPY--IDSELIFAYAKTNRLTELEEFIA---------- 1190 (1666)
T ss_pred             hc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCcc--chHHHHHHHHHhchHHHHHHHhc----------
Confidence            43      3678899999999999999999999988887755554  34678899999999888766653          


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCcCcHHHHHHHHHHcCCCC
Q 005729          580 RVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTP  659 (680)
Q Consensus       580 ~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p  659 (680)
                              -||......+.+-|...|.++.|.-+|.         +..-|..|...+...|++..|...-++.-      
T Consensus      1191 --------gpN~A~i~~vGdrcf~~~~y~aAkl~y~---------~vSN~a~La~TLV~LgeyQ~AVD~aRKAn------ 1247 (1666)
T KOG0985|consen 1191 --------GPNVANIQQVGDRCFEEKMYEAAKLLYS---------NVSNFAKLASTLVYLGEYQGAVDAARKAN------ 1247 (1666)
T ss_pred             --------CCCchhHHHHhHHHhhhhhhHHHHHHHH---------HhhhHHHHHHHHHHHHHHHHHHHHhhhcc------
Confidence                    4677777777777777777777766554         33445666777777777777766665543      


Q ss_pred             CHHHHHHHHHHHHHHH
Q 005729          660 DRKARAMLRSALRYMK  675 (680)
Q Consensus       660 d~~~~~~l~~a~~~~k  675 (680)
                      +..||..+--||-+.+
T Consensus      1248 s~ktWK~VcfaCvd~~ 1263 (1666)
T KOG0985|consen 1248 STKTWKEVCFACVDKE 1263 (1666)
T ss_pred             chhHHHHHHHHHhchh
Confidence            2456666666665443

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.68  E-value=0.0004  Score=75.41  Aligned_cols=341  Identities=13%  Similarity=0.095  Sum_probs=170.1

Q ss_pred             CCChHHHHHHHHHHHHCCCCCchHHHHHHHHHHhcccCCHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH-
Q 005729          140 NSSIDLAYAVVSWLQKHNLCYSYELLYSILIHALGRSEKLYEAFLLSQRQRLTPLTYNALISACARNDDLEKALNLMSK-  218 (680)
Q Consensus       140 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~-  218 (680)
                      ++++......++..+..|  ..++.+||.|...|..+++-.+-+.-     .|+.-=+..+.-||...++.-|.-.|++ 
T Consensus       851 RNRLklLlp~LE~~i~eG--~~d~a~hnAlaKIyIDSNNnPE~fLk-----eN~yYDs~vVGkYCEKRDP~lA~vaYerG  923 (1666)
T KOG0985|consen  851 RNRLKLLLPWLESLIQEG--SQDPATHNALAKIYIDSNNNPERFLK-----ENPYYDSKVVGKYCEKRDPHLACVAYERG  923 (1666)
T ss_pred             hhhHHHHHHHHHHHHhcc--CcchHHHhhhhheeecCCCChHHhcc-----cCCcchhhHHhhhhcccCCceEEEeeccc
Confidence            345666666777777777  45678899998888776654443321     0111111223333333333222222211 


Q ss_pred             ------------------HHHc-CCCCChhhHHHHHHHHHhcCCCChHHHHHHHHHHHhCCCC--cCHHHHHHHHHHHHH
Q 005729          219 ------------------MRQD-GYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIE--LDGQLLNDVIVGFAK  277 (680)
Q Consensus       219 ------------------m~~~-g~~p~~~~~~~ll~~~~~~g~~~~~~~~~l~~~~~~~~~~--~~~~~~~~li~~~~~  277 (680)
                                        ..+. --+.|...|..++.   ...    .--+++.+..+..+++  .|..-.+..+.++..
T Consensus       924 qcD~elI~vcNeNSlfK~~aRYlv~R~D~~LW~~VL~---e~n----~~rRqLiDqVv~tal~E~~dPe~vS~tVkAfMt  996 (1666)
T KOG0985|consen  924 QCDLELINVCNENSLFKSQARYLVERSDPDLWAKVLN---EEN----PYRRQLIDQVVQTALPETQDPEEVSVTVKAFMT  996 (1666)
T ss_pred             CCcHHHHHhcCchhHHHHHHHHHHhccChHHHHHHHh---ccC----hHHHHHHHHHHHhcCCccCChHHHHHHHHHHHh
Confidence                              0000 00123344444431   000    1124566666665442  456666777888888


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCHH-----HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHH
Q 005729          278 AGDASKAMRFLGMAQGVGLSPKTA-----TYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLK  352 (680)
Q Consensus       278 ~g~~~~A~~~~~~~~~~g~~p~~~-----~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~  352 (680)
                      .+-+.+-+++++++.-   .+++.     .-|.||-...+. +.....+..+++..-+ .|+      +.......+-++
T Consensus       997 adLp~eLIELLEKIvL---~~S~Fse~~nLQnLLiLtAika-d~trVm~YI~rLdnyD-a~~------ia~iai~~~LyE 1065 (1666)
T KOG0985|consen  997 ADLPNELIELLEKIVL---DNSVFSENRNLQNLLILTAIKA-DRTRVMEYINRLDNYD-APD------IAEIAIENQLYE 1065 (1666)
T ss_pred             cCCcHHHHHHHHHHhc---CCcccccchhhhhhHHHHHhhc-ChHHHHHHHHHhccCC-chh------HHHHHhhhhHHH
Confidence            8888888888887763   23322     223333333333 2333444444443321 112      223344445566


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 005729          353 DAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMK  432 (680)
Q Consensus       353 ~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~  432 (680)
                      +|..+|++...     +....+.||.-   -+.++.|.+.-++.      .....|..+..+-.+.|.+.+|.+-|-+  
T Consensus      1066 EAF~ifkkf~~-----n~~A~~VLie~---i~~ldRA~efAe~~------n~p~vWsqlakAQL~~~~v~dAieSyik-- 1129 (1666)
T KOG0985|consen 1066 EAFAIFKKFDM-----NVSAIQVLIEN---IGSLDRAYEFAERC------NEPAVWSQLAKAQLQGGLVKDAIESYIK-- 1129 (1666)
T ss_pred             HHHHHHHHhcc-----cHHHHHHHHHH---hhhHHHHHHHHHhh------CChHHHHHHHHHHHhcCchHHHHHHHHh--
Confidence            66666665432     33444444432   24445554444332      1334566666666666666666655543  


Q ss_pred             HCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHH
Q 005729          433 SSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTT  512 (680)
Q Consensus       433 ~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t  512 (680)
                          ..|+..|.-+++...+.|.+++..+.+....+..-.|.+.  ..||-+|++.++..+-.++..       .||...
T Consensus      1130 ----adDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id--~eLi~AyAkt~rl~elE~fi~-------gpN~A~ 1196 (1666)
T KOG0985|consen 1130 ----ADDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYID--SELIFAYAKTNRLTELEEFIA-------GPNVAN 1196 (1666)
T ss_pred             ----cCCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccch--HHHHHHHHHhchHHHHHHHhc-------CCCchh
Confidence                3455566666666666666666666666555554344332  356666666666555444331       244444


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHH
Q 005729          513 YNIMINLLGEQERWEDVKRLLG  534 (680)
Q Consensus       513 ~~~li~~~~~~g~~~~A~~~~~  534 (680)
                      ...+.+-|...|.++.|.-++.
T Consensus      1197 i~~vGdrcf~~~~y~aAkl~y~ 1218 (1666)
T KOG0985|consen 1197 IQQVGDRCFEEKMYEAAKLLYS 1218 (1666)
T ss_pred             HHHHhHHHhhhhhhHHHHHHHH
Confidence            4555555555555554444443

>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=98.64  E-value=1.5e-06  Score=85.68  Aligned_cols=112  Identities=16%  Similarity=0.187  Sum_probs=44.1

Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH----cCC
Q 005729          310 LSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYAN----AGR  385 (680)
Q Consensus       310 ~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~----~g~  385 (680)
                      +...|++++|++++...      .+.......+..|.+.++++.|.+.++.|.+.+  .| .+...+..++..    .+.
T Consensus       112 ~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~~--eD-~~l~qLa~awv~l~~g~e~  182 (290)
T PF04733_consen  112 LFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNMQQID--ED-SILTQLAEAWVNLATGGEK  182 (290)
T ss_dssp             HCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCCS--CC-HHHHHHHHHHHHHHHTTTC
T ss_pred             HHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--Cc-HHHHHHHHHHHHHHhCchh
Confidence            33345555554444321      133444444445555555555555555554431  12 122222222221    123


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 005729          386 WESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEM  431 (680)
Q Consensus       386 ~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m  431 (680)
                      +.+|..+|+++.+. ..++..+.+.+..++...|++++|.+++.+.
T Consensus       183 ~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~a  227 (290)
T PF04733_consen  183 YQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEA  227 (290)
T ss_dssp             CCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            44444444444322 2334444444444444444444444444443

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=98.62  E-value=4.1e-06  Score=82.52  Aligned_cols=117  Identities=15%  Similarity=0.161  Sum_probs=55.5

Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH----cCChhHHHHHHHHHHHCCCCCCHHHHHH
Q 005729          440 THFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFK----CGRYDRAEELFEEMQERGYFPCTTTYNI  515 (680)
Q Consensus       440 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~~~p~~~t~~~  515 (680)
                      .......+..|.+.++++.|.+.++.|.+..  .|. +...+..++..    .+.+.+|..+|+++.+. ..++..+.+.
T Consensus       131 lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~~--eD~-~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~-~~~t~~~lng  206 (290)
T PF04733_consen  131 LELLALAVQILLKMNRPDLAEKELKNMQQID--EDS-ILTQLAEAWVNLATGGEKYQDAFYIFEELSDK-FGSTPKLLNG  206 (290)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHHCCS--CCH-HHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC-S--SHHHHHH
T ss_pred             ccHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CcH-HHHHHHHHHHHHHhCchhHHHHHHHHHHHHhc-cCCCHHHHHH
Confidence            3444444555555555555555555554431  222 22222222221    22456666666665544 2455556666


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCh
Q 005729          516 MINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRF  561 (680)
Q Consensus       516 li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~  561 (680)
                      +..++...|++++|..++.+....+. -+..+...++-+....|+.
T Consensus       207 ~A~~~l~~~~~~eAe~~L~~al~~~~-~~~d~LaNliv~~~~~gk~  251 (290)
T PF04733_consen  207 LAVCHLQLGHYEEAEELLEEALEKDP-NDPDTLANLIVCSLHLGKP  251 (290)
T ss_dssp             HHHHHHHCT-HHHHHHHHHHHCCC-C-CHHHHHHHHHHHHHHTT-T
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHhcc-CCHHHHHHHHHHHHHhCCC
Confidence            66666666666666666666554321 2445555555555555555

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.

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.61  E-value=9e-05  Score=69.45  Aligned_cols=285  Identities=14%  Similarity=0.095  Sum_probs=159.8

Q ss_pred             HHHHHHHhcccCCHHHHHHh----hCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCChhhHHHH-HHHHHh
Q 005729          166 YSILIHALGRSEKLYEAFLL----SQRQRLTPLTYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLV-IQSLTR  240 (680)
Q Consensus       166 ~~~li~~~~~~g~~~~A~~~----~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l-l~~~~~  240 (680)
                      +.+.+-.+.+..++.+|+.+    .+..+.+......+...|.+..++..|-+.|+++-..  .|...-|... .+++.+
T Consensus        13 ftaviy~lI~d~ry~DaI~~l~s~~Er~p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql--~P~~~qYrlY~AQSLY~   90 (459)
T KOG4340|consen   13 FTAVVYRLIRDARYADAIQLLGSELERSPRSRAGLSLLGYCYYRLQEFALAAECYEQLGQL--HPELEQYRLYQAQSLYK   90 (459)
T ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--ChHHHHHHHHHHHHHHH
Confidence            34455555667777787776    4455567777888888888888888888888888765  3554444322 334455


Q ss_pred             cCCCChHHHHHHHHHHHhCCCCcCHHHHHHHHH----HHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCh
Q 005729          241 TNKIDSSLLQKLYKEIECDKIELDGQLLNDVIV----GFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRT  316 (680)
Q Consensus       241 ~g~~~~~~~~~l~~~~~~~~~~~~~~~~~~li~----~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~  316 (680)
                      .+.+.++  .++...|...     ....+..+.    .....+++..+..+.++....   -+..+.+.......+.|++
T Consensus        91 A~i~ADA--LrV~~~~~D~-----~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~e---n~Ad~~in~gCllykegqy  160 (459)
T KOG4340|consen   91 ACIYADA--LRVAFLLLDN-----PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSE---NEADGQINLGCLLYKEGQY  160 (459)
T ss_pred             hcccHHH--HHHHHHhcCC-----HHHHHHHHHHHHHHhcccccCcchHHHHHhccCC---CccchhccchheeeccccH
Confidence            5555433  3444444321     111111111    122446666666666665532   2444555555666778888


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC-------------CH-------------
Q 005729          317 IEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLP-------------DE-------------  370 (680)
Q Consensus       317 ~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~-------------~~-------------  370 (680)
                      ++|.+-|+...+-+---....||..+.. .+.|+.+.|.+...+++++|++.             |+             
T Consensus       161 EaAvqkFqaAlqvsGyqpllAYniALaH-y~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sa  239 (459)
T KOG4340|consen  161 EAAVQKFQAALQVSGYQPLLAYNLALAH-YSSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSA  239 (459)
T ss_pred             HHHHHHHHHHHhhcCCCchhHHHHHHHH-HhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHHH
Confidence            8888888877664433345667655544 45577788888887777766431             11             


Q ss_pred             --HHHHHHHHHHHHcCCHHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 005729          371 --HTYSLLIDAYANAGRWESARIVLKEMEVS-HAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMI  447 (680)
Q Consensus       371 --~~~~~li~~~~~~g~~~~A~~~~~~m~~~-~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li  447 (680)
                        ..+|.-...+.+.|+++.|.+.+-.|.-+ ....|++|...+.-.-. .+++.+..+-+.-+.+.. +-...||..++
T Consensus       240 l~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n~-~~~p~~g~~KLqFLL~~n-PfP~ETFANlL  317 (459)
T KOG4340|consen  240 LVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMNM-DARPTEGFEKLQFLLQQN-PFPPETFANLL  317 (459)
T ss_pred             HHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhcc-cCCccccHHHHHHHHhcC-CCChHHHHHHH
Confidence              11222233345566677776666666322 12345555554432221 223333333333333333 34456677777


Q ss_pred             HHHHccCCHHHHHHHHHH
Q 005729          448 DTFGKYNCLHHAMAAFDR  465 (680)
Q Consensus       448 ~~~~~~g~~~~A~~~~~~  465 (680)
                      -.||++.-++.|-.++.+
T Consensus       318 llyCKNeyf~lAADvLAE  335 (459)
T KOG4340|consen  318 LLYCKNEYFDLAADVLAE  335 (459)
T ss_pred             HHHhhhHHHhHHHHHHhh
Confidence            777777777776666543

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.60  E-value=7.5e-06  Score=83.62  Aligned_cols=257  Identities=17%  Similarity=0.111  Sum_probs=154.9

Q ss_pred             HHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 005729          345 YVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRT  424 (680)
Q Consensus       345 ~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A  424 (680)
                      +.+.|++.+|.-.|+...+.+.. +...|..|...-...++-..|+..+.+..+.. +.|......|.-.|...|.-..|
T Consensus       295 lm~nG~L~~A~LafEAAVkqdP~-haeAW~~LG~~qaENE~E~~ai~AL~rcl~Ld-P~NleaLmaLAVSytNeg~q~~A  372 (579)
T KOG1125|consen  295 LMKNGDLSEAALAFEAAVKQDPQ-HAEAWQKLGITQAENENEQNAISALRRCLELD-PTNLEALMALAVSYTNEGLQNQA  372 (579)
T ss_pred             HHhcCCchHHHHHHHHHHhhChH-HHHHHHHhhhHhhhccchHHHHHHHHHHHhcC-CccHHHHHHHHHHHhhhhhHHHH
Confidence            34455555555555555544322 45555555555555555555555555555443 22444555555555555555555


Q ss_pred             HHHHHHHHHCCCC--------CCHHHHHHHHHHHHccCCHHHHHHHHHHHH-HCCCCCCHHHHHHHHHHHHHcCChhHHH
Q 005729          425 FQVLKEMKSSGVE--------PDTHFYNVMIDTFGKYNCLHHAMAAFDRML-SEGIEPDTITWNTLIDCHFKCGRYDRAE  495 (680)
Q Consensus       425 ~~l~~~m~~~~~~--------p~~~~~~~li~~~~~~g~~~~A~~~~~~m~-~~~~~~~~~~~~~li~~~~~~g~~~~A~  495 (680)
                      ++.++.......+        ++...-..  ..+.....+....++|-++. ..+..+|......|.-.|.-.|.+++|.
T Consensus       373 l~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdrai  450 (579)
T KOG1125|consen  373 LKMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAV  450 (579)
T ss_pred             HHHHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHH
Confidence            5555554332100        00000000  11111222344455555554 4444578888888988899999999999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCChHHHHHHHhhhHHH
Q 005729          496 ELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPN-VVTYTTLVDIYGQSGRFDDAIECLEGLSDQ  574 (680)
Q Consensus       496 ~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~  574 (680)
                      +.|+..+... +-|..+||.|...++...+.++|...|.+.++  ++|. +.+...|.-.|...|.+++|.+.|-    .
T Consensus       451 Dcf~~AL~v~-Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALq--LqP~yVR~RyNlgIS~mNlG~ykEA~~hlL----~  523 (579)
T KOG1125|consen  451 DCFEAALQVK-PNDYLLWNRLGATLANGNRSEEAISAYNRALQ--LQPGYVRVRYNLGISCMNLGAYKEAVKHLL----E  523 (579)
T ss_pred             HHHHHHHhcC-CchHHHHHHhhHHhcCCcccHHHHHHHHHHHh--cCCCeeeeehhhhhhhhhhhhHHHHHHHHH----H
Confidence            9999999876 67889999999999999999999999999998  5675 4566678888999999999987764    2


Q ss_pred             HHHHHHHHHHC--CCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 005729          575 AVNAFRVMRTD--GLKPSNLALNSLINAFGEDQRDAEAFA  612 (680)
Q Consensus       575 a~~~~~~m~~~--g~~p~~~~~~~li~~~~~~g~~~~A~~  612 (680)
                      |+.+-++-...  +..++...|.+|=.++.-.++.+-+.+
T Consensus       524 AL~mq~ks~~~~~~~~~se~iw~tLR~als~~~~~D~l~~  563 (579)
T KOG1125|consen  524 ALSMQRKSRNHNKAPMASENIWQTLRLALSAMNRSDLLQE  563 (579)
T ss_pred             HHHhhhcccccccCCcchHHHHHHHHHHHHHcCCchHHHH
Confidence            33222221111  112234466666666665666554433

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.60  E-value=0.00088  Score=73.01  Aligned_cols=145  Identities=10%  Similarity=0.018  Sum_probs=85.1

Q ss_pred             ChHHHHHHHHHHHHCCCCCchHHHHHHHHHHhcccCCHHHHHHh----hCCCCCCH--HHHHHHHHHHHHcCCHHHHHHH
Q 005729          142 SIDLAYAVVSWLQKHNLCYSYELLYSILIHALGRSEKLYEAFLL----SQRQRLTP--LTYNALISACARNDDLEKALNL  215 (680)
Q Consensus       142 ~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~----~~~~~~~~--~~~~~li~~~~~~g~~~~A~~~  215 (680)
                      +...|+..|..+.+.+  +.+........+.|++...+++|...    .+..+.-.  ..|--..-.|...++...|+.-
T Consensus       507 Dm~RA~kCf~KAFeLD--atdaeaaaa~adtyae~~~we~a~~I~l~~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~  584 (1238)
T KOG1127|consen  507 DMKRAKKCFDKAFELD--ATDAEAAAASADTYAEESTWEEAFEICLRAAQKAPAFACKENWVQRGPYYLEAHNLHGAVCE  584 (1238)
T ss_pred             HHHHHHHHHHHHhcCC--chhhhhHHHHHHHhhccccHHHHHHHHHHHhhhchHHHHHhhhhhccccccCccchhhHHHH
Confidence            5566777777777776  66777888889999999998888765    11111111  1233344455666777777777


Q ss_pred             HHHHHHcCCCCChhhHHHHHHHHHhcCCCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 005729          216 MSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQ  292 (680)
Q Consensus       216 ~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~  292 (680)
                      |+...+.. +-|...|..+..+|.++|++..+  .++|.+...-.. .+...--....+-+..|++.+|+..+....
T Consensus       585 fQsALR~d-PkD~n~W~gLGeAY~~sGry~~A--lKvF~kAs~LrP-~s~y~~fk~A~~ecd~GkYkeald~l~~ii  657 (1238)
T KOG1127|consen  585 FQSALRTD-PKDYNLWLGLGEAYPESGRYSHA--LKVFTKASLLRP-LSKYGRFKEAVMECDNGKYKEALDALGLII  657 (1238)
T ss_pred             HHHHhcCC-chhHHHHHHHHHHHHhcCceehH--HHhhhhhHhcCc-HhHHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            77766653 22455666677777777776543  366655543211 111121222333455666666666665544

>PF12854 PPR_1: PPR repeat

Probab=98.52  E-value=1.4e-07  Score=59.14  Aligned_cols=31  Identities=32%  Similarity=0.574  Sum_probs=12.8

Q ss_pred             CCCCHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 005729          296 LSPKTATYAAVITALSNSGRTIEAEAVFEEL  326 (680)
Q Consensus       296 ~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m  326 (680)
                      +.||..||+++|++||+.|++++|.++|++|
T Consensus         3 ~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    3 CEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            3344444444444444444444444444433

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.52  E-value=5.7e-05  Score=84.51  Aligned_cols=227  Identities=12%  Similarity=0.061  Sum_probs=176.3

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCC---CCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHH
Q 005729          402 KPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSS-GVE---PDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTIT  477 (680)
Q Consensus       402 ~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~-~~~---p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~  477 (680)
                      +.+...|-..|......++.++|.++.++.+.. +++   --...|.++++.-...|.-+...++|+++.+..  -....
T Consensus      1455 PNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqyc--d~~~V 1532 (1710)
T KOG1070|consen 1455 PNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYC--DAYTV 1532 (1710)
T ss_pred             CCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhc--chHHH
Confidence            445678888899999999999999999997653 211   234677788887778888899999999998742  23456


Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHH
Q 005729          478 WNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLP-NVVTYTTLVDIYG  556 (680)
Q Consensus       478 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p-~~~~~~~li~~~~  556 (680)
                      |..|...|.+.+.+++|-++++.|.++- .-....|...+..+.+..+-+.|..++.++++.-.+- ........++.-.
T Consensus      1533 ~~~L~~iy~k~ek~~~A~ell~~m~KKF-~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLEF 1611 (1710)
T KOG1070|consen 1533 HLKLLGIYEKSEKNDEADELLRLMLKKF-GQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLEF 1611 (1710)
T ss_pred             HHHHHHHHHHhhcchhHHHHHHHHHHHh-cchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHh
Confidence            8899999999999999999999999873 3567889999999999999999999999998852221 3456667778888


Q ss_pred             hcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH--HHHHHHHH
Q 005729          557 QSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDV--VTYTTLMK  634 (680)
Q Consensus       557 ~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~--~~~~~l~~  634 (680)
                      +.|+.++++.+|++.+..            .+-....|+.+|+.-.++|+.+.+..+|++....++.|-.  ..|...+.
T Consensus      1612 k~GDaeRGRtlfEgll~a------------yPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLe 1679 (1710)
T KOG1070|consen 1612 KYGDAERGRTLFEGLLSA------------YPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLE 1679 (1710)
T ss_pred             hcCCchhhHHHHHHHHhh------------CccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHH
Confidence            999999999888765431            2223458999999999999999999999999998887743  34555554


Q ss_pred             HHHhcCCcC
Q 005729          635 ALIRVDKFH  643 (680)
Q Consensus       635 ~~~~~g~~~  643 (680)
                      .--+.|+-+
T Consensus      1680 yEk~~Gde~ 1688 (1710)
T KOG1070|consen 1680 YEKSHGDEK 1688 (1710)
T ss_pred             HHHhcCchh
Confidence            444445433

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.51  E-value=0.002  Score=65.71  Aligned_cols=411  Identities=12%  Similarity=0.103  Sum_probs=240.2

Q ss_pred             HHHHCCCCCchHHHHHHHHHHhcccCCHHHHHHh----hCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCC
Q 005729          152 WLQKHNLCYSYELLYSILIHALGRSEKLYEAFLL----SQRQRLTPLTYNALISACARNDDLEKALNLMSKMRQDGYHCD  227 (680)
Q Consensus       152 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~----~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  227 (680)
                      .-++.+  |.|..+|+.||.-+... .+++++..    ....+-.+..|..-|..-.+.++++....+|.+....-+  +
T Consensus        11 ~rie~n--P~di~sw~~lire~qt~-~~~~~R~~YEq~~~~FP~s~r~W~~yi~~El~skdfe~VEkLF~RCLvkvL--n   85 (656)
T KOG1914|consen   11 ERIEEN--PYDIDSWSQLIREAQTQ-PIDKVRETYEQLVNVFPSSPRAWKLYIERELASKDFESVEKLFSRCLVKVL--N   85 (656)
T ss_pred             HHHhcC--CccHHHHHHHHHHHccC-CHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHh--h
Confidence            334445  77788899999888777 88888776    334455677999999999999999999999999877643  4


Q ss_pred             hhhHHHHHHHHHh-cCCCCh--HHHHHHHHH-HHhCCCCc-CHHHHHHHHHH---------HHHcCCHHHHHHHHHHHHh
Q 005729          228 FINYSLVIQSLTR-TNKIDS--SLLQKLYKE-IECDKIEL-DGQLLNDVIVG---------FAKAGDASKAMRFLGMAQG  293 (680)
Q Consensus       228 ~~~~~~ll~~~~~-~g~~~~--~~~~~l~~~-~~~~~~~~-~~~~~~~li~~---------~~~~g~~~~A~~~~~~~~~  293 (680)
                      ...|..-|.-.-+ .++...  ...-+.|+. +.+.|+++ .-..|+..+..         |....+.+...+++.++..
T Consensus        86 lDLW~lYl~YVR~~~~~~~~~r~~m~qAy~f~l~kig~di~s~siW~eYi~FL~~vea~gk~ee~QRI~~vRriYqral~  165 (656)
T KOG1914|consen   86 LDLWKLYLSYVRETKGKLFGYREKMVQAYDFALEKIGMDIKSYSIWDEYINFLEGVEAVGKYEENQRITAVRRIYQRALV  165 (656)
T ss_pred             HhHHHHHHHHHHHHccCcchHHHHHHHHHHHHHHHhccCcccchhHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHhc
Confidence            4555555533222 222222  111233433 33345433 23456665543         3344455666777777764


Q ss_pred             CCCC------CCHHHHHHHHHHHH-------hcCChHHHHHHHHHHHH--cCCCCCHH---------------HHHHHHH
Q 005729          294 VGLS------PKTATYAAVITALS-------NSGRTIEAEAVFEELKE--SGLKPRTK---------------AYNALLK  343 (680)
Q Consensus       294 ~g~~------p~~~~~~~li~~~~-------~~g~~~~A~~l~~~m~~--~g~~p~~~---------------~~~~li~  343 (680)
                      .-+.      .|-..|..-|+...       +...+..|.++++++..  +|...+..               .|..+|.
T Consensus       166 tPm~nlEkLW~DY~~fE~~IN~~tarK~i~e~s~~Ym~AR~~~qel~~lt~GL~r~~~~vp~~~T~~e~~qv~~W~n~I~  245 (656)
T KOG1914|consen  166 TPMHNLEKLWKDYEAFEQEINIITARKFIGERSPEYMNARRVYQELQNLTRGLNRNAPAVPPKGTKDEIQQVELWKNWIK  245 (656)
T ss_pred             CccccHHHHHHHHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCChHHHHHHHHHHHHHH
Confidence            2111      11112222222211       23345567777777643  23222111               2444443


Q ss_pred             HHHHcCCH--------HHHHHHHHHHH-HCCCCCCHHHHH-----HHHHHHHHcCC-------HHHHHHHHHHHHHCCCC
Q 005729          344 GYVKMGYL--------KDAEFVVSEME-RSGVLPDEHTYS-----LLIDAYANAGR-------WESARIVLKEMEVSHAK  402 (680)
Q Consensus       344 ~~~~~g~~--------~~A~~~~~~m~-~~g~~~~~~~~~-----~li~~~~~~g~-------~~~A~~~~~~m~~~~~~  402 (680)
                      .--..+--        ....-++++.. -.+..|+.....     ..-+.+...|+       .+++..+++.....-..
T Consensus       246 wEksNpL~t~~~~~~~~Rv~yayeQ~ll~l~~~peiWy~~s~yl~~~s~l~~~~~d~~~a~~~t~e~~~~yEr~I~~l~~  325 (656)
T KOG1914|consen  246 WEKSNPLRTLDGTMLTRRVMYAYEQCLLYLGYHPEIWYDYSMYLIEISDLLTEKGDVPDAKSLTDEAASIYERAIEGLLK  325 (656)
T ss_pred             HHhcCCcccccccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhhHHHHHhcccccchhhHHHHHHHHHHHHHHHHH
Confidence            32221110        11111222221 222233221110     11123334444       34555666555433222


Q ss_pred             CCHHHHHHHHHHHHhc---CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCC-CHHHH
Q 005729          403 PNSFIYSRILAGYRDR---GEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEP-DTITW  478 (680)
Q Consensus       403 ~~~~~~~~ll~~~~~~---g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~-~~~~~  478 (680)
                      .+..+|..+...--..   ...+.....++++...-...-.-+|..+++...+..-+..|+.+|.+..+.+..+ ++..+
T Consensus       326 ~~~~Ly~~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa  405 (656)
T KOG1914|consen  326 ENKLLYFALADYEESRYDDNKEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVA  405 (656)
T ss_pred             HHHHHHHHHHhhHHHhcccchhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHH
Confidence            2333333333221111   1355666677776654333334577788888888888999999999999887666 77888


Q ss_pred             HHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHH
Q 005729          479 NTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPN--VVTYTTLVDIYG  556 (680)
Q Consensus       479 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~--~~~~~~li~~~~  556 (680)
                      +++|.-|| .++.+-|.++|+--+.+- .-+..--...+.-+...++-..+..+|++.+..++.++  ..+|..+++-=+
T Consensus       406 ~A~mEy~c-skD~~~AfrIFeLGLkkf-~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES  483 (656)
T KOG1914|consen  406 AALMEYYC-SKDKETAFRIFELGLKKF-GDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYES  483 (656)
T ss_pred             HHHHHHHh-cCChhHHHHHHHHHHHhc-CCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHH
Confidence            99998877 577899999999876652 23344455677888889999999999999998866654  578999999999


Q ss_pred             hcCChHHHHHHHh
Q 005729          557 QSGRFDDAIECLE  569 (680)
Q Consensus       557 ~~g~~~~A~~~~~  569 (680)
                      .-|++..++++-+
T Consensus       484 ~vGdL~si~~lek  496 (656)
T KOG1914|consen  484 NVGDLNSILKLEK  496 (656)
T ss_pred             hcccHHHHHHHHH
Confidence            9999988877644

>PF12854 PPR_1: PPR repeat

Probab=98.49  E-value=1.8e-07  Score=58.55  Aligned_cols=32  Identities=31%  Similarity=0.567  Sum_probs=24.3

Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 005729          586 GLKPSNLALNSLINAFGEDQRDAEAFAVLQYM  617 (680)
Q Consensus       586 g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  617 (680)
                      |+.||..+|++||++|++.|++++|.++|++|
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            56777777777777777777777777777776

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.48  E-value=0.00012  Score=82.13  Aligned_cols=202  Identities=16%  Similarity=0.124  Sum_probs=109.5

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC-----CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 005729          300 TATYAAVITALSNSGRTIEAEAVFEELKESGLKP-----RTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYS  374 (680)
Q Consensus       300 ~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p-----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~  374 (680)
                      ...|...|....+.++.++|.+++++.+.. +.+     -.-.|.++++.-...|.-+...++|+++.+..  -....|.
T Consensus      1458 Si~WI~YMaf~LelsEiekAR~iaerAL~t-IN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqyc--d~~~V~~ 1534 (1710)
T KOG1070|consen 1458 SILWIRYMAFHLELSEIEKARKIAERALKT-INFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYC--DAYTVHL 1534 (1710)
T ss_pred             chHHHHHHHHHhhhhhhHHHHHHHHHHhhh-CCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhc--chHHHHH
Confidence            445666666666666666666666665532 111     12345555555555565566666666666531  1234455


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC---HHHHHHHHHHHH
Q 005729          375 LLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPD---THFYNVMIDTFG  451 (680)
Q Consensus       375 ~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~---~~~~~~li~~~~  451 (680)
                      .|...|.+.+..++|.++|+.|.+.- .-....|...+..+.+..+-+.|..++.+..+.  -|.   .....-.+..-.
T Consensus      1535 ~L~~iy~k~ek~~~A~ell~~m~KKF-~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~--lPk~eHv~~IskfAqLEF 1611 (1710)
T KOG1070|consen 1535 KLLGIYEKSEKNDEADELLRLMLKKF-GQTRKVWIMYADFLLRQNEAEAARELLKRALKS--LPKQEHVEFISKFAQLEF 1611 (1710)
T ss_pred             HHHHHHHHhhcchhHHHHHHHHHHHh-cchhhHHHHHHHHHhcccHHHHHHHHHHHHHhh--cchhhhHHHHHHHHHHHh
Confidence            66666666666666666666665542 234455666666666666666666666655443  222   222333333444


Q ss_pred             ccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCC
Q 005729          452 KYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFP  508 (680)
Q Consensus       452 ~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p  508 (680)
                      +.|+.+.++.+|+...... +.-...|+..|+.-.++|+.+.+..+|++....++.|
T Consensus      1612 k~GDaeRGRtlfEgll~ay-PKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~ 1667 (1710)
T KOG1070|consen 1612 KYGDAERGRTLFEGLLSAY-PKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSI 1667 (1710)
T ss_pred             hcCCchhhHHHHHHHHhhC-ccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCCh
Confidence            5566666666665555432 2234456666666666666666666666665555443

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.45  E-value=0.0028  Score=64.74  Aligned_cols=418  Identities=10%  Similarity=0.078  Sum_probs=216.3

Q ss_pred             HHhhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCCChHHHHHHHHHHHhCCCC
Q 005729          183 FLLSQRQRLTPLTYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIE  262 (680)
Q Consensus       183 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~~~~~~l~~~~~~~~~~  262 (680)
                      ....+..+-|..+|+.||+-+... ..+++.+.+++|... ++-....|..-+..-.+..+++.  ++.+|.++..... 
T Consensus        10 ~~rie~nP~di~sw~~lire~qt~-~~~~~R~~YEq~~~~-FP~s~r~W~~yi~~El~skdfe~--VEkLF~RCLvkvL-   84 (656)
T KOG1914|consen   10 RERIEENPYDIDSWSQLIREAQTQ-PIDKVRETYEQLVNV-FPSSPRAWKLYIERELASKDFES--VEKLFSRCLVKVL-   84 (656)
T ss_pred             HHHHhcCCccHHHHHHHHHHHccC-CHHHHHHHHHHHhcc-CCCCcHHHHHHHHHHHHhhhHHH--HHHHHHHHHHHHh-
Confidence            344566788999999999977666 999999999999864 33455677778888888888743  6789998877644 


Q ss_pred             cCHHHHHHHHHHHHH-cCCHHH----HHHHHHHH-HhCCCCCC-HHHHHHHHHHH---------HhcCChHHHHHHHHHH
Q 005729          263 LDGQLLNDVIVGFAK-AGDASK----AMRFLGMA-QGVGLSPK-TATYAAVITAL---------SNSGRTIEAEAVFEEL  326 (680)
Q Consensus       263 ~~~~~~~~li~~~~~-~g~~~~----A~~~~~~~-~~~g~~p~-~~~~~~li~~~---------~~~g~~~~A~~l~~~m  326 (680)
                       +...|..-++.-.+ .|+...    -.+.|+.. .+.|+.+- ...|+..+..+         ..+.+++...++|+++
T Consensus        85 -nlDLW~lYl~YVR~~~~~~~~~r~~m~qAy~f~l~kig~di~s~siW~eYi~FL~~vea~gk~ee~QRI~~vRriYqra  163 (656)
T KOG1914|consen   85 -NLDLWKLYLSYVRETKGKLFGYREKMVQAYDFALEKIGMDIKSYSIWDEYINFLEGVEAVGKYEENQRITAVRRIYQRA  163 (656)
T ss_pred             -hHhHHHHHHHHHHHHccCcchHHHHHHHHHHHHHHHhccCcccchhHHHHHHHHHcccccccHHHHHHHHHHHHHHHHH
Confidence             45566665553332 233333    23344433 34554443 23355554433         3344566778888888


Q ss_pred             HHcCCCCCHHHHHH------HHHHH-------HHcCCHHHHHHHHHHHHH--CCCCCCHHH---------------HHHH
Q 005729          327 KESGLKPRTKAYNA------LLKGY-------VKMGYLKDAEFVVSEMER--SGVLPDEHT---------------YSLL  376 (680)
Q Consensus       327 ~~~g~~p~~~~~~~------li~~~-------~~~g~~~~A~~~~~~m~~--~g~~~~~~~---------------~~~l  376 (680)
                      ....+.-=...|+.      =|+..       -+...+..|.++++++..  .|...+..+               |-.+
T Consensus       164 l~tPm~nlEkLW~DY~~fE~~IN~~tarK~i~e~s~~Ym~AR~~~qel~~lt~GL~r~~~~vp~~~T~~e~~qv~~W~n~  243 (656)
T KOG1914|consen  164 LVTPMHNLEKLWKDYEAFEQEINIITARKFIGERSPEYMNARRVYQELQNLTRGLNRNAPAVPPKGTKDEIQQVELWKNW  243 (656)
T ss_pred             hcCccccHHHHHHHHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCChHHHHHHHHHHHH
Confidence            75432211122221      11111       123345667777776653  332211111               2222


Q ss_pred             HHHHHHcCCH--------HHHHHHHHHHH-HCCCCCCHHHH-----HHHHHHHHhcCC-------HHHHHHHHHHHHHCC
Q 005729          377 IDAYANAGRW--------ESARIVLKEME-VSHAKPNSFIY-----SRILAGYRDRGE-------WQRTFQVLKEMKSSG  435 (680)
Q Consensus       377 i~~~~~~g~~--------~~A~~~~~~m~-~~~~~~~~~~~-----~~ll~~~~~~g~-------~~~A~~l~~~m~~~~  435 (680)
                      |..=-..+-.        ....-.+++.. -.+..|+....     ...-..+...|+       -+++..+++.....-
T Consensus       244 I~wEksNpL~t~~~~~~~~Rv~yayeQ~ll~l~~~peiWy~~s~yl~~~s~l~~~~~d~~~a~~~t~e~~~~yEr~I~~l  323 (656)
T KOG1914|consen  244 IKWEKSNPLRTLDGTMLTRRVMYAYEQCLLYLGYHPEIWYDYSMYLIEISDLLTEKGDVPDAKSLTDEAASIYERAIEGL  323 (656)
T ss_pred             HHHHhcCCcccccccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhhHHHHHhcccccchhhHHHHHHHHHHHHHHH
Confidence            2211111100        00001111111 11111211100     001112222332       233344444333221


Q ss_pred             CCCCHHHHHHHHHHHH---ccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCC-CHH
Q 005729          436 VEPDTHFYNVMIDTFG---KYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFP-CTT  511 (680)
Q Consensus       436 ~~p~~~~~~~li~~~~---~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p-~~~  511 (680)
                      ...+..+|..+.+.--   +-...+.....++++......--..+|..+|+.-.+..-++.|..+|.+..+.+..+ ++.
T Consensus       324 ~~~~~~Ly~~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVf  403 (656)
T KOG1914|consen  324 LKENKLLYFALADYEESRYDDNKEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVF  403 (656)
T ss_pred             HHHHHHHHHHHHhhHHHhcccchhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhh
Confidence            1222223322222111   111244455555555543222223456666666666667777777777777665555 566


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCH
Q 005729          512 TYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSN  591 (680)
Q Consensus       512 t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~  591 (680)
                      .+++++.-+|. ++..-|.++|+--++. +.-+..--...++-+...++-..+..+           |+.....++.|+.
T Consensus       404 Va~A~mEy~cs-kD~~~AfrIFeLGLkk-f~d~p~yv~~YldfL~~lNdd~N~R~L-----------FEr~l~s~l~~~k  470 (656)
T KOG1914|consen  404 VAAALMEYYCS-KDKETAFRIFELGLKK-FGDSPEYVLKYLDFLSHLNDDNNARAL-----------FERVLTSVLSADK  470 (656)
T ss_pred             HHHHHHHHHhc-CChhHHHHHHHHHHHh-cCCChHHHHHHHHHHHHhCcchhHHHH-----------HHHHHhccCChhh
Confidence            67777776664 5566777777765554 222344445566666666666655544           4444444455554


Q ss_pred             --HHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 005729          592 --LALNSLINAFGEDQRDAEAFAVLQYMKE  619 (680)
Q Consensus       592 --~~~~~li~~~~~~g~~~~A~~~~~~m~~  619 (680)
                        ..|..++.--..-|++..++++-+++..
T Consensus       471 s~~Iw~r~l~yES~vGdL~si~~lekR~~~  500 (656)
T KOG1914|consen  471 SKEIWDRMLEYESNVGDLNSILKLEKRRFT  500 (656)
T ss_pred             hHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence              3777777777778888888887777664

>PLN02789 farnesyltranstransferase

Probab=98.45  E-value=0.00028  Score=70.58  Aligned_cols=203  Identities=8%  Similarity=0.010  Sum_probs=87.6

Q ss_pred             CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcC-CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCH--HHHH
Q 005729          314 GRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMG-YLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRW--ESAR  390 (680)
Q Consensus       314 g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g-~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~--~~A~  390 (680)
                      ++.++|+.+..++++.. +-+..+|+.--..+...| ++++++..++++.+.+.+ +..+|+.....+.+.|+.  ++++
T Consensus        51 e~serAL~lt~~aI~ln-P~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npk-nyqaW~~R~~~l~~l~~~~~~~el  128 (320)
T PLN02789         51 ERSPRALDLTADVIRLN-PGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPK-NYQIWHHRRWLAEKLGPDAANKEL  128 (320)
T ss_pred             CCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCc-chHHhHHHHHHHHHcCchhhHHHH
Confidence            34444444444444432 112223333333333333 344555555554443321 333344333333333331  3444


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcc---CC----HHHHHHHH
Q 005729          391 IVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKY---NC----LHHAMAAF  463 (680)
Q Consensus       391 ~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~---g~----~~~A~~~~  463 (680)
                      .+++++.+.+ +-|..+|+...-.+...|+++++++.++++.+.+ +.+...|+.....+.+.   |.    .+......
T Consensus       129 ~~~~kal~~d-pkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d-~~N~sAW~~R~~vl~~~~~l~~~~~~~e~el~y~  206 (320)
T PLN02789        129 EFTRKILSLD-AKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEED-VRNNSAWNQRYFVITRSPLLGGLEAMRDSELKYT  206 (320)
T ss_pred             HHHHHHHHhC-cccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHC-CCchhHHHHHHHHHHhccccccccccHHHHHHHH
Confidence            4444444433 2244455544444555555555555555555443 23333333333332222   11    22344444


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHHc----CChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 005729          464 DRMLSEGIEPDTITWNTLIDCHFKC----GRYDRAEELFEEMQERGYFPCTTTYNIMINLLGE  522 (680)
Q Consensus       464 ~~m~~~~~~~~~~~~~~li~~~~~~----g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~  522 (680)
                      ..++... +-|...|+.+...+...    ++..+|.+.+.+..+.+ +.+......|+..|+.
T Consensus       207 ~~aI~~~-P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~-~~s~~al~~l~d~~~~  267 (320)
T PLN02789        207 IDAILAN-PRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKD-SNHVFALSDLLDLLCE  267 (320)
T ss_pred             HHHHHhC-CCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhccc-CCcHHHHHHHHHHHHh
Confidence            4444432 23455565555555542    23344666665555443 3445555556666554

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.44  E-value=5.5e-05  Score=79.50  Aligned_cols=220  Identities=12%  Similarity=0.089  Sum_probs=167.6

Q ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 005729          367 LPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVM  446 (680)
Q Consensus       367 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~l  446 (680)
                      +|--..-..+...+...|-...|..+|+++.         .|..++.+|+..|+..+|..+..+..++  +|+...|..+
T Consensus       395 pp~Wq~q~~laell~slGitksAl~I~Erle---------mw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc~L  463 (777)
T KOG1128|consen  395 PPIWQLQRLLAELLLSLGITKSALVIFERLE---------MWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLYCLL  463 (777)
T ss_pred             CCcchHHHHHHHHHHHcchHHHHHHHHHhHH---------HHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhHHHh
Confidence            3444455667788889999999999998765         5777889999999999999998887774  7899999999


Q ss_pred             HHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH
Q 005729          447 IDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERW  526 (680)
Q Consensus       447 i~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~  526 (680)
                      .+.......+++|.++++.....       .-..+.....+.++++++.+.|+.-.+.. +....+|....-+..+.+++
T Consensus       464 GDv~~d~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~n-plq~~~wf~~G~~ALqlek~  535 (777)
T KOG1128|consen  464 GDVLHDPSLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEIN-PLQLGTWFGLGCAALQLEKE  535 (777)
T ss_pred             hhhccChHHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcC-ccchhHHHhccHHHHHHhhh
Confidence            98888888889999888876532       11122222334788999999998877765 55677888888888899999


Q ss_pred             HHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC
Q 005729          527 EDVKRLLGNMRAQGLLP-NVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQ  605 (680)
Q Consensus       527 ~~A~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g  605 (680)
                      ..|.+.|..-...  .| +...||.+-.+|.+.|+-.+|...+.           +..+.+ .-+-..|...+....+.|
T Consensus       536 q~av~aF~rcvtL--~Pd~~eaWnNls~ayi~~~~k~ra~~~l~-----------EAlKcn-~~~w~iWENymlvsvdvg  601 (777)
T KOG1128|consen  536 QAAVKAFHRCVTL--EPDNAEAWNNLSTAYIRLKKKKRAFRKLK-----------EALKCN-YQHWQIWENYMLVSVDVG  601 (777)
T ss_pred             HHHHHHHHHHhhc--CCCchhhhhhhhHHHHHHhhhHHHHHHHH-----------HHhhcC-CCCCeeeechhhhhhhcc
Confidence            9999999888873  55 46789999999999988888876654           333332 223346777777888899


Q ss_pred             CHHHHHHHHHHHHH
Q 005729          606 RDAEAFAVLQYMKE  619 (680)
Q Consensus       606 ~~~~A~~~~~~m~~  619 (680)
                      .+++|++.+.++..
T Consensus       602 e~eda~~A~~rll~  615 (777)
T KOG1128|consen  602 EFEDAIKAYHRLLD  615 (777)
T ss_pred             cHHHHHHHHHHHHH
Confidence            99999999888874

>PLN02789 farnesyltranstransferase

Probab=98.43  E-value=0.00042  Score=69.35  Aligned_cols=213  Identities=10%  Similarity=0.050  Sum_probs=154.1

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcC-ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 005729          268 LNDVIVGFAKAGDASKAMRFLGMAQGVGLSPK-TATYAAVITALSNSG-RTIEAEAVFEELKESGLKPRTKAYNALLKGY  345 (680)
Q Consensus       268 ~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~-~~~~~~li~~~~~~g-~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~  345 (680)
                      ++.+-..+...+..++|+.+.+.+++.  .|+ ..+|+....++...| ++++++..++++.+... .+..+|+.-.-.+
T Consensus        40 ~~~~ra~l~~~e~serAL~lt~~aI~l--nP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~np-knyqaW~~R~~~l  116 (320)
T PLN02789         40 MDYFRAVYASDERSPRALDLTADVIRL--NPGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNP-KNYQIWHHRRWLA  116 (320)
T ss_pred             HHHHHHHHHcCCCCHHHHHHHHHHHHH--CchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCC-cchHHhHHHHHHH
Confidence            344444556678899999999998875  454 456777777777777 57999999999988653 4666777666566


Q ss_pred             HHcCCH--HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc---CC
Q 005729          346 VKMGYL--KDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDR---GE  420 (680)
Q Consensus       346 ~~~g~~--~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~---g~  420 (680)
                      .+.|+.  +++..+++++.+.+. -|..+|+...-.+...|+++++++.++++.+.++ .|...|+.....+.+.   |.
T Consensus       117 ~~l~~~~~~~el~~~~kal~~dp-kNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~-~N~sAW~~R~~vl~~~~~l~~  194 (320)
T PLN02789        117 EKLGPDAANKELEFTRKILSLDA-KNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDV-RNNSAWNQRYFVITRSPLLGG  194 (320)
T ss_pred             HHcCchhhHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCC-CchhHHHHHHHHHHhcccccc
Confidence            666653  678888988887764 3888999999999999999999999999998764 4566676666555544   22


Q ss_pred             ----HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcc----CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH
Q 005729          421 ----WQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKY----NCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFK  487 (680)
Q Consensus       421 ----~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~----g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~  487 (680)
                          .++.++...++.... +-|...|+.+...+...    +...+|...+.+..+.+ ..+......|++.|+.
T Consensus       195 ~~~~~e~el~y~~~aI~~~-P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~-~~s~~al~~l~d~~~~  267 (320)
T PLN02789        195 LEAMRDSELKYTIDAILAN-PRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKD-SNHVFALSDLLDLLCE  267 (320)
T ss_pred             ccccHHHHHHHHHHHHHhC-CCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhccc-CCcHHHHHHHHHHHHh
Confidence                246677776766654 56778888888877763    34466888887776644 3466677778888875

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.43  E-value=2.6e-05  Score=81.82  Aligned_cols=239  Identities=14%  Similarity=0.119  Sum_probs=185.7

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 005729          298 PKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLI  377 (680)
Q Consensus       298 p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li  377 (680)
                      |--..-..+...+...|-...|..+|+++.         .|..+|.+|+..|+..+|..+..+..++  +||...|..+.
T Consensus       396 p~Wq~q~~laell~slGitksAl~I~Erle---------mw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc~LG  464 (777)
T KOG1128|consen  396 PIWQLQRLLAELLLSLGITKSALVIFERLE---------MWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLYCLLG  464 (777)
T ss_pred             CcchHHHHHHHHHHHcchHHHHHHHHHhHH---------HHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhHHHhh
Confidence            333444566778888899999999998764         4667889999999999999999888874  78999999999


Q ss_pred             HHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHH
Q 005729          378 DAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLH  457 (680)
Q Consensus       378 ~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~  457 (680)
                      +.....--+++|.++.+....+       .-..+.....+.++++++.+.|+.-.+.. +--..+|-.+..+..+.++++
T Consensus       465 Dv~~d~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~n-plq~~~wf~~G~~ALqlek~q  536 (777)
T KOG1128|consen  465 DVLHDPSLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEIN-PLQLGTWFGLGCAALQLEKEQ  536 (777)
T ss_pred             hhccChHHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhcC-ccchhHHHhccHHHHHHhhhH
Confidence            9888888899999998876432       11112222334789999999998866654 456778888888889999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 005729          458 HAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMR  537 (680)
Q Consensus       458 ~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~  537 (680)
                      .|.+.|..-.... +-+...||.+-.+|.+.|+-.+|...+.+..+.+ .-+-..|-..+-...+.|.+++|.+.+.++.
T Consensus       537 ~av~aF~rcvtL~-Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-~~~w~iWENymlvsvdvge~eda~~A~~rll  614 (777)
T KOG1128|consen  537 AAVKAFHRCVTLE-PDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-YQHWQIWENYMLVSVDVGEFEDAIKAYHRLL  614 (777)
T ss_pred             HHHHHHHHHhhcC-CCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-CCCCeeeechhhhhhhcccHHHHHHHHHHHH
Confidence            9999999988653 3356789999999999999999999999999887 4456677777778889999999999999987


Q ss_pred             HCC-CCCCHHHHHHHHHHHHh
Q 005729          538 AQG-LLPNVVTYTTLVDIYGQ  557 (680)
Q Consensus       538 ~~~-~~p~~~~~~~li~~~~~  557 (680)
                      ... ...|..+...++....+
T Consensus       615 ~~~~~~~d~~vl~~iv~~~~~  635 (777)
T KOG1128|consen  615 DLRKKYKDDEVLLIIVRTVLE  635 (777)
T ss_pred             HhhhhcccchhhHHHHHHHHh
Confidence            641 12255556555555443

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.40  E-value=0.0062  Score=66.09  Aligned_cols=216  Identities=18%  Similarity=0.078  Sum_probs=145.0

Q ss_pred             CCChHHHHHHHHHHHHCCCCCchHHHHHHHHHH--hcccCCHHHHHHh----hCCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 005729          140 NSSIDLAYAVVSWLQKHNLCYSYELLYSILIHA--LGRSEKLYEAFLL----SQRQRLTPLTYNALISACARNDDLEKAL  213 (680)
Q Consensus       140 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~--~~~~g~~~~A~~~----~~~~~~~~~~~~~li~~~~~~g~~~~A~  213 (680)
                      .+.+..|++-...+.+.-  |+.  .+...+.+  +.+.|+.++|..+    ......|..|..++-.+|.+.|+.++|.
T Consensus        22 ~~qfkkal~~~~kllkk~--Pn~--~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~D~~tLq~l~~~y~d~~~~d~~~   97 (932)
T KOG2053|consen   22 SSQFKKALAKLGKLLKKH--PNA--LYAKVLKALSLFRLGKGDEALKLLEALYGLKGTDDLTLQFLQNVYRDLGKLDEAV   97 (932)
T ss_pred             hHHHHHHHHHHHHHHHHC--CCc--HHHHHHHHHHHHHhcCchhHHHHHhhhccCCCCchHHHHHHHHHHHHHhhhhHHH
Confidence            456788888888887764  332  23333333  4678999999876    2233347889999999999999999999


Q ss_pred             HHHHHHHHcCCCCChhhHHHHHHHHHhcCCCChH--HHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcC-C---------H
Q 005729          214 NLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSS--LLQKLYKEIECDKIELDGQLLNDVIVGFAKAG-D---------A  281 (680)
Q Consensus       214 ~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~~--~~~~l~~~~~~~~~~~~~~~~~~li~~~~~~g-~---------~  281 (680)
                      .+|++..+.  .|+......+..++.+.+.+...  .+.++++     .++-+...+=++++.+.+.- .         .
T Consensus        98 ~~Ye~~~~~--~P~eell~~lFmayvR~~~yk~qQkaa~~LyK-----~~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l  170 (932)
T KOG2053|consen   98 HLYERANQK--YPSEELLYHLFMAYVREKSYKKQQKAALQLYK-----NFPKRAYYFWSVISLILQSIFSENELLDPILL  170 (932)
T ss_pred             HHHHHHHhh--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----hCCcccchHHHHHHHHHHhccCCcccccchhH
Confidence            999999876  47788888888899887766432  2233443     23344444444444444331 1         2


Q ss_pred             HHHHHHHHHHHhCC-CCCCHHHHHHHHHHHHhcCChHHHHHHH-HHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Q 005729          282 SKAMRFLGMAQGVG-LSPKTATYAAVITALSNSGRTIEAEAVF-EELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVS  359 (680)
Q Consensus       282 ~~A~~~~~~~~~~g-~~p~~~~~~~li~~~~~~g~~~~A~~l~-~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~  359 (680)
                      .-|.+.++.+.+.+ ---+..-.......+...|++++|++++ ....+.-.+-+...-+.-+..+...+++.+..++-.
T Consensus       171 ~LA~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~  250 (932)
T KOG2053|consen  171 ALAEKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSS  250 (932)
T ss_pred             HHHHHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHH
Confidence            24555666666543 2223333444556667788899999998 444444444566666777888899999999999999


Q ss_pred             HHHHCCC
Q 005729          360 EMERSGV  366 (680)
Q Consensus       360 ~m~~~g~  366 (680)
                      ++...|.
T Consensus       251 ~Ll~k~~  257 (932)
T KOG2053|consen  251 RLLEKGN  257 (932)
T ss_pred             HHHHhCC
Confidence            9988763

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.37  E-value=0.00058  Score=63.47  Aligned_cols=119  Identities=15%  Similarity=0.166  Sum_probs=59.5

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH---
Q 005729          306 VITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYAN---  382 (680)
Q Consensus       306 li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~---  382 (680)
                      -...|+..|++++|++......      +......=+..+.+..+++-|.+.+++|.+..   +..+.+.|..++.+   
T Consensus       114 aa~i~~~~~~~deAl~~~~~~~------~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~id---ed~tLtQLA~awv~la~  184 (299)
T KOG3081|consen  114 AAIIYMHDGDFDEALKALHLGE------NLEAAALNVQILLKMHRFDLAEKELKKMQQID---EDATLTQLAQAWVKLAT  184 (299)
T ss_pred             hhHHhhcCCChHHHHHHHhccc------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc---hHHHHHHHHHHHHHHhc
Confidence            3345555566666655554411      22222222334445555566666666665532   44444445444443   


Q ss_pred             -cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 005729          383 -AGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSS  434 (680)
Q Consensus       383 -~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~  434 (680)
                       .+.+.+|.-+|++|.++ ..|+..+.+....++...|++++|..++++....
T Consensus       185 ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~k  236 (299)
T KOG3081|consen  185 GGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDK  236 (299)
T ss_pred             cchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhc
Confidence             23455555555555432 3455555555555555555555555555555544

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.30  E-value=0.00013  Score=70.62  Aligned_cols=186  Identities=13%  Similarity=0.041  Sum_probs=122.0

Q ss_pred             cCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCC----HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC-CC-HH
Q 005729          263 LDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPK----TATYAAVITALSNSGRTIEAEAVFEELKESGLK-PR-TK  336 (680)
Q Consensus       263 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~----~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~-p~-~~  336 (680)
                      .....+-.+...+.+.|++++|...|+.+...  .|+    ..++..+...+.+.|++++|...++++.+.... +. ..
T Consensus        31 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~  108 (235)
T TIGR03302        31 WPAEELYEEAKEALDSGDYTEAIKYFEALESR--YPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADY  108 (235)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHH
Confidence            35566777788888999999999999988764  343    246777888999999999999999999875321 11 12


Q ss_pred             HHHHHHHHHHHc--------CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHH
Q 005729          337 AYNALLKGYVKM--------GYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIY  408 (680)
Q Consensus       337 ~~~~li~~~~~~--------g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~  408 (680)
                      ++..+..++.+.        |+.++|.+.++.+.+.... +...+..+.....    ....      ..        ...
T Consensus       109 a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~a~~~~~~----~~~~------~~--------~~~  169 (235)
T TIGR03302       109 AYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRYPN-SEYAPDAKKRMDY----LRNR------LA--------GKE  169 (235)
T ss_pred             HHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHCCC-ChhHHHHHHHHHH----HHHH------HH--------HHH
Confidence            455555555554        6788889999888875322 2223222211100    0000      00        011


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCC--CCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHC
Q 005729          409 SRILAGYRDRGEWQRTFQVLKEMKSSG--VEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSE  469 (680)
Q Consensus       409 ~~ll~~~~~~g~~~~A~~l~~~m~~~~--~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  469 (680)
                      ..+...+.+.|++++|...++......  .+.....+..+..++.+.|+.++|...++.+...
T Consensus       170 ~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       170 LYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            245566788888888888888877652  1223567778888888888888888888777654

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).

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.30  E-value=0.00031  Score=78.23  Aligned_cols=220  Identities=11%  Similarity=0.061  Sum_probs=131.0

Q ss_pred             cCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHhcCChHHHHHHHHHHHHcC-----------
Q 005729          263 LDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTA-TYAAVITALSNSGRTIEAEAVFEELKESG-----------  330 (680)
Q Consensus       263 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~-~~~~li~~~~~~g~~~~A~~l~~~m~~~g-----------  330 (680)
                      .+...+..|+..|...+++++|.++.+...+.  .|+.. .|-.+...+.+.++.+++..+  .+...-           
T Consensus        29 ~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~--~P~~i~~yy~~G~l~~q~~~~~~~~lv--~~l~~~~~~~~~~~ve~  104 (906)
T PRK14720         29 SKFKELDDLIDAYKSENLTDEAKDICEEHLKE--HKKSISALYISGILSLSRRPLNDSNLL--NLIDSFSQNLKWAIVEH  104 (906)
T ss_pred             chHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CCcceehHHHHHHHHHhhcchhhhhhh--hhhhhcccccchhHHHH
Confidence            34667788888888888888888888866653  45433 333333456666665555444  222210           


Q ss_pred             -------CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC
Q 005729          331 -------LKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKP  403 (680)
Q Consensus       331 -------~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~  403 (680)
                             ..-+...+-.+..+|-+.|+.+++..+|+++.+.. +-|+.+.|.+...|... ++++|++++.+....    
T Consensus       105 ~~~~i~~~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~----  178 (906)
T PRK14720        105 ICDKILLYGENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYLKKAIYR----  178 (906)
T ss_pred             HHHHHHhhhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHHHHHHHH----
Confidence                   01122455566667777777777777777777766 33677777777777777 777777777665532    


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHC-CCCCCHHHHHHHH
Q 005729          404 NSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSE-GIEPDTITWNTLI  482 (680)
Q Consensus       404 ~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-~~~~~~~~~~~li  482 (680)
                                 +...+++..+.++|.++....  |+               +.+.-.++.+.+... |...-+.++-.+-
T Consensus       179 -----------~i~~kq~~~~~e~W~k~~~~~--~~---------------d~d~f~~i~~ki~~~~~~~~~~~~~~~l~  230 (906)
T PRK14720        179 -----------FIKKKQYVGIEEIWSKLVHYN--SD---------------DFDFFLRIERKVLGHREFTRLVGLLEDLY  230 (906)
T ss_pred             -----------HHhhhcchHHHHHHHHHHhcC--cc---------------cchHHHHHHHHHHhhhccchhHHHHHHHH
Confidence                       555556666666666666542  21               122222333333322 2233445556666


Q ss_pred             HHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 005729          483 DCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLG  521 (680)
Q Consensus       483 ~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~  521 (680)
                      ..|-..++++++..+++.+++.. +-|.....-++..|.
T Consensus       231 ~~y~~~~~~~~~i~iLK~iL~~~-~~n~~a~~~l~~~y~  268 (906)
T PRK14720        231 EPYKALEDWDEVIYILKKILEHD-NKNNKAREELIRFYK  268 (906)
T ss_pred             HHHhhhhhhhHHHHHHHHHHhcC-CcchhhHHHHHHHHH
Confidence            66777777777777777777765 445555555555554

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.29  E-value=0.00081  Score=75.08  Aligned_cols=82  Identities=7%  Similarity=0.137  Sum_probs=44.5

Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 005729          441 HFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLL  520 (680)
Q Consensus       441 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~  520 (680)
                      ..+..+..+|-+.|+.+++..+|+++++.. +-|+...|.+...|... ++++|.+++.+.+..               +
T Consensus       117 ~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~---------------~  179 (906)
T PRK14720        117 LALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYLKKAIYR---------------F  179 (906)
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHHHHHHHH---------------H
Confidence            345555555555555555555555555554 33455555555555555 556665555554443               3


Q ss_pred             HhcCCHHHHHHHHHHHHHC
Q 005729          521 GEQERWEDVKRLLGNMRAQ  539 (680)
Q Consensus       521 ~~~g~~~~A~~~~~~m~~~  539 (680)
                      ...+++..+..+|.++...
T Consensus       180 i~~kq~~~~~e~W~k~~~~  198 (906)
T PRK14720        180 IKKKQYVGIEEIWSKLVHY  198 (906)
T ss_pred             HhhhcchHHHHHHHHHHhc
Confidence            3444555555555555553

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.28  E-value=0.00014  Score=70.35  Aligned_cols=65  Identities=22%  Similarity=0.114  Sum_probs=40.2

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC---HHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 005729          299 KTATYAAVITALSNSGRTIEAEAVFEELKESGLKPR---TKAYNALLKGYVKMGYLKDAEFVVSEMERS  364 (680)
Q Consensus       299 ~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  364 (680)
                      ....+..+...+.+.|++++|...|+++..... .+   ...+..+...+.+.|++++|...++++.+.
T Consensus        32 ~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~   99 (235)
T TIGR03302        32 PAEELYEEAKEALDSGDYTEAIKYFEALESRYP-FSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRL   99 (235)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Confidence            345566666667777777777777777665421 11   134555666666677777777777776654

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=98.25  E-value=0.00026  Score=65.77  Aligned_cols=120  Identities=13%  Similarity=0.138  Sum_probs=62.9

Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH-HccCC--HHHH
Q 005729          383 AGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTF-GKYNC--LHHA  459 (680)
Q Consensus       383 ~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~-~~~g~--~~~A  459 (680)
                      .++.+++...++...+.+ +.+...|..+...|...|++++|...|++..+.. +.+...+..+..++ ...|+  .++|
T Consensus        52 ~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~-P~~~~~~~~lA~aL~~~~g~~~~~~A  129 (198)
T PRK10370         52 QQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNALLAYRQALQLR-GENAELYAALATVLYYQAGQHMTPQT  129 (198)
T ss_pred             chhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCCCcHHH
Confidence            344444444444444433 3345555555555555555555555555555543 33445555555442 34444  3556


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCC
Q 005729          460 MAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERG  505 (680)
Q Consensus       460 ~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  505 (680)
                      .+++++..+.. +.+...+..+...+.+.|++++|+..|+++.+..
T Consensus       130 ~~~l~~al~~d-P~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l~  174 (198)
T PRK10370        130 REMIDKALALD-ANEVTALMLLASDAFMQADYAQAIELWQKVLDLN  174 (198)
T ss_pred             HHHHHHHHHhC-CCChhHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            66666655544 2244555555556666666666666666665553

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.22  E-value=0.00029  Score=65.50  Aligned_cols=154  Identities=11%  Similarity=0.178  Sum_probs=118.7

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCH
Q 005729          377 IDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCL  456 (680)
Q Consensus       377 i~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~  456 (680)
                      +..|...|+++.+....+.+...    .        ..+...++.+++...++...+.. +.+...|..+...|...|++
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~~----~--------~~~~~~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~   89 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLADP----L--------HQFASQQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDY   89 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhCc----c--------ccccCchhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCH
Confidence            45677888887765544332211    0        01223566778888888877665 78899999999999999999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHH-HHcCC--hhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 005729          457 HHAMAAFDRMLSEGIEPDTITWNTLIDCH-FKCGR--YDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLL  533 (680)
Q Consensus       457 ~~A~~~~~~m~~~~~~~~~~~~~~li~~~-~~~g~--~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~  533 (680)
                      ++|...|++..+.. +.+...+..+..++ ...|+  .++|.+++++..+.+ +-+...+..+...+.+.|++++|...|
T Consensus        90 ~~A~~a~~~Al~l~-P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~d-P~~~~al~~LA~~~~~~g~~~~Ai~~~  167 (198)
T PRK10370         90 DNALLAYRQALQLR-GENAELYAALATVLYYQAGQHMTPQTREMIDKALALD-ANEVTALMLLASDAFMQADYAQAIELW  167 (198)
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHcCCHHHHHHHH
Confidence            99999999999876 34777888888764 67777  599999999999987 667888999999999999999999999


Q ss_pred             HHHHHCCCCCCHH
Q 005729          534 GNMRAQGLLPNVV  546 (680)
Q Consensus       534 ~~m~~~~~~p~~~  546 (680)
                      +++.+.. .|+..
T Consensus       168 ~~aL~l~-~~~~~  179 (198)
T PRK10370        168 QKVLDLN-SPRVN  179 (198)
T ss_pred             HHHHhhC-CCCcc
Confidence            9999873 34443

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.18  E-value=0.0034  Score=58.53  Aligned_cols=144  Identities=16%  Similarity=0.157  Sum_probs=79.8

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH---
Q 005729          411 ILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFK---  487 (680)
Q Consensus       411 ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~---  487 (680)
                      -...|+..|++++|++.....      -+......-+..+.+....+.|.+.++.|.+.   -+..+.+.|..++.+   
T Consensus       114 aa~i~~~~~~~deAl~~~~~~------~~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~i---ded~tLtQLA~awv~la~  184 (299)
T KOG3081|consen  114 AAIIYMHDGDFDEALKALHLG------ENLEAAALNVQILLKMHRFDLAEKELKKMQQI---DEDATLTQLAQAWVKLAT  184 (299)
T ss_pred             hhHHhhcCCChHHHHHHHhcc------chHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc---chHHHHHHHHHHHHHHhc
Confidence            334455555666655555441      12222222233344455566666666666642   244455555555543   


Q ss_pred             -cCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHH
Q 005729          488 -CGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAI  565 (680)
Q Consensus       488 -~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~  565 (680)
                       .+.+.+|.-+|++|.++- +|+..+.+....++...|++++|..++++.+.+... ++.+...++-.-...|...++.
T Consensus       185 ggek~qdAfyifeE~s~k~-~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~-dpetL~Nliv~a~~~Gkd~~~~  261 (299)
T KOG3081|consen  185 GGEKIQDAFYIFEELSEKT-PPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAK-DPETLANLIVLALHLGKDAEVT  261 (299)
T ss_pred             cchhhhhHHHHHHHHhccc-CCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCC-CHHHHHHHHHHHHHhCCChHHH
Confidence             344666777777776542 566667776666677777777777777777665322 5556655555555566554443

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.18  E-value=0.019  Score=62.53  Aligned_cols=224  Identities=17%  Similarity=0.200  Sum_probs=147.8

Q ss_pred             HHHcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHH--HhcCCCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCC
Q 005729          203 CARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSL--TRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGD  280 (680)
Q Consensus       203 ~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~--~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~  280 (680)
                      ....+++.+|+....++.+.  .|+. .|..+++++  .+.|+.+++.  .+++....-+.. |..+...+-.+|...|+
T Consensus        19 ~ld~~qfkkal~~~~kllkk--~Pn~-~~a~vLkaLsl~r~gk~~ea~--~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~   92 (932)
T KOG2053|consen   19 LLDSSQFKKALAKLGKLLKK--HPNA-LYAKVLKALSLFRLGKGDEAL--KLLEALYGLKGT-DDLTLQFLQNVYRDLGK   92 (932)
T ss_pred             HhhhHHHHHHHHHHHHHHHH--CCCc-HHHHHHHHHHHHHhcCchhHH--HHHhhhccCCCC-chHHHHHHHHHHHHHhh
Confidence            35677889999988887775  3554 455566655  4677776654  666665554444 88889999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCC----------
Q 005729          281 ASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGY----------  350 (680)
Q Consensus       281 ~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~----------  350 (680)
                      .++|..+|++..+.  .|+..-...+..+|.+.+.+.+-.++--+|.+ ..+-+...|=+++..+.+.-.          
T Consensus        93 ~d~~~~~Ye~~~~~--~P~eell~~lFmayvR~~~yk~qQkaa~~LyK-~~pk~~yyfWsV~Slilqs~~~~~~~~~~i~  169 (932)
T KOG2053|consen   93 LDEAVHLYERANQK--YPSEELLYHLFMAYVREKSYKKQQKAALQLYK-NFPKRAYYFWSVISLILQSIFSENELLDPIL  169 (932)
T ss_pred             hhHHHHHHHHHHhh--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hCCcccchHHHHHHHHHHhccCCcccccchh
Confidence            99999999998875  57777777778888887777654333333333 233344554445555544321          


Q ss_pred             HHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHHcCCHHHHHHHHH-HHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 005729          351 LKDAEFVVSEMERSG-VLPDEHTYSLLIDAYANAGRWESARIVLK-EMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVL  428 (680)
Q Consensus       351 ~~~A~~~~~~m~~~g-~~~~~~~~~~li~~~~~~g~~~~A~~~~~-~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~  428 (680)
                      ..-|.+.++.+.+.+ .--+..-.-.-...+...|++++|++++. ...+.-...+...-+.-+..+...++|.+..++-
T Consensus       170 l~LA~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~  249 (932)
T KOG2053|consen  170 LALAEKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELS  249 (932)
T ss_pred             HHHHHHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHH
Confidence            334666777776543 11122222223345566788999999983 4444444455566667788888899999999999


Q ss_pred             HHHHHCC
Q 005729          429 KEMKSSG  435 (680)
Q Consensus       429 ~~m~~~~  435 (680)
                      .++...|
T Consensus       250 ~~Ll~k~  256 (932)
T KOG2053|consen  250 SRLLEKG  256 (932)
T ss_pred             HHHHHhC
Confidence            9988876

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.17  E-value=0.00057  Score=63.57  Aligned_cols=159  Identities=14%  Similarity=0.115  Sum_probs=100.3

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcc
Q 005729          374 SLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKY  453 (680)
Q Consensus       374 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~  453 (680)
                      ..+-..+...|+-+....+....... ...|....+..++...+.|++..|...+++..... ++|..+|+.+.-+|.+.
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~-~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~-p~d~~~~~~lgaaldq~  147 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIA-YPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLA-PTDWEAWNLLGAALDQL  147 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhcc-CcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccC-CCChhhhhHHHHHHHHc
Confidence            44455555666666666665554322 23344455556666677777777777777766554 66677777777777777


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 005729          454 NCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLL  533 (680)
Q Consensus       454 g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~  533 (680)
                      |+.+.|..-|.+..+.. .-+....|.+.-.|.-.|+.+.|..++......+ .-|...-..+..+....|++++|..+.
T Consensus       148 Gr~~~Ar~ay~qAl~L~-~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~-~ad~~v~~NLAl~~~~~g~~~~A~~i~  225 (257)
T COG5010         148 GRFDEARRAYRQALELA-PNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSP-AADSRVRQNLALVVGLQGDFREAEDIA  225 (257)
T ss_pred             cChhHHHHHHHHHHHhc-cCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCC-CCchHHHHHHHHHHhhcCChHHHHhhc
Confidence            77777777777766653 2344556666666666777777777777766654 335555566666666777777777665


Q ss_pred             HHH
Q 005729          534 GNM  536 (680)
Q Consensus       534 ~~m  536 (680)
                      ..-
T Consensus       226 ~~e  228 (257)
T COG5010         226 VQE  228 (257)
T ss_pred             ccc
Confidence            543

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.16  E-value=0.0011  Score=73.32  Aligned_cols=219  Identities=15%  Similarity=0.139  Sum_probs=145.3

Q ss_pred             CCCCCCHHHHHHHHHHHHHcCCHHHH-HHHHHHHHHcCCCCChhhHHHHHHHHHhcCCCChHH--HHHHHHHHHhCCCCc
Q 005729          187 QRQRLTPLTYNALISACARNDDLEKA-LNLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSL--LQKLYKEIECDKIEL  263 (680)
Q Consensus       187 ~~~~~~~~~~~~li~~~~~~g~~~~A-~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~~~--~~~l~~~~~~~~~~~  263 (680)
                      .++..++...+.+=.+.+.-|..++| .++..++.+               .+.+.+.+....  .-++.+..  +....
T Consensus        22 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~~~~~~~~~~~~~~~~~~--~~~~~   84 (694)
T PRK15179         22 GGPASGPTILDLLEAALAEPGESEEAGRELLQQARQ---------------VLERHAAVHKPAAALPELLDYV--RRYPH   84 (694)
T ss_pred             CCCCCCcHHHhHHHHHhcCcccchhHHHHHHHHHHH---------------HHHHhhhhcchHhhHHHHHHHH--Hhccc
Confidence            34444555666666667777777666 344444432               222223221111  01222222  23456


Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 005729          264 DGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPK-TATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALL  342 (680)
Q Consensus       264 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li  342 (680)
                      ++..+-.|.....+.|.+++|..+++...+.  .|+ ......+...+.+.+++++|+..+++..... +-+....+.+.
T Consensus        85 ~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~--~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~-p~~~~~~~~~a  161 (694)
T PRK15179         85 TELFQVLVARALEAAHRSDEGLAVWRGIHQR--FPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGG-SSSAREILLEA  161 (694)
T ss_pred             cHHHHHHHHHHHHHcCCcHHHHHHHHHHHhh--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcC-CCCHHHHHHHH
Confidence            6888888888888889999999999888874  565 5567788888889999999999998888764 34566677777


Q ss_pred             HHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHH
Q 005729          343 KGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQ  422 (680)
Q Consensus       343 ~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~  422 (680)
                      .++.+.|++++|..+|+++...+ +-+..++..+...+...|+.++|...|++..+.. .+....|+..+      ++..
T Consensus       162 ~~l~~~g~~~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~-~~~~~~~~~~~------~~~~  233 (694)
T PRK15179        162 KSWDEIGQSEQADACFERLSRQH-PEFENGYVGWAQSLTRRGALWRARDVLQAGLDAI-GDGARKLTRRL------VDLN  233 (694)
T ss_pred             HHHHHhcchHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhh-CcchHHHHHHH------HHHH
Confidence            88888899999999999988743 2357888888888888999999999888887643 23334444433      2333


Q ss_pred             HHHHHHHHHHH
Q 005729          423 RTFQVLKEMKS  433 (680)
Q Consensus       423 ~A~~l~~~m~~  433 (680)
                      .-..+++.+.-
T Consensus       234 ~~~~~~~~~~~  244 (694)
T PRK15179        234 ADLAALRRLGV  244 (694)
T ss_pred             HHHHHHHHcCc
Confidence            44555555543

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.14  E-value=0.00096  Score=67.48  Aligned_cols=146  Identities=11%  Similarity=0.084  Sum_probs=104.6

Q ss_pred             HHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHH
Q 005729          450 FGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPC-TTTYNIMINLLGEQERWED  528 (680)
Q Consensus       450 ~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~t~~~li~~~~~~g~~~~  528 (680)
                      +...|+.+.|+..++.+.+.. +-|...+....+.+.+.++.++|.+.++++....  |+ ......+..+|.+.|+..+
T Consensus       316 ~~~~~~~d~A~~~l~~L~~~~-P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~--P~~~~l~~~~a~all~~g~~~e  392 (484)
T COG4783         316 TYLAGQYDEALKLLQPLIAAQ-PDNPYYLELAGDILLEANKAKEAIERLKKALALD--PNSPLLQLNLAQALLKGGKPQE  392 (484)
T ss_pred             HHHhcccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcC--CCccHHHHHHHHHHHhcCChHH
Confidence            345577778888888777653 4466667777788888888888888888888764  44 5566667778888888888


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHH
Q 005729          529 VKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDA  608 (680)
Q Consensus       529 A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~  608 (680)
                      |..+++...... +-|+..|..|.++|...|+..++...                             ....|...|+++
T Consensus       393 ai~~L~~~~~~~-p~dp~~w~~LAqay~~~g~~~~a~~A-----------------------------~AE~~~~~G~~~  442 (484)
T COG4783         393 AIRILNRYLFND-PEDPNGWDLLAQAYAELGNRAEALLA-----------------------------RAEGYALAGRLE  442 (484)
T ss_pred             HHHHHHHHhhcC-CCCchHHHHHHHHHHHhCchHHHHHH-----------------------------HHHHHHhCCCHH
Confidence            888888887763 44778888888888888887776543                             223556678888


Q ss_pred             HHHHHHHHHHHCCCCCCHHHH
Q 005729          609 EAFAVLQYMKENGLKPDVVTY  629 (680)
Q Consensus       609 ~A~~~~~~m~~~g~~p~~~~~  629 (680)
                      +|+..+....+. ++++..+|
T Consensus       443 ~A~~~l~~A~~~-~~~~~~~~  462 (484)
T COG4783         443 QAIIFLMRASQQ-VKLGFPDW  462 (484)
T ss_pred             HHHHHHHHHHHh-ccCCcHHH
Confidence            888887777764 34444443

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.12  E-value=0.0015  Score=72.22  Aligned_cols=235  Identities=14%  Similarity=0.110  Sum_probs=157.2

Q ss_pred             hHHHHHHHHHhcCCCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 005729          230 NYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITA  309 (680)
Q Consensus       230 ~~~~ll~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~  309 (680)
                      .+..+=.+++..|..+++ .++++.+..+            ++..........+++.-...... ....+...+..|...
T Consensus        30 ~~~~~~~~~~~~~~~~~~-~~~~~~~~~~------------~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~La~i   95 (694)
T PRK15179         30 ILDLLEAALAEPGESEEA-GRELLQQARQ------------VLERHAAVHKPAAALPELLDYVR-RYPHTELFQVLVARA   95 (694)
T ss_pred             HHhHHHHHhcCcccchhH-HHHHHHHHHH------------HHHHhhhhcchHhhHHHHHHHHH-hccccHHHHHHHHHH
Confidence            333333445555555433 4666666542            33333333333333332222222 234568888899999


Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHH
Q 005729          310 LSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESA  389 (680)
Q Consensus       310 ~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A  389 (680)
                      ..+.|++++|+.+++...+.. +-+......+...+.+.+++++|...+++....... +......+..++.+.|++++|
T Consensus        96 ~~~~g~~~ea~~~l~~~~~~~-Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p~-~~~~~~~~a~~l~~~g~~~~A  173 (694)
T PRK15179         96 LEAAHRSDEGLAVWRGIHQRF-PDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGSS-SAREILLEAKSWDEIGQSEQA  173 (694)
T ss_pred             HHHcCCcHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCCC-CHHHHHHHHHHHHHhcchHHH
Confidence            999999999999999998863 335667788888999999999999999999887533 677788888899999999999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHC
Q 005729          390 RIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSE  469 (680)
Q Consensus       390 ~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  469 (680)
                      ..+|++....+ +-+..++..+...+.+.|+.++|...|+...... .+...-|+..+.      ++..-...++++.-.
T Consensus       174 ~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~-~~~~~~~~~~~~------~~~~~~~~~~~~~~~  245 (694)
T PRK15179        174 DACFERLSRQH-PEFENGYVGWAQSLTRRGALWRARDVLQAGLDAI-GDGARKLTRRLV------DLNADLAALRRLGVE  245 (694)
T ss_pred             HHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhh-CcchHHHHHHHH------HHHHHHHHHHHcCcc
Confidence            99999998743 3457888899999999999999999999987653 345555554432      233444455555432


Q ss_pred             ----CCCCCHHHHHHHHHHHHHc
Q 005729          470 ----GIEPDTITWNTLIDCHFKC  488 (680)
Q Consensus       470 ----~~~~~~~~~~~li~~~~~~  488 (680)
                          |....+.....+|.-|.+.
T Consensus       246 ~~~~~~~~~~~~~~~~~~~~~~~  268 (694)
T PRK15179        246 GDGRDVPVSILVLEKMLQEIGRR  268 (694)
T ss_pred             cccCCCceeeeeHHHHHHHHhhc
Confidence                2233344555556555544

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.09  E-value=5.6e-06  Score=52.61  Aligned_cols=34  Identities=35%  Similarity=0.561  Sum_probs=32.5

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCh
Q 005729          195 TYNALISACARNDDLEKALNLMSKMRQDGYHCDF  228 (680)
Q Consensus       195 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  228 (680)
                      +||++|.+|++.|++++|.++|++|.+.|+.||.
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            7999999999999999999999999999999973

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=98.08  E-value=0.0013  Score=61.35  Aligned_cols=157  Identities=17%  Similarity=0.147  Sum_probs=131.0

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc
Q 005729          409 SRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKC  488 (680)
Q Consensus       409 ~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~  488 (680)
                      ..+-..+...|+-+....+....... .+.+.......+....+.|++..|...|.+..... ++|...|+.+..+|.+.
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~-~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~-p~d~~~~~~lgaaldq~  147 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIA-YPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLA-PTDWEAWNLLGAALDQL  147 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhcc-CcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccC-CCChhhhhHHHHHHHHc
Confidence            55667777788877777776664432 24555666778899999999999999999998765 67999999999999999


Q ss_pred             CChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHH
Q 005729          489 GRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECL  568 (680)
Q Consensus       489 g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~  568 (680)
                      |+++.|..-|.+..+.. +-+...++.+.-.+.-.|+.+.|..++......+ .-|..+-..+.......|++++|.++.
T Consensus       148 Gr~~~Ar~ay~qAl~L~-~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~-~ad~~v~~NLAl~~~~~g~~~~A~~i~  225 (257)
T COG5010         148 GRFDEARRAYRQALELA-PNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSP-AADSRVRQNLALVVGLQGDFREAEDIA  225 (257)
T ss_pred             cChhHHHHHHHHHHHhc-cCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCC-CCchHHHHHHHHHHhhcCChHHHHhhc
Confidence            99999999999998874 4567788888888999999999999999998764 337888889999999999999998875


Q ss_pred             h
Q 005729          569 E  569 (680)
Q Consensus       569 ~  569 (680)
                      .
T Consensus       226 ~  226 (257)
T COG5010         226 V  226 (257)
T ss_pred             c
Confidence            4

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.03  E-value=0.0003  Score=61.81  Aligned_cols=89  Identities=11%  Similarity=0.019  Sum_probs=37.6

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChh
Q 005729          413 AGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYD  492 (680)
Q Consensus       413 ~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~  492 (680)
                      ..+...|++++|...|+...... +.+...+..+..++...|++++|...|+...+.. +.+...+..+..++.+.|+++
T Consensus        32 ~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~~~~a~~~lg~~l~~~g~~~  109 (144)
T PRK15359         32 YASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASHPEPVYQTGVCLKMMGEPG  109 (144)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHH
Confidence            33344444444444444443332 2333444444444444444444444444444332 223344444444444444444


Q ss_pred             HHHHHHHHHHH
Q 005729          493 RAEELFEEMQE  503 (680)
Q Consensus       493 ~A~~~~~~m~~  503 (680)
                      +|...|+...+
T Consensus       110 eAi~~~~~Al~  120 (144)
T PRK15359        110 LAREAFQTAIK  120 (144)
T ss_pred             HHHHHHHHHHH
Confidence            44444444443

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=97.99  E-value=0.00074  Score=59.27  Aligned_cols=93  Identities=9%  Similarity=-0.138  Sum_probs=48.4

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC
Q 005729          340 ALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRG  419 (680)
Q Consensus       340 ~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g  419 (680)
                      .+...+...|++++|...|+...... +.+...|..+..++...|++++|+..|++....+ +.+...+..+..++...|
T Consensus        29 ~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~~~~a~~~lg~~l~~~g  106 (144)
T PRK15359         29 ASGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASHPEPVYQTGVCLKMMG  106 (144)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHcC
Confidence            34445555555555555555555443 2244555555555555555555555555555432 234445555555555555


Q ss_pred             CHHHHHHHHHHHHHC
Q 005729          420 EWQRTFQVLKEMKSS  434 (680)
Q Consensus       420 ~~~~A~~l~~~m~~~  434 (680)
                      +.++|...|+...+.
T Consensus       107 ~~~eAi~~~~~Al~~  121 (144)
T PRK15359        107 EPGLAREAFQTAIKM  121 (144)
T ss_pred             CHHHHHHHHHHHHHh
Confidence            555555555555443

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.97  E-value=0.0084  Score=55.57  Aligned_cols=187  Identities=13%  Similarity=0.123  Sum_probs=108.6

Q ss_pred             CCHHHHHHHHHHHHh---CC-CCCCHH-HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHH
Q 005729          279 GDASKAMRFLGMAQG---VG-LSPKTA-TYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKD  353 (680)
Q Consensus       279 g~~~~A~~~~~~~~~---~g-~~p~~~-~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~  353 (680)
                      .+.++.++++..+..   .| ..++.. .|..++-+....|+.+.|..+++.+.+. ++-+..+-..-...+-..|++++
T Consensus        26 rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~-fp~S~RV~~lkam~lEa~~~~~~  104 (289)
T KOG3060|consen   26 RNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDR-FPGSKRVGKLKAMLLEATGNYKE  104 (289)
T ss_pred             cCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHh-CCCChhHHHHHHHHHHHhhchhh
Confidence            455666666655542   22 334433 3445555666677777777777776654 22222222222223445577777


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 005729          354 AEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKS  433 (680)
Q Consensus       354 A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~  433 (680)
                      |.++++.+.+.+ +.|..++---+...-..|+--+|++-+.+..+. +..|...|.-+...|...|++++|.-.++++.-
T Consensus       105 A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll  182 (289)
T KOG3060|consen  105 AIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLEELLL  182 (289)
T ss_pred             HHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHH
Confidence            777777777665 345666666566666666666777666666554 345777777777777777777777777777665


Q ss_pred             CCCCCCHHHHHHHHHHHHccC---CHHHHHHHHHHHHHC
Q 005729          434 SGVEPDTHFYNVMIDTFGKYN---CLHHAMAAFDRMLSE  469 (680)
Q Consensus       434 ~~~~p~~~~~~~li~~~~~~g---~~~~A~~~~~~m~~~  469 (680)
                      .. +.+...+..+.+.+.-.|   +++.+.+.|.+..+.
T Consensus       183 ~~-P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl  220 (289)
T KOG3060|consen  183 IQ-PFNPLYFQRLAEVLYTQGGAENLELARKYYERALKL  220 (289)
T ss_pred             cC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHh
Confidence            43 334444455555443333   445556666666553

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=97.95  E-value=1.3e-05  Score=50.54  Aligned_cols=33  Identities=42%  Similarity=0.724  Sum_probs=31.5

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCC
Q 005729          194 LTYNALISACARNDDLEKALNLMSKMRQDGYHC  226 (680)
Q Consensus       194 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  226 (680)
                      .+||++|.+|++.|+++.|.++|++|.+.|++|
T Consensus         2 ~ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    2 HTYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             cHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            589999999999999999999999999999887

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=97.95  E-value=0.00045  Score=60.06  Aligned_cols=97  Identities=11%  Similarity=0.040  Sum_probs=57.2

Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 005729          441 HFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLL  520 (680)
Q Consensus       441 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~  520 (680)
                      .....+...+...|++++|...|+.+...+ +.+...|..+...|.+.|++++|..++++..+.+ +.+...+..+...+
T Consensus        18 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~   95 (135)
T TIGR02552        18 EQIYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAECL   95 (135)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHHHH
Confidence            334445555556666666666666655543 2355556666666666666666666666665554 44455555566666


Q ss_pred             HhcCCHHHHHHHHHHHHHC
Q 005729          521 GEQERWEDVKRLLGNMRAQ  539 (680)
Q Consensus       521 ~~~g~~~~A~~~~~~m~~~  539 (680)
                      ...|++++|...++...+.
T Consensus        96 ~~~g~~~~A~~~~~~al~~  114 (135)
T TIGR02552        96 LALGEPESALKALDLAIEI  114 (135)
T ss_pred             HHcCCHHHHHHHHHHHHHh
Confidence            6666666666666666653

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=97.93  E-value=0.0046  Score=62.74  Aligned_cols=139  Identities=14%  Similarity=0.126  Sum_probs=88.0

Q ss_pred             HHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHH
Q 005729          344 GYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPN-SFIYSRILAGYRDRGEWQ  422 (680)
Q Consensus       344 ~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~-~~~~~~ll~~~~~~g~~~  422 (680)
                      .+...|++++|+..++.+...- +-|+..+....+.+.+.++.++|.+.++++....  |+ ......+..++.+.|+..
T Consensus       315 ~~~~~~~~d~A~~~l~~L~~~~-P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~--P~~~~l~~~~a~all~~g~~~  391 (484)
T COG4783         315 QTYLAGQYDEALKLLQPLIAAQ-PDNPYYLELAGDILLEANKAKEAIERLKKALALD--PNSPLLQLNLAQALLKGGKPQ  391 (484)
T ss_pred             HHHHhcccchHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcC--CCccHHHHHHHHHHHhcCChH
Confidence            3445566777777777766542 2345555556667777777777777777776553  33 445555666777777777


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHH
Q 005729          423 RTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQ  502 (680)
Q Consensus       423 ~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  502 (680)
                      +|..+++...... +.|+..|..|..+|...|+..++.....+                  +|...|++++|...+....
T Consensus       392 eai~~L~~~~~~~-p~dp~~w~~LAqay~~~g~~~~a~~A~AE------------------~~~~~G~~~~A~~~l~~A~  452 (484)
T COG4783         392 EAIRILNRYLFND-PEDPNGWDLLAQAYAELGNRAEALLARAE------------------GYALAGRLEQAIIFLMRAS  452 (484)
T ss_pred             HHHHHHHHHhhcC-CCCchHHHHHHHHHHHhCchHHHHHHHHH------------------HHHhCCCHHHHHHHHHHHH
Confidence            7777777665543 56667777777777777776665544433                  3444677777777766666


Q ss_pred             HC
Q 005729          503 ER  504 (680)
Q Consensus       503 ~~  504 (680)
                      +.
T Consensus       453 ~~  454 (484)
T COG4783         453 QQ  454 (484)
T ss_pred             Hh
Confidence            54

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.91  E-value=0.012  Score=54.48  Aligned_cols=186  Identities=13%  Similarity=0.125  Sum_probs=116.8

Q ss_pred             CHHHHHHHHHHHHH---CC-CCCCHH-HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 005729          350 YLKDAEFVVSEMER---SG-VLPDEH-TYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRT  424 (680)
Q Consensus       350 ~~~~A~~~~~~m~~---~g-~~~~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A  424 (680)
                      +.++..+++.+++.   .| ..++.. .|..++-+....|+.+.|...++++...- +-+..+-..-.-.+-..|.+++|
T Consensus        27 nseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~f-p~S~RV~~lkam~lEa~~~~~~A  105 (289)
T KOG3060|consen   27 NSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRF-PGSKRVGKLKAMLLEATGNYKEA  105 (289)
T ss_pred             CHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHhhchhhH
Confidence            45555555555542   22 233332 23444455556677777777777766553 22222222222233456777788


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHC
Q 005729          425 FQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQER  504 (680)
Q Consensus       425 ~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  504 (680)
                      .++++.+.+.+ +.|.+++..-+...-..|+--+|++-+....+. +..|...|..+...|...|++++|.-++++++-.
T Consensus       106 ~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll~  183 (289)
T KOG3060|consen  106 IEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLEELLLI  183 (289)
T ss_pred             HHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHHc
Confidence            88888777665 566677766666666666666777777666654 3568888888888888888888888888888766


Q ss_pred             CCCCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHHC
Q 005729          505 GYFPCTTTYNIMINLLGEQE---RWEDVKRLLGNMRAQ  539 (680)
Q Consensus       505 ~~~p~~~t~~~li~~~~~~g---~~~~A~~~~~~m~~~  539 (680)
                      . |-+..-+..+...+.-.|   +.+-+.+.+.+.++.
T Consensus       184 ~-P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl  220 (289)
T KOG3060|consen  184 Q-PFNPLYFQRLAEVLYTQGGAENLELARKYYERALKL  220 (289)
T ss_pred             C-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHh
Confidence            4 445555556666554433   456677888888775

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=97.87  E-value=2.6e-05  Score=49.45  Aligned_cols=33  Identities=33%  Similarity=0.585  Sum_probs=27.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC
Q 005729          593 ALNSLINAFGEDQRDAEAFAVLQYMKENGLKPD  625 (680)
Q Consensus       593 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  625 (680)
                      +|+++|.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            578888888888888888888888888888776

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.

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=97.79  E-value=4.2e-05  Score=48.11  Aligned_cols=33  Identities=30%  Similarity=0.492  Sum_probs=26.6

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC
Q 005729          592 LALNSLINAFGEDQRDAEAFAVLQYMKENGLKP  624 (680)
Q Consensus       592 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  624 (680)
                      .+|+.++.+|++.|+++.|.++|++|++.|++|
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            468888888888888888888888888888776

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=97.78  E-value=0.0013  Score=57.08  Aligned_cols=95  Identities=8%  Similarity=0.153  Sum_probs=50.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH
Q 005729          408 YSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFK  487 (680)
Q Consensus       408 ~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~  487 (680)
                      ...+...+...|++++|...++.+...+ +.+...+..+...+.+.|++++|...++...+.+ +.+...+..+...|..
T Consensus        20 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~   97 (135)
T TIGR02552        20 IYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAECLLA   97 (135)
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHH
Confidence            3344444555555555555555554433 3344555555555555555555555555555443 2344555555556666


Q ss_pred             cCChhHHHHHHHHHHHC
Q 005729          488 CGRYDRAEELFEEMQER  504 (680)
Q Consensus       488 ~g~~~~A~~~~~~m~~~  504 (680)
                      .|++++|...|++..+.
T Consensus        98 ~g~~~~A~~~~~~al~~  114 (135)
T TIGR02552        98 LGEPESALKALDLAIEI  114 (135)
T ss_pred             cCCHHHHHHHHHHHHHh
Confidence            66666666666665554

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.74  E-value=3.1e-05  Score=47.54  Aligned_cols=31  Identities=39%  Similarity=0.696  Sum_probs=28.8

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC
Q 005729          194 LTYNALISACARNDDLEKALNLMSKMRQDGY  224 (680)
Q Consensus       194 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  224 (680)
                      ++||+||++|++.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            4799999999999999999999999998874

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.

>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=97.65  E-value=0.002  Score=65.93  Aligned_cols=83  Identities=23%  Similarity=0.217  Sum_probs=32.1

Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHH
Q 005729          310 LSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESA  389 (680)
Q Consensus       310 ~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A  389 (680)
                      +...++++.|+.+|+++.+..  |+.  ...++..+...++-.+|.+++++..+.. +.+..........|.+.++.+.|
T Consensus       179 l~~t~~~~~ai~lle~L~~~~--pev--~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl~k~~~~lA  253 (395)
T PF09295_consen  179 LSLTQRYDEAIELLEKLRERD--PEV--AVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLLSKKKYELA  253 (395)
T ss_pred             HhhcccHHHHHHHHHHHHhcC--CcH--HHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHHHH
Confidence            333444444444444444432  222  1223333434444444444444444321 11333333333334444444444


Q ss_pred             HHHHHHHH
Q 005729          390 RIVLKEME  397 (680)
Q Consensus       390 ~~~~~~m~  397 (680)
                      +++.+++.
T Consensus       254 L~iAk~av  261 (395)
T PF09295_consen  254 LEIAKKAV  261 (395)
T ss_pred             HHHHHHHH
Confidence            44444443

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=97.64  E-value=0.0031  Score=55.56  Aligned_cols=113  Identities=21%  Similarity=0.197  Sum_probs=51.1

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCH----HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHHHcCCH
Q 005729          278 AGDASKAMRFLGMAQGVGLSPKT----ATYAAVITALSNSGRTIEAEAVFEELKESGLKPRT--KAYNALLKGYVKMGYL  351 (680)
Q Consensus       278 ~g~~~~A~~~~~~~~~~g~~p~~----~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~--~~~~~li~~~~~~g~~  351 (680)
                      .++...+.+.++.+.+..  |+.    ...-.+...+...|++++|...|+........++.  ...-.|...+...|++
T Consensus        24 ~~~~~~~~~~~~~l~~~~--~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~  101 (145)
T PF09976_consen   24 AGDPAKAEAAAEQLAKDY--PSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQY  101 (145)
T ss_pred             CCCHHHHHHHHHHHHHHC--CCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCH
Confidence            455555555555554432  221    12222334555555555555555555554311111  1223344445555555


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Q 005729          352 KDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLK  394 (680)
Q Consensus       352 ~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~  394 (680)
                      ++|...++.....  ......+....+.|.+.|++++|...|+
T Consensus       102 d~Al~~L~~~~~~--~~~~~~~~~~Gdi~~~~g~~~~A~~~y~  142 (145)
T PF09976_consen  102 DEALATLQQIPDE--AFKALAAELLGDIYLAQGDYDEARAAYQ  142 (145)
T ss_pred             HHHHHHHHhccCc--chHHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            5555555443222  1223344444555555555555555554

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=97.61  E-value=0.0035  Score=55.22  Aligned_cols=21  Identities=19%  Similarity=0.317  Sum_probs=9.2

Q ss_pred             HHHHHcCCHHHHHHHHHHHHH
Q 005729          378 DAYANAGRWESARIVLKEMEV  398 (680)
Q Consensus       378 ~~~~~~g~~~~A~~~~~~m~~  398 (680)
                      ..+...|++++|...|+....
T Consensus        56 ~~~~~~g~~~~A~~~l~~~~~   76 (145)
T PF09976_consen   56 KAAYEQGDYDEAKAALEKALA   76 (145)
T ss_pred             HHHHHCCCHHHHHHHHHHHHh
Confidence            334444444444444444443

>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=97.59  E-value=0.0025  Score=65.13  Aligned_cols=121  Identities=15%  Similarity=0.232  Sum_probs=54.8

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccC
Q 005729          375 LLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYN  454 (680)
Q Consensus       375 ~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g  454 (680)
                      .|+..+...++++.|+.+|+++.+..  |+  ....+++.+...++-.+|.+++.+..+.. +.+......-...+.+.+
T Consensus       174 ~Ll~~l~~t~~~~~ai~lle~L~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl~k~  248 (395)
T PF09295_consen  174 TLLKYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLLSKK  248 (395)
T ss_pred             HHHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcC
Confidence            34444444555555555555555443  22  22234444444445555555555544332 223333333344444444


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHH
Q 005729          455 CLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEM  501 (680)
Q Consensus       455 ~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  501 (680)
                      +.+.|..+.+++.+.. +-+-.+|..|..+|.+.|+++.|+..++.+
T Consensus       249 ~~~lAL~iAk~av~ls-P~~f~~W~~La~~Yi~~~d~e~ALlaLNs~  294 (395)
T PF09295_consen  249 KYELALEIAKKAVELS-PSEFETWYQLAECYIQLGDFENALLALNSC  294 (395)
T ss_pred             CHHHHHHHHHHHHHhC-chhHHHHHHHHHHHHhcCCHHHHHHHHhcC
Confidence            4455555444444432 112234444444555555555444444443

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.55  E-value=0.011  Score=58.50  Aligned_cols=297  Identities=14%  Similarity=0.049  Sum_probs=165.6

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 005729          341 LLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGE  420 (680)
Q Consensus       341 li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~  420 (680)
                      ....+.+..++.+|+..+...++.... +..-|..-...|...|++++|.--.++-.+... -........-.++...++
T Consensus        55 ~gn~~yk~k~Y~nal~~yt~Ai~~~pd-~a~yy~nRAa~~m~~~~~~~a~~dar~~~r~kd-~~~k~~~r~~~c~~a~~~  132 (486)
T KOG0550|consen   55 EGNAFYKQKTYGNALKNYTFAIDMCPD-NASYYSNRAATLMMLGRFEEALGDARQSVRLKD-GFSKGQLREGQCHLALSD  132 (486)
T ss_pred             hcchHHHHhhHHHHHHHHHHHHHhCcc-chhhhchhHHHHHHHHhHhhcccchhhheecCC-CccccccchhhhhhhhHH
Confidence            345566667777777777777766433 455555556666666777766655544433211 111233333444444444


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCC-CCCHHHHHHH-HHHHHHcCChhHHHHHH
Q 005729          421 WQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGI-EPDTITWNTL-IDCHFKCGRYDRAEELF  498 (680)
Q Consensus       421 ~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~-~~~~~~~~~l-i~~~~~~g~~~~A~~~~  498 (680)
                      ..+|.+.++.         ...|           ....++..++.+..... +|.-.+|..+ ..++.-.|++++|...-
T Consensus       133 ~i~A~~~~~~---------~~~~-----------~~anal~~~~~~~~s~s~~pac~~a~~lka~cl~~~~~~~~a~~ea  192 (486)
T KOG0550|consen  133 LIEAEEKLKS---------KQAY-----------KAANALPTLEKLAPSHSREPACFKAKLLKAECLAFLGDYDEAQSEA  192 (486)
T ss_pred             HHHHHHHhhh---------hhhh-----------HHhhhhhhhhcccccccCCchhhHHHHhhhhhhhhcccchhHHHHH
Confidence            4444444441         0001           11122222222222111 2333444433 34556678888888777


Q ss_pred             HHHHHCCCCCCHHHHHHHHHH--HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH-------------HHHHhcCChHH
Q 005729          499 EEMQERGYFPCTTTYNIMINL--LGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLV-------------DIYGQSGRFDD  563 (680)
Q Consensus       499 ~~m~~~~~~p~~~t~~~li~~--~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li-------------~~~~~~g~~~~  563 (680)
                      ...++.+ .  ...+..++++  +...++.+.+...|.+.+..  .|+...-...-             +-..+.|++..
T Consensus       193 ~~ilkld-~--~n~~al~vrg~~~yy~~~~~ka~~hf~qal~l--dpdh~~sk~~~~~~k~le~~k~~gN~~fk~G~y~~  267 (486)
T KOG0550|consen  193 IDILKLD-A--TNAEALYVRGLCLYYNDNADKAINHFQQALRL--DPDHQKSKSASMMPKKLEVKKERGNDAFKNGNYRK  267 (486)
T ss_pred             HHHHhcc-c--chhHHHHhcccccccccchHHHHHHHhhhhcc--ChhhhhHHhHhhhHHHHHHHHhhhhhHhhccchhH
Confidence            7766654 2  2233334443  34567778888888877764  34443322222             22345566666


Q ss_pred             HHHHHhhhHHHHHHHHHHHHHC---CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhc
Q 005729          564 AIECLEGLSDQAVNAFRVMRTD---GLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDV-VTYTTLMKALIRV  639 (680)
Q Consensus       564 A~~~~~~~~~~a~~~~~~m~~~---g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~l~~~~~~~  639 (680)
                      |.+.|           .+....   +.+|+...|.....+..+.|+..+|+.--++..+  +.+.. ..|..-..++.-.
T Consensus       268 A~E~Y-----------teal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~--iD~syikall~ra~c~l~l  334 (486)
T KOG0550|consen  268 AYECY-----------TEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALK--IDSSYIKALLRRANCHLAL  334 (486)
T ss_pred             HHHHH-----------HHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhh--cCHHHHHHHHHHHHHHHHH
Confidence            55554           343331   3445556788888888899999999999888876  33321 1233333456677


Q ss_pred             CCcCcHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHhhhc
Q 005729          640 DKFHKVPAVYEEMILSGCTPDRKARAMLRSALRYMKQTLK  679 (680)
Q Consensus       640 g~~~~A~~~~~~m~~~g~~pd~~~~~~l~~a~~~~k~~~~  679 (680)
                      ++|++|.+.+++..+.  .-+....+.+++|-.-+|++.+
T Consensus       335 e~~e~AV~d~~~a~q~--~~s~e~r~~l~~A~~aLkkSkR  372 (486)
T KOG0550|consen  335 EKWEEAVEDYEKAMQL--EKDCEIRRTLREAQLALKKSKR  372 (486)
T ss_pred             HHHHHHHHHHHHHHhh--ccccchHHHHHHHHHHHHHhhh
Confidence            8999999999999875  4445666777777776666654

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.54  E-value=0.0015  Score=52.46  Aligned_cols=88  Identities=18%  Similarity=0.267  Sum_probs=61.6

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CCChhhHHHHHHHHHhcCCCChHHHHHHHHHHHhCCCCcCHHHHHHHHH
Q 005729          195 TYNALISACARNDDLEKALNLMSKMRQDGY-HCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIV  273 (680)
Q Consensus       195 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~p~~~~~~~ll~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~~~li~  273 (680)
                      +-...|..+...+++...-.+|+.+++.|+ .|+..+|+.+|.+.++..--..++                         
T Consensus        27 t~i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~i-------------------------   81 (120)
T PF08579_consen   27 TQIDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDI-------------------------   81 (120)
T ss_pred             HHHHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhH-------------------------
Confidence            455678888888999999999999999999 999999999998887654321111                         


Q ss_pred             HHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 005729          274 GFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALS  311 (680)
Q Consensus       274 ~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~  311 (680)
                          .+++-+.+.+|+.|+..+++|+..+|+.++..+.
T Consensus        82 ----e~kl~~LLtvYqDiL~~~lKP~~etYnivl~~Ll  115 (120)
T PF08579_consen   82 ----ENKLTNLLTVYQDILSNKLKPNDETYNIVLGSLL  115 (120)
T ss_pred             ----HHHHHHHHHHHHHHHHhccCCcHHHHHHHHHHHH
Confidence                1122334555566666666666666666665554

Rpm2 is a protein subunit of the yeast mitochondrial RNase P. It has the ability to act as a transcriptional activator in the nucleus, where it plays a role in defining the steady-state levels of mRNAs for some nucleus-encoded mitochondrial components. Rpm2p is also involved in maturation of Rpm1 and in translation of mitochondrial mRNAs [, , ].

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.53  E-value=0.0015  Score=52.51  Aligned_cols=76  Identities=20%  Similarity=0.349  Sum_probs=40.9

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHcC--------CHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 005729          306 VITALSNSGRTIEAEAVFEELKESGL-KPRTKAYNALLKGYVKMG--------YLKDAEFVVSEMERSGVLPDEHTYSLL  376 (680)
Q Consensus       306 li~~~~~~g~~~~A~~l~~~m~~~g~-~p~~~~~~~li~~~~~~g--------~~~~A~~~~~~m~~~g~~~~~~~~~~l  376 (680)
                      .|..+...+++.....+|+.+++.|+ .|+..+|+.++.+.++..        ++-+.+.+|+.|...+++|+..+|+.+
T Consensus        31 ~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYniv  110 (120)
T PF08579_consen   31 NINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNIV  110 (120)
T ss_pred             HHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHHH
Confidence            34444445666666666666666666 566666666665555432        122344555555555555555555555


Q ss_pred             HHHHH
Q 005729          377 IDAYA  381 (680)
Q Consensus       377 i~~~~  381 (680)
                      +..+.
T Consensus       111 l~~Ll  115 (120)
T PF08579_consen  111 LGSLL  115 (120)
T ss_pred             HHHHH
Confidence            55443

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 [, , ].

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.50  E-value=0.0019  Score=66.38  Aligned_cols=123  Identities=16%  Similarity=0.180  Sum_probs=68.0

Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC--CCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHH
Q 005729          401 AKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSS--GVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITW  478 (680)
Q Consensus       401 ~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~--~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~  478 (680)
                      .+.+...+..++..+....+.+.+..++.+.+..  ....-..|..++++.|.+.|..+.+..++..=...|+-||..++
T Consensus        62 ~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~  141 (429)
T PF10037_consen   62 KPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSF  141 (429)
T ss_pred             CCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhH
Confidence            3445555555555555555566666655555543  11112233346666666666666666666655556666666666


Q ss_pred             HHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 005729          479 NTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQ  523 (680)
Q Consensus       479 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~  523 (680)
                      |.||+.+.+.|++..|.++...|...+...+..|+..-+.+|.+.
T Consensus       142 n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  142 NLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            666666666666666666666655555455555555444444443

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 [].

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.48  E-value=0.00013  Score=44.69  Aligned_cols=30  Identities=33%  Similarity=0.503  Sum_probs=21.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 005729          593 ALNSLINAFGEDQRDAEAFAVLQYMKENGL  622 (680)
Q Consensus       593 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  622 (680)
                      +|+.++++|++.|++++|.++|++|.+.|+
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            577777777777777777777777776653

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.

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.44  E-value=0.0022  Score=65.91  Aligned_cols=125  Identities=14%  Similarity=0.129  Sum_probs=106.2

Q ss_pred             CCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH
Q 005729          364 SGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSH--AKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTH  441 (680)
Q Consensus       364 ~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~--~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~  441 (680)
                      .+.+.+......+++.+....+++++..++.+.+...  ...-..|..++++.|.+.|..+.++.+++.=...|+-||..
T Consensus        60 ~~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~  139 (429)
T PF10037_consen   60 RKKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNF  139 (429)
T ss_pred             cCCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChh
Confidence            3445577788888888888889999999999988652  22334456799999999999999999999999999999999


Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc
Q 005729          442 FYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKC  488 (680)
Q Consensus       442 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~  488 (680)
                      ++|.||+.+.+.|++..|.++...|...+...+..|+...+.+|.+.
T Consensus       140 s~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  140 SFNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             hHHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            99999999999999999999999998877667778887777777766

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 [].

>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=97.39  E-value=0.0035  Score=49.79  Aligned_cols=89  Identities=15%  Similarity=0.174  Sum_probs=39.4

Q ss_pred             HHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH
Q 005729          447 IDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERW  526 (680)
Q Consensus       447 i~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~  526 (680)
                      ...+...|++++|...+..+.+.. +.+...+..+...+...|++++|.++|+...... +.+..++..+...+...|++
T Consensus         7 a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~   84 (100)
T cd00189           7 GNLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYKLGKY   84 (100)
T ss_pred             HHHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHHHHhH
Confidence            333444444444444444444332 1122334444444444455555555555444432 22233444444444455555


Q ss_pred             HHHHHHHHHHH
Q 005729          527 EDVKRLLGNMR  537 (680)
Q Consensus       527 ~~A~~~~~~m~  537 (680)
                      ++|...+....
T Consensus        85 ~~a~~~~~~~~   95 (100)
T cd00189          85 EEALEAYEKAL   95 (100)
T ss_pred             HHHHHHHHHHH
Confidence            55555544443

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.35  E-value=0.0089  Score=50.32  Aligned_cols=22  Identities=23%  Similarity=0.350  Sum_probs=9.4

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHH
Q 005729          376 LIDAYANAGRWESARIVLKEME  397 (680)
Q Consensus       376 li~~~~~~g~~~~A~~~~~~m~  397 (680)
                      +...+.+.|++++|...|+.+.
T Consensus        45 l~~~~~~~~~~~~A~~~~~~~~   66 (119)
T TIGR02795        45 LGEAYYAQGKYADAAKAFLAVV   66 (119)
T ss_pred             HHHHHHhhccHHHHHHHHHHHH
Confidence            3444444444444444444443

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.

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=97.34  E-value=0.0044  Score=56.40  Aligned_cols=50  Identities=22%  Similarity=0.357  Sum_probs=31.9

Q ss_pred             CCHHHHHHHHHHHHh-----cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Q 005729          298 PKTATYAAVITALSN-----SGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVK  347 (680)
Q Consensus       298 p~~~~~~~li~~~~~-----~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~  347 (680)
                      .+..+|..+++.|.+     .|..+-....+..|.+-|+.-|..+|+.|++.+=+
T Consensus        45 k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPK   99 (228)
T PF06239_consen   45 KDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPK   99 (228)
T ss_pred             ccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCC
Confidence            455566666665554     35566666667777777777777777777766543

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=97.33  E-value=0.0061  Score=55.50  Aligned_cols=95  Identities=19%  Similarity=0.368  Sum_probs=62.7

Q ss_pred             CCCHHHHHHHHHHHHh-----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHh-------hhHHH
Q 005729          507 FPCTTTYNIMINLLGE-----QERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLE-------GLSDQ  574 (680)
Q Consensus       507 ~p~~~t~~~li~~~~~-----~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~-------~~~~~  574 (680)
                      ..+..+|..+++.+.+     .|.++-....+..|.+.|+.-|..+|+.|++.+=+ |.+- -..+|+       ...+-
T Consensus        44 ~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPK-g~fv-p~n~fQ~~F~hyp~Qq~c  121 (228)
T PF06239_consen   44 AKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPK-GKFV-PRNFFQAEFMHYPRQQEC  121 (228)
T ss_pred             cccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCC-CCcc-cccHHHHHhccCcHHHHH
Confidence            3456677777776653     46777788888888888888888888888888765 4332 111121       33345


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 005729          575 AVNAFRVMRTDGLKPSNLALNSLINAFGE  603 (680)
Q Consensus       575 a~~~~~~m~~~g~~p~~~~~~~li~~~~~  603 (680)
                      |++++++|...|+-||..++..+++.+++
T Consensus       122 ~i~lL~qME~~gV~Pd~Et~~~ll~iFG~  150 (228)
T PF06239_consen  122 AIDLLEQMENNGVMPDKETEQMLLNIFGR  150 (228)
T ss_pred             HHHHHHHHHHcCCCCcHHHHHHHHHHhcc
Confidence            66666677777777777777777666633

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>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=97.31  E-value=0.0045  Score=49.16  Aligned_cols=91  Identities=15%  Similarity=0.280  Sum_probs=46.4

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC
Q 005729          411 ILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGR  490 (680)
Q Consensus       411 ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~  490 (680)
                      +...+...|++++|...+++..+.. +.+...+..+...+...+++++|.+.++...+.. +.+...+..+...+...|+
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~   83 (100)
T cd00189           6 LGNLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELD-PDNAKAYYNLGLAYYKLGK   83 (100)
T ss_pred             HHHHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CcchhHHHHHHHHHHHHHh
Confidence            3444444555555555555544432 2223444445555555555555555555555443 2233455555556666666


Q ss_pred             hhHHHHHHHHHHH
Q 005729          491 YDRAEELFEEMQE  503 (680)
Q Consensus       491 ~~~A~~~~~~m~~  503 (680)
                      +++|...+....+
T Consensus        84 ~~~a~~~~~~~~~   96 (100)
T cd00189          84 YEEALEAYEKALE   96 (100)
T ss_pred             HHHHHHHHHHHHc
Confidence            6666666655543

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.28  E-value=0.35  Score=51.44  Aligned_cols=186  Identities=15%  Similarity=0.153  Sum_probs=88.3

Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC----CHHHHHHHHHHHHHcCCHHHH
Q 005729          279 GDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKP----RTKAYNALLKGYVKMGYLKDA  354 (680)
Q Consensus       279 g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p----~~~~~~~li~~~~~~g~~~~A  354 (680)
                      |++++|.++|-.|-.++         ..|..+.+.|++-...++++.   .|-..    -...|+.+...+.....+++|
T Consensus       748 g~feeaek~yld~drrD---------LAielr~klgDwfrV~qL~r~---g~~d~dD~~~e~A~r~ig~~fa~~~~We~A  815 (1189)
T KOG2041|consen  748 GEFEEAEKLYLDADRRD---------LAIELRKKLGDWFRVYQLIRN---GGSDDDDEGKEDAFRNIGETFAEMMEWEEA  815 (1189)
T ss_pred             cchhHhhhhhhccchhh---------hhHHHHHhhhhHHHHHHHHHc---cCCCcchHHHHHHHHHHHHHHHHHHHHHHH
Confidence            66777777665554322         234455556666544444432   11111    123456666666666666666


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 005729          355 EFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSS  434 (680)
Q Consensus       355 ~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~  434 (680)
                      .+.+..-..      .   ...+.+|.+..++++-+.+...+     +.+....-.+..++...|.-++|.+.|-+.-  
T Consensus       816 ~~yY~~~~~------~---e~~~ecly~le~f~~LE~la~~L-----pe~s~llp~~a~mf~svGMC~qAV~a~Lr~s--  879 (1189)
T KOG2041|consen  816 AKYYSYCGD------T---ENQIECLYRLELFGELEVLARTL-----PEDSELLPVMADMFTSVGMCDQAVEAYLRRS--  879 (1189)
T ss_pred             HHHHHhccc------h---HhHHHHHHHHHhhhhHHHHHHhc-----CcccchHHHHHHHHHhhchHHHHHHHHHhcc--
Confidence            665544321      1   12344444444444444333332     2344445555566666666666655543321  


Q ss_pred             CCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHH--------------HHHHHHHHHcCChhHHHHHHHH
Q 005729          435 GVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITW--------------NTLIDCHFKCGRYDRAEELFEE  500 (680)
Q Consensus       435 ~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~--------------~~li~~~~~~g~~~~A~~~~~~  500 (680)
                        .|.     ..+..|...++|.+|.++-++..    -|.+.+.              -.-|..+.+.|++-.|.+++.+
T Consensus       880 --~pk-----aAv~tCv~LnQW~~avelaq~~~----l~qv~tliak~aaqll~~~~~~eaIe~~Rka~~~~daarll~q  948 (1189)
T KOG2041|consen  880 --LPK-----AAVHTCVELNQWGEAVELAQRFQ----LPQVQTLIAKQAAQLLADANHMEAIEKDRKAGRHLDAARLLSQ  948 (1189)
T ss_pred             --CcH-----HHHHHHHHHHHHHHHHHHHHhcc----chhHHHHHHHHHHHHHhhcchHHHHHHhhhcccchhHHHHHHH
Confidence              121     23344555555555555444322    1222111              1124445566666666666666


Q ss_pred             HHH
Q 005729          501 MQE  503 (680)
Q Consensus       501 m~~  503 (680)
                      |.+
T Consensus       949 mae  951 (1189)
T KOG2041|consen  949 MAE  951 (1189)
T ss_pred             HhH
Confidence            653

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=97.27  E-value=0.011  Score=49.68  Aligned_cols=27  Identities=15%  Similarity=0.139  Sum_probs=11.8

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHHHC
Q 005729          478 WNTLIDCHFKCGRYDRAEELFEEMQER  504 (680)
Q Consensus       478 ~~~li~~~~~~g~~~~A~~~~~~m~~~  504 (680)
                      +..+..++.+.|+.++|...++++.+.
T Consensus        79 ~~~~~~~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        79 LLKLGMSLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHHHHHHHhCChHHHHHHHHHHHHH
Confidence            333344444444444444444444443

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.

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.26  E-value=0.073  Score=52.80  Aligned_cols=27  Identities=22%  Similarity=0.220  Sum_probs=20.0

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 005729          195 TYNALISACARNDDLEKALNLMSKMRQ  221 (680)
Q Consensus       195 ~~~~li~~~~~~g~~~~A~~~~~~m~~  221 (680)
                      .|......|-..|++++|.+.|.+...
T Consensus        37 ~y~~Aa~~fk~~~~~~~A~~ay~kAa~   63 (282)
T PF14938_consen   37 LYEKAANCFKLAKDWEKAAEAYEKAAD   63 (282)
T ss_dssp             HHHHHHHHHHHTT-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccchhHHHHHHHHH
Confidence            577777778888888888888877654

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.22  E-value=0.0089  Score=59.07  Aligned_cols=130  Identities=15%  Similarity=0.154  Sum_probs=77.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH-HccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 005729          407 IYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTF-GKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCH  485 (680)
Q Consensus       407 ~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~-~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~  485 (680)
                      +|..++....+.+..+.|..+|.+.++.+ ..+..+|......- ...++.+.|.++|+...+. +..+...|...++.+
T Consensus         3 v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~l   80 (280)
T PF05843_consen    3 VWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDFL   80 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHH
Confidence            55666666666666777777777766433 22334444444442 2245555577777776654 244666677777777


Q ss_pred             HHcCChhHHHHHHHHHHHCCCCCC---HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 005729          486 FKCGRYDRAEELFEEMQERGYFPC---TTTYNIMINLLGEQERWEDVKRLLGNMRAQ  539 (680)
Q Consensus       486 ~~~g~~~~A~~~~~~m~~~~~~p~---~~t~~~li~~~~~~g~~~~A~~~~~~m~~~  539 (680)
                      .+.|+.+.|..+|++.... +.++   ...|...++-=.+.|+.+.+.++.+++.+.
T Consensus        81 ~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~  136 (280)
T PF05843_consen   81 IKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL  136 (280)
T ss_dssp             HHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH
T ss_pred             HHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            7777777777777777655 2222   236777777767777777777777777663

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.

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.20  E-value=0.0053  Score=58.50  Aligned_cols=80  Identities=20%  Similarity=0.201  Sum_probs=38.1

Q ss_pred             HHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCChHH
Q 005729          485 HFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLP-NVVTYTTLVDIYGQSGRFDD  563 (680)
Q Consensus       485 ~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~  563 (680)
                      +.+.+++.+|+..|.+.++.. +-|.+-|..-..+|.+.|.++.|.+-.+..+..  .| ....|..|..+|...|++++
T Consensus        91 ~m~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~i--Dp~yskay~RLG~A~~~~gk~~~  167 (304)
T KOG0553|consen   91 LMKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALSI--DPHYSKAYGRLGLAYLALGKYEE  167 (304)
T ss_pred             HHHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHhc--ChHHHHHHHHHHHHHHccCcHHH
Confidence            334455555555555555443 334444444445555555555555544444442  22 23345555555555555554


Q ss_pred             HHHH
Q 005729          564 AIEC  567 (680)
Q Consensus       564 A~~~  567 (680)
                      |++.
T Consensus       168 A~~a  171 (304)
T KOG0553|consen  168 AIEA  171 (304)
T ss_pred             HHHH
Confidence            4444

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.14  E-value=0.017  Score=52.35  Aligned_cols=105  Identities=10%  Similarity=-0.023  Sum_probs=70.4

Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 005729          475 TITWNTLIDCHFKCGRYDRAEELFEEMQERGYFP--CTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLV  552 (680)
Q Consensus       475 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p--~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li  552 (680)
                      ...|..+...+...|++++|...|++.......+  ...+|..+...+...|++++|...+.+..... +.....+..+.
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~-~~~~~~~~~la  113 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERN-PFLPQALNNMA  113 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHH
Confidence            4556777777778888888888888887553222  23467778888888888888888888887652 22345556666


Q ss_pred             HHHH-------hcCChHHHHHHHhhhHHHHHHHHHHHHH
Q 005729          553 DIYG-------QSGRFDDAIECLEGLSDQAVNAFRVMRT  584 (680)
Q Consensus       553 ~~~~-------~~g~~~~A~~~~~~~~~~a~~~~~~m~~  584 (680)
                      ..+.       +.|++++|...++    +|...|++...
T Consensus       114 ~i~~~~~~~~~~~g~~~~A~~~~~----~a~~~~~~a~~  148 (168)
T CHL00033        114 VICHYRGEQAIEQGDSEIAEAWFD----QAAEYWKQAIA  148 (168)
T ss_pred             HHHHHhhHHHHHcccHHHHHHHHH----HHHHHHHHHHH
Confidence            6666       6677777665443    55555665554

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.14  E-value=0.37  Score=48.88  Aligned_cols=372  Identities=14%  Similarity=0.156  Sum_probs=202.1

Q ss_pred             HHcCCHHHHHHHHHHHHhC--CCC------------CCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC----CCCHHH
Q 005729          276 AKAGDASKAMRFLGMAQGV--GLS------------PKTATYAAVITALSNSGRTIEAEAVFEELKESGL----KPRTKA  337 (680)
Q Consensus       276 ~~~g~~~~A~~~~~~~~~~--g~~------------p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~----~p~~~~  337 (680)
                      .+.+.+++|++.+..-...  +-.            +|..-=+..++++...|++.++..+++++...=+    .-+..+
T Consensus        90 Y~~k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~  169 (549)
T PF07079_consen   90 YKQKEYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDM  169 (549)
T ss_pred             HHhhhHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHH
Confidence            4667788888777655433  211            1122224567788888999888888888765433    367888


Q ss_pred             HHHHHHHHHHcCC---------------HHHHHHHHHHHHHC------CCCCCHHHHHHHHHHHHHc--CCHHHHHHHHH
Q 005729          338 YNALLKGYVKMGY---------------LKDAEFVVSEMERS------GVLPDEHTYSLLIDAYANA--GRWESARIVLK  394 (680)
Q Consensus       338 ~~~li~~~~~~g~---------------~~~A~~~~~~m~~~------g~~~~~~~~~~li~~~~~~--g~~~~A~~~~~  394 (680)
                      ||.++-++.++=-               ++.+.-..++|...      .+.|.......++....-.  .+..--.++++
T Consensus       170 yd~~vlmlsrSYfLEl~e~~s~dl~pdyYemilfY~kki~~~d~~~Y~k~~peeeL~s~imqhlfi~p~e~l~~~mq~l~  249 (549)
T PF07079_consen  170 YDRAVLMLSRSYFLELKESMSSDLYPDYYEMILFYLKKIHAFDQRPYEKFIPEEELFSTIMQHLFIVPKERLPPLMQILE  249 (549)
T ss_pred             HHHHHHHHhHHHHHHHHHhcccccChHHHHHHHHHHHHHHHHhhchHHhhCcHHHHHHHHHHHHHhCCHhhccHHHHHHH
Confidence            8886666654311               12222222222211      1223333333333322211  22223344444


Q ss_pred             HHHHCCCCCCHHH-HHHHHHHHHhcCCHHHHHHHHHHHHHCCC----CCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHC
Q 005729          395 EMEVSHAKPNSFI-YSRILAGYRDRGEWQRTFQVLKEMKSSGV----EPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSE  469 (680)
Q Consensus       395 ~m~~~~~~~~~~~-~~~ll~~~~~~g~~~~A~~l~~~m~~~~~----~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  469 (680)
                      .....-+.|+... ...+...+.+  +.+++..+.+.+....+    ..-..++..++....+.++...|.+.+..+.-.
T Consensus       250 ~We~~yv~p~~~LVi~~L~~~f~~--~~e~~~~~ce~ia~~~i~~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~l  327 (549)
T PF07079_consen  250 NWENFYVHPNYDLVIEPLKQQFMS--DPEQVGHFCEAIASSKIEKLKEELIDRFGNLLSFKVKQVQTEEAKQYLALLKIL  327 (549)
T ss_pred             HHHhhccCCchhHHHHHHHHHHhc--ChHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhc
Confidence            4444445555432 2333333333  44555555444433211    112456777788888888888888888877654


Q ss_pred             CCCCCHHHH-------HHHHHHHHH----cCChhHHHHHHHHHHHCCCCCCHHHHHHHHH---HHHhcCC-HHHHHHHHH
Q 005729          470 GIEPDTITW-------NTLIDCHFK----CGRYDRAEELFEEMQERGYFPCTTTYNIMIN---LLGEQER-WEDVKRLLG  534 (680)
Q Consensus       470 ~~~~~~~~~-------~~li~~~~~----~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~---~~~~~g~-~~~A~~~~~  534 (680)
                      .  |+...-       ..+-+..|.    .-+..+-+.+|+.....++.- ......++.   -+-+.|. -++|..+++
T Consensus       328 d--p~~svs~Kllls~~~lq~Iv~~DD~~~Tklr~yL~lwe~~qs~DiDr-qQLvh~L~~~Ak~lW~~g~~dekalnLLk  404 (549)
T PF07079_consen  328 D--PRISVSEKLLLSPKVLQDIVCEDDESYTKLRDYLNLWEEIQSYDIDR-QQLVHYLVFGAKHLWEIGQCDEKALNLLK  404 (549)
T ss_pred             C--CcchhhhhhhcCHHHHHHHHhcchHHHHHHHHHHHHHHHHHhhcccH-HHHHHHHHHHHHHHHhcCCccHHHHHHHH
Confidence            2  333211       122222321    112334455566665554221 222233333   2344555 788999998


Q ss_pred             HHHHCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHH----HHHHHHHH--HHhcCCH
Q 005729          535 NMRAQGLLP-NVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNL----ALNSLINA--FGEDQRD  607 (680)
Q Consensus       535 ~m~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~----~~~~li~~--~~~~g~~  607 (680)
                      .+.+  +.+ |..+-+.+. -+.|. .+..|+..  ....+-+.+-+-+.+.|+.|-.+    .-|.|.++  +..+|++
T Consensus       405 ~il~--ft~yD~ec~n~v~-~fvKq-~Y~qaLs~--~~~~rLlkLe~fi~e~gl~~i~i~e~eian~LaDAEyLysqgey  478 (549)
T PF07079_consen  405 LILQ--FTNYDIECENIVF-LFVKQ-AYKQALSM--HAIPRLLKLEDFITEVGLTPITISEEEIANFLADAEYLYSQGEY  478 (549)
T ss_pred             HHHH--hccccHHHHHHHH-HHHHH-HHHHHHhh--hhHHHHHHHHHHHHhcCCCcccccHHHHHHHHHHHHHHHhcccH
Confidence            8887  344 333333322 22221 12222221  22223333334445567776543    44555554  4578999


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCcCcHHHHHHHHHHcCCCCCHHHHH
Q 005729          608 AEAFAVLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPDRKARA  665 (680)
Q Consensus       608 ~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd~~~~~  665 (680)
                      .++.-+-.-..+  +.|++.+|..+.-.+....++.+|..++.++     .|+..++.
T Consensus       479 ~kc~~ys~WL~~--iaPS~~~~RLlGl~l~e~k~Y~eA~~~l~~L-----P~n~~~~d  529 (549)
T PF07079_consen  479 HKCYLYSSWLTK--IAPSPQAYRLLGLCLMENKRYQEAWEYLQKL-----PPNERMRD  529 (549)
T ss_pred             HHHHHHHHHHHH--hCCcHHHHHHHHHHHHHHhhHHHHHHHHHhC-----CCchhhHH
Confidence            999987777777  8999999999999999999999999999885     66666655

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.12  E-value=0.017  Score=57.14  Aligned_cols=96  Identities=9%  Similarity=0.110  Sum_probs=45.2

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH-cCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 005729          442 FYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFK-CGRYDRAEELFEEMQERGYFPCTTTYNIMINLL  520 (680)
Q Consensus       442 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~-~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~  520 (680)
                      +|..++...-+.+.++.|+.+|.+..+.+ ..+...|-.....-.+ .++.+.|..+|+...+. ++.+...|...+.-+
T Consensus         3 v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~l   80 (280)
T PF05843_consen    3 VWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDFL   80 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHH
Confidence            45555555555555666666666555332 1122223222222122 33444456666555544 234445555555555


Q ss_pred             HhcCCHHHHHHHHHHHHHC
Q 005729          521 GEQERWEDVKRLLGNMRAQ  539 (680)
Q Consensus       521 ~~~g~~~~A~~~~~~m~~~  539 (680)
                      .+.|+.+.|..+|++.+..
T Consensus        81 ~~~~d~~~aR~lfer~i~~   99 (280)
T PF05843_consen   81 IKLNDINNARALFERAISS   99 (280)
T ss_dssp             HHTT-HHHHHHHHHHHCCT
T ss_pred             HHhCcHHHHHHHHHHHHHh
Confidence            5555555555555555543

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.

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.11  E-value=0.025  Score=49.19  Aligned_cols=89  Identities=11%  Similarity=0.049  Sum_probs=63.1

Q ss_pred             HHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 005729          479 NTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQS  558 (680)
Q Consensus       479 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~  558 (680)
                      -.+..-+...|++++|..+|+-+...+ +-+..-|..|..++-..|++++|...+.......+ -|+..+-.+..++.+.
T Consensus        39 Y~~A~~ly~~G~l~~A~~~f~~L~~~D-p~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~-ddp~~~~~ag~c~L~l  116 (157)
T PRK15363         39 YRYAMQLMEVKEFAGAARLFQLLTIYD-AWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKI-DAPQAPWAAAECYLAC  116 (157)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCchHHHHHHHHHHHc
Confidence            344445567788888888887777665 45566666777777777888888888887777543 3667777777778888


Q ss_pred             CChHHHHHHHh
Q 005729          559 GRFDDAIECLE  569 (680)
Q Consensus       559 g~~~~A~~~~~  569 (680)
                      |+.+.|.+.|+
T Consensus       117 G~~~~A~~aF~  127 (157)
T PRK15363        117 DNVCYAIKALK  127 (157)
T ss_pred             CCHHHHHHHHH
Confidence            88777777665

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.11  E-value=0.033  Score=50.62  Aligned_cols=91  Identities=13%  Similarity=0.092  Sum_probs=64.5

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHH
Q 005729          264 DGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPK--TATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNAL  341 (680)
Q Consensus       264 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~--~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~l  341 (680)
                      ....+..+...|...|++++|...|++..+.+..+.  ...+..+...+.+.|++++|...+++..+.. +-+...+..+
T Consensus        34 ~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l  112 (172)
T PRK02603         34 EAFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELN-PKQPSALNNI  112 (172)
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHH
Confidence            455677777788888999999998888876432222  3567778888888888888888888887753 2345666667


Q ss_pred             HHHHHHcCCHHHHH
Q 005729          342 LKGYVKMGYLKDAE  355 (680)
Q Consensus       342 i~~~~~~g~~~~A~  355 (680)
                      ...+...|+...+.
T Consensus       113 g~~~~~~g~~~~a~  126 (172)
T PRK02603        113 AVIYHKRGEKAEEA  126 (172)
T ss_pred             HHHHHHcCChHhHh
Confidence            77777777654433

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.09  E-value=0.032  Score=50.68  Aligned_cols=90  Identities=12%  Similarity=0.050  Sum_probs=62.1

Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 005729          475 TITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPC--TTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLV  552 (680)
Q Consensus       475 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~--~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li  552 (680)
                      ...+..+...+...|++++|..+|++..+....+.  ...+..+...+.+.|++++|...+.+..+... -+...+..+.
T Consensus        35 a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg  113 (172)
T PRK02603         35 AFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNP-KQPSALNNIA  113 (172)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-ccHHHHHHHH
Confidence            44566677777778888888888888775432221  35677777888888888888888888887532 2456666777


Q ss_pred             HHHHhcCChHHHH
Q 005729          553 DIYGQSGRFDDAI  565 (680)
Q Consensus       553 ~~~~~~g~~~~A~  565 (680)
                      ..|...|+...+.
T Consensus       114 ~~~~~~g~~~~a~  126 (172)
T PRK02603        114 VIYHKRGEKAEEA  126 (172)
T ss_pred             HHHHHcCChHhHh
Confidence            7777777655443

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.08  E-value=0.15  Score=50.87  Aligned_cols=276  Identities=13%  Similarity=0.008  Sum_probs=163.8

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcC
Q 005729          305 AVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAG  384 (680)
Q Consensus       305 ~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g  384 (680)
                      -....+.+..++.+|+..+...++.+. .+..-|..=...+...|+++++.--.+.-.+... -....+.-.-.++...+
T Consensus        54 ~~gn~~yk~k~Y~nal~~yt~Ai~~~p-d~a~yy~nRAa~~m~~~~~~~a~~dar~~~r~kd-~~~k~~~r~~~c~~a~~  131 (486)
T KOG0550|consen   54 EEGNAFYKQKTYGNALKNYTFAIDMCP-DNASYYSNRAATLMMLGRFEEALGDARQSVRLKD-GFSKGQLREGQCHLALS  131 (486)
T ss_pred             hhcchHHHHhhHHHHHHHHHHHHHhCc-cchhhhchhHHHHHHHHhHhhcccchhhheecCC-CccccccchhhhhhhhH
Confidence            456788899999999999999998753 3566677777778888888888766655554321 12334444555666666


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CCCCHHHHHHH-HHHHHccCCHHHHHHH
Q 005729          385 RWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSG-VEPDTHFYNVM-IDTFGKYNCLHHAMAA  462 (680)
Q Consensus       385 ~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~-~~p~~~~~~~l-i~~~~~~g~~~~A~~~  462 (680)
                      +..+|.+.++.-.         .+           ....++..++...... -+|...++..+ ..++.-.|+.+.|.++
T Consensus       132 ~~i~A~~~~~~~~---------~~-----------~~anal~~~~~~~~s~s~~pac~~a~~lka~cl~~~~~~~~a~~e  191 (486)
T KOG0550|consen  132 DLIEAEEKLKSKQ---------AY-----------KAANALPTLEKLAPSHSREPACFKAKLLKAECLAFLGDYDEAQSE  191 (486)
T ss_pred             HHHHHHHHhhhhh---------hh-----------HHhhhhhhhhcccccccCCchhhHHHHhhhhhhhhcccchhHHHH
Confidence            6666666665111         11           1111222222222211 12333344333 2344566777777777


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHH--HHHcCChhHHHHHHHHHHHCCCCCCHHHHHHH-------------HHHHHhcCCHH
Q 005729          463 FDRMLSEGIEPDTITWNTLIDC--HFKCGRYDRAEELFEEMQERGYFPCTTTYNIM-------------INLLGEQERWE  527 (680)
Q Consensus       463 ~~~m~~~~~~~~~~~~~~li~~--~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~l-------------i~~~~~~g~~~  527 (680)
                      -..+++..   ....+...+.+  +.-.++.++|...|++.+..+  |+...-...             .+-..+.|++.
T Consensus       192 a~~ilkld---~~n~~al~vrg~~~yy~~~~~ka~~hf~qal~ld--pdh~~sk~~~~~~k~le~~k~~gN~~fk~G~y~  266 (486)
T KOG0550|consen  192 AIDILKLD---ATNAEALYVRGLCLYYNDNADKAINHFQQALRLD--PDHQKSKSASMMPKKLEVKKERGNDAFKNGNYR  266 (486)
T ss_pred             HHHHHhcc---cchhHHHHhcccccccccchHHHHHHHhhhhccC--hhhhhHHhHhhhHHHHHHHHhhhhhHhhccchh
Confidence            66666542   12223333333  234566777777777776654  443322211             12335688899


Q ss_pred             HHHHHHHHHHHC---CCCCCHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHh
Q 005729          528 DVKRLLGNMRAQ---GLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNL-ALNSLINAFGE  603 (680)
Q Consensus       528 ~A~~~~~~m~~~---~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~-~~~~li~~~~~  603 (680)
                      .|.+.+.+.+..   +.+|+...|.....+..+.|+.++|+.-.+    +|+.         +.+... .|..-..++..
T Consensus       267 ~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~----~Al~---------iD~syikall~ra~c~l~  333 (486)
T KOG0550|consen  267 KAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCN----EALK---------IDSSYIKALLRRANCHLA  333 (486)
T ss_pred             HHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhh----hhhh---------cCHHHHHHHHHHHHHHHH
Confidence            999999988864   445667778888888888999998886533    2221         222211 34444555666


Q ss_pred             cCCHHHHHHHHHHHHHC
Q 005729          604 DQRDAEAFAVLQYMKEN  620 (680)
Q Consensus       604 ~g~~~~A~~~~~~m~~~  620 (680)
                      .++|++|.+.++...+.
T Consensus       334 le~~e~AV~d~~~a~q~  350 (486)
T KOG0550|consen  334 LEKWEEAVEDYEKAMQL  350 (486)
T ss_pred             HHHHHHHHHHHHHHHhh
Confidence            78899999888888764

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.07  E-value=0.035  Score=59.69  Aligned_cols=71  Identities=18%  Similarity=0.082  Sum_probs=40.4

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 005729          544 NVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLK  623 (680)
Q Consensus       544 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~  623 (680)
                      +...|.++.-.....|++++|...++           +...  +.|+...|..+...+...|+.++|.+.+++...  +.
T Consensus       419 ~~~~~~ala~~~~~~g~~~~A~~~l~-----------rAl~--L~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~--L~  483 (517)
T PRK10153        419 LPRIYEILAVQALVKGKTDEAYQAIN-----------KAID--LEMSWLNYVLLGKVYELKGDNRLAADAYSTAFN--LR  483 (517)
T ss_pred             ChHHHHHHHHHHHhcCCHHHHHHHHH-----------HHHH--cCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--cC
Confidence            44555555555555566666655543           2222  335556666666666667777777777666665  44


Q ss_pred             CCHHHH
Q 005729          624 PDVVTY  629 (680)
Q Consensus       624 p~~~~~  629 (680)
                      |...+|
T Consensus       484 P~~pt~  489 (517)
T PRK10153        484 PGENTL  489 (517)
T ss_pred             CCCchH
Confidence            544443

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.07  E-value=0.5  Score=50.34  Aligned_cols=187  Identities=14%  Similarity=0.183  Sum_probs=96.2

Q ss_pred             cCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCCChHHHHHHHHHHHhCCCCcC----HHHHHHHHHHHHHcCCH
Q 005729          206 NDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELD----GQLLNDVIVGFAKAGDA  281 (680)
Q Consensus       206 ~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~~~~~~l~~~~~~~~~~~~----~~~~~~li~~~~~~g~~  281 (680)
                      -|++++|..+|-+|.+.++.         +....+.|++     -++++.+...|-..|    ...|+.+...+.....+
T Consensus       747 ~g~feeaek~yld~drrDLA---------ielr~klgDw-----frV~qL~r~g~~d~dD~~~e~A~r~ig~~fa~~~~W  812 (1189)
T KOG2041|consen  747 YGEFEEAEKLYLDADRRDLA---------IELRKKLGDW-----FRVYQLIRNGGSDDDDEGKEDAFRNIGETFAEMMEW  812 (1189)
T ss_pred             hcchhHhhhhhhccchhhhh---------HHHHHhhhhH-----HHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHH
Confidence            48899999999888776421         2222223322     133333333222222    23566666666666777


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 005729          282 SKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEM  361 (680)
Q Consensus       282 ~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  361 (680)
                      ++|.+.|..-..      .   ...+.++.+..++++-+.+-+.+     +.+....-.+.+++...|.-++|.+.|-+.
T Consensus       813 e~A~~yY~~~~~------~---e~~~ecly~le~f~~LE~la~~L-----pe~s~llp~~a~mf~svGMC~qAV~a~Lr~  878 (1189)
T KOG2041|consen  813 EEAAKYYSYCGD------T---ENQIECLYRLELFGELEVLARTL-----PEDSELLPVMADMFTSVGMCDQAVEAYLRR  878 (1189)
T ss_pred             HHHHHHHHhccc------h---HhHHHHHHHHHhhhhHHHHHHhc-----CcccchHHHHHHHHHhhchHHHHHHHHHhc
Confidence            777776654321      1   12445555555555444443333     334455556666777777777766655332


Q ss_pred             HHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHH--------------HHHHHHHHHhcCCHHHHHHH
Q 005729          362 ERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFI--------------YSRILAGYRDRGEWQRTFQV  427 (680)
Q Consensus       362 ~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~--------------~~~ll~~~~~~g~~~~A~~l  427 (680)
                      .    .|.     ..++.|...++|.+|.++-+...-    |...+              ..-.|..+.+.|.+-.|-++
T Consensus       879 s----~pk-----aAv~tCv~LnQW~~avelaq~~~l----~qv~tliak~aaqll~~~~~~eaIe~~Rka~~~~daarl  945 (1189)
T KOG2041|consen  879 S----LPK-----AAVHTCVELNQWGEAVELAQRFQL----PQVQTLIAKQAAQLLADANHMEAIEKDRKAGRHLDAARL  945 (1189)
T ss_pred             c----CcH-----HHHHHHHHHHHHHHHHHHHHhccc----hhHHHHHHHHHHHHHhhcchHHHHHHhhhcccchhHHHH
Confidence            2    111     233445555666666555443321    11111              11234566777776667777


Q ss_pred             HHHHHH
Q 005729          428 LKEMKS  433 (680)
Q Consensus       428 ~~~m~~  433 (680)
                      +.+|.+
T Consensus       946 l~qmae  951 (1189)
T KOG2041|consen  946 LSQMAE  951 (1189)
T ss_pred             HHHHhH
Confidence            776653

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.05  E-value=0.039  Score=59.28  Aligned_cols=73  Identities=12%  Similarity=0.042  Sum_probs=61.3

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCcCcHHHHHHHHHHcCCCCCHHHHH
Q 005729          589 PSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPDRKARA  665 (680)
Q Consensus       589 p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd~~~~~  665 (680)
                      .+...|..+.-.....|++++|...++++.+  +.|+...|..+...+...|+.++|.+.+++..+.  .|...++-
T Consensus       418 ~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~--L~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L--~P~~pt~~  490 (517)
T PRK10153        418 VLPRIYEILAVQALVKGKTDEAYQAINKAID--LEMSWLNYVLLGKVYELKGDNRLAADAYSTAFNL--RPGENTLY  490 (517)
T ss_pred             CChHHHHHHHHHHHhcCCHHHHHHHHHHHHH--cCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCCchHH
Confidence            3446787777777778999999999999999  5688899999999999999999999999999875  55555543

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.05  E-value=0.018  Score=59.12  Aligned_cols=93  Identities=9%  Similarity=0.030  Sum_probs=72.9

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC
Q 005729          411 ILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGR  490 (680)
Q Consensus       411 ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~  490 (680)
                      ....+...|++++|++.|++..+.. +.+...|..+..+|.+.|++++|...++++++.. +.+...|..+..+|...|+
T Consensus         8 ~a~~a~~~~~~~~Ai~~~~~Al~~~-P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~   85 (356)
T PLN03088          8 KAKEAFVDDDFALAVDLYTQAIDLD-PNNAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEE   85 (356)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCC
Confidence            3456677788888888888887765 5567777888888888888888888888888764 3456678888888888888


Q ss_pred             hhHHHHHHHHHHHCC
Q 005729          491 YDRAEELFEEMQERG  505 (680)
Q Consensus       491 ~~~A~~~~~~m~~~~  505 (680)
                      +++|...|++.++.+
T Consensus        86 ~~eA~~~~~~al~l~  100 (356)
T PLN03088         86 YQTAKAALEKGASLA  100 (356)
T ss_pred             HHHHHHHHHHHHHhC
Confidence            888888888888764

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.04  E-value=0.019  Score=58.95  Aligned_cols=93  Identities=11%  Similarity=-0.030  Sum_probs=81.3

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCC
Q 005729          376 LIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNC  455 (680)
Q Consensus       376 li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~  455 (680)
                      ....+...|++++|++.|++..+... .+...|..+..+|.+.|++++|+..++++.+.. +.+...|..+..+|...|+
T Consensus         8 ~a~~a~~~~~~~~Ai~~~~~Al~~~P-~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~   85 (356)
T PLN03088          8 KAKEAFVDDDFALAVDLYTQAIDLDP-NNAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEE   85 (356)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCC
Confidence            45667788999999999999988753 467788889999999999999999999998875 5577889999999999999


Q ss_pred             HHHHHHHHHHHHHCC
Q 005729          456 LHHAMAAFDRMLSEG  470 (680)
Q Consensus       456 ~~~A~~~~~~m~~~~  470 (680)
                      ++.|...|++..+..
T Consensus        86 ~~eA~~~~~~al~l~  100 (356)
T PLN03088         86 YQTAKAALEKGASLA  100 (356)
T ss_pred             HHHHHHHHHHHHHhC
Confidence            999999999999864

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.00  E-value=0.018  Score=57.13  Aligned_cols=119  Identities=17%  Similarity=0.245  Sum_probs=71.4

Q ss_pred             HHHHHHHHHHhc-CChHHHHHHHhhhHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 005729          547 TYTTLVDIYGQS-GRFDDAIECLEGLSDQAVNAFRVMRTDGLKPS--NLALNSLINAFGEDQRDAEAFAVLQYMKENGLK  623 (680)
Q Consensus       547 ~~~~li~~~~~~-g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~  623 (680)
                      ++..+...|... |++++|++.|+    +|.++|..-   | .+.  ..++..+...+.+.|++++|+++|++....-+.
T Consensus       116 ~~~~lA~~ye~~~~d~e~Ai~~Y~----~A~~~y~~e---~-~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~  187 (282)
T PF14938_consen  116 CLKELAEIYEEQLGDYEKAIEYYQ----KAAELYEQE---G-SPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLE  187 (282)
T ss_dssp             HHHHHHHHHCCTT--HHHHHHHHH----HHHHHHHHT---T--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCC
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHH----HHHHHHHHC---C-ChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhc
Confidence            445556667777 88888888776    454444432   2 111  236778888899999999999999988764222


Q ss_pred             -----CCHH-HHHHHHHHHHhcCCcCcHHHHHHHHHHc--CCCCCH--HHHHHHHHHHHH
Q 005729          624 -----PDVV-TYTTLMKALIRVDKFHKVPAVYEEMILS--GCTPDR--KARAMLRSALRY  673 (680)
Q Consensus       624 -----p~~~-~~~~l~~~~~~~g~~~~A~~~~~~m~~~--g~~pd~--~~~~~l~~a~~~  673 (680)
                           .+.. .|...+-.+...|+...|.+.+++....  ++....  .....|++|++.
T Consensus       188 ~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~~~  247 (282)
T PF14938_consen  188 NNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAYEE  247 (282)
T ss_dssp             HCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHHHT
T ss_pred             ccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHh
Confidence                 1221 2333444567778899999999988754  333332  344555666653

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=96.99  E-value=0.0016  Score=51.13  Aligned_cols=20  Identities=40%  Similarity=0.865  Sum_probs=8.4

Q ss_pred             HHHHHHHcCChhHHHHHHHH
Q 005729          481 LIDCHFKCGRYDRAEELFEE  500 (680)
Q Consensus       481 li~~~~~~g~~~~A~~~~~~  500 (680)
                      +..+|.+.|++++|..+++.
T Consensus        31 la~~~~~~~~y~~A~~~~~~   50 (84)
T PF12895_consen   31 LAQCYFQQGKYEEAIELLQK   50 (84)
T ss_dssp             HHHHHHHTTHHHHHHHHHHC
T ss_pred             HHHHHHHCCCHHHHHHHHHH
Confidence            34444444444444444433

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=96.99  E-value=0.2  Score=48.24  Aligned_cols=58  Identities=12%  Similarity=0.097  Sum_probs=37.3

Q ss_pred             HHHHHHHHcCChhHHHHHHHHHHHC--CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 005729          480 TLIDCHFKCGRYDRAEELFEEMQER--GYFPCTTTYNIMINLLGEQERWEDVKRLLGNMR  537 (680)
Q Consensus       480 ~li~~~~~~g~~~~A~~~~~~m~~~--~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~  537 (680)
                      .+..-|.+.|.+..|..-|+.+++.  +.+........++.+|...|..++|..+...+.
T Consensus       180 ~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        180 SVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             HHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence            3445577777777777777777765  223344556666677777777777776665543

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=96.99  E-value=0.0088  Score=59.09  Aligned_cols=139  Identities=14%  Similarity=-0.032  Sum_probs=88.3

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHH----CCCC-CCHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHC
Q 005729          511 TTYNIMINLLGEQERWEDVKRLLGNMRA----QGLL-PNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTD  585 (680)
Q Consensus       511 ~t~~~li~~~~~~g~~~~A~~~~~~m~~----~~~~-p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~  585 (680)
                      ..|..|.+.|.-.|+++.|....+.-+.    .|-. .....+..|.+++.-.|+++.|.+.|+.-..-|+++=++-.+ 
T Consensus       196 Ra~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vE-  274 (639)
T KOG1130|consen  196 RAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVE-  274 (639)
T ss_pred             chhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHH-
Confidence            3455566666667888888776654332    2222 134567778888888888888888887554444443222221 


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH----CC-CCCCHHHHHHHHHHHHhcCCcCcHHHHHHHHHHc
Q 005729          586 GLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKE----NG-LKPDVVTYTTLMKALIRVDKFHKVPAVYEEMILS  655 (680)
Q Consensus       586 g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~----~g-~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  655 (680)
                           ..+.-+|.+.|.-..+++.|+.++.+-..    .+ ..-....+.+|..+|...|..++|..+.+.-++.
T Consensus       275 -----AQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~~  344 (639)
T KOG1130|consen  275 -----AQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLRS  344 (639)
T ss_pred             -----HHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence                 22444677777777788888887765432    11 1224567788888888888888888877766544

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=96.95  E-value=0.038  Score=48.65  Aligned_cols=75  Identities=33%  Similarity=0.402  Sum_probs=58.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCcCcHHHHHHHHH-----HcCCCCCHHHHHH
Q 005729          593 ALNSLINAFGEDQRDAEAFAVLQYMKENGLKP-DVVTYTTLMKALIRVDKFHKVPAVYEEMI-----LSGCTPDRKARAM  666 (680)
Q Consensus       593 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~-----~~g~~pd~~~~~~  666 (680)
                      +...++..+...|++++|..+.+.+..  +.| |...|..+|.+|.+.|+..+|.+.|+++.     +.|+.|...+...
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~--~dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~~l  141 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALA--LDPYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETRAL  141 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHH--HSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHh--cCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHHHH
Confidence            466777888899999999999999998  445 77899999999999999999999999886     4599999998766


Q ss_pred             HHH
Q 005729          667 LRS  669 (680)
Q Consensus       667 l~~  669 (680)
                      ...
T Consensus       142 ~~~  144 (146)
T PF03704_consen  142 YRE  144 (146)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            544

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=96.94  E-value=0.018  Score=52.10  Aligned_cols=94  Identities=16%  Similarity=0.059  Sum_probs=48.8

Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 005729          441 HFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEP--DTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMIN  518 (680)
Q Consensus       441 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~  518 (680)
                      ..+..+...+...|++++|...|.........+  ...+|..+...|...|++++|+..+++..... +....++..+..
T Consensus        36 ~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~-~~~~~~~~~la~  114 (168)
T CHL00033         36 FTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERN-PFLPQALNNMAV  114 (168)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHHH
Confidence            344444455555566666666666555432111  12355566666666666666666666665542 223344444444


Q ss_pred             HHH-------hcCCHHHHHHHHHH
Q 005729          519 LLG-------EQERWEDVKRLLGN  535 (680)
Q Consensus       519 ~~~-------~~g~~~~A~~~~~~  535 (680)
                      .+.       ..|+++.|...+++
T Consensus       115 i~~~~~~~~~~~g~~~~A~~~~~~  138 (168)
T CHL00033        115 ICHYRGEQAIEQGDSEIAEAWFDQ  138 (168)
T ss_pred             HHHHhhHHHHHcccHHHHHHHHHH
Confidence            444       56666655444443

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=96.93  E-value=0.0021  Score=50.47  Aligned_cols=20  Identities=30%  Similarity=0.561  Sum_probs=9.0

Q ss_pred             HHHHHHHcCCHHHHHHHHHH
Q 005729          376 LIDAYANAGRWESARIVLKE  395 (680)
Q Consensus       376 li~~~~~~g~~~~A~~~~~~  395 (680)
                      +..+|.+.|++++|+.++++
T Consensus        31 la~~~~~~~~y~~A~~~~~~   50 (84)
T PF12895_consen   31 LAQCYFQQGKYEEAIELLQK   50 (84)
T ss_dssp             HHHHHHHTTHHHHHHHHHHC
T ss_pred             HHHHHHHCCCHHHHHHHHHH
Confidence            44444444444444444443

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=96.91  E-value=0.25  Score=43.84  Aligned_cols=135  Identities=13%  Similarity=0.121  Sum_probs=89.5

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCC
Q 005729          507 FPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDG  586 (680)
Q Consensus       507 ~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g  586 (680)
                      .|++..-..|..++.+.|+..+|...|.+...--+.-|......+.++....+++..|...++.+.+        ..-.+
T Consensus        86 ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e--------~~pa~  157 (251)
T COG4700          86 APTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLME--------YNPAF  157 (251)
T ss_pred             chhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhh--------cCCcc
Confidence            5666666677777888888888888888777654455777777788888888877777766542211        00113


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCcCcHHHHHHHHH
Q 005729          587 LKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMI  653 (680)
Q Consensus       587 ~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  653 (680)
                      -.||.  ...+...|...|++.+|...|+....  ..|+...-......+.++|+.+++..-+.++.
T Consensus       158 r~pd~--~Ll~aR~laa~g~~a~Aesafe~a~~--~ypg~~ar~~Y~e~La~qgr~~ea~aq~~~v~  220 (251)
T COG4700         158 RSPDG--HLLFARTLAAQGKYADAESAFEVAIS--YYPGPQARIYYAEMLAKQGRLREANAQYVAVV  220 (251)
T ss_pred             CCCCc--hHHHHHHHHhcCCchhHHHHHHHHHH--hCCCHHHHHHHHHHHHHhcchhHHHHHHHHHH
Confidence            34443  34566777778888888888888887  46666555555566777777777665555444

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=96.89  E-value=0.068  Score=46.55  Aligned_cols=96  Identities=7%  Similarity=-0.082  Sum_probs=62.7

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 005729          442 FYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLG  521 (680)
Q Consensus       442 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~  521 (680)
                      ..-.+...+...|++++|.++|+.+.... +-+..-|-.|..++-..|++++|+..|......+ +-|...+-.+..++.
T Consensus        37 ~lY~~A~~ly~~G~l~~A~~~f~~L~~~D-p~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~-~ddp~~~~~ag~c~L  114 (157)
T PRK15363         37 TLYRYAMQLMEVKEFAGAARLFQLLTIYD-AWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK-IDAPQAPWAAAECYL  114 (157)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHHH
Confidence            33344455566677777777777666554 2345556666666677777777777777776665 456666666777777


Q ss_pred             hcCCHHHHHHHHHHHHHC
Q 005729          522 EQERWEDVKRLLGNMRAQ  539 (680)
Q Consensus       522 ~~g~~~~A~~~~~~m~~~  539 (680)
                      ..|+.+.|.+.|+..+..
T Consensus       115 ~lG~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        115 ACDNVCYAIKALKAVVRI  132 (157)
T ss_pred             HcCCHHHHHHHHHHHHHH
Confidence            777777777777766553

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=96.88  E-value=0.03  Score=55.51  Aligned_cols=135  Identities=16%  Similarity=-0.001  Sum_probs=63.7

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHH----HCCC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH----CCC-CCCHHH
Q 005729          478 WNTLIDCHFKCGRYDRAEELFEEMQ----ERGY-FPCTTTYNIMINLLGEQERWEDVKRLLGNMRA----QGL-LPNVVT  547 (680)
Q Consensus       478 ~~~li~~~~~~g~~~~A~~~~~~m~----~~~~-~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~----~~~-~p~~~~  547 (680)
                      |..|.+.|.-.|+++.|+..-+.-+    +-|- ......+..+.+++.-.|+++.|.+.++....    .|- ......
T Consensus       198 ~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEAQs  277 (639)
T KOG1130|consen  198 YGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEAQS  277 (639)
T ss_pred             hcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHHHH
Confidence            4444444445555555554433211    1110 11123445555555566666666655554322    111 112344


Q ss_pred             HHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 005729          548 YTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMK  618 (680)
Q Consensus       548 ~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~  618 (680)
                      ..+|.+.|.-..++.+|+.++...+.-|.++-+..      -....+.+|..+|...|..+.|+.+.+.-.
T Consensus       278 cYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~Dri------Ge~RacwSLgna~~alg~h~kAl~fae~hl  342 (639)
T KOG1130|consen  278 CYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRI------GELRACWSLGNAFNALGEHRKALYFAELHL  342 (639)
T ss_pred             HHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhh------hhHHHHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence            45566666666666666666553333222221111      122355566666666666666665555443

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=96.75  E-value=0.34  Score=46.64  Aligned_cols=54  Identities=9%  Similarity=0.009  Sum_probs=43.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHC--CCCCCHHHHHHHHHHHHhcCChHHHHHHH
Q 005729          515 IMINLLGEQERWEDVKRLLGNMRAQ--GLLPNVVTYTTLVDIYGQSGRFDDAIECL  568 (680)
Q Consensus       515 ~li~~~~~~g~~~~A~~~~~~m~~~--~~~p~~~~~~~li~~~~~~g~~~~A~~~~  568 (680)
                      .+.+-|.+.|.+..|..-++.+++.  +.+........++.+|.+.|..++|.+..
T Consensus       180 ~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~  235 (243)
T PRK10866        180 SVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVA  235 (243)
T ss_pred             HHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHH
Confidence            4566788999999999999999986  33345667788899999999999987754

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=96.67  E-value=0.022  Score=54.40  Aligned_cols=93  Identities=13%  Similarity=0.128  Sum_probs=44.4

Q ss_pred             ccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 005729          452 KYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKR  531 (680)
Q Consensus       452 ~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~  531 (680)
                      +.+++++|+..|.+.++.. +.|.+.|..-..+|++.|.++.|++=.+..+..+ +-...+|..|..+|...|++++|.+
T Consensus        93 ~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iD-p~yskay~RLG~A~~~~gk~~~A~~  170 (304)
T KOG0553|consen   93 KNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALSID-PHYSKAYGRLGLAYLALGKYEEAIE  170 (304)
T ss_pred             HhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcC-hHHHHHHHHHHHHHHccCcHHHHHH
Confidence            3444555555555544432 2344444444555555555555555544444433 2233445555555555555555555


Q ss_pred             HHHHHHHCCCCCCHHHH
Q 005729          532 LLGNMRAQGLLPNVVTY  548 (680)
Q Consensus       532 ~~~~m~~~~~~p~~~~~  548 (680)
                      .|++.++  +.|+-.+|
T Consensus       171 aykKaLe--ldP~Ne~~  185 (304)
T KOG0553|consen  171 AYKKALE--LDPDNESY  185 (304)
T ss_pred             HHHhhhc--cCCCcHHH
Confidence            5555544  34444433

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=96.66  E-value=0.85  Score=45.73  Aligned_cols=105  Identities=13%  Similarity=0.174  Sum_probs=77.1

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 005729          443 YNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGE  522 (680)
Q Consensus       443 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~  522 (680)
                      .+.-|.-+...|+...|.++-.+..    .|+..-|...+.+|+..++|++-..+...   +   -+++-|..++.+|.+
T Consensus       180 l~~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s---k---KsPIGyepFv~~~~~  249 (319)
T PF04840_consen  180 LNDTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS---K---KSPIGYEPFVEACLK  249 (319)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC---C---CCCCChHHHHHHHHH
Confidence            3444556667788888877766654    57888888889999999998877765432   1   234778888899999


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHH
Q 005729          523 QERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIEC  567 (680)
Q Consensus       523 ~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~  567 (680)
                      .|+..+|..++.++     .     +..-+..|.++|++.+|.+.
T Consensus       250 ~~~~~eA~~yI~k~-----~-----~~~rv~~y~~~~~~~~A~~~  284 (319)
T PF04840_consen  250 YGNKKEASKYIPKI-----P-----DEERVEMYLKCGDYKEAAQE  284 (319)
T ss_pred             CCCHHHHHHHHHhC-----C-----hHHHHHHHHHCCCHHHHHHH
Confidence            99988888887762     1     24567788889998888765

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

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.66  E-value=0.17  Score=53.29  Aligned_cols=53  Identities=23%  Similarity=0.216  Sum_probs=28.0

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHH
Q 005729          442 FYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQE  503 (680)
Q Consensus       442 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  503 (680)
                      +...+...+-+...+.-|-++|..|-.         ...+++.....+++++|..+-+...+
T Consensus       749 ~l~~~a~ylk~l~~~gLAaeIF~k~gD---------~ksiVqlHve~~~W~eAFalAe~hPe  801 (1081)
T KOG1538|consen  749 PLLLCATYLKKLDSPGLAAEIFLKMGD---------LKSLVQLHVETQRWDEAFALAEKHPE  801 (1081)
T ss_pred             HHHHHHHHHhhccccchHHHHHHHhcc---------HHHHhhheeecccchHhHhhhhhCcc
Confidence            333444444445555566666665532         12344555566666666666655443

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.65  E-value=0.21  Score=52.57  Aligned_cols=93  Identities=19%  Similarity=0.280  Sum_probs=50.6

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHH---------HHHHHcCCCCCHHHHHHHHHHHHHcCCHH--HHHHHHHHHHHCCC
Q 005729          298 PKTATYAAVITALSNSGRTIEAEAVF---------EELKESGLKPRTKAYNALLKGYVKMGYLK--DAEFVVSEMERSGV  366 (680)
Q Consensus       298 p~~~~~~~li~~~~~~g~~~~A~~l~---------~~m~~~g~~p~~~~~~~li~~~~~~g~~~--~A~~~~~~m~~~g~  366 (680)
                      +-.+.+.+-+..|...|.+++|.++-         +.+...  ..+.-.++..=++|.+..+..  +...-++++.++|-
T Consensus       554 ~~evp~~~~m~q~Ieag~f~ea~~iaclgVv~~DW~~LA~~--ALeAL~f~~ARkAY~rVRdl~~L~li~EL~~~k~rge  631 (1081)
T KOG1538|consen  554 AVEVPQSAPMYQYIERGLFKEAYQIACLGVTDTDWRELAME--ALEALDFETARKAYIRVRDLRYLELISELEERKKRGE  631 (1081)
T ss_pred             cccccccccchhhhhccchhhhhcccccceecchHHHHHHH--HHhhhhhHHHHHHHHHHhccHHHHHHHHHHHHHhcCC
Confidence            33444555566677777777765542         111111  012223444455566555433  34444566677776


Q ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Q 005729          367 LPDEHTYSLLIDAYANAGRWESARIVLKE  395 (680)
Q Consensus       367 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~  395 (680)
                      .|+...   +...++-.|++.+|-++|.+
T Consensus       632 ~P~~iL---lA~~~Ay~gKF~EAAklFk~  657 (1081)
T KOG1538|consen  632 TPNDLL---LADVFAYQGKFHEAAKLFKR  657 (1081)
T ss_pred             CchHHH---HHHHHHhhhhHHHHHHHHHH
Confidence            676554   44556667788887777765

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=96.65  E-value=0.13  Score=43.10  Aligned_cols=88  Identities=25%  Similarity=0.189  Sum_probs=48.1

Q ss_pred             HHHHHcCCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC----HHHHHHHHHHHH
Q 005729          273 VGFAKAGDASKAMRFLGMAQGVGLSPK--TATYAAVITALSNSGRTIEAEAVFEELKESGLKPR----TKAYNALLKGYV  346 (680)
Q Consensus       273 ~~~~~~g~~~~A~~~~~~~~~~g~~p~--~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~----~~~~~~li~~~~  346 (680)
                      .++-..|+.++|+.+|++....|+...  ...+..+...+...|++++|+.++++.....  |+    ......+..++.
T Consensus         9 ~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~--p~~~~~~~l~~f~Al~L~   86 (120)
T PF12688_consen    9 WAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEF--PDDELNAALRVFLALALY   86 (120)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCccccHHHHHHHHHHHH
Confidence            344556777777777777666665433  2344555566666666666666666665431  22    112222233445


Q ss_pred             HcCCHHHHHHHHHHHH
Q 005729          347 KMGYLKDAEFVVSEME  362 (680)
Q Consensus       347 ~~g~~~~A~~~~~~m~  362 (680)
                      ..|+.++|...+-...
T Consensus        87 ~~gr~~eAl~~~l~~l  102 (120)
T PF12688_consen   87 NLGRPKEALEWLLEAL  102 (120)
T ss_pred             HCCCHHHHHHHHHHHH
Confidence            5566666666554443

>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A

Probab=96.58  E-value=0.0067  Score=45.18  Aligned_cols=63  Identities=13%  Similarity=0.205  Sum_probs=48.3

Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCcCcHHHHHHHHHHcCCCCCHHHHHHH
Q 005729          602 GEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPDRKARAML  667 (680)
Q Consensus       602 ~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd~~~~~~l  667 (680)
                      .+.|++++|+++|+++.+.. +-+...+..+..+|.+.|++++|.++++++...  .|+...+..+
T Consensus         2 l~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~--~~~~~~~~~l   64 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRN-PDNPEARLLLAQCYLKQGQYDEAEELLERLLKQ--DPDNPEYQQL   64 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHT-TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG--GTTHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCHHHHHHH
Confidence            45788999999999988742 337778888999999999999999999998875  6775554444

...

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.51  E-value=0.61  Score=47.25  Aligned_cols=191  Identities=16%  Similarity=0.108  Sum_probs=96.6

Q ss_pred             HHHHHHHHcCChhHHHHHHHHHHHCC---CCCCHHHHHHHHHHHHh---cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 005729          480 TLIDCHFKCGRYDRAEELFEEMQERG---YFPCTTTYNIMINLLGE---QERWEDVKRLLGNMRAQGLLPNVVTYTTLVD  553 (680)
Q Consensus       480 ~li~~~~~~g~~~~A~~~~~~m~~~~---~~p~~~t~~~li~~~~~---~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~  553 (680)
                      .++-+|....+++.-+++++.|....   +.-....-....-++.+   .|+.++|.+++..+....-.+++.+|..+..
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            34445666666666666666665431   11111111222334444   6667777777766554444556666666665


Q ss_pred             HHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHH---HHHHHHHHHHhcC-CHHHHHHHH----HHHHHCCCC--
Q 005729          554 IYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNL---ALNSLINAFGEDQ-RDAEAFAVL----QYMKENGLK--  623 (680)
Q Consensus       554 ~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~---~~~~li~~~~~~g-~~~~A~~~~----~~m~~~g~~--  623 (680)
                      .|-..  +.++...=....++|...|.+--+  +.|+..   -+.+|+....... .-.+..++-    ....+.|..  
T Consensus       226 IyKD~--~~~s~~~d~~~ldkAi~~Y~kgFe--~~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~~  301 (374)
T PF13281_consen  226 IYKDL--FLESNFTDRESLDKAIEWYRKGFE--IEPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLEK  301 (374)
T ss_pred             HHHHH--HHHcCccchHHHHHHHHHHHHHHc--CCccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhccccc
Confidence            55322  111000000124455555555444  334443   2233333332211 111222222    122233322  


Q ss_pred             -CCHHHHHHHHHHHHhcCCcCcHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHh
Q 005729          624 -PDVVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPDRKARAMLRSALRYMKQ  676 (680)
Q Consensus       624 -p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd~~~~~~l~~a~~~~k~  676 (680)
                       .|..-+.+++.+..-.|++++|.+.+++|.+.  .|.........+-++.+++
T Consensus       302 ~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l--~~~~W~l~St~~ni~Li~~  353 (374)
T PF13281_consen  302 MQDYWDVATLLEASVLAGDYEKAIQAAEKAFKL--KPPAWELESTLENIKLIRH  353 (374)
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc--CCcchhHHHHHHHHHHHHH
Confidence             34455667888999999999999999999976  4555555555555555544

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.51  E-value=1.7  Score=47.19  Aligned_cols=334  Identities=13%  Similarity=0.072  Sum_probs=183.0

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCC-ChHHHHHHHHHHHhCCCCcCHHHHHHHHHHH
Q 005729          197 NALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRTNKI-DSSLLQKLYKEIECDKIELDGQLLNDVIVGF  275 (680)
Q Consensus       197 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~-~~~~~~~l~~~~~~~~~~~~~~~~~~li~~~  275 (680)
                      ..+|.-++..+.+..|+++-..|...-.. ....|.....-..+..+. +...++.+-+++.. . .....+|..+..-.
T Consensus       441 ~~vi~Rl~~r~~Y~vaIQva~~l~~p~~~-~~~Vl~~Wa~~kI~~~d~~d~~vld~I~~kls~-~-~~~~iSy~~iA~~A  517 (829)
T KOG2280|consen  441 EVVIDRLVDRHLYSVAIQVAKLLNLPESQ-GDRVLLEWARRKIKQSDKMDEEVLDKIDEKLSA-K-LTPGISYAAIARRA  517 (829)
T ss_pred             hhhhHHHHhcchhHHHHHHHHHhCCcccc-ccHHHHHHHHHHHhccCccchHHHHHHHHHhcc-c-CCCceeHHHHHHHH
Confidence            34688888999999999998887643111 144555555555554333 33333333333322 1 24556778888888


Q ss_pred             HHcCCHHHHHHHHHHHHhCCCC----CCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCH
Q 005729          276 AKAGDASKAMRFLGMAQGVGLS----PKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYL  351 (680)
Q Consensus       276 ~~~g~~~~A~~~~~~~~~~g~~----p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~  351 (680)
                      ..+|+.+-|..+++.=...+.+    .+..-+...+.-+.+.|+.+-...++-.|...   .+...|...+      .+.
T Consensus       518 y~~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kaies~d~~Li~~Vllhlk~~---~~~s~l~~~l------~~~  588 (829)
T KOG2280|consen  518 YQEGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAIESGDTDLIIQVLLHLKNK---LNRSSLFMTL------RNQ  588 (829)
T ss_pred             HhcCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHHhcCCchhHHHHHHHHHHH---HHHHHHHHHH------Hhc
Confidence            8899999999988753322211    11122344455556666666666666555542   1222222111      233


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH-H-HH-CCCCCCHHHHHHHHHHHHhcCCH-------
Q 005729          352 KDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKE-M-EV-SHAKPNSFIYSRILAGYRDRGEW-------  421 (680)
Q Consensus       352 ~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~-m-~~-~~~~~~~~~~~~ll~~~~~~g~~-------  421 (680)
                      -.|..+|.+..+..   |..+   +-+.|- .++-.++...|.. - .. .-+.+-..........+.+....       
T Consensus       589 p~a~~lY~~~~r~~---~~~~---l~d~y~-q~dn~~~~a~~~~q~~~~~~~~~~r~~~lk~~a~~~a~sk~~s~e~ka~  661 (829)
T KOG2280|consen  589 PLALSLYRQFMRHQ---DRAT---LYDFYN-QDDNHQALASFHLQASYAAETIEGRIPALKTAANAFAKSKEKSFEAKAL  661 (829)
T ss_pred             hhhhHHHHHHHHhh---chhh---hhhhhh-cccchhhhhhhhhhhhhhhhhhcccchhHHHHHHHHhhhhhhhhHHHHH
Confidence            44555555554421   1111   112222 2222222221110 0 00 00111111222233334333321       


Q ss_pred             ---HHHHHHHHHHHH-CCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHH
Q 005729          422 ---QRTFQVLKEMKS-SGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEEL  497 (680)
Q Consensus       422 ---~~A~~l~~~m~~-~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  497 (680)
                         .+-+++.+.+.. .|..-...+.+--+.-+...|+..+|.++-.+..    -||-..|-.-+.+++..+++++-+++
T Consensus       662 ed~~kLl~lQ~~Le~q~~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kweeLekf  737 (829)
T KOG2280|consen  662 EDQMKLLKLQRTLEDQFGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEELEKF  737 (829)
T ss_pred             HHHHHHHHHHHHHHHHhccccccCcHHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHHHHHH
Confidence               111222222221 2222233334444555667788888888877765    57888888889999999999887776


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHH
Q 005729          498 FEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECL  568 (680)
Q Consensus       498 ~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~  568 (680)
                      -+.+.      .+.-|.-++.+|.+.|+.++|.+++.+....     .    -.+.+|.+.|++.+|.+.-
T Consensus       738 Akskk------sPIGy~PFVe~c~~~~n~~EA~KYiprv~~l-----~----ekv~ay~~~~~~~eAad~A  793 (829)
T KOG2280|consen  738 AKSKK------SPIGYLPFVEACLKQGNKDEAKKYIPRVGGL-----Q----EKVKAYLRVGDVKEAADLA  793 (829)
T ss_pred             HhccC------CCCCchhHHHHHHhcccHHHHhhhhhccCCh-----H----HHHHHHHHhccHHHHHHHH
Confidence            65543      1455777889999999999999988876431     1    5678899999999998864

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.50  E-value=0.39  Score=45.04  Aligned_cols=131  Identities=11%  Similarity=0.039  Sum_probs=67.6

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHH-----HHH
Q 005729          303 YAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYS-----LLI  377 (680)
Q Consensus       303 ~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~-----~li  377 (680)
                      .+.++.++.-.|.+.-...++.+.++...+.+......|++.-.+.|+.+.|...|++.++..-..|..+.+     ...
T Consensus       180 my~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a  259 (366)
T KOG2796|consen  180 MYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSA  259 (366)
T ss_pred             HHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhh
Confidence            444555555556666666666666665545555566666666666666666666666555432222222222     222


Q ss_pred             HHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 005729          378 DAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSS  434 (680)
Q Consensus       378 ~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~  434 (680)
                      ..|.-.+++..|...++++...+ +.+....|.-.-+..-.|+...|++.++.|++.
T Consensus       260 ~i~lg~nn~a~a~r~~~~i~~~D-~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~  315 (366)
T KOG2796|consen  260 FLHLGQNNFAEAHRFFTEILRMD-PRNAVANNNKALCLLYLGKLKDALKQLEAMVQQ  315 (366)
T ss_pred             hheecccchHHHHHHHhhccccC-CCchhhhchHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            33444555555555555555443 223333333333334445555555555555544

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=96.47  E-value=1.1  Score=44.88  Aligned_cols=109  Identities=16%  Similarity=0.242  Sum_probs=73.0

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 005729          372 TYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFG  451 (680)
Q Consensus       372 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~  451 (680)
                      +.+.-+.-+...|+...|.++-.+..    .|+...|...+.+++..++|++-.++-..      .-.+.-|.-.+..|.
T Consensus       179 Sl~~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~  248 (319)
T PF04840_consen  179 SLNDTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACL  248 (319)
T ss_pred             CHHHHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHH
Confidence            33444556667777777777766553    46777788888888888888776665432      123356777778888


Q ss_pred             ccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHH
Q 005729          452 KYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEE  500 (680)
Q Consensus       452 ~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  500 (680)
                      +.|...+|..+..++          .+..-+..|.++|++.+|.+.--+
T Consensus       249 ~~~~~~eA~~yI~k~----------~~~~rv~~y~~~~~~~~A~~~A~~  287 (319)
T PF04840_consen  249 KYGNKKEASKYIPKI----------PDEERVEMYLKCGDYKEAAQEAFK  287 (319)
T ss_pred             HCCCHHHHHHHHHhC----------ChHHHHHHHHHCCCHHHHHHHHHH
Confidence            888888887777662          124556777888888888766443

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

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=96.45  E-value=0.0093  Score=43.94  Aligned_cols=61  Identities=20%  Similarity=0.259  Sum_probs=49.7

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCcCcHHHHHHHHHHcCCCCC
Q 005729          597 LINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPD  660 (680)
Q Consensus       597 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd  660 (680)
                      +...+.+.|++++|+..|++.++.. +-+...+..+..++.+.|++++|..+++++++.  .|+
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~--~P~   63 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQD-PDNPEAWYLLGRILYQQGRYDEALAYYERALEL--DPD   63 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCS-TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH--STT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcC
Confidence            4567888999999999999999853 226678889999999999999999999999874  554

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=96.43  E-value=0.19  Score=42.02  Aligned_cols=87  Identities=20%  Similarity=0.131  Sum_probs=52.7

Q ss_pred             HHHHHHcCChhHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC--CCHHHHHHHHHHHHh
Q 005729          482 IDCHFKCGRYDRAEELFEEMQERGYFPC--TTTYNIMINLLGEQERWEDVKRLLGNMRAQGLL--PNVVTYTTLVDIYGQ  557 (680)
Q Consensus       482 i~~~~~~g~~~~A~~~~~~m~~~~~~p~--~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~--p~~~~~~~li~~~~~  557 (680)
                      ..++-..|+.++|+.+|++..+.|....  ...+..+...+...|++++|..++++.......  -+......+..++..
T Consensus         8 A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L~~   87 (120)
T PF12688_consen    8 AWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALALYN   87 (120)
T ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHH
Confidence            4455567777777777777777664433  234555666677777777777777777664211  022222333446667


Q ss_pred             cCChHHHHHHH
Q 005729          558 SGRFDDAIECL  568 (680)
Q Consensus       558 ~g~~~~A~~~~  568 (680)
                      .|+.++|++.+
T Consensus        88 ~gr~~eAl~~~   98 (120)
T PF12688_consen   88 LGRPKEALEWL   98 (120)
T ss_pred             CCCHHHHHHHH
Confidence            77777776654

>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=96.42  E-value=0.011  Score=44.25  Aligned_cols=64  Identities=16%  Similarity=0.185  Sum_probs=56.2

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcC-CcCcHHHHHHHHHHc
Q 005729          590 SNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKP-DVVTYTTLMKALIRVD-KFHKVPAVYEEMILS  655 (680)
Q Consensus       590 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~l~~~~~~~g-~~~~A~~~~~~m~~~  655 (680)
                      +..+|..+...+...|++++|+..|++.++.  .| +...|..+..++.+.| ++++|.+.+++.++.
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~--~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l   67 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIEL--DPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKL   67 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHH--STTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHc
Confidence            3467889999999999999999999999984  45 5678889999999999 799999999998864

...

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=96.40  E-value=0.35  Score=40.30  Aligned_cols=147  Identities=14%  Similarity=0.201  Sum_probs=86.4

Q ss_pred             HcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHH
Q 005729          487 KCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIE  566 (680)
Q Consensus       487 ~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~  566 (680)
                      -.|..++..++..+.....   +..-||.+|--....-+-+-..+.++.+-+. +  |          ...+|++.....
T Consensus        14 ldG~V~qGveii~k~v~Ss---ni~E~NWvICNiiDaa~C~yvv~~LdsIGki-F--D----------is~C~NlKrVi~   77 (161)
T PF09205_consen   14 LDGDVKQGVEIIEKTVNSS---NIKEYNWVICNIIDAADCDYVVETLDSIGKI-F--D----------ISKCGNLKRVIE   77 (161)
T ss_dssp             HTT-HHHHHHHHHHHHHHS----HHHHTHHHHHHHHH--HHHHHHHHHHHGGG-S-------------GGG-S-THHHHH
T ss_pred             HhchHHHHHHHHHHHcCcC---CccccceeeeecchhhchhHHHHHHHHHhhh-c--C----------chhhcchHHHHH
Confidence            3567777777777776643   4555666665555555545555555544332 1  1          123344443333


Q ss_pred             HHhhhHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCcCcHH
Q 005729          567 CLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVP  646 (680)
Q Consensus       567 ~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~  646 (680)
                      .+-             .   ...+....+..++.+...|+.+.-.++++.+.+. -.+++.....+..||.+.|+..++.
T Consensus        78 C~~-------------~---~n~~se~vD~ALd~lv~~~kkDqLdki~~~l~kn-~~~~p~~L~kia~Ay~klg~~r~~~  140 (161)
T PF09205_consen   78 CYA-------------K---RNKLSEYVDLALDILVKQGKKDQLDKIYNELKKN-EEINPEFLVKIANAYKKLGNTREAN  140 (161)
T ss_dssp             HHH-------------H---TT---HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHH
T ss_pred             HHH-------------H---hcchHHHHHHHHHHHHHhccHHHHHHHHHHHhhc-cCCCHHHHHHHHHHHHHhcchhhHH
Confidence            321             0   1123445666778888999999999999988763 3788899999999999999999999


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHHHHh
Q 005729          647 AVYEEMILSGCTPDRKARAMLRSALRYMKQ  676 (680)
Q Consensus       647 ~~~~~m~~~g~~pd~~~~~~l~~a~~~~k~  676 (680)
                      +++++.-++|+          .+||+.+++
T Consensus       141 ell~~ACekG~----------kEAC~nIn~  160 (161)
T PF09205_consen  141 ELLKEACEKGL----------KEACRNINQ  160 (161)
T ss_dssp             HHHHHHHHTT-----------HHHHHHHHT
T ss_pred             HHHHHHHHhch----------HHHHHHhcc
Confidence            99999998874          456666554

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>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=96.38  E-value=0.017  Score=43.13  Aligned_cols=63  Identities=19%  Similarity=0.198  Sum_probs=35.3

Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHH
Q 005729          475 TITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQE-RWEDVKRLLGNMRA  538 (680)
Q Consensus       475 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g-~~~~A~~~~~~m~~  538 (680)
                      ...|..+...+.+.|++++|+..|++.++.+ +-+...|..+..++.+.| ++++|.+.+++.++
T Consensus         3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen    3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             HHHHHHHHHHHHHTTHHHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            3455555555556666666666666655554 334555555555555555 45666655555544

...

>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A

Probab=96.34  E-value=0.014  Score=43.49  Aligned_cols=51  Identities=24%  Similarity=0.336  Sum_probs=27.1

Q ss_pred             HcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 005729          487 KCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRA  538 (680)
Q Consensus       487 ~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~  538 (680)
                      +.|++++|+++|+++.+.. +-+...+..+..+|.+.|++++|..++.++..
T Consensus         3 ~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~   53 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRN-PDNPEARLLLAQCYLKQGQYDEAEELLERLLK   53 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHT-TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHG
T ss_pred             hccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3455555555555555543 33455555555555555555555555555554

...

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.31  E-value=0.019  Score=43.40  Aligned_cols=69  Identities=17%  Similarity=0.237  Sum_probs=56.6

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCcCcHHHHHHHHHHcCCCCCHHHHHHHHH
Q 005729          598 INAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPDRKARAMLRS  669 (680)
Q Consensus       598 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd~~~~~~l~~  669 (680)
                      -..|.+.+++++|+++++++.+.+ +.+...|......+.+.|++.+|.+.+++.++.  .|+......+..
T Consensus         2 ~~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~--~p~~~~~~~~~a   70 (73)
T PF13371_consen    2 KQIYLQQEDYEEALEVLERALELD-PDDPELWLQRARCLFQLGRYEEALEDLERALEL--SPDDPDARALRA   70 (73)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhC-cccchhhHHHHHHHHHhccHHHHHHHHHHHHHH--CCCcHHHHHHHH
Confidence            356888999999999999999842 336678888999999999999999999999985  677766655543

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=96.31  E-value=0.73  Score=40.98  Aligned_cols=129  Identities=15%  Similarity=0.219  Sum_probs=95.3

Q ss_pred             CCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCC---CCCCHHHH
Q 005729          437 EPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERG---YFPCTTTY  513 (680)
Q Consensus       437 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~---~~p~~~t~  513 (680)
                      .|++.--..|..+..+.|+..+|...|++...--+.-|....-.+.++....+++..|...++++.+..   -.||  +.
T Consensus        86 ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd--~~  163 (251)
T COG4700          86 APTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPD--GH  163 (251)
T ss_pred             chhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCC--ch
Confidence            577777777888888888888888888887765455677777777888888888888888888887652   2233  34


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHh
Q 005729          514 NIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLE  569 (680)
Q Consensus       514 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~  569 (680)
                      ..+.+.+...|+..+|+..|+.....  -|+...-......+.+.|+.+++..-+.
T Consensus       164 Ll~aR~laa~g~~a~Aesafe~a~~~--ypg~~ar~~Y~e~La~qgr~~ea~aq~~  217 (251)
T COG4700         164 LLFARTLAAQGKYADAESAFEVAISY--YPGPQARIYYAEMLAKQGRLREANAQYV  217 (251)
T ss_pred             HHHHHHHHhcCCchhHHHHHHHHHHh--CCCHHHHHHHHHHHHHhcchhHHHHHHH
Confidence            55677888889988899988888874  4555555555667788888887765443

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=96.27  E-value=0.019  Score=42.21  Aligned_cols=55  Identities=16%  Similarity=0.280  Sum_probs=29.2

Q ss_pred             HHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 005729          483 DCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRA  538 (680)
Q Consensus       483 ~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~  538 (680)
                      ..+.+.|++++|...|+++++.. +-+...+..+..++...|++++|...++++++
T Consensus         5 ~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~   59 (65)
T PF13432_consen    5 RALYQQGDYDEAIAAFEQALKQD-PDNPEAWYLLGRILYQQGRYDEALAYYERALE   59 (65)
T ss_dssp             HHHHHCTHHHHHHHHHHHHHCCS-TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            34455555555555555555553 33444555555555555555555555555554

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=96.13  E-value=0.26  Score=47.55  Aligned_cols=47  Identities=11%  Similarity=-0.081  Sum_probs=23.3

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 005729          507 FPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDI  554 (680)
Q Consensus       507 ~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~  554 (680)
                      +-|...|..|...|...|++..|..-|.+..+.. .++...+..+..+
T Consensus       153 P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~-g~n~~~~~g~aea  199 (287)
T COG4235         153 PGDAEGWDLLGRAYMALGRASDALLAYRNALRLA-GDNPEILLGLAEA  199 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            4445555555555555555555555555555531 1234444444443

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.10  E-value=1.3  Score=41.78  Aligned_cols=64  Identities=9%  Similarity=-0.029  Sum_probs=41.4

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 005729          336 KAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVS  399 (680)
Q Consensus       336 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  399 (680)
                      .+.+.++..+.-.|.+.-....+.+.++...+.++.....|.+.-.+.||.+.|...|+...+.
T Consensus       178 ~Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~  241 (366)
T KOG2796|consen  178 RVMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKV  241 (366)
T ss_pred             HHHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            3444555555566666666666777766655556666667777777777777777777766543

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=96.08  E-value=1  Score=42.07  Aligned_cols=57  Identities=16%  Similarity=0.107  Sum_probs=34.9

Q ss_pred             HHHHHcCCHHHHHHHHHHHHhCCCC--CCHHHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 005729          273 VGFAKAGDASKAMRFLGMAQGVGLS--PKTATYAAVITALSNSGRTIEAEAVFEELKES  329 (680)
Q Consensus       273 ~~~~~~g~~~~A~~~~~~~~~~g~~--p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~  329 (680)
                      ..+...|++.+|.+.|+.+......  --....-.++.++.+.|++++|...+++.++.
T Consensus        13 ~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~   71 (203)
T PF13525_consen   13 LEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKL   71 (203)
T ss_dssp             HHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3456677788888888777654211  11234556667777777777777777776654

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.02  E-value=0.13  Score=50.00  Aligned_cols=102  Identities=18%  Similarity=0.172  Sum_probs=74.3

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 005729          546 VTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSN----LALNSLINAFGEDQRDAEAFAVLQYMKENG  621 (680)
Q Consensus       546 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~----~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  621 (680)
                      ..|...+..+.+.|++++|+..|+           .+...  .|+.    ..+-.+..+|...|++++|...|+.+.+. 
T Consensus       144 ~~Y~~A~~l~~~~~~y~~Ai~af~-----------~fl~~--yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~-  209 (263)
T PRK10803        144 TDYNAAIALVQDKSRQDDAIVAFQ-----------NFVKK--YPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKN-  209 (263)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHH-----------HHHHH--CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH-
Confidence            345555555566788888776654           44432  2433    46677889999999999999999999863 


Q ss_pred             CCCC----HHHHHHHHHHHHhcCCcCcHHHHHHHHHHcCCCCCHHHH
Q 005729          622 LKPD----VVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPDRKAR  664 (680)
Q Consensus       622 ~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd~~~~  664 (680)
                       .|+    ...+..+...+...|+.++|.++|+++++.  .|+....
T Consensus       210 -yP~s~~~~dAl~klg~~~~~~g~~~~A~~~~~~vi~~--yP~s~~a  253 (263)
T PRK10803        210 -YPKSPKAADAMFKVGVIMQDKGDTAKAKAVYQQVIKK--YPGTDGA  253 (263)
T ss_pred             -CCCCcchhHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCCHHH
Confidence             233    456666778888999999999999999985  5665543

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=95.98  E-value=2.2  Score=43.41  Aligned_cols=128  Identities=12%  Similarity=0.067  Sum_probs=67.2

Q ss_pred             cCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh---------cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 005729          488 CGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGE---------QERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQS  558 (680)
Q Consensus       488 ~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~---------~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~  558 (680)
                      .|+.++|++++..+......++..+|..+.+.|-.         ....++|...|.+.-+.  .|+...--.++-.+...
T Consensus       195 ~gdre~Al~il~~~l~~~~~~~~d~~gL~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~--~~~~Y~GIN~AtLL~~~  272 (374)
T PF13281_consen  195 PGDREKALQILLPVLESDENPDPDTLGLLGRIYKDLFLESNFTDRESLDKAIEWYRKGFEI--EPDYYSGINAATLLMLA  272 (374)
T ss_pred             CCCHHHHHHHHHHHHhccCCCChHHHHHHHHHHHHHHHHcCccchHHHHHHHHHHHHHHcC--CccccchHHHHHHHHHc
Confidence            55566666666554444345555555555554421         11256677777766553  34444333333333334


Q ss_pred             CChHHHHHHHhhhHHHHHHHHHHHHHCCCC---CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 005729          559 GRFDDAIECLEGLSDQAVNAFRVMRTDGLK---PSNLALNSLINAFGEDQRDAEAFAVLQYMKEN  620 (680)
Q Consensus       559 g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~---p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  620 (680)
                      |...+...-++..   +..+-....+.|..   .+---+.+++.++.-.|+.++|.+..++|...
T Consensus       273 g~~~~~~~el~~i---~~~l~~llg~kg~~~~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l  334 (374)
T PF13281_consen  273 GHDFETSEELRKI---GVKLSSLLGRKGSLEKMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKL  334 (374)
T ss_pred             CCcccchHHHHHH---HHHHHHHHHhhccccccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc
Confidence            4322222111111   11111112223322   33335678899999999999999999999974

>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=95.98  E-value=0.023  Score=43.70  Aligned_cols=69  Identities=23%  Similarity=0.348  Sum_probs=50.7

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 005729          545 VVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPS-NLALNSLINAFGEDQRDAEAFAVLQYMKE  619 (680)
Q Consensus       545 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~  619 (680)
                      ..+++.+...|...|++++|++.++    +++++.+.+..  -.|+ ..++..+..+|...|++++|++++++..+
T Consensus         5 a~~~~~la~~~~~~~~~~~A~~~~~----~al~~~~~~~~--~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen    5 ANAYNNLARVYRELGRYDEALDYYE----KALDIEEQLGD--DHPDTANTLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHH----HHHHHHHHTTT--HHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHH----HHHHHHHHHCC--CCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            3578888999999999999998876    44444322211  1233 35889999999999999999999998764

...

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=95.97  E-value=0.42  Score=46.17  Aligned_cols=101  Identities=9%  Similarity=0.047  Sum_probs=72.8

Q ss_pred             CCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcC---ChhHHHHHHHHHHHCCCCCCHHHH
Q 005729          437 EPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCG---RYDRAEELFEEMQERGYFPCTTTY  513 (680)
Q Consensus       437 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g---~~~~A~~~~~~m~~~~~~p~~~t~  513 (680)
                      +-|...|-.|...|...|+.+.|...|....+.. .++...+..+..++....   ...++..+|+++...+ +-|+.+.
T Consensus       153 P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~-g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D-~~~iral  230 (287)
T COG4235         153 PGDAEGWDLLGRAYMALGRASDALLAYRNALRLA-GDNPEILLGLAEALYYQAGQQMTAKARALLRQALALD-PANIRAL  230 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcC-CccHHHH
Confidence            5677788888888888888888888888777653 345555555555544322   3567778888888776 5667777


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHC
Q 005729          514 NIMINLLGEQERWEDVKRLLGNMRAQ  539 (680)
Q Consensus       514 ~~li~~~~~~g~~~~A~~~~~~m~~~  539 (680)
                      ..+...+...|++.+|...|+.|.+.
T Consensus       231 ~lLA~~afe~g~~~~A~~~Wq~lL~~  256 (287)
T COG4235         231 SLLAFAAFEQGDYAEAAAAWQMLLDL  256 (287)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhc
Confidence            77777788888888888888888876

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=95.93  E-value=0.76  Score=42.96  Aligned_cols=49  Identities=8%  Similarity=0.032  Sum_probs=27.1

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCC--CCCHHHHHHHHHHHHhcCChHHH
Q 005729          516 MINLLGEQERWEDVKRLLGNMRAQGL--LPNVVTYTTLVDIYGQSGRFDDA  564 (680)
Q Consensus       516 li~~~~~~g~~~~A~~~~~~m~~~~~--~p~~~~~~~li~~~~~~g~~~~A  564 (680)
                      +..-|.+.|.+..|..-++.+++.=.  .-.......++.+|.+.|..+.+
T Consensus       147 ia~~Y~~~~~y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a  197 (203)
T PF13525_consen  147 IARFYYKRGKYKAAIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAA  197 (203)
T ss_dssp             HHHHHHCTT-HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHH
T ss_pred             HHHHHHHcccHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHH
Confidence            44556677777777777777766511  11123445566677777766533

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=95.64  E-value=0.26  Score=47.91  Aligned_cols=14  Identities=14%  Similarity=0.309  Sum_probs=5.6

Q ss_pred             CCHHHHHHHHHHHH
Q 005729          384 GRWESARIVLKEME  397 (680)
Q Consensus       384 g~~~~A~~~~~~m~  397 (680)
                      |++++|+..|+.+.
T Consensus       157 ~~y~~Ai~af~~fl  170 (263)
T PRK10803        157 SRQDDAIVAFQNFV  170 (263)
T ss_pred             CCHHHHHHHHHHHH
Confidence            34444444444333

>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=95.58  E-value=0.088  Score=46.27  Aligned_cols=70  Identities=20%  Similarity=0.324  Sum_probs=42.6

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-----CCCCCCHHH
Q 005729          477 TWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRA-----QGLLPNVVT  547 (680)
Q Consensus       477 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~-----~~~~p~~~~  547 (680)
                      ....++..+...|++++|..+.+.+.... +-+...|..+|.+|...|+..+|.++|+++.+     .|+.|+..+
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~  138 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPET  138 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHH
Confidence            44555666667777777777777777665 55677777777777777777777777766542     366666554

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.53  E-value=4.8  Score=44.07  Aligned_cols=99  Identities=16%  Similarity=0.133  Sum_probs=67.5

Q ss_pred             HHHhcccCCHHHHHHh---hCCCCC---CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCC
Q 005729          170 IHALGRSEKLYEAFLL---SQRQRL---TPLTYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRTNK  243 (680)
Q Consensus       170 i~~~~~~g~~~~A~~~---~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~  243 (680)
                      |+-+.+.+++++|+..   ..+..+   -...+-..|..+.-.|++++|-...-.|...    +..-|..-+..+...++
T Consensus       363 i~Wll~~k~yeeAl~~~k~~~~~~~~~~i~kv~~~yI~HLl~~~~y~~Aas~~p~m~gn----~~~eWe~~V~~f~e~~~  438 (846)
T KOG2066|consen  363 IDWLLEKKKYEEALDAAKASIGNEERFVIKKVGKTYIDHLLFEGKYDEAASLCPKMLGN----NAAEWELWVFKFAELDQ  438 (846)
T ss_pred             HHHHHHhhHHHHHHHHHHhccCCccccchHHHHHHHHHHHHhcchHHHHHhhhHHHhcc----hHHHHHHHHHHhccccc
Confidence            4555666788888877   223333   3457899999999999999999999998864    45556555555555555


Q ss_pred             CChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHH
Q 005729          244 IDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAK  277 (680)
Q Consensus       244 ~~~~~~~~l~~~~~~~~~~~~~~~~~~li~~~~~  277 (680)
                      .     ..++..+.......+..+|..++..+..
T Consensus       439 l-----~~Ia~~lPt~~~rL~p~vYemvLve~L~  467 (846)
T KOG2066|consen  439 L-----TDIAPYLPTGPPRLKPLVYEMVLVEFLA  467 (846)
T ss_pred             c-----chhhccCCCCCcccCchHHHHHHHHHHH
Confidence            4     2444555554444667788888877766

>PRK15331 chaperone protein SicA; Provisional

Probab=95.44  E-value=0.84  Score=40.12  Aligned_cols=84  Identities=13%  Similarity=0.039  Sum_probs=59.0

Q ss_pred             HHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHH
Q 005729          484 CHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDD  563 (680)
Q Consensus       484 ~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~  563 (680)
                      -+...|++++|..+|+-+...+ +-+..-|..|...+-..+++++|...+......+. -|+..+-....+|...|+.+.
T Consensus        46 ~~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         46 EFYNQGRLDEAETFFRFLCIYD-FYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK-NDYRPVFFTGQCQLLMRKAAK  123 (165)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc-CCCCccchHHHHHHHhCCHHH
Confidence            3456788888888888777665 34555566677777777888888888877765432 244555566777888888888


Q ss_pred             HHHHHh
Q 005729          564 AIECLE  569 (680)
Q Consensus       564 A~~~~~  569 (680)
                      |...|+
T Consensus       124 A~~~f~  129 (165)
T PRK15331        124 ARQCFE  129 (165)
T ss_pred             HHHHHH
Confidence            877765

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=95.38  E-value=0.12  Score=39.01  Aligned_cols=54  Identities=17%  Similarity=0.079  Sum_probs=28.5

Q ss_pred             HHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 005729          484 CHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRA  538 (680)
Q Consensus       484 ~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~  538 (680)
                      .|.+.+++++|.++++.+...+ +.+...|......+.+.|++++|.+.+++..+
T Consensus         4 ~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~   57 (73)
T PF13371_consen    4 IYLQQEDYEEALEVLERALELD-PDDPELWLQRARCLFQLGRYEEALEDLERALE   57 (73)
T ss_pred             HHHhCCCHHHHHHHHHHHHHhC-cccchhhHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            3445555555555555555543 33444455555555555555555555555554

>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=95.35  E-value=0.042  Score=42.18  Aligned_cols=63  Identities=22%  Similarity=0.275  Sum_probs=51.4

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHC--CCC---CC-HHHHHHHHHHHHhcCCcCcHHHHHHHHHH
Q 005729          592 LALNSLINAFGEDQRDAEAFAVLQYMKEN--GLK---PD-VVTYTTLMKALIRVDKFHKVPAVYEEMIL  654 (680)
Q Consensus       592 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~--g~~---p~-~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  654 (680)
                      .+|+.+..+|...|++++|+.++++..+.  .+.   |+ ..++..+...+...|++++|.+++++.++
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            37899999999999999999999998842  122   22 45788899999999999999999999865

...

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=95.20  E-value=4.3  Score=41.55  Aligned_cols=442  Identities=16%  Similarity=0.126  Sum_probs=219.0

Q ss_pred             CCChHHHHHHHHHHHHCCCCC----chHHHHHHHHHHhcccCCHHH--HHHh--hCCCCCCHHHHHHHHH--HHHHcCCH
Q 005729          140 NSSIDLAYAVVSWLQKHNLCY----SYELLYSILIHALGRSEKLYE--AFLL--SQRQRLTPLTYNALIS--ACARNDDL  209 (680)
Q Consensus       140 ~~~~~~a~~~~~~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~--A~~~--~~~~~~~~~~~~~li~--~~~~~g~~  209 (680)
                      .++..++..+|.++-+.--..    ......+.++++|.-.+ ++.  ....  .+..+..  .|-.+..  .+.+.|.+
T Consensus        19 q~~~~esEkifskI~~e~~~~~f~lkeEvl~grilnAffl~n-ld~Me~~l~~l~~~~~~s--~~l~LF~~L~~Y~~k~~   95 (549)
T PF07079_consen   19 QKKFQESEKIFSKIYDEKESSPFLLKEEVLGGRILNAFFLNN-LDLMEKQLMELRQQFGKS--AYLPLFKALVAYKQKEY   95 (549)
T ss_pred             HhhhhHHHHHHHHHHHHhhcchHHHHHHHHhhHHHHHHHHhh-HHHHHHHHHHHHHhcCCc--hHHHHHHHHHHHHhhhH
Confidence            457778888888876543111    11233456667765432 221  1111  2222222  3444433  34578889


Q ss_pred             HHHHHHHHHHHHc--CCCCChhhHHHHHHHHHhcCCCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCCHHHHHHH
Q 005729          210 EKALNLMSKMRQD--GYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMRF  287 (680)
Q Consensus       210 ~~A~~~~~~m~~~--g~~p~~~~~~~ll~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  287 (680)
                      .+|++.+..=...  +..+.  ..+.-+              .+++         +|...-+..++.+...|++.+++.+
T Consensus        96 ~kal~~ls~w~~~~~~~~~~--~Ld~ni--------------~~l~---------~df~l~~i~a~sLIe~g~f~EgR~i  150 (549)
T PF07079_consen   96 RKALQALSVWKEQIKGTESP--WLDTNI--------------QQLF---------SDFFLDEIEAHSLIETGRFSEGRAI  150 (549)
T ss_pred             HHHHHHHHHHHhhhcccccc--hhhhhH--------------HHHh---------hHHHHHHHHHHHHHhcCCcchHHHH
Confidence            9999887665443  21110  000000              0110         1222224445556666666666666


Q ss_pred             HHHHHhC----CCCCCHHHHHHHHHHHHhcC--------C-------hHHHHHHHHHHHHc------CCCCCHHHHHHHH
Q 005729          288 LGMAQGV----GLSPKTATYAAVITALSNSG--------R-------TIEAEAVFEELKES------GLKPRTKAYNALL  342 (680)
Q Consensus       288 ~~~~~~~----g~~p~~~~~~~li~~~~~~g--------~-------~~~A~~l~~~m~~~------g~~p~~~~~~~li  342 (680)
                      ++++...    ...-++.+|+.++-.+++.-        .       ++.+.-...+|...      .+.|.......++
T Consensus       151 Ln~i~~~llkrE~~w~~d~yd~~vlmlsrSYfLEl~e~~s~dl~pdyYemilfY~kki~~~d~~~Y~k~~peeeL~s~im  230 (549)
T PF07079_consen  151 LNRIIERLLKRECEWNSDMYDRAVLMLSRSYFLELKESMSSDLYPDYYEMILFYLKKIHAFDQRPYEKFIPEEELFSTIM  230 (549)
T ss_pred             HHHHHHHHhhhhhcccHHHHHHHHHHHhHHHHHHHHHhcccccChHHHHHHHHHHHHHHHHhhchHHhhCcHHHHHHHHH
Confidence            6555432    22345566665443333211        0       11111111122111      1234444444444


Q ss_pred             HHHHHcCC--HHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC----CCHHHHHHHHHHH
Q 005729          343 KGYVKMGY--LKDAEFVVSEMERSGVLPDEH-TYSLLIDAYANAGRWESARIVLKEMEVSHAK----PNSFIYSRILAGY  415 (680)
Q Consensus       343 ~~~~~~g~--~~~A~~~~~~m~~~g~~~~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~----~~~~~~~~ll~~~  415 (680)
                      ....-...  ..--.+++......-+.|+-. +...|+..+.+  +.+++..+.+.+....+.    .-..++..++...
T Consensus       231 qhlfi~p~e~l~~~mq~l~~We~~yv~p~~~LVi~~L~~~f~~--~~e~~~~~ce~ia~~~i~~Lke~li~~F~~~Ls~~  308 (549)
T PF07079_consen  231 QHLFIVPKERLPPLMQILENWENFYVHPNYDLVIEPLKQQFMS--DPEQVGHFCEAIASSKIEKLKEELIDRFGNLLSFK  308 (549)
T ss_pred             HHHHhCCHhhccHHHHHHHHHHhhccCCchhHHHHHHHHHHhc--ChHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence            44332211  112223333333333344422 22233333333  555555555444332111    1234677888888


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHHHHH-------HHHHHHHc----cCCHHHHHHHHHHHHHCCCCCCHHHHHHH---
Q 005729          416 RDRGEWQRTFQVLKEMKSSGVEPDTHFYN-------VMIDTFGK----YNCLHHAMAAFDRMLSEGIEPDTITWNTL---  481 (680)
Q Consensus       416 ~~~g~~~~A~~l~~~m~~~~~~p~~~~~~-------~li~~~~~----~g~~~~A~~~~~~m~~~~~~~~~~~~~~l---  481 (680)
                      .+.++-.+|.+.+.-+.-.  .|+...-.       .+-+..+.    .-+...=..+|+.+...++...- .-..|   
T Consensus       309 Vk~~~T~~a~q~l~lL~~l--dp~~svs~Kllls~~~lq~Iv~~DD~~~Tklr~yL~lwe~~qs~DiDrqQ-Lvh~L~~~  385 (549)
T PF07079_consen  309 VKQVQTEEAKQYLALLKIL--DPRISVSEKLLLSPKVLQDIVCEDDESYTKLRDYLNLWEEIQSYDIDRQQ-LVHYLVFG  385 (549)
T ss_pred             HHHHhHHHHHHHHHHHHhc--CCcchhhhhhhcCHHHHHHHHhcchHHHHHHHHHHHHHHHHHhhcccHHH-HHHHHHHH
Confidence            8999999998888877654  34433221       22223331    11233334455555544322111 11222   


Q ss_pred             HHHHHHcCC-hhHHHHHHHHHHHCCCCCCHHHHHHHH----HHHHhc---CCHHHHHHHHHHHHHCCCCCC----HHHHH
Q 005729          482 IDCHFKCGR-YDRAEELFEEMQERGYFPCTTTYNIMI----NLLGEQ---ERWEDVKRLLGNMRAQGLLPN----VVTYT  549 (680)
Q Consensus       482 i~~~~~~g~-~~~A~~~~~~m~~~~~~p~~~t~~~li----~~~~~~---g~~~~A~~~~~~m~~~~~~p~----~~~~~  549 (680)
                      ..-+.+.|. -++|+.+++...+-. .-|...-|.+.    .+|.+.   ..+.+-..+-+-+.+.|+.|-    ...-|
T Consensus       386 Ak~lW~~g~~dekalnLLk~il~ft-~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~~i~i~e~eian  464 (549)
T PF07079_consen  386 AKHLWEIGQCDEKALNLLKLILQFT-NYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEVGLTPITISEEEIAN  464 (549)
T ss_pred             HHHHHhcCCccHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCcccccHHHHHH
Confidence            233555666 789999999887643 33343333322    233332   334444455555556687763    34555


Q ss_pred             HHHHH--HHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH
Q 005729          550 TLVDI--YGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVV  627 (680)
Q Consensus       550 ~li~~--~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~  627 (680)
                      .|.+|  +...|++.++.-.-             +--..+.|+..+|..++-++....++++|.+++..     ++|+..
T Consensus       465 ~LaDAEyLysqgey~kc~~ys-------------~WL~~iaPS~~~~RLlGl~l~e~k~Y~eA~~~l~~-----LP~n~~  526 (549)
T PF07079_consen  465 FLADAEYLYSQGEYHKCYLYS-------------SWLTKIAPSPQAYRLLGLCLMENKRYQEAWEYLQK-----LPPNER  526 (549)
T ss_pred             HHHHHHHHHhcccHHHHHHHH-------------HHHHHhCCcHHHHHHHHHHHHHHhhHHHHHHHHHh-----CCCchh
Confidence            55544  45678888776431             11123789999999999999999999999999875     577877


Q ss_pred             HHHHHH
Q 005729          628 TYTTLM  633 (680)
Q Consensus       628 ~~~~l~  633 (680)
                      +++.-+
T Consensus       527 ~~dskv  532 (549)
T PF07079_consen  527 MRDSKV  532 (549)
T ss_pred             hHHHHH
Confidence            776543

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=95.12  E-value=3.9  Score=40.59  Aligned_cols=135  Identities=21%  Similarity=0.341  Sum_probs=71.1

Q ss_pred             hHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh--cC----CHHHHHHHHHHHHHCCC---CCCHHHHHHHHHHHHhcCChH
Q 005729          492 DRAEELFEEMQERGYFPCTTTYNIMINLLGE--QE----RWEDVKRLLGNMRAQGL---LPNVVTYTTLVDIYGQSGRFD  562 (680)
Q Consensus       492 ~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~--~g----~~~~A~~~~~~m~~~~~---~p~~~~~~~li~~~~~~g~~~  562 (680)
                      ++...+++.|.+.|+.-+..+|-+.......  ..    ....+..+++.|.+...   .++..++..++..  ...+++
T Consensus        79 ~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~e  156 (297)
T PF13170_consen   79 KEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDVE  156 (297)
T ss_pred             HHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccHH
Confidence            3444566666666666666555543322222  11    24457777777776532   2344555555433  333333


Q ss_pred             HHHHHHhhhHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHhcC-C--HHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 005729          563 DAIECLEGLSDQAVNAFRVMRTDGLKPSNL-ALNSLINAFGEDQ-R--DAEAFAVLQYMKENGLKPDVVTYTTLMKA  635 (680)
Q Consensus       563 ~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~-~~~~li~~~~~~g-~--~~~A~~~~~~m~~~g~~p~~~~~~~l~~~  635 (680)
                             ...++....|+.+...|+..+.. -+.+-+-++.... .  ...+.++++.+.+.|+++....|..+.-.
T Consensus       157 -------~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lGlL  226 (297)
T PF13170_consen  157 -------ELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLGLL  226 (297)
T ss_pred             -------HHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHHHH
Confidence                   23344556677777766665544 3333333332211 1  34667777777777777776666655543

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=95.10  E-value=4.1  Score=40.80  Aligned_cols=291  Identities=15%  Similarity=0.120  Sum_probs=145.9

Q ss_pred             HHHHHHHHHh--cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH--HHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 005729          303 YAAVITALSN--SGRTIEAEAVFEELKESGLKPRTKAYNALLKG--YVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLID  378 (680)
Q Consensus       303 ~~~li~~~~~--~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~--~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~  378 (680)
                      |.+|-.++..  .|+-..|.++-.+..+. +..|..-...|+.+  -.-.|+++.|.+-|+.|..     |+.+-..=++
T Consensus        85 yqALStGliAagAGda~lARkmt~~~~~l-lssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~-----dPEtRllGLR  158 (531)
T COG3898          85 YQALSTGLIAAGAGDASLARKMTARASKL-LSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLD-----DPETRLLGLR  158 (531)
T ss_pred             HHHHhhhhhhhccCchHHHHHHHHHHHhh-hhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhc-----ChHHHHHhHH
Confidence            3344444333  34555555554443321 12233333333332  2234666777777776664     2222222122


Q ss_pred             H----HHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CCCCHHHH--HHHHHHH-
Q 005729          379 A----YANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSG-VEPDTHFY--NVMIDTF-  450 (680)
Q Consensus       379 ~----~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~-~~p~~~~~--~~li~~~-  450 (680)
                      +    --+.|+.+.|.++-+..-..- +--...+...+...|..|+|+.|+++++.-+... +.++..--  ..|+.+- 
T Consensus       159 gLyleAqr~GareaAr~yAe~Aa~~A-p~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA  237 (531)
T COG3898         159 GLYLEAQRLGAREAARHYAERAAEKA-PQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKA  237 (531)
T ss_pred             HHHHHHHhcccHHHHHHHHHHHHhhc-cCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHH
Confidence            2    124566666666555554332 2234456666666777777777777766654432 22332111  1122111 


Q ss_pred             -H-ccCCHHHHHHHHHHHHHCCCCCCHHH-HHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHH
Q 005729          451 -G-KYNCLHHAMAAFDRMLSEGIEPDTIT-WNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWE  527 (680)
Q Consensus       451 -~-~~g~~~~A~~~~~~m~~~~~~~~~~~-~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~  527 (680)
                       . -..+...|...-.+..+.  .||..- --.-..++.+.|+..++-.+++.+-+..-.|+.  +..  ....+.|+  
T Consensus       238 ~s~ldadp~~Ar~~A~~a~KL--~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~ePHP~i--a~l--Y~~ar~gd--  309 (531)
T COG3898         238 MSLLDADPASARDDALEANKL--APDLVPAAVVAARALFRDGNLRKGSKILETAWKAEPHPDI--ALL--YVRARSGD--  309 (531)
T ss_pred             HHHhcCChHHHHHHHHHHhhc--CCccchHHHHHHHHHHhccchhhhhhHHHHHHhcCCChHH--HHH--HHHhcCCC--
Confidence             1 112344455444444433  344332 223345677888888888888888776544432  221  12334444  


Q ss_pred             HHHHHHHHHHHC-CCCC-CHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh-c
Q 005729          528 DVKRLLGNMRAQ-GLLP-NVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGE-D  604 (680)
Q Consensus       528 ~A~~~~~~m~~~-~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~-~  604 (680)
                      .+..-+++..+. .++| +......+.++-...|++..|..--+.           ..  ...|....|..|.+.-.. .
T Consensus       310 ta~dRlkRa~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aea-----------a~--r~~pres~~lLlAdIeeAet  376 (531)
T COG3898         310 TALDRLKRAKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEA-----------AA--REAPRESAYLLLADIEEAET  376 (531)
T ss_pred             cHHHHHHHHHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHH-----------Hh--hhCchhhHHHHHHHHHhhcc
Confidence            233333333221 2344 455666677777777777766543221           11  245777777777766544 4


Q ss_pred             CCHHHHHHHHHHHHHCC
Q 005729          605 QRDAEAFAVLQYMKENG  621 (680)
Q Consensus       605 g~~~~A~~~~~~m~~~g  621 (680)
                      |+-.++..++.+..+..
T Consensus       377 GDqg~vR~wlAqav~AP  393 (531)
T COG3898         377 GDQGKVRQWLAQAVKAP  393 (531)
T ss_pred             CchHHHHHHHHHHhcCC
Confidence            88888888888877643

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=95.06  E-value=0.53  Score=44.67  Aligned_cols=57  Identities=12%  Similarity=0.185  Sum_probs=38.0

Q ss_pred             CCCCCHHHHHHHHHHHHHc-----CCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCC
Q 005729          188 RQRLTPLTYNALISACARN-----DDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRTNKI  244 (680)
Q Consensus       188 ~~~~~~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~  244 (680)
                      ...+|-.+|-+++..|...     +.++-.-..++.|++.|+.-|..+|+.||+.+-+..-.
T Consensus        62 ~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfi  123 (406)
T KOG3941|consen   62 PEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFI  123 (406)
T ss_pred             cccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccc
Confidence            3456777888877777543     45555566677777778777777777777666554433

>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=95.00  E-value=0.97  Score=47.59  Aligned_cols=156  Identities=12%  Similarity=0.093  Sum_probs=68.5

Q ss_pred             HHHHhcCChHHHHHHHH--HHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC
Q 005729          308 TALSNSGRTIEAEAVFE--ELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGR  385 (680)
Q Consensus       308 ~~~~~~g~~~~A~~l~~--~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~  385 (680)
                      ....-.++++++.++.+  ++.. .+  ...-.+.++..+-+.|..+.|+++.+.-.            .-.+...+.|+
T Consensus       269 k~av~~~d~~~v~~~i~~~~ll~-~i--~~~~~~~i~~fL~~~G~~e~AL~~~~D~~------------~rFeLAl~lg~  333 (443)
T PF04053_consen  269 KTAVLRGDFEEVLRMIAASNLLP-NI--PKDQGQSIARFLEKKGYPELALQFVTDPD------------HRFELALQLGN  333 (443)
T ss_dssp             HHHHHTT-HHH-----HHHHTGG-G----HHHHHHHHHHHHHTT-HHHHHHHSS-HH------------HHHHHHHHCT-
T ss_pred             HHHHHcCChhhhhhhhhhhhhcc-cC--ChhHHHHHHHHHHHCCCHHHHHhhcCChH------------HHhHHHHhcCC
Confidence            33444566666655553  1111 11  13345556666666666666665443221            12334445566


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHH
Q 005729          386 WESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDR  465 (680)
Q Consensus       386 ~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~  465 (680)
                      ++.|.++.++.      .+...|..|.....+.|+++-|.+.|.+...         +..|+-.|.-.|+.+...++-+.
T Consensus       334 L~~A~~~a~~~------~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~  398 (443)
T PF04053_consen  334 LDIALEIAKEL------DDPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKI  398 (443)
T ss_dssp             HHHHHHHCCCC------STHHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHH
T ss_pred             HHHHHHHHHhc------CcHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHH
Confidence            66665544321      2445555555555566665555555555321         33444445555555555555544


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHH
Q 005729          466 MLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFE  499 (680)
Q Consensus       466 m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~  499 (680)
                      ....|      -+|....++.-.|+.++..+++.
T Consensus       399 a~~~~------~~n~af~~~~~lgd~~~cv~lL~  426 (443)
T PF04053_consen  399 AEERG------DINIAFQAALLLGDVEECVDLLI  426 (443)
T ss_dssp             HHHTT-------HHHHHHHHHHHT-HHHHHHHHH
T ss_pred             HHHcc------CHHHHHHHHHHcCCHHHHHHHHH
Confidence            44433      13344444444555555554443

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.

>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=94.94  E-value=0.16  Score=42.94  Aligned_cols=54  Identities=13%  Similarity=0.218  Sum_probs=46.9

Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-CCCCCCHHHHHHHHHHHHhc
Q 005729          586 GLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKE-NGLKPDVVTYTTLMKALIRV  639 (680)
Q Consensus       586 g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~-~g~~p~~~~~~~l~~~~~~~  639 (680)
                      ...|+..+..+++.+|+..|++..|+++++...+ .+++-+..+|..|+.-....
T Consensus        47 pl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~v~  101 (126)
T PF12921_consen   47 PLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAYVL  101 (126)
T ss_pred             CCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHh
Confidence            5679999999999999999999999999999885 67888899999999755433

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=94.93  E-value=0.34  Score=49.75  Aligned_cols=66  Identities=11%  Similarity=0.082  Sum_probs=54.9

Q ss_pred             CcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCH----HHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 005729          262 ELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKT----ATYAAVITALSNSGRTIEAEAVFEELKES  329 (680)
Q Consensus       262 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~----~~~~~li~~~~~~g~~~~A~~l~~~m~~~  329 (680)
                      +.+...++.+..+|.+.|++++|+..|++.++.  .|+.    .+|..+..+|.+.|+.++|++.+++..+.
T Consensus        72 P~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL--~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         72 VKTAEDAVNLGLSLFSKGRVKDALAQFETALEL--NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            456778888889999999999999999988875  4653    35888999999999999999999988875

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=94.74  E-value=0.38  Score=48.32  Aligned_cols=79  Identities=14%  Similarity=0.092  Sum_probs=65.0

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCcCcHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 005729          591 NLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPDRKARAMLRSA  670 (680)
Q Consensus       591 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd~~~~~~l~~a  670 (680)
                      ..+++.|..+|.+.+++.+|++..+..++.+ ++|......-..+|...|+++.|...|+++++  +.|+....+.=+..
T Consensus       257 ~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k--~~P~Nka~~~el~~  333 (397)
T KOG0543|consen  257 LACHLNLAACYLKLKEYKEAIESCNKVLELD-PNNVKALYRRGQALLALGEYDLARDDFQKALK--LEPSNKAARAELIK  333 (397)
T ss_pred             HHHhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchhHHHHHHHHHHhhccHHHHHHHHHHHHH--hCCCcHHHHHHHHH
Confidence            3568888999999999999999999999854 45777777888999999999999999999998  58888765544444


Q ss_pred             HH
Q 005729          671 LR  672 (680)
Q Consensus       671 ~~  672 (680)
                      |.
T Consensus       334 l~  335 (397)
T KOG0543|consen  334 LK  335 (397)
T ss_pred             HH
Confidence            43

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.74  E-value=3.7  Score=38.45  Aligned_cols=87  Identities=18%  Similarity=0.162  Sum_probs=45.6

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 005729          266 QLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGY  345 (680)
Q Consensus       266 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~  345 (680)
                      ..|.....+|....++++|...+.+..+. ..-+...       +-..+.++.|.-+.++|.+.  +--+..|+-...+|
T Consensus        32 s~yekAAvafRnAk~feKakdcLlkA~~~-yEnnrsl-------fhAAKayEqaamLake~~kl--sEvvdl~eKAs~lY  101 (308)
T KOG1585|consen   32 SLYEKAAVAFRNAKKFEKAKDCLLKASKG-YENNRSL-------FHAAKAYEQAAMLAKELSKL--SEVVDLYEKASELY  101 (308)
T ss_pred             HHHHHHHHHHHhhccHHHHHHHHHHHHHH-HHhcccH-------HHHHHHHHHHHHHHHHHHHh--HHHHHHHHHHHHHH
Confidence            34555566677777777777766555421 0111111       11123344455555555442  12234456666677


Q ss_pred             HHcCCHHHHHHHHHHHH
Q 005729          346 VKMGYLKDAEFVVSEME  362 (680)
Q Consensus       346 ~~~g~~~~A~~~~~~m~  362 (680)
                      ..+|..+.|-..+++.-
T Consensus       102 ~E~GspdtAAmaleKAa  118 (308)
T KOG1585|consen  102 VECGSPDTAAMALEKAA  118 (308)
T ss_pred             HHhCCcchHHHHHHHHH
Confidence            77777777666666543

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=94.69  E-value=2.1  Score=43.17  Aligned_cols=138  Identities=14%  Similarity=0.035  Sum_probs=87.7

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcC
Q 005729          200 ISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAG  279 (680)
Q Consensus       200 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~~~li~~~~~~g  279 (680)
                      .+.|.+.|++..|...|++....               +-.....+... .+...       ..-..+++.|..+|.+.+
T Consensus       215 Gn~~fK~gk~~~A~~~Yerav~~---------------l~~~~~~~~ee-~~~~~-------~~k~~~~lNlA~c~lKl~  271 (397)
T KOG0543|consen  215 GNVLFKEGKFKLAKKRYERAVSF---------------LEYRRSFDEEE-QKKAE-------ALKLACHLNLAACYLKLK  271 (397)
T ss_pred             hhHHHhhchHHHHHHHHHHHHHH---------------hhccccCCHHH-HHHHH-------HHHHHHhhHHHHHHHhhh
Confidence            45688999999999999987653               00000111111 11111       112346778888889999


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHHHcCCHH-HHHHH
Q 005729          280 DASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPR-TKAYNALLKGYVKMGYLK-DAEFV  357 (680)
Q Consensus       280 ~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~-~A~~~  357 (680)
                      ++.+|++..+..+..+ ++|+...---..++...|+++.|+..|+++.+.  .|+ -.+-+.|+.+--+..... ...++
T Consensus       272 ~~~~Ai~~c~kvLe~~-~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~--~P~Nka~~~el~~l~~k~~~~~~kekk~  348 (397)
T KOG0543|consen  272 EYKEAIESCNKVLELD-PNNVKALYRRGQALLALGEYDLARDDFQKALKL--EPSNKAARAELIKLKQKIREYEEKEKKM  348 (397)
T ss_pred             hHHHHHHHHHHHHhcC-CCchhHHHHHHHHHHhhccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999988888764 556777777788888888888888888888875  344 334444444444444333 33566


Q ss_pred             HHHHHH
Q 005729          358 VSEMER  363 (680)
Q Consensus       358 ~~~m~~  363 (680)
                      |..|..
T Consensus       349 y~~mF~  354 (397)
T KOG0543|consen  349 YANMFA  354 (397)
T ss_pred             HHHHhh
Confidence            666653

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=94.64  E-value=0.27  Score=46.51  Aligned_cols=51  Identities=16%  Similarity=0.274  Sum_probs=31.7

Q ss_pred             CCCHHHHHHHHHHHHh-----cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Q 005729          297 SPKTATYAAVITALSN-----SGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVK  347 (680)
Q Consensus       297 ~p~~~~~~~li~~~~~-----~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~  347 (680)
                      +.|..+|...+..+..     .+.++-....++.|.+-|+..|..+|+.|++.+=+
T Consensus        64 ~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPK  119 (406)
T KOG3941|consen   64 KRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPK  119 (406)
T ss_pred             cccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcc
Confidence            3455555555555543     34555566667777777777777777777766543

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=94.62  E-value=0.68  Score=47.66  Aligned_cols=66  Identities=12%  Similarity=0.089  Sum_probs=53.9

Q ss_pred             CCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHHcCChhHHHHHHHHHHHC
Q 005729          437 EPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDT----ITWNTLIDCHFKCGRYDRAEELFEEMQER  504 (680)
Q Consensus       437 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~----~~~~~li~~~~~~g~~~~A~~~~~~m~~~  504 (680)
                      +.+...++.+..+|.+.|++++|...|++.++..  |+.    .+|..+..+|.+.|+.++|++.+++.++.
T Consensus        72 P~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~--Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         72 VKTAEDAVNLGLSLFSKGRVKDALAQFETALELN--PNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            4567788888888999999999999998888764  443    35888888899999999999999888875

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=94.58  E-value=2.7  Score=36.43  Aligned_cols=40  Identities=13%  Similarity=0.077  Sum_probs=16.4

Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Q 005729          307 ITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVK  347 (680)
Q Consensus       307 i~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~  347 (680)
                      +..+.+.+........++.+...+. .+...++.++..|++
T Consensus        14 v~~~~~~~~~~~l~~yLe~~~~~~~-~~~~~~~~li~ly~~   53 (140)
T smart00299       14 VELFEKRNLLEELIPYLESALKLNS-ENPALQTKLIELYAK   53 (140)
T ss_pred             HHHHHhCCcHHHHHHHHHHHHccCc-cchhHHHHHHHHHHH
Confidence            3333333444444444444443331 333344444444443

>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=94.56  E-value=0.67  Score=39.23  Aligned_cols=56  Identities=7%  Similarity=0.051  Sum_probs=44.3

Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHhcCC
Q 005729          505 GYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQ-GLLPNVVTYTTLVDIYGQSGR  560 (680)
Q Consensus       505 ~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~-~~~p~~~~~~~li~~~~~~g~  560 (680)
                      ...|+..+..+++.+|+..|++..|+++++...+. +++.+..+|..|++-....-+
T Consensus        47 pl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~v~s~  103 (126)
T PF12921_consen   47 PLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAYVLSS  103 (126)
T ss_pred             CCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhcC
Confidence            45688888888999998889999999988888766 666678888888876655443

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PRK15331 chaperone protein SicA; Provisional

Probab=94.53  E-value=2.9  Score=36.83  Aligned_cols=89  Identities=11%  Similarity=-0.007  Sum_probs=57.7

Q ss_pred             HHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHH
Q 005729          378 DAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLH  457 (680)
Q Consensus       378 ~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~  457 (680)
                      .-+...|++++|..+|.-+...++ -+..-|..|..++-..+++++|...|...-..+ .-|...+-....+|...|+.+
T Consensus        45 y~~y~~Gk~~eA~~~F~~L~~~d~-~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~-~~dp~p~f~agqC~l~l~~~~  122 (165)
T PRK15331         45 YEFYNQGRLDEAETFFRFLCIYDF-YNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLL-KNDYRPVFFTGQCQLLMRKAA  122 (165)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCc-CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc-cCCCCccchHHHHHHHhCCHH
Confidence            334567777777777777765442 345556666677777777777777777654433 233344445566777777777


Q ss_pred             HHHHHHHHHHH
Q 005729          458 HAMAAFDRMLS  468 (680)
Q Consensus       458 ~A~~~~~~m~~  468 (680)
                      .|+..|....+
T Consensus       123 ~A~~~f~~a~~  133 (165)
T PRK15331        123 KARQCFELVNE  133 (165)
T ss_pred             HHHHHHHHHHh
Confidence            77777777765

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.50  E-value=9.7  Score=42.21  Aligned_cols=177  Identities=15%  Similarity=0.108  Sum_probs=103.0

Q ss_pred             HHHHHHHhcccCCHHHHHHhhCCCCCCHHHHH----HHHHHHHHcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhc
Q 005729          166 YSILIHALGRSEKLYEAFLLSQRQRLTPLTYN----ALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRT  241 (680)
Q Consensus       166 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~----~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~  241 (680)
                      ...-++.+.+..-+.-|+.+......+...-.    ...+.+.+.|++++|...|-+-... +.|..     +++-+...
T Consensus       337 le~kL~iL~kK~ly~~Ai~LAk~~~~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~s~-----Vi~kfLda  410 (933)
T KOG2114|consen  337 LETKLDILFKKNLYKVAINLAKSQHLDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEPSE-----VIKKFLDA  410 (933)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CChHH-----HHHHhcCH
Confidence            34457778888888889888444444444333    3345566899999999999876543 22222     22222111


Q ss_pred             CCCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHH
Q 005729          242 NKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEA  321 (680)
Q Consensus       242 g~~~~~~~~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~  321 (680)
                      .+.  ...-..++.+.+.|+. +...-..|+.+|.+.++.++-.++.+.-. .|..  ..-....+..+.+.+-.++|..
T Consensus       411 q~I--knLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~efI~~~~-~g~~--~fd~e~al~Ilr~snyl~~a~~  484 (933)
T KOG2114|consen  411 QRI--KNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEFISKCD-KGEW--FFDVETALEILRKSNYLDEAEL  484 (933)
T ss_pred             HHH--HHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHHHHhcCC-Ccce--eeeHHHHHHHHHHhChHHHHHH
Confidence            111  0112344455555553 33344678889999999988877776544 2211  1123456677777777777766


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 005729          322 VFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEME  362 (680)
Q Consensus       322 l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~  362 (680)
                      +-.+...     .....+.+   +-..+++++|.+.+..+.
T Consensus       485 LA~k~~~-----he~vl~il---le~~~ny~eAl~yi~slp  517 (933)
T KOG2114|consen  485 LATKFKK-----HEWVLDIL---LEDLHNYEEALRYISSLP  517 (933)
T ss_pred             HHHHhcc-----CHHHHHHH---HHHhcCHHHHHHHHhcCC
Confidence            6554432     23333333   345578888888887664

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=94.41  E-value=6.8  Score=40.09  Aligned_cols=139  Identities=16%  Similarity=0.214  Sum_probs=84.6

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCC
Q 005729          510 TTTYNIMINLLGEQERWEDVKRLLGNMRAQG-LLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLK  588 (680)
Q Consensus       510 ~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~-~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~  588 (680)
                      ...|...++...+..-++.|..+|.++.+.+ +.++..++++++.-++ .|+..-|.++|+-          -|+.   -
T Consensus       397 t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifel----------Gl~~---f  462 (660)
T COG5107         397 TFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFEL----------GLLK---F  462 (660)
T ss_pred             hhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHH----------HHHh---C
Confidence            3456666666667777777777777777776 4556777777777665 4566666666540          1111   2


Q ss_pred             CCHHHH-HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHhcCCcCcHHHHHHHHHHcCCCCCHHHHH
Q 005729          589 PSNLAL-NSLINAFGEDQRDAEAFAVLQYMKENGLKPD--VVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPDRKARA  665 (680)
Q Consensus       589 p~~~~~-~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd~~~~~  665 (680)
                      ||...| +-.+.-+...++-+.|..+|+..++. +..+  ..+|..+++--...|+...+..+=++|..  ..|...+..
T Consensus       463 ~d~~~y~~kyl~fLi~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e--~~pQen~~e  539 (660)
T COG5107         463 PDSTLYKEKYLLFLIRINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRE--LVPQENLIE  539 (660)
T ss_pred             CCchHHHHHHHHHHHHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHH--HcCcHhHHH
Confidence            344333 34445555667777777777755542 2223  45677777766777777777777777765  355554443

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=94.32  E-value=1.8  Score=42.81  Aligned_cols=173  Identities=9%  Similarity=0.028  Sum_probs=101.1

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHHHC-CCCC---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC-----CCCCHHH
Q 005729          477 TWNTLIDCHFKCGRYDRAEELFEEMQER-GYFP---CTTTYNIMINLLGEQERWEDVKRLLGNMRAQG-----LLPNVVT  547 (680)
Q Consensus       477 ~~~~li~~~~~~g~~~~A~~~~~~m~~~-~~~p---~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~-----~~p~~~~  547 (680)
                      .|..+..++-+..++.+++.+-..-... |..|   .-....++..++...+.++++++.|+...+.-     .-....+
T Consensus        85 a~lnlar~~e~l~~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqv  164 (518)
T KOG1941|consen   85 AYLNLARSNEKLCEFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQV  164 (518)
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeeh
Confidence            3444555555555555555554433322 2222   11233345666777778888888888776531     1123467


Q ss_pred             HHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCH--HHHHHHHHHHHhcCCHHHHHHHHHHHHH----CC
Q 005729          548 YTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSN--LALNSLINAFGEDQRDAEAFAVLQYMKE----NG  621 (680)
Q Consensus       548 ~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~--~~~~~li~~~~~~g~~~~A~~~~~~m~~----~g  621 (680)
                      +..|...|.+..++++|.-+..    +|.++.+...-.++....  ...-.|.-++...|++-+|.+.-++..+    .|
T Consensus       165 cv~Lgslf~~l~D~~Kal~f~~----kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~G  240 (518)
T KOG1941|consen  165 CVSLGSLFAQLKDYEKALFFPC----KAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHG  240 (518)
T ss_pred             hhhHHHHHHHHHhhhHHhhhhH----hHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhC
Confidence            8888899999999998876544    333333322211111111  1233455667788888888888877664    34


Q ss_pred             CCCC-HHHHHHHHHHHHhcCCcCcHHHHHHHHH
Q 005729          622 LKPD-VVTYTTLMKALIRVDKFHKVPAVYEEMI  653 (680)
Q Consensus       622 ~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~m~  653 (680)
                      -.+. ......+.+.|...|+.+.|+.-|+...
T Consensus       241 dra~~arc~~~~aDIyR~~gd~e~af~rYe~Am  273 (518)
T KOG1941|consen  241 DRALQARCLLCFADIYRSRGDLERAFRRYEQAM  273 (518)
T ss_pred             ChHHHHHHHHHHHHHHHhcccHhHHHHHHHHHH
Confidence            2221 2234567788889999999988887754

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.28  E-value=10  Score=41.52  Aligned_cols=107  Identities=11%  Similarity=0.131  Sum_probs=54.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCH
Q 005729          512 TYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSN  591 (680)
Q Consensus       512 t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~  591 (680)
                      +.+--+.-+...|+..+|.++-.+..    .||...|..=+.++...+++++-.++-+                 .+..+
T Consensus       686 Sl~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kweeLekfAk-----------------skksP  744 (829)
T KOG2280|consen  686 SLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEELEKFAK-----------------SKKSP  744 (829)
T ss_pred             cHHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHHHHHHHh-----------------ccCCC
Confidence            34444445555566666665555443    3455666666666666666554332211                 11113


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCcCcHHHH
Q 005729          592 LALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAV  648 (680)
Q Consensus       592 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~  648 (680)
                      .-|.-.+.+|.+.|+.++|.+++.+...     ..    -...+|.+.|++.+|.++
T Consensus       745 IGy~PFVe~c~~~~n~~EA~KYiprv~~-----l~----ekv~ay~~~~~~~eAad~  792 (829)
T KOG2280|consen  745 IGYLPFVEACLKQGNKDEAKKYIPRVGG-----LQ----EKVKAYLRVGDVKEAADL  792 (829)
T ss_pred             CCchhHHHHHHhcccHHHHhhhhhccCC-----hH----HHHHHHHHhccHHHHHHH
Confidence            4455556666666666666666654321     11    345555556666555544

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=94.18  E-value=2.5  Score=45.23  Aligned_cols=161  Identities=15%  Similarity=0.172  Sum_probs=89.4

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH------HHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHH
Q 005729          374 SLLIDAYANAGRWESARIVLKEMEVSHAKPNS------FIYSRILAGYRD----RGEWQRTFQVLKEMKSSGVEPDTHFY  443 (680)
Q Consensus       374 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~------~~~~~ll~~~~~----~g~~~~A~~l~~~m~~~~~~p~~~~~  443 (680)
                      ..++....-.|+-+.+++.+.+..+.+-.-..      -.|+.++..++.    ....+.|.+++..+.+.  -|+...|
T Consensus       192 ~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~--yP~s~lf  269 (468)
T PF10300_consen  192 LKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR--YPNSALF  269 (468)
T ss_pred             HHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh--CCCcHHH
Confidence            34555555567777777766665443211111      123333333332    34567777777777765  4665555


Q ss_pred             HHH-HHHHHccCCHHHHHHHHHHHHHCC---CCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 005729          444 NVM-IDTFGKYNCLHHAMAAFDRMLSEG---IEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINL  519 (680)
Q Consensus       444 ~~l-i~~~~~~g~~~~A~~~~~~m~~~~---~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~  519 (680)
                      ... .+.+...|++++|.+.|+......   .......+--+.-.+.-.+++++|.+.|..+.+.. .-+..+|..+..+
T Consensus       270 l~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s-~WSka~Y~Y~~a~  348 (468)
T PF10300_consen  270 LFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKES-KWSKAFYAYLAAA  348 (468)
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcc-ccHHHHHHHHHHH
Confidence            433 344566777888888777654311   11223334445556667788888888888887654 3344444444433


Q ss_pred             H-HhcCCH-------HHHHHHHHHHH
Q 005729          520 L-GEQERW-------EDVKRLLGNMR  537 (680)
Q Consensus       520 ~-~~~g~~-------~~A~~~~~~m~  537 (680)
                      | ...|+.       ++|..++.+..
T Consensus       349 c~~~l~~~~~~~~~~~~a~~l~~~vp  374 (468)
T PF10300_consen  349 CLLMLGREEEAKEHKKEAEELFRKVP  374 (468)
T ss_pred             HHHhhccchhhhhhHHHHHHHHHHHH
Confidence            3 345655       66666666554

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.

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=94.16  E-value=3.2  Score=35.99  Aligned_cols=84  Identities=14%  Similarity=0.139  Sum_probs=41.3

Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC
Q 005729          445 VMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQE  524 (680)
Q Consensus       445 ~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g  524 (680)
                      .++..+...+.......+++.+.+.+ ..+...++.++..|++.+ ..+..+.++.      ..+......+++.|.+.+
T Consensus        12 ~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~~-~~~ll~~l~~------~~~~yd~~~~~~~c~~~~   83 (140)
T smart00299       12 EVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKYD-PQKEIERLDN------KSNHYDIEKVGKLCEKAK   83 (140)
T ss_pred             HHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHHC-HHHHHHHHHh------ccccCCHHHHHHHHHHcC
Confidence            34444444555555666666555544 245555666666665543 2333333331      112233334555555555


Q ss_pred             CHHHHHHHHHHH
Q 005729          525 RWEDVKRLLGNM  536 (680)
Q Consensus       525 ~~~~A~~~~~~m  536 (680)
                      .++++..++.++
T Consensus        84 l~~~~~~l~~k~   95 (140)
T smart00299       84 LYEEAVELYKKD   95 (140)
T ss_pred             cHHHHHHHHHhh
Confidence            555555555544

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=94.04  E-value=6  Score=42.36  Aligned_cols=164  Identities=15%  Similarity=0.130  Sum_probs=97.7

Q ss_pred             HHHHHHHHcCChhHHHHHHHHHHHCC-CCCCH-----HHHHHHHHHHH----hcCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 005729          480 TLIDCHFKCGRYDRAEELFEEMQERG-YFPCT-----TTYNIMINLLG----EQERWEDVKRLLGNMRAQGLLPNVVTYT  549 (680)
Q Consensus       480 ~li~~~~~~g~~~~A~~~~~~m~~~~-~~p~~-----~t~~~li~~~~----~~g~~~~A~~~~~~m~~~~~~p~~~~~~  549 (680)
                      .++....-.|+-+.+++++.+..+.+ +.-..     ..|+.++..++    .....+.|.+++..+.+.  -|+...|.
T Consensus       193 kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~--yP~s~lfl  270 (468)
T PF10300_consen  193 KLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR--YPNSALFL  270 (468)
T ss_pred             HHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh--CCCcHHHH
Confidence            34444444566666666665554432 11111     12333333333    245678888999888875  45655554


Q ss_pred             H-HHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHH
Q 005729          550 T-LVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVT  628 (680)
Q Consensus       550 ~-li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~  628 (680)
                      . -.+.+...|++++|++.++...+    .-..+.+    .....+--+.+.+.-.++|++|.+.|.++.+.. .-+..+
T Consensus       271 ~~~gR~~~~~g~~~~Ai~~~~~a~~----~q~~~~Q----l~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s-~WSka~  341 (468)
T PF10300_consen  271 FFEGRLERLKGNLEEAIESFERAIE----SQSEWKQ----LHHLCYFELAWCHMFQHDWEEAAEYFLRLLKES-KWSKAF  341 (468)
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHhcc----chhhHHh----HHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcc-ccHHHH
Confidence            3 34566778888888888763331    1112222    223456667778888999999999999999743 334455


Q ss_pred             HHHHHH-HHHhcCCc-------CcHHHHHHHHHH
Q 005729          629 YTTLMK-ALIRVDKF-------HKVPAVYEEMIL  654 (680)
Q Consensus       629 ~~~l~~-~~~~~g~~-------~~A~~~~~~m~~  654 (680)
                      |..+.. ++...|+.       ++|.+++++...
T Consensus       342 Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  342 YAYLAAACLLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HHHHHHHHHHhhccchhhhhhHHHHHHHHHHHHH
Confidence            554443 34667777       788888887753

In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=93.93  E-value=8.5  Score=39.42  Aligned_cols=438  Identities=11%  Similarity=0.093  Sum_probs=214.9

Q ss_pred             CchHHHHHHHHHHhcccCCHHHHHHh-hCCCCC---CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCChhhHHHHH
Q 005729          160 YSYELLYSILIHALGRSEKLYEAFLL-SQRQRL---TPLTYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVI  235 (680)
Q Consensus       160 ~~~~~~~~~li~~~~~~g~~~~A~~~-~~~~~~---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll  235 (680)
                      |.+...|-.||.-|...|++++.+++ .+...|   =+.+|..-+.+=...+++.....+|.+.....+.  ...|..-|
T Consensus        39 PtnI~S~fqLiq~~~tq~s~~~~re~yeq~~~pfp~~~~aw~ly~s~ELA~~df~svE~lf~rCL~k~l~--ldLW~lYl  116 (660)
T COG5107          39 PTNILSYFQLIQYLETQESMDAEREMYEQLSSPFPIMEHAWRLYMSGELARKDFRSVESLFGRCLKKSLN--LDLWMLYL  116 (660)
T ss_pred             chhHHHHHHHHHHHhhhhhHHHHHHHHHHhcCCCccccHHHHHHhcchhhhhhHHHHHHHHHHHHhhhcc--HhHHHHHH
Confidence            77788899999999999999998887 443333   3458999999888889999999999999887544  44555555


Q ss_pred             HHHHhcCCCC----hHHHHHHHHHHHh-CCCCcC-HHHHHHHHHHHH---HcCC------HHHHHHHHHHHHhCCCCCCH
Q 005729          236 QSLTRTNKID----SSLLQKLYKEIEC-DKIELD-GQLLNDVIVGFA---KAGD------ASKAMRFLGMAQGVGLSPKT  300 (680)
Q Consensus       236 ~~~~~~g~~~----~~~~~~l~~~~~~-~~~~~~-~~~~~~li~~~~---~~g~------~~~A~~~~~~~~~~g~~p~~  300 (680)
                      .-..+.....    ....-+.|+-... .+++|- ...|+..+...-   ..|.      .+...+.+.+++..-+.-=.
T Consensus       117 ~YIRr~n~~~tGq~r~~i~~ayefv~~~~~~e~~s~~~W~ey~~fle~~~~~~kwEeQqrid~iR~~Y~ral~tP~~nle  196 (660)
T COG5107         117 EYIRRVNNLITGQKRFKIYEAYEFVLGCAIFEPQSENYWDEYGLFLEYIEELGKWEEQQRIDKIRNGYMRALQTPMGNLE  196 (660)
T ss_pred             HHHHhhCcccccchhhhhHHHHHHHHhcccccccccchHHHHHHHHHhccccccHHHHHHHHHHHHHHHHHHcCccccHH
Confidence            4443332111    1122344544433 455443 345555444321   2233      34455556555542110001


Q ss_pred             HHHH------HHHHHHHh-------cCChHHHHHHHHHHHH--cCC----CCCHHHHHHHHH-----------HHHHcC-
Q 005729          301 ATYA------AVITALSN-------SGRTIEAEAVFEELKE--SGL----KPRTKAYNALLK-----------GYVKMG-  349 (680)
Q Consensus       301 ~~~~------~li~~~~~-------~g~~~~A~~l~~~m~~--~g~----~p~~~~~~~li~-----------~~~~~g-  349 (680)
                      ..|+      .=++-...       .--+..|.+.++++..  .|.    +.+..++|-.-+           .-...| 
T Consensus       197 klW~dy~~fE~e~N~~TarKfvge~sp~ym~ar~~yqe~~nlt~Gl~v~~~~~~Rt~nK~~r~s~S~WlNwIkwE~en~l  276 (660)
T COG5107         197 KLWKDYENFELELNKITARKFVGETSPIYMSARQRYQEIQNLTRGLSVKNPINLRTANKAARTSDSNWLNWIKWEMENGL  276 (660)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhcccCHHHHHHHHHHHHHHHHhccccccCchhhhhhccccccccchhhhHhhHhhcCCc
Confidence            1111      11111111       1113345555555532  222    122333332111           111000 


Q ss_pred             ----C-H-HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH-HHHHhcCCHH
Q 005729          350 ----Y-L-KDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRIL-AGYRDRGEWQ  422 (680)
Q Consensus       350 ----~-~-~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll-~~~~~~g~~~  422 (680)
                          + . ....-++++.... +......|----.-+...++-+.|++....-...  .|+   .+..+ ..|--..+-+
T Consensus       277 ~L~~~~~~qRi~y~~~q~~~y-~~~~~evw~dys~Y~~~isd~q~al~tv~rg~~~--sps---L~~~lse~yel~nd~e  350 (660)
T COG5107         277 KLGGRPHEQRIHYIHNQILDY-FYYAEEVWFDYSEYLIGISDKQKALKTVERGIEM--SPS---LTMFLSEYYELVNDEE  350 (660)
T ss_pred             ccCCCcHHHHHHHHHHHHHHH-hhhhHHHHHHHHHHHhhccHHHHHHHHHHhcccC--CCc---hheeHHHHHhhcccHH
Confidence                0 0 0111111111111 0112222322223333445555555544432211  122   22222 2222233333


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHc---------cCCHHHHHHH-HHHHHHCCCCCCHHHHHHHHHHHHHcCChh
Q 005729          423 RTFQVLKEMKSSGVEPDTHFYNVMIDTFGK---------YNCLHHAMAA-FDRMLSEGIEPDTITWNTLIDCHFKCGRYD  492 (680)
Q Consensus       423 ~A~~l~~~m~~~~~~p~~~~~~~li~~~~~---------~g~~~~A~~~-~~~m~~~~~~~~~~~~~~li~~~~~~g~~~  492 (680)
                      .....|+.+.+           .|.+-|.+         -|+.+...++ +.+.     ..-...|...++.-.+..-.+
T Consensus       351 ~v~~~fdk~~q-----------~L~r~ys~~~s~~~s~~D~N~e~~~Ell~kr~-----~k~t~v~C~~~N~v~r~~Gl~  414 (660)
T COG5107         351 AVYGCFDKCTQ-----------DLKRKYSMGESESASKVDNNFEYSKELLLKRI-----NKLTFVFCVHLNYVLRKRGLE  414 (660)
T ss_pred             HHhhhHHHHHH-----------HHHHHHhhhhhhhhccccCCccccHHHHHHHH-----hhhhhHHHHHHHHHHHHhhHH
Confidence            33333333221           01111100         1112111111 1111     123455667777777777788


Q ss_pred             HHHHHHHHHHHCC-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHH-HHHHHHHHHhcCChHHHHHHHhh
Q 005729          493 RAEELFEEMQERG-YFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVT-YTTLVDIYGQSGRFDDAIECLEG  570 (680)
Q Consensus       493 ~A~~~~~~m~~~~-~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~-~~~li~~~~~~g~~~~A~~~~~~  570 (680)
                      .|..+|-+..+.| +.+++..+++++..++. |+..-|..+|+--...  -||... -...+..+...++-..|..+|+.
T Consensus       415 aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~~-~d~~ta~~ifelGl~~--f~d~~~y~~kyl~fLi~inde~naraLFet  491 (660)
T COG5107         415 AARKLFIKLRKEGIVGHHVYIYCAFIEYYAT-GDRATAYNIFELGLLK--FPDSTLYKEKYLLFLIRINDEENARALFET  491 (660)
T ss_pred             HHHHHHHHHhccCCCCcceeeeHHHHHHHhc-CCcchHHHHHHHHHHh--CCCchHHHHHHHHHHHHhCcHHHHHHHHHH
Confidence            8888888888777 56777788888876664 5667778888765553  234333 34556666677777777777763


Q ss_pred             hHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 005729          571 LSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKAL  636 (680)
Q Consensus       571 ~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~  636 (680)
                      .+++....    .      -...|..+|.--.+-|++..|..+-++|.+  +.|-..+.....+-|
T Consensus       492 sv~r~~~~----q------~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e--~~pQen~~evF~Sry  545 (660)
T COG5107         492 SVERLEKT----Q------LKRIYDKMIEYESMVGSLNNVYSLEERFRE--LVPQENLIEVFTSRY  545 (660)
T ss_pred             hHHHHHHh----h------hhHHHHHHHHHHHhhcchHHHHhHHHHHHH--HcCcHhHHHHHHHHH
Confidence            33321110    0      013566666666777888888877777776  455544444444333

>PRK11906 transcriptional regulator; Provisional

Probab=93.90  E-value=5.2  Score=41.52  Aligned_cols=109  Identities=12%  Similarity=0.022  Sum_probs=61.6

Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHhc
Q 005729          526 WEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNL-ALNSLINAFGED  604 (680)
Q Consensus       526 ~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~-~~~~li~~~~~~  604 (680)
                      ..+|.+.-.+..+.+ .-|......+..+..-.|+++.|...|+           +...  +.||.. +|......+...
T Consensus       320 ~~~a~~~A~rAveld-~~Da~a~~~~g~~~~~~~~~~~a~~~f~-----------rA~~--L~Pn~A~~~~~~~~~~~~~  385 (458)
T PRK11906        320 AQKALELLDYVSDIT-TVDGKILAIMGLITGLSGQAKVSHILFE-----------QAKI--HSTDIASLYYYRALVHFHN  385 (458)
T ss_pred             HHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHhhcchhhHHHHHH-----------HHhh--cCCccHHHHHHHHHHHHHc
Confidence            445556666666543 2266666666666666666666655543           2222  456654 555555555557


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCH---HHHHHHHHHHHhcCCcCcHHHHHHH
Q 005729          605 QRDAEAFAVLQYMKENGLKPDV---VTYTTLMKALIRVDKFHKVPAVYEE  651 (680)
Q Consensus       605 g~~~~A~~~~~~m~~~g~~p~~---~~~~~l~~~~~~~g~~~~A~~~~~~  651 (680)
                      |+.++|.+.+++..+  +.|..   .+....++.|+..+ +++|+.+|-+
T Consensus       386 G~~~~a~~~i~~alr--LsP~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~  432 (458)
T PRK11906        386 EKIEEARICIDKSLQ--LEPRRRKAVVIKECVDMYVPNP-LKNNIKLYYK  432 (458)
T ss_pred             CCHHHHHHHHHHHhc--cCchhhHHHHHHHHHHHHcCCc-hhhhHHHHhh
Confidence            777777777777665  44532   33334445565554 5666666544

>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=93.76  E-value=3.6  Score=34.53  Aligned_cols=138  Identities=15%  Similarity=0.213  Sum_probs=65.4

Q ss_pred             HcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHH
Q 005729          277 KAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEF  356 (680)
Q Consensus       277 ~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~  356 (680)
                      -.|..++..++..+....   .+..-||.+|--....-+-+-..++++.+-+   --|.          ..+|++.....
T Consensus        14 ldG~V~qGveii~k~v~S---sni~E~NWvICNiiDaa~C~yvv~~LdsIGk---iFDi----------s~C~NlKrVi~   77 (161)
T PF09205_consen   14 LDGDVKQGVEIIEKTVNS---SNIKEYNWVICNIIDAADCDYVVETLDSIGK---IFDI----------SKCGNLKRVIE   77 (161)
T ss_dssp             HTT-HHHHHHHHHHHHHH---S-HHHHTHHHHHHHHH--HHHHHHHHHHHGG---GS-G----------GG-S-THHHHH
T ss_pred             HhchHHHHHHHHHHHcCc---CCccccceeeeecchhhchhHHHHHHHHHhh---hcCc----------hhhcchHHHHH
Confidence            346666667766665542   3444555555544444443333344333322   1121          12233333333


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 005729          357 VVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGV  436 (680)
Q Consensus       357 ~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~  436 (680)
                      .+-.+-.     +.......++.+.++|+.|+-.+++..+.+ +-.++......+..+|.+.|+..++-+++++..+.|+
T Consensus        78 C~~~~n~-----~se~vD~ALd~lv~~~kkDqLdki~~~l~k-n~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~  151 (161)
T PF09205_consen   78 CYAKRNK-----LSEYVDLALDILVKQGKKDQLDKIYNELKK-NEEINPEFLVKIANAYKKLGNTREANELLKEACEKGL  151 (161)
T ss_dssp             HHHHTT--------HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-
T ss_pred             HHHHhcc-----hHHHHHHHHHHHHHhccHHHHHHHHHHHhh-ccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhch
Confidence            3222211     233444556666777777777777777654 2355666666777777777777777777777766663

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=93.75  E-value=13  Score=41.33  Aligned_cols=168  Identities=12%  Similarity=0.103  Sum_probs=69.7

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHH--
Q 005729          411 ILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEG-IEPDTITWNTLIDCHFK--  487 (680)
Q Consensus       411 ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~-~~~~~~~~~~li~~~~~--  487 (680)
                      ....+.-.|+++.|.+.+-.  ..+...+.+.+...+..|+-.+-.+...   ..+.... -.+....+..||..|.+  
T Consensus       264 Yf~~LlLtgqFE~AI~~L~~--~~~~~~dAVH~AIaL~~~gLL~~~~~~~---~~lls~~~~~~~~ln~arLI~~Y~~~F  338 (613)
T PF04097_consen  264 YFQVLLLTGQFEAAIEFLYR--NEFNRVDAVHFAIALAYYGLLRVSDSSS---APLLSVDPGDPPPLNFARLIGQYTRSF  338 (613)
T ss_dssp             HHHHHHHTT-HHHHHHHHHT----T-HHHHHHHHHHHHHTT---------------------------HHHHHHHHHHTT
T ss_pred             HHHHHHHHhhHHHHHHHHHh--hccCcccHHHHHHHHHHcCCCCCCCccc---cceeeecCCCCCCcCHHHHHHHHHHHH
Confidence            34555667889999988776  2222455555555555443322222211   3222211 01222567788888876  


Q ss_pred             -cCChhHHHHHHHHHHHCCCCCCHHHHHHHH-HHHHhcCCHHHHH-----------HHHHHHHH-CCCCC-CHH---HHH
Q 005729          488 -CGRYDRAEELFEEMQERGYFPCTTTYNIMI-NLLGEQERWEDVK-----------RLLGNMRA-QGLLP-NVV---TYT  549 (680)
Q Consensus       488 -~g~~~~A~~~~~~m~~~~~~p~~~t~~~li-~~~~~~g~~~~A~-----------~~~~~m~~-~~~~p-~~~---~~~  549 (680)
                       ..+..+|.++|--+....-+.....+...+ +.....++++.-.           -++++-.+ .++.. +..   +..
T Consensus       339 ~~td~~~Al~Y~~li~~~~~~~~~~l~~~~l~eLvletref~~LLG~i~~dG~r~~G~i~~~~~Li~~~~~~~~~~~i~~  418 (613)
T PF04097_consen  339 EITDPREALQYLYLICLFKDPEQRNLFHECLRELVLETREFDLLLGDINPDGSRTPGLIERRLSLIKFDDDEDFLREIIE  418 (613)
T ss_dssp             TTT-HHHHHHHHHGGGGS-SCCHHHHHHHHHHHHHHHH--HHHHHEEE-TTS-EEE-HHHHTGGGGT-SSSSHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHcCCchHHHHHHHHHHHHHHccCCHHHHCCCCCCCCccccceeeccccccCCCCcHHHHHHHHH
Confidence             356778888887766543211122222222 2222233222111           11111000 01221 222   223


Q ss_pred             HHHHHHHhcCChHHHHHHHh--hhHHHHHHHHHHHH
Q 005729          550 TLVDIYGQSGRFDDAIECLE--GLSDQAVNAFRVMR  583 (680)
Q Consensus       550 ~li~~~~~~g~~~~A~~~~~--~~~~~a~~~~~~m~  583 (680)
                      ....-+...|++++|+.+|.  +..+.++++.....
T Consensus       419 ~~A~~~e~~g~~~dAi~Ly~La~~~d~vl~lln~~L  454 (613)
T PF04097_consen  419 QAAREAEERGRFEDAILLYHLAEEYDKVLSLLNRLL  454 (613)
T ss_dssp             HHHHHHHHCT-HHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            33455677888888888876  44555555554443

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.

>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins

Probab=93.61  E-value=1.4  Score=39.30  Aligned_cols=120  Identities=16%  Similarity=0.143  Sum_probs=70.6

Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC---hHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHH
Q 005729          526 WEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGR---FDDAIECLEGLSDQAVNAFRVMRTDGLKPSNL-ALNSLINAF  601 (680)
Q Consensus       526 ~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~---~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~-~~~~li~~~  601 (680)
                      ++.|.+..+.-...+ +.|...++.-..++....+   ..++.+    ++++|+.-|++...  +.|+.. ++..+..+|
T Consensus         7 FE~ark~aea~y~~n-P~DadnL~~WG~ALLELAqfk~g~es~~----miedAisK~eeAL~--I~P~~hdAlw~lGnA~   79 (186)
T PF06552_consen    7 FEHARKKAEAAYAKN-PLDADNLTNWGGALLELAQFKQGPESKK----MIEDAISKFEEALK--INPNKHDALWCLGNAY   79 (186)
T ss_dssp             HHHHHHHHHHHHHH--TT-HHHHHHHHHHHHHHHHHS-HHHHHH----HHHHHHHHHHHHHH--H-TT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-cHhHHHHHHHHHHHHHHHhccCcchHHH----HHHHHHHHHHHHHh--cCCchHHHHHHHHHHH
Confidence            344555555443332 2355555555555444433   344443    44567777777776  678874 888888888


Q ss_pred             HhcCC-----------HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCcCcHHHHHHHHHHcCCCCC
Q 005729          602 GEDQR-----------DAEAFAVLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPD  660 (680)
Q Consensus       602 ~~~g~-----------~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd  660 (680)
                      ...+.           +++|.+.|++..+  ..|+..+|+.-+...      ++|.++..++.+++..+.
T Consensus        80 ts~A~l~~d~~~A~~~F~kA~~~FqkAv~--~~P~ne~Y~ksLe~~------~kap~lh~e~~~~~~~~q  141 (186)
T PF06552_consen   80 TSLAFLTPDTAEAEEYFEKATEYFQKAVD--EDPNNELYRKSLEMA------AKAPELHMEIHKQGLGQQ  141 (186)
T ss_dssp             HHHHHH---HHHHHHHHHHHHHHHHHHHH--H-TT-HHHHHHHHHH------HTHHHHHHHHHHSSS---
T ss_pred             HHHHhhcCChHHHHHHHHHHHHHHHHHHh--cCCCcHHHHHHHHHH------HhhHHHHHHHHHHHhhhh
Confidence            65543           5566666666666  689999999887765      468999999888765544

Most mitochondrial proteins are encoded by the nuclear genome, and are synthesised in the cytosol. TOM20 is a general import receptor that binds to mitochondrial pre-sequences in the early step of protein import into the mitochondria [].; GO: 0045040 protein import into mitochondrial outer membrane, 0005742 mitochondrial outer membrane translocase complex; PDB: 1ZU2_A.

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.42  E-value=15  Score=40.74  Aligned_cols=141  Identities=16%  Similarity=0.242  Sum_probs=92.1

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCH
Q 005729          272 IVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYL  351 (680)
Q Consensus       272 i~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~  351 (680)
                      ...+.+.|++++|...|-+-... +.|.     .+|.-|....++.+--.+++.+.+.|+. +...-..|+.+|.+.++.
T Consensus       375 gd~Ly~Kgdf~~A~~qYI~tI~~-le~s-----~Vi~kfLdaq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~  447 (933)
T KOG2114|consen  375 GDYLYGKGDFDEATDQYIETIGF-LEPS-----EVIKKFLDAQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDV  447 (933)
T ss_pred             HHHHHhcCCHHHHHHHHHHHccc-CChH-----HHHHHhcCHHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcch
Confidence            34456789999999888765542 2232     3566667777777788888888888874 555667789999999998


Q ss_pred             HHHHHHHHHHHHCCCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 005729          352 KDAEFVVSEMERSGVL-PDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKE  430 (680)
Q Consensus       352 ~~A~~~~~~m~~~g~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~  430 (680)
                      +.-.++.+... .|.. .|   ....+..+.+.+-.++|..+-.....     +......   .+-..+++++|++.+..
T Consensus       448 ~kL~efI~~~~-~g~~~fd---~e~al~Ilr~snyl~~a~~LA~k~~~-----he~vl~i---lle~~~ny~eAl~yi~s  515 (933)
T KOG2114|consen  448 EKLTEFISKCD-KGEWFFD---VETALEILRKSNYLDEAELLATKFKK-----HEWVLDI---LLEDLHNYEEALRYISS  515 (933)
T ss_pred             HHHHHHHhcCC-Ccceeee---HHHHHHHHHHhChHHHHHHHHHHhcc-----CHHHHHH---HHHHhcCHHHHHHHHhc
Confidence            88777776655 3322 12   23455666666777777665554432     2233332   34456778888887776


Q ss_pred             H
Q 005729          431 M  431 (680)
Q Consensus       431 m  431 (680)
                      |
T Consensus       516 l  516 (933)
T KOG2114|consen  516 L  516 (933)
T ss_pred             C
Confidence            5

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=93.26  E-value=0.91  Score=44.02  Aligned_cols=79  Identities=25%  Similarity=0.309  Sum_probs=68.9

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCcCcHHHHHHHHHH-----cCCCCCHHHHH
Q 005729          592 LALNSLINAFGEDQRDAEAFAVLQYMKENGLKP-DVVTYTTLMKALIRVDKFHKVPAVYEEMIL-----SGCTPDRKARA  665 (680)
Q Consensus       592 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~-----~g~~pd~~~~~  665 (680)
                      .++..++..+...|+.+.+...+++..+.  .| |...|..++.+|.+.|+...|+..|+.+.+     .|+.|-..++.
T Consensus       154 ~~l~~lae~~~~~~~~~~~~~~l~~Li~~--dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~  231 (280)
T COG3629         154 KALTKLAEALIACGRADAVIEHLERLIEL--DPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRA  231 (280)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhc--CccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHH
Confidence            35777888999999999999999999984  45 888999999999999999999999998875     69999999988


Q ss_pred             HHHHHHH
Q 005729          666 MLRSALR  672 (680)
Q Consensus       666 ~l~~a~~  672 (680)
                      ...++++
T Consensus       232 ~y~~~~~  238 (280)
T COG3629         232 LYEEILR  238 (280)
T ss_pred             HHHHHhc
Confidence            8887754

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.13  E-value=7.5  Score=38.19  Aligned_cols=117  Identities=10%  Similarity=0.009  Sum_probs=60.5

Q ss_pred             HcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC---CCCCCHHHHHHHHHHHHccCCHHH
Q 005729          382 NAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSS---GVEPDTHFYNVMIDTFGKYNCLHH  458 (680)
Q Consensus       382 ~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~---~~~p~~~~~~~li~~~~~~g~~~~  458 (680)
                      .+|+..+|-..++++.+. .+.|...+...=.+|.-.|+.+.....++++.-.   +++..+....+..-++..+|-+++
T Consensus       115 ~~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~wn~dlp~~sYv~GmyaFgL~E~g~y~d  193 (491)
T KOG2610|consen  115 GRGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIYDD  193 (491)
T ss_pred             ccccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccchh
Confidence            355666666666666543 3445555555556666666666655555555432   111112222233333445566666


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHH
Q 005729          459 AMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEE  500 (680)
Q Consensus       459 A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  500 (680)
                      |++.-++..+.+ +.|...-.++...+-..|++.++.+...+
T Consensus       194 AEk~A~ralqiN-~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~  234 (491)
T KOG2610|consen  194 AEKQADRALQIN-RFDCWASHAKAHVLEMNGRHKEGKEFMYK  234 (491)
T ss_pred             HHHHHHhhccCC-CcchHHHHHHHHHHHhcchhhhHHHHHHh
Confidence            666665555443 33444555555555556666666655544

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=93.05  E-value=11  Score=37.98  Aligned_cols=302  Identities=15%  Similarity=0.095  Sum_probs=187.9

Q ss_pred             HHHHHHHHHHHH--cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH--HHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 005729          336 KAYNALLKGYVK--MGYLKDAEFVVSEMERSGVLPDEHTYSLLIDA--YANAGRWESARIVLKEMEVSHAKPNSFIYSRI  411 (680)
Q Consensus       336 ~~~~~li~~~~~--~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~--~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~l  411 (680)
                      ..|..|-.++..  .|+-..|.++-.+-.+. +.-|....-.|+.+  -.-.|+++.|.+-|+.|... +..-..-+..|
T Consensus        83 rgyqALStGliAagAGda~lARkmt~~~~~l-lssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~d-PEtRllGLRgL  160 (531)
T COG3898          83 RGYQALSTGLIAAGAGDASLARKMTARASKL-LSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLDD-PETRLLGLRGL  160 (531)
T ss_pred             hHHHHHhhhhhhhccCchHHHHHHHHHHHhh-hhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhcC-hHHHHHhHHHH
Confidence            445555555544  46777777766554421 12244443334433  33479999999999999852 11111122333


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCC-CCCCHHH--HHHHHHHHHH-
Q 005729          412 LAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEG-IEPDTIT--WNTLIDCHFK-  487 (680)
Q Consensus       412 l~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~-~~~~~~~--~~~li~~~~~-  487 (680)
                      .-.-.+.|+.+.|.+.-+..-..- +--...+...+...|..|+++.|+++.+.-.... +.++..-  -..|+.+-.. 
T Consensus       161 yleAqr~GareaAr~yAe~Aa~~A-p~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s  239 (531)
T COG3898         161 YLEAQRLGAREAARHYAERAAEKA-PQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMS  239 (531)
T ss_pred             HHHHHhcccHHHHHHHHHHHHhhc-cCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHH
Confidence            344467889999988888766543 3345678889999999999999999998766432 3344321  2223332211 


Q ss_pred             --cCChhHHHHHHHHHHHCCCCCCHHH-HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHH
Q 005729          488 --CGRYDRAEELFEEMQERGYFPCTTT-YNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDA  564 (680)
Q Consensus       488 --~g~~~~A~~~~~~m~~~~~~p~~~t-~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A  564 (680)
                        .-+...|...-.+..+.  .|+... -..-..++.+.|+..++-.+++.+-+....|+  +...++  +.+.|+..  
T Consensus       240 ~ldadp~~Ar~~A~~a~KL--~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~ePHP~--ia~lY~--~ar~gdta--  311 (531)
T COG3898         240 LLDADPASARDDALEANKL--APDLVPAAVVAARALFRDGNLRKGSKILETAWKAEPHPD--IALLYV--RARSGDTA--  311 (531)
T ss_pred             HhcCChHHHHHHHHHHhhc--CCccchHHHHHHHHHHhccchhhhhhHHHHHHhcCCChH--HHHHHH--HhcCCCcH--
Confidence              23455566555555443  455433 33345678999999999999999999754444  333322  34555432  


Q ss_pred             HHHHhhhHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc-CCc
Q 005729          565 IECLEGLSDQAVNAFRVMRTDGLKPSN-LALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALIRV-DKF  642 (680)
Q Consensus       565 ~~~~~~~~~~a~~~~~~m~~~g~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~-g~~  642 (680)
                      +.-++    .    .+++..  ++||. .....+..+-...|++..|..--+....  ..|....|..|.+.-... |+-
T Consensus       312 ~dRlk----R----a~~L~s--lk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r--~~pres~~lLlAdIeeAetGDq  379 (531)
T COG3898         312 LDRLK----R----AKKLES--LKPNNAESSLAVAEAALDAGEFSAARAKAEAAAR--EAPRESAYLLLADIEEAETGDQ  379 (531)
T ss_pred             HHHHH----H----HHHHHh--cCccchHHHHHHHHHHHhccchHHHHHHHHHHhh--hCchhhHHHHHHHHHhhccCch
Confidence            22211    1    112222  34554 4667777888889999998887776666  678889999888876544 999


Q ss_pred             CcHHHHHHHHHHcCCCCC
Q 005729          643 HKVPAVYEEMILSGCTPD  660 (680)
Q Consensus       643 ~~A~~~~~~m~~~g~~pd  660 (680)
                      .++..++-+.++.--.|+
T Consensus       380 g~vR~wlAqav~APrdPa  397 (531)
T COG3898         380 GKVRQWLAQAVKAPRDPA  397 (531)
T ss_pred             HHHHHHHHHHhcCCCCCc
Confidence            999999998887544443

>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=93.03  E-value=1.8  Score=45.60  Aligned_cols=130  Identities=17%  Similarity=0.127  Sum_probs=62.3

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Q 005729          268 LNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVK  347 (680)
Q Consensus       268 ~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~  347 (680)
                      .+.++..+-+.|.++.|+++...         ..   .-.....+.|+++.|.++.++.      .+...|..|.+...+
T Consensus       298 ~~~i~~fL~~~G~~e~AL~~~~D---------~~---~rFeLAl~lg~L~~A~~~a~~~------~~~~~W~~Lg~~AL~  359 (443)
T PF04053_consen  298 GQSIARFLEKKGYPELALQFVTD---------PD---HRFELALQLGNLDIALEIAKEL------DDPEKWKQLGDEALR  359 (443)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHSS----------HH---HHHHHHHHCT-HHHHHHHCCCC------STHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHhhcCC---------hH---HHhHHHHhcCCHHHHHHHHHhc------CcHHHHHHHHHHHHH
Confidence            44555555555666666555321         11   2233444555555555543322      244566666666666


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 005729          348 MGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQV  427 (680)
Q Consensus       348 ~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l  427 (680)
                      +|+++-|++.|.+..+         +..|+-.|.-.|+.+...++.+.....|.      ++....++.-.|+.++..++
T Consensus       360 ~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~~~~~------~n~af~~~~~lgd~~~cv~l  424 (443)
T PF04053_consen  360 QGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAEERGD------INIAFQAALLLGDVEECVDL  424 (443)
T ss_dssp             TTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHTT-------HHHHHHHHHHHT-HHHHHHH
T ss_pred             cCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHHHccC------HHHHHHHHHHcCCHHHHHHH
Confidence            6666666666655442         33444555555665555555555444431      34444444445555555544


Q ss_pred             HHH
Q 005729          428 LKE  430 (680)
Q Consensus       428 ~~~  430 (680)
                      +.+
T Consensus       425 L~~  427 (443)
T PF04053_consen  425 LIE  427 (443)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            443

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.

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=92.98  E-value=8.1  Score=36.29  Aligned_cols=85  Identities=18%  Similarity=0.164  Sum_probs=41.5

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCCChHHHHHHHHHHHhCCCCcCHHHHHHHHHH
Q 005729          195 TYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVG  274 (680)
Q Consensus       195 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~~~li~~  274 (680)
                      .|..-..+|...+++++|-..+.+..+. ..-+...|. ..+++-        .+-.+.+++.+  ++--+..++....+
T Consensus        33 ~yekAAvafRnAk~feKakdcLlkA~~~-yEnnrslfh-AAKayE--------qaamLake~~k--lsEvvdl~eKAs~l  100 (308)
T KOG1585|consen   33 LYEKAAVAFRNAKKFEKAKDCLLKASKG-YENNRSLFH-AAKAYE--------QAAMLAKELSK--LSEVVDLYEKASEL  100 (308)
T ss_pred             HHHHHHHHHHhhccHHHHHHHHHHHHHH-HHhcccHHH-HHHHHH--------HHHHHHHHHHH--hHHHHHHHHHHHHH
Confidence            4556666777777777777766665532 111111111 111111        11122222221  11223455666667


Q ss_pred             HHHcCCHHHHHHHHHHH
Q 005729          275 FAKAGDASKAMRFLGMA  291 (680)
Q Consensus       275 ~~~~g~~~~A~~~~~~~  291 (680)
                      |..+|.++.|-..+++.
T Consensus       101 Y~E~GspdtAAmaleKA  117 (308)
T KOG1585|consen  101 YVECGSPDTAAMALEKA  117 (308)
T ss_pred             HHHhCCcchHHHHHHHH
Confidence            77777777766666544

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=92.81  E-value=4.1  Score=34.10  Aligned_cols=91  Identities=21%  Similarity=0.192  Sum_probs=64.9

Q ss_pred             HHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH---HHHHHHHHHHHHcCC
Q 005729          274 GFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRT---KAYNALLKGYVKMGY  350 (680)
Q Consensus       274 ~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~---~~~~~li~~~~~~g~  350 (680)
                      +....|+++.|++.|.+.+.. .+.....||.-..++.-.|+.++|++=+++..+..-....   ..|..-...|...|+
T Consensus        52 alaE~g~Ld~AlE~F~qal~l-~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~  130 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALCL-APERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGN  130 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHh-cccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCc
Confidence            566788899999988887764 2346778888888888888888888888887664322121   234444455677788


Q ss_pred             HHHHHHHHHHHHHCC
Q 005729          351 LKDAEFVVSEMERSG  365 (680)
Q Consensus       351 ~~~A~~~~~~m~~~g  365 (680)
                      .+.|..-|+..-+.|
T Consensus       131 dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  131 DDAARADFEAAAQLG  145 (175)
T ss_pred             hHHHHHhHHHHHHhC
Confidence            888888888877766

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=92.73  E-value=9.3  Score=36.34  Aligned_cols=167  Identities=11%  Similarity=0.049  Sum_probs=85.8

Q ss_pred             HHcCChhHHHHHHHHHHHCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHH
Q 005729          486 FKCGRYDRAEELFEEMQERG--YFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDD  563 (680)
Q Consensus       486 ~~~g~~~~A~~~~~~m~~~~--~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~  563 (680)
                      .+.|++++|.+.|+.+....  -+-...+...++-++-+.+++++|....++..+........-|...+.+++..-.++.
T Consensus        45 L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~YlkgLs~~~~i~~  124 (254)
T COG4105          45 LQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYYLKGLSYFFQIDD  124 (254)
T ss_pred             HhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHHHHHHHHhccCCc
Confidence            35566666666666665431  1122334444555555666666666666666554222122223333333332111111


Q ss_pred             HHHHHhhhHHHHHHHHHHHHHC----CCCCCHHH------------HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH-
Q 005729          564 AIECLEGLSDQAVNAFRVMRTD----GLKPSNLA------------LNSLINAFGEDQRDAEAFAVLQYMKENGLKPDV-  626 (680)
Q Consensus       564 A~~~~~~~~~~a~~~~~~m~~~----g~~p~~~~------------~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-  626 (680)
                      ..+-- ....+|..-|+...+.    ...||...            =..+.+-|.+.|.+-.|..-+++|++. .+-.. 
T Consensus       125 ~~rDq-~~~~~A~~~f~~~i~ryPnS~Ya~dA~~~i~~~~d~LA~~Em~IaryY~kr~~~~AA~nR~~~v~e~-y~~t~~  202 (254)
T COG4105         125 VTRDQ-SAARAAFAAFKELVQRYPNSRYAPDAKARIVKLNDALAGHEMAIARYYLKRGAYVAAINRFEEVLEN-YPDTSA  202 (254)
T ss_pred             cccCH-HHHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHhc-cccccc
Confidence            00000 1111222223333332    11222211            134567789999999999999999985 33233 


Q ss_pred             --HHHHHHHHHHHhcCCcCcHHHHHHHHHH
Q 005729          627 --VTYTTLMKALIRVDKFHKVPAVYEEMIL  654 (680)
Q Consensus       627 --~~~~~l~~~~~~~g~~~~A~~~~~~m~~  654 (680)
                        ..+-.+..+|.+.|-.++|...-+-+-.
T Consensus       203 ~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~  232 (254)
T COG4105         203 VREALARLEEAYYALGLTDEAKKTAKVLGA  232 (254)
T ss_pred             hHHHHHHHHHHHHHhCChHHHHHHHHHHHh
Confidence              3455667889999998888877655543

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=92.59  E-value=8.8  Score=35.74  Aligned_cols=203  Identities=14%  Similarity=0.111  Sum_probs=103.1

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 005729          335 TKAYNALLKGYVKMGYLKDAEFVVSEMERS-GVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILA  413 (680)
Q Consensus       335 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~  413 (680)
                      ...+......+...+.+..+...+...... ........+..+...+...++...+.+.+.........+ .........
T Consensus        59 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~  137 (291)
T COG0457          59 AGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDP-DLAEALLAL  137 (291)
T ss_pred             hHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCc-chHHHHHHH
Confidence            344555555555566666665555555431 112234445555555555555666666666555433222 111111222


Q ss_pred             -HHHhcCCHHHHHHHHHHHHHCCC--CCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC
Q 005729          414 -GYRDRGEWQRTFQVLKEMKSSGV--EPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGR  490 (680)
Q Consensus       414 -~~~~~g~~~~A~~l~~~m~~~~~--~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~  490 (680)
                       .+...|+++.+...+.+......  ......+......+...++.+.+...+..............+..+...+...++
T Consensus       138 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  217 (291)
T COG0457         138 GALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEALLNLGLLYLKLGK  217 (291)
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhCcccchHHHHHhhHHHHHccc
Confidence             55666666666666666543210  012233333333345566666666666666654311134556666666666666


Q ss_pred             hhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 005729          491 YDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQ  539 (680)
Q Consensus       491 ~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~  539 (680)
                      ++.|...+....... +.....+..+...+...+..+++...+.+....
T Consensus       218 ~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  265 (291)
T COG0457         218 YEEALEYYEKALELD-PDNAEALYNLALLLLELGRYEEALEALEKALEL  265 (291)
T ss_pred             HHHHHHHHHHHHhhC-cccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            777777776666543 111333333333334555666666666666654

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.42  E-value=3.2  Score=40.68  Aligned_cols=151  Identities=12%  Similarity=0.043  Sum_probs=103.3

Q ss_pred             HcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH----HHHHHHHHHHHHcCCHH
Q 005729          277 KAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRT----KAYNALLKGYVKMGYLK  352 (680)
Q Consensus       277 ~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~----~~~~~li~~~~~~g~~~  352 (680)
                      -.|+..+|...++++++. .+.|..+++..=++|.-+|+.+.-...++++... ..+|.    .+-..+.-++..+|-++
T Consensus       115 ~~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~-wn~dlp~~sYv~GmyaFgL~E~g~y~  192 (491)
T KOG2610|consen  115 GRGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK-WNADLPCYSYVHGMYAFGLEECGIYD  192 (491)
T ss_pred             ccccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccc-cCCCCcHHHHHHHHHHhhHHHhccch
Confidence            457788888888887764 4567778888888888899988888888887753 12333    33344455566789999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC---CCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 005729          353 DAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAK---PNSFIYSRILAGYRDRGEWQRTFQVLK  429 (680)
Q Consensus       353 ~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~---~~~~~~~~ll~~~~~~g~~~~A~~l~~  429 (680)
                      +|++.-++..+.+ +.|.-.-.++.+.+--.|+..++.+.+.+-...--.   .-.+-|-...-.+...+.++.|+++|+
T Consensus       193 dAEk~A~ralqiN-~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD  271 (491)
T KOG2610|consen  193 DAEKQADRALQIN-RFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYD  271 (491)
T ss_pred             hHHHHHHhhccCC-CcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHH
Confidence            9999888888765 446666777788888889999988877654321100   011222233344566688888888887


Q ss_pred             H
Q 005729          430 E  430 (680)
Q Consensus       430 ~  430 (680)
                      .
T Consensus       272 ~  272 (491)
T KOG2610|consen  272 R  272 (491)
T ss_pred             H
Confidence            6

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=92.05  E-value=14  Score=36.83  Aligned_cols=162  Identities=16%  Similarity=0.137  Sum_probs=84.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCC---CHHHHHHHHHHHHccCCHHHHHHHHHHHHHCC-----CCCCHHHH
Q 005729          408 YSRILAGYRDRGEWQRTFQVLKEMKSS-GVEP---DTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEG-----IEPDTITW  478 (680)
Q Consensus       408 ~~~ll~~~~~~g~~~~A~~l~~~m~~~-~~~p---~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~-----~~~~~~~~  478 (680)
                      |..+.+++.+..++.+++.+-..-... |..|   .-....++..++...+.++++++.|+...+..     .......+
T Consensus        86 ~lnlar~~e~l~~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvc  165 (518)
T KOG1941|consen   86 YLNLARSNEKLCEFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVC  165 (518)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehh
Confidence            334444444444555555444433221 1111   11223345555666666777777776655421     11123456


Q ss_pred             HHHHHHHHHcCChhHHHHHHHHHHHC----CCCCCHHHHH-----HHHHHHHhcCCHHHHHHHHHHHHHC----CCCC-C
Q 005729          479 NTLIDCHFKCGRYDRAEELFEEMQER----GYFPCTTTYN-----IMINLLGEQERWEDVKRLLGNMRAQ----GLLP-N  544 (680)
Q Consensus       479 ~~li~~~~~~g~~~~A~~~~~~m~~~----~~~p~~~t~~-----~li~~~~~~g~~~~A~~~~~~m~~~----~~~p-~  544 (680)
                      -.|-..|.+..++++|.-+..+..+.    ++.--..-|.     .|.-++...|+.-.|.+..++..+.    |-.+ .
T Consensus       166 v~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~  245 (518)
T KOG1941|consen  166 VSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQ  245 (518)
T ss_pred             hhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHH
Confidence            66777777777777776665554321    2111112222     2334556677777777766665442    3322 2


Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHh
Q 005729          545 VVTYTTLVDIYGQSGRFDDAIECLE  569 (680)
Q Consensus       545 ~~~~~~li~~~~~~g~~~~A~~~~~  569 (680)
                      ......+.+.|...|+.+.|+.-|+
T Consensus       246 arc~~~~aDIyR~~gd~e~af~rYe  270 (518)
T KOG1941|consen  246 ARCLLCFADIYRSRGDLERAFRRYE  270 (518)
T ss_pred             HHHHHHHHHHHHhcccHhHHHHHHH
Confidence            3445667788888888888776665

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=91.88  E-value=18  Score=37.80  Aligned_cols=96  Identities=13%  Similarity=0.163  Sum_probs=48.9

Q ss_pred             CCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHH
Q 005729          438 PDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMI  517 (680)
Q Consensus       438 p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li  517 (680)
                      .|.....+++..++.+-.+.-.+.+-.+|...|  -+-..|..++++|..+ ..++-..+|+++.+..+ .|++.-..|.
T Consensus        64 l~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~df-nDvv~~ReLa  139 (711)
T COG1747          64 LDDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEYDF-NDVVIGRELA  139 (711)
T ss_pred             ccchHHHHHHHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcc-hhHHHHHHHH
Confidence            344555555566665555555555656665543  3444555566666555 34555556665555542 2222223333


Q ss_pred             HHHHhcCCHHHHHHHHHHHHH
Q 005729          518 NLLGEQERWEDVKRLLGNMRA  538 (680)
Q Consensus       518 ~~~~~~g~~~~A~~~~~~m~~  538 (680)
                      ..|.+ ++...+..+|.++..
T Consensus       140 ~~yEk-ik~sk~a~~f~Ka~y  159 (711)
T COG1747         140 DKYEK-IKKSKAAEFFGKALY  159 (711)
T ss_pred             HHHHH-hchhhHHHHHHHHHH
Confidence            33333 555555555555544

>PRK11906 transcriptional regulator; Provisional

Probab=91.87  E-value=13  Score=38.60  Aligned_cols=109  Identities=15%  Similarity=0.117  Sum_probs=74.6

Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 005729          455 CLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLG  534 (680)
Q Consensus       455 ~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~  534 (680)
                      +..+|.+.-++..+.+ +.|......+..++...++++.|..+|++....+ +....+|......+...|+.++|.+.++
T Consensus       319 ~~~~a~~~A~rAveld-~~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L~-Pn~A~~~~~~~~~~~~~G~~~~a~~~i~  396 (458)
T PRK11906        319 AAQKALELLDYVSDIT-TVDGKILAIMGLITGLSGQAKVSHILFEQAKIHS-TDIASLYYYRALVHFHNEKIEEARICID  396 (458)
T ss_pred             HHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHhhcchhhHHHHHHHHhhcC-CccHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            4556667777777766 4577777777777777888999999999888775 4445666666667777899999999888


Q ss_pred             HHHHCCCCCC---HHHHHHHHHHHHhcCChHHHHHHH
Q 005729          535 NMRAQGLLPN---VVTYTTLVDIYGQSGRFDDAIECL  568 (680)
Q Consensus       535 ~m~~~~~~p~---~~~~~~li~~~~~~g~~~~A~~~~  568 (680)
                      +..+.  .|.   ..+....++.|+..+ +++|++++
T Consensus       397 ~alrL--sP~~~~~~~~~~~~~~~~~~~-~~~~~~~~  430 (458)
T PRK11906        397 KSLQL--EPRRRKAVVIKECVDMYVPNP-LKNNIKLY  430 (458)
T ss_pred             HHhcc--CchhhHHHHHHHHHHHHcCCc-hhhhHHHH
Confidence            87764  342   223334445666553 55666554

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=91.87  E-value=14  Score=36.60  Aligned_cols=21  Identities=14%  Similarity=0.227  Sum_probs=10.8

Q ss_pred             HHHHHHHHhCCCCCCHHHHHH
Q 005729          285 MRFLGMAQGVGLSPKTATYAA  305 (680)
Q Consensus       285 ~~~~~~~~~~g~~p~~~~~~~  305 (680)
                      +++++.|.+.|+..+..+|-+
T Consensus        82 ~~~y~~L~~~gFk~~~y~~la  102 (297)
T PF13170_consen   82 LDIYEKLKEAGFKRSEYLYLA  102 (297)
T ss_pred             HHHHHHHHHhccCccChHHHH
Confidence            344555555555555544443

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=91.85  E-value=6.6  Score=32.91  Aligned_cols=91  Identities=16%  Similarity=0.037  Sum_probs=49.3

Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHH---HHHHHHHHHHHcCC
Q 005729          309 ALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEH---TYSLLIDAYANAGR  385 (680)
Q Consensus       309 ~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~---~~~~li~~~~~~g~  385 (680)
                      ++...|+.+.|++.|.+.+.. .+.+...||.-..++.-.|+.++|.+-+++..+..-.....   .|..-...|-..|+
T Consensus        52 alaE~g~Ld~AlE~F~qal~l-~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~  130 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALCL-APERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGN  130 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHh-cccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCc
Confidence            455667777777777666654 23456667777777777777777766666665432111211   12222233444555


Q ss_pred             HHHHHHHHHHHHHCC
Q 005729          386 WESARIVLKEMEVSH  400 (680)
Q Consensus       386 ~~~A~~~~~~m~~~~  400 (680)
                      .+.|..-|+..-+.|
T Consensus       131 dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  131 DDAARADFEAAAQLG  145 (175)
T ss_pred             hHHHHHhHHHHHHhC
Confidence            555555555544433

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=91.65  E-value=14  Score=35.95  Aligned_cols=140  Identities=10%  Similarity=0.072  Sum_probs=59.8

Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHH
Q 005729          417 DRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEE  496 (680)
Q Consensus       417 ~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  496 (680)
                      ..|++.+|..+|+...+.. +-+...-..++.+|...|+.+.|..++..+...--.........-|..+.+.....+...
T Consensus       146 ~~e~~~~a~~~~~~al~~~-~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~~~~~  224 (304)
T COG3118         146 EAEDFGEAAPLLKQALQAA-PENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATPEIQD  224 (304)
T ss_pred             hccchhhHHHHHHHHHHhC-cccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCCCHHH
Confidence            3444444444444444332 222334444455555555555555555544322111111111112233333333333333


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC--CCCCCHHHHHHHHHHHHhcCC
Q 005729          497 LFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQ--GLLPNVVTYTTLVDIYGQSGR  560 (680)
Q Consensus       497 ~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~--~~~p~~~~~~~li~~~~~~g~  560 (680)
                      +-.+.-..  +-|...-..+...+...|+.+.|.+.+-.+++.  |.. |...-..|++.+.-.|.
T Consensus       225 l~~~~aad--Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~-d~~~Rk~lle~f~~~g~  287 (304)
T COG3118         225 LQRRLAAD--PDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFE-DGEARKTLLELFEAFGP  287 (304)
T ss_pred             HHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccc-CcHHHHHHHHHHHhcCC
Confidence            33333221  224445555555566666666666555555443  222 34444555555555553

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=91.63  E-value=4  Score=39.06  Aligned_cols=104  Identities=17%  Similarity=0.245  Sum_probs=74.7

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHC----CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-C
Q 005729          547 TYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTD----GLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKEN-G  621 (680)
Q Consensus       547 ~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~----g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-g  621 (680)
                      .|+.-++.| +.|++.+|...|.           ...+.    -..|+  .+--|..++...|++++|..+|..+.+. +
T Consensus       144 ~Y~~A~~~~-ksgdy~~A~~~F~-----------~fi~~YP~s~~~~n--A~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P  209 (262)
T COG1729         144 LYNAALDLY-KSGDYAEAEQAFQ-----------AFIKKYPNSTYTPN--AYYWLGESLYAQGDYEDAAYIFARVVKDYP  209 (262)
T ss_pred             HHHHHHHHH-HcCCHHHHHHHHH-----------HHHHcCCCCcccch--hHHHHHHHHHhcccchHHHHHHHHHHHhCC
Confidence            466555544 5677877776654           44443    22233  3445899999999999999999999863 2


Q ss_pred             CCC-CHHHHHHHHHHHHhcCCcCcHHHHHHHHHHcCCCCCHHHHHH
Q 005729          622 LKP-DVVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPDRKARAM  666 (680)
Q Consensus       622 ~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd~~~~~~  666 (680)
                      -.| -+..+..|.....+.|+.++|..+|+++++.  .|+...-..
T Consensus       210 ~s~KApdallKlg~~~~~l~~~d~A~atl~qv~k~--YP~t~aA~~  253 (262)
T COG1729         210 KSPKAPDALLKLGVSLGRLGNTDEACATLQQVIKR--YPGTDAAKL  253 (262)
T ss_pred             CCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHH--CCCCHHHHH
Confidence            223 3477888889999999999999999999986  666655433

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=91.61  E-value=11  Score=34.93  Aligned_cols=224  Identities=18%  Similarity=0.130  Sum_probs=151.0

Q ss_pred             cCCHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHhcCChHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHHcCCHHHHH
Q 005729          278 AGDASKAMRFLGMAQGVGLS-PKTATYAAVITALSNSGRTIEAEAVFEELKES-GLKPRTKAYNALLKGYVKMGYLKDAE  355 (680)
Q Consensus       278 ~g~~~~A~~~~~~~~~~g~~-p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~-g~~p~~~~~~~li~~~~~~g~~~~A~  355 (680)
                      .+....+...+......... .....+......+...+.+..+...+...... ........+......+...+++..+.
T Consensus        36 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  115 (291)
T COG0457          36 LGELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEAL  115 (291)
T ss_pred             HhhHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHH
Confidence            34555566665555543211 13566777778888888888888888777652 23445566677777777788888888


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHH-HHHHcCCHHHHHHHHHHHHHCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 005729          356 FVVSEMERSGVLPDEHTYSLLID-AYANAGRWESARIVLKEMEVSHA--KPNSFIYSRILAGYRDRGEWQRTFQVLKEMK  432 (680)
Q Consensus       356 ~~~~~m~~~g~~~~~~~~~~li~-~~~~~g~~~~A~~~~~~m~~~~~--~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~  432 (680)
                      ..+.........+ ......... .+...|+++.|...+.+......  ......+......+...++.+.+...+....
T Consensus       116 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~  194 (291)
T COG0457         116 ELLEKALALDPDP-DLAEALLALGALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKAL  194 (291)
T ss_pred             HHHHHHHcCCCCc-chHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHH
Confidence            8888887654332 222223333 68888999999999888855221  1233444445555677888999999988887


Q ss_pred             HCCCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHHcCChhHHHHHHHHHHHCC
Q 005729          433 SSGVEP-DTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPD-TITWNTLIDCHFKCGRYDRAEELFEEMQERG  505 (680)
Q Consensus       433 ~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  505 (680)
                      ... .. ....+..+...+...++.+.+...+.......  ++ ...+..+...+...+..+.+...+.+.....
T Consensus       195 ~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  266 (291)
T COG0457         195 KLN-PDDDAEALLNLGLLYLKLGKYEEALEYYEKALELD--PDNAEALYNLALLLLELGRYEEALEALEKALELD  266 (291)
T ss_pred             hhC-cccchHHHHHhhHHHHHcccHHHHHHHHHHHHhhC--cccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            653 23 46778888888888889999999999888753  33 3445555555557777899998888887764

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=91.57  E-value=2.1  Score=41.60  Aligned_cols=78  Identities=18%  Similarity=0.189  Sum_probs=49.7

Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-----CCCCCCHHHHHH
Q 005729          476 ITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRA-----QGLLPNVVTYTT  550 (680)
Q Consensus       476 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~-----~~~~p~~~~~~~  550 (680)
                      .++..++..+..+|+.+.+.+.++++.+.. +-+...|..+|.+|.+.|+...|...|+.+.+     .|+.|...+...
T Consensus       154 ~~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~  232 (280)
T COG3629         154 KALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRAL  232 (280)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHH
Confidence            345556666666666666666666666665 55666666677777777766666666666544     366666666555


Q ss_pred             HHHH
Q 005729          551 LVDI  554 (680)
Q Consensus       551 li~~  554 (680)
                      +...
T Consensus       233 y~~~  236 (280)
T COG3629         233 YEEI  236 (280)
T ss_pred             HHHH
Confidence            5544

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=91.55  E-value=14  Score=35.88  Aligned_cols=52  Identities=13%  Similarity=0.173  Sum_probs=22.9

Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 005729          310 LSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEME  362 (680)
Q Consensus       310 ~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~  362 (680)
                      ....|++.+|..+|....... +-+...--.+..+|...|+.+.|..++..+.
T Consensus       144 ~~~~e~~~~a~~~~~~al~~~-~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP  195 (304)
T COG3118         144 LIEAEDFGEAAPLLKQALQAA-PENSEAKLLLAECLLAAGDVEAAQAILAALP  195 (304)
T ss_pred             hhhccchhhHHHHHHHHHHhC-cccchHHHHHHHHHHHcCChHHHHHHHHhCc
Confidence            344445555555554444432 1122333334444445555555555544443

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.47  E-value=9.6  Score=35.57  Aligned_cols=96  Identities=17%  Similarity=0.218  Sum_probs=50.8

Q ss_pred             HhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc-CCHHHHHHHHHHHHHC--CCCCCHHH---H
Q 005729          556 GQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGED-QRDAEAFAVLQYMKEN--GLKPDVVT---Y  629 (680)
Q Consensus       556 ~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~-g~~~~A~~~~~~m~~~--g~~p~~~~---~  629 (680)
                      .+.+++.+|.++++    .|+++|..|-+-  ..-...+..+...|-.. .+++.|+..|++.-+.  |-..+...   +
T Consensus        84 ykk~~~~eAv~cL~----~aieIyt~~Grf--~~aAk~~~~iaEiyEsdl~d~ekaI~~YE~Aae~yk~ees~ssANKC~  157 (288)
T KOG1586|consen   84 YKKVDPEEAVNCLE----KAIEIYTDMGRF--TMAAKHHIEIAEIYESDLQDFEKAIAHYEQAAEYYKGEESVSSANKCL  157 (288)
T ss_pred             hhccChHHHHHHHH----HHHHHHHhhhHH--HHHHhhhhhHHHHHhhhHHHHHHHHHHHHHHHHHHcchhhhhhHHHHH
Confidence            34456777765543    566666666542  11111233445555433 5677777777776641  21222222   2


Q ss_pred             HHHHHHHHhcCCcCcHHHHHHHHHHcCC
Q 005729          630 TTLMKALIRVDKFHKVPAVYEEMILSGC  657 (680)
Q Consensus       630 ~~l~~~~~~~g~~~~A~~~~~~m~~~g~  657 (680)
                      ..+...-...+++.+|+++|++..+..+
T Consensus       158 lKvA~yaa~leqY~~Ai~iyeqva~~s~  185 (288)
T KOG1586|consen  158 LKVAQYAAQLEQYSKAIDIYEQVARSSL  185 (288)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            2222333566778888888888776543

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=91.33  E-value=0.62  Score=30.90  Aligned_cols=38  Identities=24%  Similarity=0.222  Sum_probs=25.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHH
Q 005729          593 ALNSLINAFGEDQRDAEAFAVLQYMKENGLKP-DVVTYTTL  632 (680)
Q Consensus       593 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~l  632 (680)
                      +|..+..+|...|++++|+++++++.+.  .| |...|..+
T Consensus         3 ~~~~la~~~~~~G~~~~A~~~~~~~l~~--~P~~~~a~~~L   41 (44)
T PF13428_consen    3 AWLALARAYRRLGQPDEAERLLRRALAL--DPDDPEAWRAL   41 (44)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCCHHHHHHh
Confidence            4666777777778888888887777773  34 44444443

>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=90.96  E-value=17  Score=35.80  Aligned_cols=102  Identities=11%  Similarity=0.113  Sum_probs=58.0

Q ss_pred             HHHHHHHHHHHccCCHH---HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHH
Q 005729          441 HFYNVMIDTFGKYNCLH---HAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMI  517 (680)
Q Consensus       441 ~~~~~li~~~~~~g~~~---~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li  517 (680)
                      .+...++.+|...+..+   +|..+.+.+.+.. .-....+-.-+..+.+.++.+.+.+.+.+|+..- .-....+..++
T Consensus        85 ~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~-~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~-~~~e~~~~~~l  162 (278)
T PF08631_consen   85 SILRLLANAYLEWDTYESVEKALNALRLLESEY-GNKPEVFLLKLEILLKSFDEEEYEEILMRMIRSV-DHSESNFDSIL  162 (278)
T ss_pred             HHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhC-CCCcHHHHHHHHHHhccCChhHHHHHHHHHHHhc-ccccchHHHHH
Confidence            45566677777766544   4455555554332 2234455555666666888888888888888763 21234444444


Q ss_pred             HHH---HhcCCHHHHHHHHHHHHHCCCCCCH
Q 005729          518 NLL---GEQERWEDVKRLLGNMRAQGLLPNV  545 (680)
Q Consensus       518 ~~~---~~~g~~~~A~~~~~~m~~~~~~p~~  545 (680)
                      ..+   ... ....+...+..++...+.|..
T Consensus       163 ~~i~~l~~~-~~~~a~~~ld~~l~~r~~~~~  192 (278)
T PF08631_consen  163 HHIKQLAEK-SPELAAFCLDYLLLNRFKSSE  192 (278)
T ss_pred             HHHHHHHhh-CcHHHHHHHHHHHHHHhCCCh
Confidence            443   332 334566666666655455544

It is also involved in sporulation [].

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=90.69  E-value=0.59  Score=29.39  Aligned_cols=27  Identities=22%  Similarity=0.246  Sum_probs=23.2

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 005729          195 TYNALISACARNDDLEKALNLMSKMRQ  221 (680)
Q Consensus       195 ~~~~li~~~~~~g~~~~A~~~~~~m~~  221 (680)
                      +|+.|...|.+.|++++|+++|++...
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL~   27 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQALA   27 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            578999999999999999999999653

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=90.43  E-value=17  Score=34.70  Aligned_cols=186  Identities=17%  Similarity=0.116  Sum_probs=96.1

Q ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 005729          333 PRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGV--LPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSR  410 (680)
Q Consensus       333 p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~  410 (680)
                      |-...|+.-+ .-.+.|++++|...|+.+....+  +-...+.-.++.++.+.+++++|+...++.....+.....-|..
T Consensus        33 p~~~LY~~g~-~~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~  111 (254)
T COG4105          33 PASELYNEGL-TELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAY  111 (254)
T ss_pred             CHHHHHHHHH-HHHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHH
Confidence            3334455443 34567788888888888875421  12344555666777778888888888887776554433344444


Q ss_pred             HHHHHHhc-------CCHHH---HHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 005729          411 ILAGYRDR-------GEWQR---TFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNT  480 (680)
Q Consensus       411 ll~~~~~~-------g~~~~---A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~  480 (680)
                      .|.+.+.-       .|...   |+.-|+++.+.  -||+             .-...|......+...    =...=..
T Consensus       112 YlkgLs~~~~i~~~~rDq~~~~~A~~~f~~~i~r--yPnS-------------~Ya~dA~~~i~~~~d~----LA~~Em~  172 (254)
T COG4105         112 YLKGLSYFFQIDDVTRDQSAARAAFAAFKELVQR--YPNS-------------RYAPDAKARIVKLNDA----LAGHEMA  172 (254)
T ss_pred             HHHHHHHhccCCccccCHHHHHHHHHHHHHHHHH--CCCC-------------cchhhHHHHHHHHHHH----HHHHHHH
Confidence            44444321       11222   22222222221  1211             1111222211111100    0000123


Q ss_pred             HHHHHHHcCChhHHHHHHHHHHHCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 005729          481 LIDCHFKCGRYDRAEELFEEMQERG--YFPCTTTYNIMINLLGEQERWEDVKRLLGNMRA  538 (680)
Q Consensus       481 li~~~~~~g~~~~A~~~~~~m~~~~--~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~  538 (680)
                      +..-|.+.|.+..|..-+++|++.-  ..-....+-.+..+|...|-.++|.+.-.-+..
T Consensus       173 IaryY~kr~~~~AA~nR~~~v~e~y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~  232 (254)
T COG4105         173 IARYYLKRGAYVAAINRFEEVLENYPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGA  232 (254)
T ss_pred             HHHHHHHhcChHHHHHHHHHHHhccccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHh
Confidence            4556778888888888888887761  111233455566777777877777766655544

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=90.22  E-value=13  Score=33.14  Aligned_cols=56  Identities=16%  Similarity=0.188  Sum_probs=25.0

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 005729          338 YNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEME  397 (680)
Q Consensus       338 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  397 (680)
                      +..++..+...|++-+|.++.+.....    +......++.+-.+.+|...-..+|+-..
T Consensus        92 ~~~iievLL~~g~vl~ALr~ar~~~~~----~~~~~~~fLeAA~~~~D~~lf~~V~~ff~  147 (167)
T PF07035_consen   92 YEEIIEVLLSKGQVLEALRYARQYHKV----DSVPARKFLEAAANSNDDQLFYAVFRFFE  147 (167)
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHcCCc----ccCCHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            334455555556555555555543221    11112234444444555444444444443

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=90.12  E-value=11  Score=32.36  Aligned_cols=74  Identities=12%  Similarity=0.020  Sum_probs=45.6

Q ss_pred             HHHHcCChhHHHHHHHHHHHCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 005729          484 CHFKCGRYDRAEELFEEMQERG--YFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQ  557 (680)
Q Consensus       484 ~~~~~g~~~~A~~~~~~m~~~~--~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~  557 (680)
                      ...+.|++++|.+.|+.+..+-  -+-....-..++.++.+.+++++|...+++.++.+..-...-|...+.+++.
T Consensus        19 ~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~~   94 (142)
T PF13512_consen   19 EALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLSY   94 (142)
T ss_pred             HHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHHH
Confidence            3456778888888888777651  0223345556777777888888888888888776433223344444444443

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=90.06  E-value=1.2  Score=29.44  Aligned_cols=27  Identities=26%  Similarity=0.369  Sum_probs=12.9

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHHHC
Q 005729          478 WNTLIDCHFKCGRYDRAEELFEEMQER  504 (680)
Q Consensus       478 ~~~li~~~~~~g~~~~A~~~~~~m~~~  504 (680)
                      |..+...|.+.|++++|.++|++.++.
T Consensus         4 ~~~la~~~~~~G~~~~A~~~~~~~l~~   30 (44)
T PF13428_consen    4 WLALARAYRRLGQPDEAERLLRRALAL   30 (44)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            334444444455555555555544444

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=89.70  E-value=22  Score=35.05  Aligned_cols=160  Identities=11%  Similarity=0.151  Sum_probs=83.9

Q ss_pred             HHHHHHHHHHhcCCH---HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 005729          407 IYSRILAGYRDRGEW---QRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLID  483 (680)
Q Consensus       407 ~~~~ll~~~~~~g~~---~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~  483 (680)
                      ++..++.+|...+..   ++|..+++.+.... .-...++..-++.+.+.++.+.+.+++.+|...- ......+..++.
T Consensus        86 iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~-~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~-~~~e~~~~~~l~  163 (278)
T PF08631_consen   86 ILRLLANAYLEWDTYESVEKALNALRLLESEY-GNKPEVFLLKLEILLKSFDEEEYEEILMRMIRSV-DHSESNFDSILH  163 (278)
T ss_pred             HHHHHHHHHHcCCChHHHHHHHHHHHHHHHhC-CCCcHHHHHHHHHHhccCChhHHHHHHHHHHHhc-ccccchHHHHHH
Confidence            556667777766654   45556666664432 2335556566677777888888888888888652 113344555555


Q ss_pred             HH---HHcCChhHHHHHHHHHHHCCCCCCHH-HHHH-HHH-H--HHhc------CCHHHHHHHHHHHHHC-CCCCCHHHH
Q 005729          484 CH---FKCGRYDRAEELFEEMQERGYFPCTT-TYNI-MIN-L--LGEQ------ERWEDVKRLLGNMRAQ-GLLPNVVTY  548 (680)
Q Consensus       484 ~~---~~~g~~~~A~~~~~~m~~~~~~p~~~-t~~~-li~-~--~~~~------g~~~~A~~~~~~m~~~-~~~p~~~~~  548 (680)
                      .+   ... ....|...+..+....+.|... .... ++. .  ..+.      ++++....+++.+.+. +.+.+..+-
T Consensus       164 ~i~~l~~~-~~~~a~~~ld~~l~~r~~~~~~~~~e~~vl~~~~~~~~~~~~~~~~~i~~l~~~~~~v~~~~~~~ls~~~~  242 (278)
T PF08631_consen  164 HIKQLAEK-SPELAAFCLDYLLLNRFKSSEDQWLEKLVLTRVLLTTQSKDLSSSEKIESLEELLSIVEHSLGKQLSAEAA  242 (278)
T ss_pred             HHHHHHhh-CcHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHcCCccccchhHHHHHHHHHHHHHHHhcCCCCHHHH
Confidence            44   332 3455666666665443444443 1111 111 1  1111      1255555566644433 333344443


Q ss_pred             HHHH-------HHHHhcCChHHHHHHHh
Q 005729          549 TTLV-------DIYGQSGRFDDAIECLE  569 (680)
Q Consensus       549 ~~li-------~~~~~~g~~~~A~~~~~  569 (680)
                      .++.       ..+.+.++++.|.+.|+
T Consensus       243 ~a~~~LLW~~~~~~~~~k~y~~A~~w~~  270 (278)
T PF08631_consen  243 SAIHTLLWNKGKKHYKAKNYDEAIEWYE  270 (278)
T ss_pred             HHHHHHHHHHHHHHHhhcCHHHHHHHHH
Confidence            3332       33556777777776654

It is also involved in sporulation [].

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=89.63  E-value=47  Score=38.74  Aligned_cols=80  Identities=11%  Similarity=0.226  Sum_probs=37.0

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH--HHHHHHHHHHcc
Q 005729          376 LIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTH--FYNVMIDTFGKY  453 (680)
Q Consensus       376 li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~--~~~~li~~~~~~  453 (680)
                      ..+.+...+.+++|--.|+..-+         ....+.+|...|+|.+|+.+..++...   .+..  +-..|+.-+...
T Consensus       945 ya~hL~~~~~~~~Aal~Ye~~Gk---------lekAl~a~~~~~dWr~~l~~a~ql~~~---~de~~~~a~~L~s~L~e~ 1012 (1265)
T KOG1920|consen  945 YADHLREELMSDEAALMYERCGK---------LEKALKAYKECGDWREALSLAAQLSEG---KDELVILAEELVSRLVEQ 1012 (1265)
T ss_pred             HHHHHHHhccccHHHHHHHHhcc---------HHHHHHHHHHhccHHHHHHHHHhhcCC---HHHHHHHHHHHHHHHHHc
Confidence            33344445556666555544321         122345566666666666666554321   1111  113344444445


Q ss_pred             CCHHHHHHHHHHHH
Q 005729          454 NCLHHAMAAFDRML  467 (680)
Q Consensus       454 g~~~~A~~~~~~m~  467 (680)
                      ++.-+|-++..+..
T Consensus      1013 ~kh~eAa~il~e~~ 1026 (1265)
T KOG1920|consen 1013 RKHYEAAKILLEYL 1026 (1265)
T ss_pred             ccchhHHHHHHHHh
Confidence            55555555444443

>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=89.57  E-value=5.4  Score=36.19  Aligned_cols=63  Identities=22%  Similarity=0.217  Sum_probs=46.0

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 005729          266 QLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPK--TATYAAVITALSNSGRTIEAEAVFEELKE  328 (680)
Q Consensus       266 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~--~~~~~~li~~~~~~g~~~~A~~l~~~m~~  328 (680)
                      ..+..+...|++.|+.++|++.|.++.+....+.  ...+-.+|+.....+++..+.....+...
T Consensus        37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~  101 (177)
T PF10602_consen   37 MALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAES  101 (177)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            4566778888888888888888888877544443  34566777888888888887777766543

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.

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=89.46  E-value=11  Score=32.51  Aligned_cols=55  Identities=18%  Similarity=0.140  Sum_probs=27.3

Q ss_pred             HHcCCHHHHHHHHHHHHHCCC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC
Q 005729          346 VKMGYLKDAEFVVSEMERSGV--LPDEHTYSLLIDAYANAGRWESARIVLKEMEVSH  400 (680)
Q Consensus       346 ~~~g~~~~A~~~~~~m~~~g~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  400 (680)
                      .+.|++++|.+.|+.+...-.  +-.....-.|+.+|.+.+++++|...+++..+..
T Consensus        21 l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLh   77 (142)
T PF13512_consen   21 LQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLH   77 (142)
T ss_pred             HHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            344555555555555554310  1123334445555555555555555555555544

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=89.36  E-value=5.8  Score=38.00  Aligned_cols=86  Identities=13%  Similarity=0.078  Sum_probs=41.1

Q ss_pred             CCHHHHHHHHHHHHHCCC--CCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCC-C-CCCHHHHHHHHHHHHhcCCHHHH
Q 005729          454 NCLHHAMAAFDRMLSEGI--EPDTITWNTLIDCHFKCGRYDRAEELFEEMQERG-Y-FPCTTTYNIMINLLGEQERWEDV  529 (680)
Q Consensus       454 g~~~~A~~~~~~m~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~-~-~p~~~t~~~li~~~~~~g~~~~A  529 (680)
                      |++..|...|...++...  ......+--|..++...|+++.|..+|..+.+.- - +--...+..|.....+.|+.++|
T Consensus       155 gdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~~~d~A  234 (262)
T COG1729         155 GDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLGNTDEA  234 (262)
T ss_pred             CCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhcCHHHH
Confidence            445555555555444321  0112233345555555555555555555554431 0 11124444555555556666666


Q ss_pred             HHHHHHHHHC
Q 005729          530 KRLLGNMRAQ  539 (680)
Q Consensus       530 ~~~~~~m~~~  539 (680)
                      ...|+++.+.
T Consensus       235 ~atl~qv~k~  244 (262)
T COG1729         235 CATLQQVIKR  244 (262)
T ss_pred             HHHHHHHHHH
Confidence            6666665554

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=89.32  E-value=0.87  Score=28.60  Aligned_cols=25  Identities=16%  Similarity=0.149  Sum_probs=15.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHH
Q 005729          594 LNSLINAFGEDQRDAEAFAVLQYMK  618 (680)
Q Consensus       594 ~~~li~~~~~~g~~~~A~~~~~~m~  618 (680)
                      |..|...|.+.|++++|++++++..
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            5566666667777777777666643

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=89.15  E-value=32  Score=36.14  Aligned_cols=60  Identities=15%  Similarity=0.140  Sum_probs=37.4

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 005729          339 NALLKGYVKMGYLKDAEFVVSEMERSGVL-PDEHTYSLLIDAYANAGRWESARIVLKEMEV  398 (680)
Q Consensus       339 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  398 (680)
                      ..|..++-+.|+.++|.+.+++|.+.... -+......|+.+|...+.+.++..++.+..+
T Consensus       263 rRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdD  323 (539)
T PF04184_consen  263 RRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDD  323 (539)
T ss_pred             HHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhcc
Confidence            33555555667777777777777654221 1334566677777777777777777776643

The molecular function of this protein is uncertain.

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=89.01  E-value=16  Score=32.46  Aligned_cols=123  Identities=19%  Similarity=0.159  Sum_probs=57.6

Q ss_pred             HHcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH-HHHHH--HHHHHHcCCH
Q 005729          276 AKAGDASKAMRFLGMAQGVGLSPK-TATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTK-AYNAL--LKGYVKMGYL  351 (680)
Q Consensus       276 ~~~g~~~~A~~~~~~~~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~-~~~~l--i~~~~~~g~~  351 (680)
                      .+.+..++|+..|..+.+.|...- +....-......+.|+...|...|.++-.....|-.. -...|  .-.+...|.+
T Consensus        69 A~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlraa~lLvD~gsy  148 (221)
T COG4649          69 AQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLRAAYLLVDNGSY  148 (221)
T ss_pred             HHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHHHHHHHhccccH
Confidence            345666666666666665543211 1122222334455666666666666655443333222 11111  1123345555


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 005729          352 KDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEV  398 (680)
Q Consensus       352 ~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  398 (680)
                      ++...-.+.+-..+-+.-...-..|.-+-.+.|++.+|.+.|.++..
T Consensus       149 ~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~  195 (221)
T COG4649         149 DDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAN  195 (221)
T ss_pred             HHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHc
Confidence            55555555544433233333334444444555666666666655543

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=88.99  E-value=33  Score=36.06  Aligned_cols=59  Identities=8%  Similarity=0.142  Sum_probs=31.7

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHccCCHHHHHHHHHHHH
Q 005729          409 SRILAGYRDRGEWQRTFQVLKEMKSSG-VEPDTHFYNVMIDTFGKYNCLHHAMAAFDRML  467 (680)
Q Consensus       409 ~~ll~~~~~~g~~~~A~~l~~~m~~~~-~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~  467 (680)
                      ..+..++.+.|+.++|.+.+++|.+.. ..........|+.++...+.+.++..++.+-.
T Consensus       263 rRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYd  322 (539)
T PF04184_consen  263 RRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYD  322 (539)
T ss_pred             HHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhc
Confidence            344455555666666666666655432 11223345556666666666666666655543

The molecular function of this protein is uncertain.

>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins

Probab=88.94  E-value=11  Score=33.79  Aligned_cols=81  Identities=19%  Similarity=0.146  Sum_probs=52.4

Q ss_pred             HHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCC----hHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 005729          528 DVKRLLGNMRAQGLLPN-VVTYTTLVDIYGQSGR----FDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFG  602 (680)
Q Consensus       528 ~A~~~~~~m~~~~~~p~-~~~~~~li~~~~~~g~----~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~  602 (680)
                      +|..-|++.+.  +.|+ ..++..+..+|...+.    ..+|.+.    .++|.+.|++...  ..|+..+|+.-+... 
T Consensus        53 dAisK~eeAL~--I~P~~hdAlw~lGnA~ts~A~l~~d~~~A~~~----F~kA~~~FqkAv~--~~P~ne~Y~ksLe~~-  123 (186)
T PF06552_consen   53 DAISKFEEALK--INPNKHDALWCLGNAYTSLAFLTPDTAEAEEY----FEKATEYFQKAVD--EDPNNELYRKSLEMA-  123 (186)
T ss_dssp             HHHHHHHHHHH--H-TT-HHHHHHHHHHHHHHHHH---HHHHHHH----HHHHHHHHHHHHH--H-TT-HHHHHHHHHH-
T ss_pred             HHHHHHHHHHh--cCCchHHHHHHHHHHHHHHHhhcCChHHHHHH----HHHHHHHHHHHHh--cCCCcHHHHHHHHHH-
Confidence            34444444444  4565 5788888888876654    3344444    4578888888887  579999999888877 


Q ss_pred             hcCCHHHHHHHHHHHHHCCC
Q 005729          603 EDQRDAEAFAVLQYMKENGL  622 (680)
Q Consensus       603 ~~g~~~~A~~~~~~m~~~g~  622 (680)
                           ..|-++..++.+.++
T Consensus       124 -----~kap~lh~e~~~~~~  138 (186)
T PF06552_consen  124 -----AKAPELHMEIHKQGL  138 (186)
T ss_dssp             -----HTHHHHHHHHHHSSS
T ss_pred             -----HhhHHHHHHHHHHHh
Confidence                 346777777766544

Most mitochondrial proteins are encoded by the nuclear genome, and are synthesised in the cytosol. TOM20 is a general import receptor that binds to mitochondrial pre-sequences in the early step of protein import into the mitochondria [].; GO: 0045040 protein import into mitochondrial outer membrane, 0005742 mitochondrial outer membrane translocase complex; PDB: 1ZU2_A.

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=88.86  E-value=41  Score=36.99  Aligned_cols=116  Identities=15%  Similarity=0.201  Sum_probs=57.8

Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc-cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH----HcCChhHH
Q 005729          420 EWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGK-YNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHF----KCGRYDRA  494 (680)
Q Consensus       420 ~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~-~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~----~~g~~~~A  494 (680)
                      +.+.|..++.+....| .|+....-..+..... ..+...|.++|....+.|.. ....  .+..+|.    ...+...|
T Consensus       308 d~~~A~~~~~~aA~~g-~~~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~~-~A~~--~la~~y~~G~gv~r~~~~A  383 (552)
T KOG1550|consen  308 DYEKALKLYTKAAELG-NPDAQYLLGVLYETGTKERDYRRAFEYYSLAAKAGHI-LAIY--RLALCYELGLGVERNLELA  383 (552)
T ss_pred             cHHHHHHHHHHHHhcC-CchHHHHHHHHHHcCCccccHHHHHHHHHHHHHcCCh-HHHH--HHHHHHHhCCCcCCCHHHH
Confidence            4455666666666655 3444443333333332 34566777777777766531 2222  2222221    12356777


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 005729          495 EELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGL  541 (680)
Q Consensus       495 ~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~  541 (680)
                      ..++.+..++| .|...--...+..+.. ++++.+.-.+..+...|.
T Consensus       384 ~~~~k~aA~~g-~~~A~~~~~~~~~~g~-~~~~~~~~~~~~~a~~g~  428 (552)
T KOG1550|consen  384 FAYYKKAAEKG-NPSAAYLLGAFYEYGV-GRYDTALALYLYLAELGY  428 (552)
T ss_pred             HHHHHHHHHcc-ChhhHHHHHHHHHHcc-ccccHHHHHHHHHHHhhh
Confidence            77777777776 3322222222223333 666666666665555543

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=88.50  E-value=0.41  Score=29.70  Aligned_cols=23  Identities=17%  Similarity=0.011  Sum_probs=11.6

Q ss_pred             CchHHHHHHHHHHhcccCCHHHH
Q 005729          160 YSYELLYSILIHALGRSEKLYEA  182 (680)
Q Consensus       160 ~~~~~~~~~li~~~~~~g~~~~A  182 (680)
                      |.+..+|+.|...|...|++++|
T Consensus        10 P~n~~a~~nla~~~~~~g~~~~A   32 (34)
T PF13431_consen   10 PNNAEAYNNLANLYLNQGDYEEA   32 (34)
T ss_pred             CCCHHHHHHHHHHHHHCcCHHhh
Confidence            44444555555555555555444

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=88.29  E-value=1.2  Score=27.35  Aligned_cols=31  Identities=35%  Similarity=0.286  Sum_probs=20.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC
Q 005729          593 ALNSLINAFGEDQRDAEAFAVLQYMKENGLKPD  625 (680)
Q Consensus       593 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  625 (680)
                      +|..+..+|...|++++|+..|++.++  +.|+
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            566677777777777777777777776  4443

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 ....

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=88.18  E-value=51  Score=37.26  Aligned_cols=200  Identities=16%  Similarity=0.092  Sum_probs=108.5

Q ss_pred             HccCCHHHHHHHHHHHHHCCCCCCH-------HHHHHHHHH-HHHcCChhHHHHHHHHHHHC----CCCCCHHHHHHHHH
Q 005729          451 GKYNCLHHAMAAFDRMLSEGIEPDT-------ITWNTLIDC-HFKCGRYDRAEELFEEMQER----GYFPCTTTYNIMIN  518 (680)
Q Consensus       451 ~~~g~~~~A~~~~~~m~~~~~~~~~-------~~~~~li~~-~~~~g~~~~A~~~~~~m~~~----~~~p~~~t~~~li~  518 (680)
                      .....+.+|..+..++...-..|+.       ..|+.+-.. ....|++++|.++-+.....    -..+....+..+..
T Consensus       426 ~s~~r~~ea~~li~~l~~~l~~~~~~~~~~l~ae~~aL~a~val~~~~~e~a~~lar~al~~L~~~~~~~r~~~~sv~~~  505 (894)
T COG2909         426 ASQHRLAEAETLIARLEHFLKAPMHSRQGDLLAEFQALRAQVALNRGDPEEAEDLARLALVQLPEAAYRSRIVALSVLGE  505 (894)
T ss_pred             HHccChHHHHHHHHHHHHHhCcCcccchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhcccccchhhhhhhhhhhH
Confidence            3456788888888776643222221       134444222 23478889999888876543    23345666777777


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHH---HHHHH--HHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHC--CCC---
Q 005729          519 LLGEQERWEDVKRLLGNMRAQGLLPNVV---TYTTL--VDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTD--GLK---  588 (680)
Q Consensus       519 ~~~~~g~~~~A~~~~~~m~~~~~~p~~~---~~~~l--i~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~--g~~---  588 (680)
                      +..-.|++++|..+.....+..-.-+..   .+..+  ...+...|....+....         .|......  +-+   
T Consensus       506 a~~~~G~~~~Al~~~~~a~~~a~~~~~~~l~~~~~~~~s~il~~qGq~~~a~~~~---------~~~~~~~q~l~q~~~~  576 (894)
T COG2909         506 AAHIRGELTQALALMQQAEQMARQHDVYHLALWSLLQQSEILEAQGQVARAEQEK---------AFNLIREQHLEQKPRH  576 (894)
T ss_pred             HHHHhchHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHhhHHHHHHHHH---------HHHHHHHHHhhhcccc
Confidence            8888899999998887776542222322   22333  23355666333332221         12221111  011   


Q ss_pred             -CCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHCCCCCCHH--HHHHHHHHHHhcCCcCcHHHHHHHHHHcCCCC
Q 005729          589 -PSNLALNSLINAFGE-DQRDAEAFAVLQYMKENGLKPDVV--TYTTLMKALIRVDKFHKVPAVYEEMILSGCTP  659 (680)
Q Consensus       589 -p~~~~~~~li~~~~~-~g~~~~A~~~~~~m~~~g~~p~~~--~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p  659 (680)
                       +-..++..+..++.+ .+...++...++.-......|-..  .+..|+......|++++|...+.++......+
T Consensus       577 ~f~~~~r~~ll~~~~r~~~~~~ear~~~~~~~~~~~~~~~~~~~~~~LA~l~~~~Gdl~~A~~~l~~~~~l~~~~  651 (894)
T COG2909         577 EFLVRIRAQLLRAWLRLDLAEAEARLGIEVGSVYTPQPLLSRLALSMLAELEFLRGDLDKALAQLDELERLLLNG  651 (894)
T ss_pred             hhHHHHHHHHHHHHHHHhhhhHHhhhcchhhhhcccchhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcCC
Confidence             222355556666554 233333433344333322222112  22356778888999999999998888665444

>PRK11619 lytic murein transglycosylase; Provisional

Probab=88.17  E-value=49  Score=37.04  Aligned_cols=273  Identities=10%  Similarity=0.020  Sum_probs=144.5

Q ss_pred             HHHHHHHHCCCCCchHHHHHHHHHHhcccCCHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCC
Q 005729          148 AVVSWLQKHNLCYSYELLYSILIHALGRSEKLYEAFLLSQRQRLTPLTYNALISACARNDDLEKALNLMSKMRQDGYHCD  227 (680)
Q Consensus       148 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  227 (680)
                      ++-..+.++...|....+-..-...+++.+++.+-+......+.+.........+....|+.++|....+.+=..|. ..
T Consensus        84 ev~~Fl~~~~~~P~~~~Lr~~~l~~La~~~~w~~~~~~~~~~p~~~~~~c~~~~A~~~~G~~~~A~~~a~~lW~~g~-~~  162 (644)
T PRK11619         84 QVTNFIRANPTLPPARSLQSRFVNELARREDWRGLLAFSPEKPKPVEARCNYYYAKWATGQQQEAWQGAKELWLTGK-SL  162 (644)
T ss_pred             HHHHHHHHCCCCchHHHHHHHHHHHHHHccCHHHHHHhcCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCC-CC
Confidence            34444444443344444455556667777777777665334456666677778888888988888877777766553 35


Q ss_pred             hhhHHHHHHHHHhcCCCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHH------------cCCHHHHHHHHHHHHhCC
Q 005729          228 FINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAK------------AGDASKAMRFLGMAQGVG  295 (680)
Q Consensus       228 ~~~~~~ll~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~~~li~~~~~------------~g~~~~A~~~~~~~~~~g  295 (680)
                      +..++.++..+.+.|.+..+...+-+......|-   ...-..+......            ..+...+..++..     
T Consensus       163 p~~cd~l~~~~~~~g~lt~~d~w~R~~~al~~~~---~~lA~~l~~~l~~~~~~~a~a~~al~~~p~~~~~~~~~-----  234 (644)
T PRK11619        163 PNACDKLFSVWQQSGKQDPLAYLERIRLAMKAGN---TGLVTYLAKQLPADYQTIASALIKLQNDPNTVETFART-----  234 (644)
T ss_pred             ChHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCC---HHHHHHHHHhcChhHHHHHHHHHHHHHCHHHHHHHhhc-----
Confidence            6677888888888887766544443444443332   2222222221100            0111111111111     


Q ss_pred             CCCCHHHHHHHHHHHH--hcCChHHHHHHHHHHHHcC-CCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH
Q 005729          296 LSPKTATYAAVITALS--NSGRTIEAEAVFEELKESG-LKPR--TKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDE  370 (680)
Q Consensus       296 ~~p~~~~~~~li~~~~--~~g~~~~A~~l~~~m~~~g-~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~  370 (680)
                      +.++...-..++-++.  ...+.+.|..++..+.... ..+.  ..++..+.......+...++...++......  .+.
T Consensus       235 ~~~~~~~~~~~~~~l~Rlar~d~~~A~~~~~~~~~~~~~~~~~~~~~~~~lA~~~a~~~~~~~a~~w~~~~~~~~--~~~  312 (644)
T PRK11619        235 TGPTDFTRQMAAVAFASVARQDAENARLMIPSLVRAQKLNEDQRQELRDIVAWRLMGNDVTDEQAKWRDDVIMRS--QST  312 (644)
T ss_pred             cCCChhhHHHHHHHHHHHHHhCHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhccCCHHHHHHHHhccccc--CCc
Confidence            1122211111122221  2445577888887764332 2211  1233344333333332556666666544332  233


Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 005729          371 HTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMK  432 (680)
Q Consensus       371 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~  432 (680)
                      ....--+..-...++++.+...+..|.... .-...-.--+.+++...|+.++|...|+.+.
T Consensus       313 ~~~e~r~r~Al~~~dw~~~~~~i~~L~~~~-~~~~rw~YW~aRa~~~~g~~~~A~~~~~~~a  373 (644)
T PRK11619        313 SLLERRVRMALGTGDRRGLNTWLARLPMEA-KEKDEWRYWQADLLLEQGRKAEAEEILRQLM  373 (644)
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHhcCHhh-ccCHhhHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            444444555557888888888888774432 2233334445666666788888888888864

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=88.09  E-value=7.5  Score=35.28  Aligned_cols=61  Identities=21%  Similarity=0.241  Sum_probs=32.1

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 005729          337 AYNALLKGYVKMGYLKDAEFVVSEMERSGVLPD--EHTYSLLIDAYANAGRWESARIVLKEME  397 (680)
Q Consensus       337 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~--~~~~~~li~~~~~~g~~~~A~~~~~~m~  397 (680)
                      .+..+...|++.|+.++|.+.|.++.+....+.  ...+-.+|+.....+++..+...+.+..
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~  100 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAE  100 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            345555566666666666666666554322221  2334445555555666665555555443

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.

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=87.96  E-value=61  Score=37.90  Aligned_cols=75  Identities=15%  Similarity=0.246  Sum_probs=35.6

Q ss_pred             HHHHHHcCChhHHHHHHHHHHHCCCCCCHH--HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC
Q 005729          482 IDCHFKCGRYDRAEELFEEMQERGYFPCTT--TYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSG  559 (680)
Q Consensus       482 i~~~~~~g~~~~A~~~~~~m~~~~~~p~~~--t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g  559 (680)
                      +.+|..+|+|.+|+.+..++...   -+..  +-..|+.-+...++.-+|-++..+....        ..-.+..|++..
T Consensus       972 l~a~~~~~dWr~~l~~a~ql~~~---~de~~~~a~~L~s~L~e~~kh~eAa~il~e~~sd--------~~~av~ll~ka~ 1040 (1265)
T KOG1920|consen  972 LKAYKECGDWREALSLAAQLSEG---KDELVILAEELVSRLVEQRKHYEAAKILLEYLSD--------PEEAVALLCKAK 1040 (1265)
T ss_pred             HHHHHHhccHHHHHHHHHhhcCC---HHHHHHHHHHHHHHHHHcccchhHHHHHHHHhcC--------HHHHHHHHhhHh
Confidence            44455555555555555444321   1111  1234555555666666666665555431        122334455555


Q ss_pred             ChHHHHHH
Q 005729          560 RFDDAIEC  567 (680)
Q Consensus       560 ~~~~A~~~  567 (680)
                      .+++|+++
T Consensus      1041 ~~~eAlrv 1048 (1265)
T KOG1920|consen 1041 EWEEALRV 1048 (1265)
T ss_pred             HHHHHHHH
Confidence            56666554

>PRK09687 putative lyase; Provisional

Probab=87.78  E-value=30  Score=34.13  Aligned_cols=203  Identities=12%  Similarity=0.038  Sum_probs=107.9

Q ss_pred             CCHHHHHHHHHHHHccCCH----HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC-----hhHHHHHHHHHHHCCCCC
Q 005729          438 PDTHFYNVMIDTFGKYNCL----HHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGR-----YDRAEELFEEMQERGYFP  508 (680)
Q Consensus       438 p~~~~~~~li~~~~~~g~~----~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~-----~~~A~~~~~~m~~~~~~p  508 (680)
                      ++...-...+.+++..|+.    ..+...+..+...  .++...-...+.++...+.     ...+...+..+...   +
T Consensus        66 ~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~~--D~d~~VR~~A~~aLG~~~~~~~~~~~~a~~~l~~~~~D---~  140 (280)
T PRK09687         66 KNPIERDIGADILSQLGMAKRCQDNVFNILNNLALE--DKSACVRASAINATGHRCKKNPLYSPKIVEQSQITAFD---K  140 (280)
T ss_pred             CCHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHhc--CCCHHHHHHHHHHHhcccccccccchHHHHHHHHHhhC---C
Confidence            3444444455555555542    3444455444222  3444444444444444332     12233333333222   2


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC-hHHHHHHHhhhHHHHHHHHHHHHHCCC
Q 005729          509 CTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGR-FDDAIECLEGLSDQAVNAFRVMRTDGL  587 (680)
Q Consensus       509 ~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~-~~~A~~~~~~~~~~a~~~~~~m~~~g~  587 (680)
                      +..+-...+.++.+.++ +++...+-.+.+   .++..+-...+.++.+.+. ...+...           +..+.   .
T Consensus       141 ~~~VR~~a~~aLg~~~~-~~ai~~L~~~L~---d~~~~VR~~A~~aLg~~~~~~~~~~~~-----------L~~~L---~  202 (280)
T PRK09687        141 STNVRFAVAFALSVIND-EAAIPLLINLLK---DPNGDVRNWAAFALNSNKYDNPDIREA-----------FVAML---Q  202 (280)
T ss_pred             CHHHHHHHHHHHhccCC-HHHHHHHHHHhc---CCCHHHHHHHHHHHhcCCCCCHHHHHH-----------HHHHh---c
Confidence            44555566666666665 445555555554   2344555555555555421 2223222           22222   2


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCcCcHHHHHHHHHHcCCCCCHHHHHHH
Q 005729          588 KPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPDRKARAML  667 (680)
Q Consensus       588 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd~~~~~~l  667 (680)
                      .++..+-...+.++.+.|+ ..|+..+-...+.+   +  .....+.++...|. .+|...+.++.+.  .||..+....
T Consensus       203 D~~~~VR~~A~~aLg~~~~-~~av~~Li~~L~~~---~--~~~~a~~ALg~ig~-~~a~p~L~~l~~~--~~d~~v~~~a  273 (280)
T PRK09687        203 DKNEEIRIEAIIGLALRKD-KRVLSVLIKELKKG---T--VGDLIIEAAGELGD-KTLLPVLDTLLYK--FDDNEIITKA  273 (280)
T ss_pred             CCChHHHHHHHHHHHccCC-hhHHHHHHHHHcCC---c--hHHHHHHHHHhcCC-HhHHHHHHHHHhh--CCChhHHHHH
Confidence            4566666777778888777 45666555555532   2  23467778888887 4688888888764  5688888777


Q ss_pred             HHHHH
Q 005729          668 RSALR  672 (680)
Q Consensus       668 ~~a~~  672 (680)
                      ..+|.
T Consensus       274 ~~a~~  278 (280)
T PRK09687        274 IDKLK  278 (280)
T ss_pred             HHHHh
Confidence            77765

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=87.41  E-value=25  Score=32.92  Aligned_cols=22  Identities=9%  Similarity=0.222  Sum_probs=13.3

Q ss_pred             HhcCCHHHHHHHHHHHHHCCCC
Q 005729          602 GEDQRDAEAFAVLQYMKENGLK  623 (680)
Q Consensus       602 ~~~g~~~~A~~~~~~m~~~g~~  623 (680)
                      +..+++.+|+++|++.....+.
T Consensus       165 a~leqY~~Ai~iyeqva~~s~~  186 (288)
T KOG1586|consen  165 AQLEQYSKAIDIYEQVARSSLD  186 (288)
T ss_pred             HHHHHHHHHHHHHHHHHHHhcc
Confidence            3456667777777766654333

>KOG0403 consensus Neoplastic transformation suppressor Pdcd4/MA-3, contains MA3 domain [Signal transduction mechanisms]

Probab=87.36  E-value=38  Score=34.89  Aligned_cols=64  Identities=13%  Similarity=0.131  Sum_probs=49.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCcCcHHHHHHHHHHcCCC
Q 005729          594 LNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMILSGCT  658 (680)
Q Consensus       594 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~  658 (680)
                      ...|+.-|...|+..+|..+++++-- .+......+.+++.+..+.|+-...+.++++.-..|+.
T Consensus       512 I~~LLeEY~~~GdisEA~~CikeLgm-PfFhHEvVkkAlVm~mEkk~d~t~~ldLLk~cf~sglI  575 (645)
T KOG0403|consen  512 IDMLLEEYELSGDISEACHCIKELGM-PFFHHEVVKKALVMVMEKKGDSTMILDLLKECFKSGLI  575 (645)
T ss_pred             HHHHHHHHHhccchHHHHHHHHHhCC-CcchHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhcCce
Confidence            45688889999999999998776532 12224578889999999999888888999988877753

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=87.11  E-value=23  Score=32.19  Aligned_cols=59  Identities=17%  Similarity=0.188  Sum_probs=43.6

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCcCcHHHHHHHHHHcC
Q 005729          596 SLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMILSG  656 (680)
Q Consensus       596 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g  656 (680)
                      .|.......|.+++|+..++.....+.  .......-.+++...|+.++|..-|++.++.+
T Consensus       131 RLArvq~q~~k~D~AL~~L~t~~~~~w--~~~~~elrGDill~kg~k~~Ar~ay~kAl~~~  189 (207)
T COG2976         131 RLARVQLQQKKADAALKTLDTIKEESW--AAIVAELRGDILLAKGDKQEARAAYEKALESD  189 (207)
T ss_pred             HHHHHHHHhhhHHHHHHHHhccccccH--HHHHHHHhhhHHHHcCchHHHHHHHHHHHHcc
Confidence            455667788888888888887665432  23334556678888899999999999988876

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=86.03  E-value=20  Score=34.81  Aligned_cols=112  Identities=17%  Similarity=0.169  Sum_probs=48.9

Q ss_pred             HcCCHHHHHHHHHHHHH-cCCCCChhhHHHHHHHHHhcCCCChHHHHHHHHHHHh-CCCCcCHHHHHHHHHHHHHcCCHH
Q 005729          205 RNDDLEKALNLMSKMRQ-DGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIEC-DKIELDGQLLNDVIVGFAKAGDAS  282 (680)
Q Consensus       205 ~~g~~~~A~~~~~~m~~-~g~~p~~~~~~~ll~~~~~~g~~~~~~~~~l~~~~~~-~~~~~~~~~~~~li~~~~~~g~~~  282 (680)
                      ++..+.+|+.+|+.... ..+--|......+++......+.......++.+.+.. .+-.++..+.-.++..+++.+++.
T Consensus       140 ~N~~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~  219 (292)
T PF13929_consen  140 RNKIVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWN  219 (292)
T ss_pred             hhHHHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHH
Confidence            34456677777774322 1233455555666665554222111111222222221 123344444444444555555555


Q ss_pred             HHHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCCh
Q 005729          283 KAMRFLGMAQGV-GLSPKTATYAAVITALSNSGRT  316 (680)
Q Consensus       283 ~A~~~~~~~~~~-g~~p~~~~~~~li~~~~~~g~~  316 (680)
                      +-.++++..... +...|...|..+|+...+.|+.
T Consensus       220 kl~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~  254 (292)
T PF13929_consen  220 KLFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQ  254 (292)
T ss_pred             HHHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCH
Confidence            544444443322 2333444444444444444443

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=86.00  E-value=1.9  Score=26.29  Aligned_cols=27  Identities=22%  Similarity=0.059  Sum_probs=17.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 005729          593 ALNSLINAFGEDQRDAEAFAVLQYMKE  619 (680)
Q Consensus       593 ~~~~li~~~~~~g~~~~A~~~~~~m~~  619 (680)
                      .|..+..++.+.|++++|++.+++..+
T Consensus         3 ~~~~lg~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF07719_consen    3 AWYYLGQAYYQLGNYEEAIEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            355566666667777777777776665

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 ....

>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=85.83  E-value=25  Score=31.34  Aligned_cols=101  Identities=14%  Similarity=0.151  Sum_probs=53.3

Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC
Q 005729          286 RFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSG  365 (680)
Q Consensus       286 ~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  365 (680)
                      ++.+.+.+.|+.|+...|..+++.+.+.|++...    ..+...++-+|.......+-.+.  +....+.++=-+|.++ 
T Consensus        15 EYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L----~qllq~~Vi~DSk~lA~~LLs~~--~~~~~~~Ql~lDMLkR-   87 (167)
T PF07035_consen   15 EYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQL----HQLLQYHVIPDSKPLACQLLSLG--NQYPPAYQLGLDMLKR-   87 (167)
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHH----HHHHhhcccCCcHHHHHHHHHhH--ccChHHHHHHHHHHHH-
Confidence            3445555666777777777777777777765443    33334444444444333332222  2223333333333321 


Q ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 005729          366 VLPDEHTYSLLIDAYANAGRWESARIVLKEM  396 (680)
Q Consensus       366 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  396 (680)
                         =...+..+++.+...|++-+|+++.+..
T Consensus        88 ---L~~~~~~iievLL~~g~vl~ALr~ar~~  115 (167)
T PF07035_consen   88 ---LGTAYEEIIEVLLSKGQVLEALRYARQY  115 (167)
T ss_pred             ---hhhhHHHHHHHHHhCCCHHHHHHHHHHc
Confidence               0013455666777777777777777664

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=85.75  E-value=3  Score=40.93  Aligned_cols=103  Identities=16%  Similarity=0.151  Sum_probs=71.0

Q ss_pred             HHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 005729          553 DIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKP-SNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTT  631 (680)
Q Consensus       553 ~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~  631 (680)
                      +-|.++|.+++|+++|....             ...| |.+++..-..+|.+..++..|..-...++..+ ..-...|..
T Consensus       105 N~yFKQgKy~EAIDCYs~~i-------------a~~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd-~~Y~KAYSR  170 (536)
T KOG4648|consen  105 NTYFKQGKYEEAIDCYSTAI-------------AVYPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALD-KLYVKAYSR  170 (536)
T ss_pred             hhhhhccchhHHHHHhhhhh-------------ccCCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhh-HHHHHHHHH
Confidence            45889999999999875211             2456 77888888899999999998888777776522 111234555


Q ss_pred             HHHHHHhcCCcCcHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 005729          632 LMKALIRVDKFHKVPAVYEEMILSGCTPDRKARAMLRSAL  671 (680)
Q Consensus       632 l~~~~~~~g~~~~A~~~~~~m~~~g~~pd~~~~~~l~~a~  671 (680)
                      -+.+-...|...+|.+-++..++  ++|.....+....++
T Consensus       171 R~~AR~~Lg~~~EAKkD~E~vL~--LEP~~~ELkK~~a~i  208 (536)
T KOG4648|consen  171 RMQARESLGNNMEAKKDCETVLA--LEPKNIELKKSLARI  208 (536)
T ss_pred             HHHHHHHHhhHHHHHHhHHHHHh--hCcccHHHHHHHHHh
Confidence            55555666888888888888877  467655444444433

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=85.50  E-value=26  Score=31.19  Aligned_cols=123  Identities=13%  Similarity=0.055  Sum_probs=69.1

Q ss_pred             HHcCCHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHH-HHHH--HHHHHHhcCCH
Q 005729          346 VKMGYLKDAEFVVSEMERSGVLPDEH-TYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSF-IYSR--ILAGYRDRGEW  421 (680)
Q Consensus       346 ~~~g~~~~A~~~~~~m~~~g~~~~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~-~~~~--ll~~~~~~g~~  421 (680)
                      .+.+..++|+.-|..+.+.|...-+. ..-.+.......|+...|...|+++-.....|-.. -...  -...+...|.+
T Consensus        69 A~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlraa~lLvD~gsy  148 (221)
T COG4649          69 AQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLRAAYLLVDNGSY  148 (221)
T ss_pred             HHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHHHHHHHhccccH
Confidence            45566677777777777665432111 11223344566777777777777776544333322 1111  12234566667


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHH
Q 005729          422 QRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLS  468 (680)
Q Consensus       422 ~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  468 (680)
                      +......+.+-..+-+.....-..|.-+-.+.|++.+|.+.|..+..
T Consensus       149 ~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~  195 (221)
T COG4649         149 DDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAN  195 (221)
T ss_pred             HHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHc
Confidence            76666666655544344444455565666677777777777776664

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=85.10  E-value=7.3  Score=30.74  Aligned_cols=63  Identities=16%  Similarity=0.226  Sum_probs=35.7

Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCcCcHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 005729          609 EAFAVLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPDRKARAMLRSALR  672 (680)
Q Consensus       609 ~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd~~~~~~l~~a~~  672 (680)
                      ++.+-++.+....+.|++.+..+.++||.|.+++.-|.++++-...+ +..+...|..+.+-++
T Consensus        25 e~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K-~~~~~~~y~~~lqeik   87 (103)
T cd00923          25 ELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDK-CGAHKEIYPYILQEIK   87 (103)
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-ccCchhhHHHHHHHHh
Confidence            34444444555556666666666666666666666666666655533 2223445555555444

Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of prokaryotes. It catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. The number of subunits varies from three to five in bacteria and up to 13 in mammalian mitochondria. Subunits I, II, and III of mammalian CcO are encoded within the mitochondrial genome and the remaining 10 subunits are encoded within the nuclear genome. Found only in eukaryotes, subunit Va is one of three mammalian subunits that lacks a transmembrane region. Subunit Va is located on the matrix side of the membrane and binds thyroid hormone T2, releasing allosteric inhibition caused by the binding of ATP to subunit IV and allowing high turnover at elevated intramitochondrial ATP/ADP ratios.

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=85.05  E-value=9  Score=34.81  Aligned_cols=62  Identities=15%  Similarity=0.157  Sum_probs=47.3

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcCCcCcHHHHHHHHHHc
Q 005729          592 LALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDV-VTYTTLMKALIRVDKFHKVPAVYEEMILS  655 (680)
Q Consensus       592 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  655 (680)
                      +.|..-..++.+.+.++.|++-....++  +.|+. .....-..+|.+..++++|++-|+++++.
T Consensus       135 Ily~Nraaa~iKl~k~e~aI~dcsKaie--l~pty~kAl~RRAeayek~ek~eealeDyKki~E~  197 (271)
T KOG4234|consen  135 ILYSNRAAALIKLRKWESAIEDCSKAIE--LNPTYEKALERRAEAYEKMEKYEEALEDYKKILES  197 (271)
T ss_pred             HHHhhhHHHHHHhhhHHHHHHHHHhhHh--cCchhHHHHHHHHHHHHhhhhHHHHHHHHHHHHHh
Confidence            4566667788889999999998888887  44532 23344456888889999999999999875

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=84.69  E-value=62  Score=34.83  Aligned_cols=189  Identities=11%  Similarity=0.075  Sum_probs=105.0

Q ss_pred             CHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 005729          439 DTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMIN  518 (680)
Q Consensus       439 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~  518 (680)
                      +..+|..-+.--.+.|+.+.+...|++..-. +..-...|--.+.-....|+.+-|..++....+--++ +......+-.
T Consensus       296 ql~nw~~yLdf~i~~g~~~~~~~l~ercli~-cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k-~~~~i~L~~a  373 (577)
T KOG1258|consen  296 QLKNWRYYLDFEITLGDFSRVFILFERCLIP-CALYDEFWIKYARWMESSGDVSLANNVLARACKIHVK-KTPIIHLLEA  373 (577)
T ss_pred             HHHHHHHHhhhhhhcccHHHHHHHHHHHHhH-HhhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCC-CCcHHHHHHH
Confidence            4567777777778888888888888877631 1112233444444444558888887777666554322 2222222222


Q ss_pred             H-HHhcCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCH--HHH
Q 005729          519 L-LGEQERWEDVKRLLGNMRAQGLLPNV-VTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSN--LAL  594 (680)
Q Consensus       519 ~-~~~~g~~~~A~~~~~~m~~~~~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~--~~~  594 (680)
                      . +-..|+++.|..+++.+... . |+. ..-..-+....+.|..+.+....        +++.........+..  ..+
T Consensus       374 ~f~e~~~n~~~A~~~lq~i~~e-~-pg~v~~~l~~~~~e~r~~~~~~~~~~~--------~l~s~~~~~~~~~~i~~~l~  443 (577)
T KOG1258|consen  374 RFEESNGNFDDAKVILQRIESE-Y-PGLVEVVLRKINWERRKGNLEDANYKN--------ELYSSIYEGKENNGILEKLY  443 (577)
T ss_pred             HHHHhhccHHHHHHHHHHHHhh-C-CchhhhHHHHHhHHHHhcchhhhhHHH--------HHHHHhcccccCcchhHHHH
Confidence            2 34567899999999888876 3 432 22223344455666666665210        011111111111111  111


Q ss_pred             HHHHHH-HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC
Q 005729          595 NSLINA-FGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALIRVD  640 (680)
Q Consensus       595 ~~li~~-~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g  640 (680)
                      ....+. +.-.++.+.|..++.+|.+. ++++...|..+++.....+
T Consensus       444 ~~~~r~~~~i~~d~~~a~~~l~~~~~~-~~~~k~~~~~~~~~~~~~~  489 (577)
T KOG1258|consen  444 VKFARLRYKIREDADLARIILLEANDI-LPDCKVLYLELIRFELIQP  489 (577)
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHhhhc-CCccHHHHHHHHHHHHhCC
Confidence            111111 12257888999999999885 5667778888887766555

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=84.68  E-value=14  Score=29.59  Aligned_cols=63  Identities=17%  Similarity=0.219  Sum_probs=37.5

Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCcCcHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 005729          609 EAFAVLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPDRKARAMLRSALR  672 (680)
Q Consensus       609 ~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd~~~~~~l~~a~~  672 (680)
                      +..+-++.+....+.|++.+..+.+++|.|.+++.-|.++++-+..+ +.+....|..+++-++
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K-~~~~~~~Y~~~lqElk   90 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDK-CGNKKEIYPYILQELK   90 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TTT-TTHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-ccChHHHHHHHHHHHh
Confidence            34444555555667777777777778888888888888777777654 3333336666666555

9.3.1 from EC) is an oligomeric enzymatic complex which is a component of the respiratory chain complex and is involved in the transfer of electrons from cytochrome c to oxygen []. In eukaryotes this enzyme complex is located in the mitochondrial inner membrane; in aerobic prokaryotes it is found in the plasma membrane. In eukaryotes, in addition to the three large subunits, I, II and III, that form the catalytic centre of the enzyme complex, there are a variable number of small polypeptidic subunits. One of these subunits is known as Va.; GO: 0004129 cytochrome-c oxidase activity; PDB: 2DYR_R 3AG1_E 3ABL_E 1V54_R 2EIJ_R 1OCR_E 2DYS_E 2EIM_E 2OCC_E 3ASN_R ....

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=83.72  E-value=37  Score=31.48  Aligned_cols=29  Identities=17%  Similarity=0.282  Sum_probs=18.8

Q ss_pred             HHHHHHHHHHHhcCCcCcHHHHHHHHHHc
Q 005729          627 VTYTTLMKALIRVDKFHKVPAVYEEMILS  655 (680)
Q Consensus       627 ~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  655 (680)
                      .||-.|..-+...|+.++|..+|+-.+..
T Consensus       238 EtyFYL~K~~l~~G~~~~A~~LfKLaian  266 (297)
T COG4785         238 ETYFYLGKYYLSLGDLDEATALFKLAVAN  266 (297)
T ss_pred             HHHHHHHHHHhccccHHHHHHHHHHHHHH
Confidence            45556666666677777777777666553

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=83.02  E-value=3.1  Score=26.71  Aligned_cols=29  Identities=24%  Similarity=0.308  Sum_probs=25.0

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 005729          193 PLTYNALISACARNDDLEKALNLMSKMRQ  221 (680)
Q Consensus       193 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~  221 (680)
                      ..+++.|...|...|++++|+.++++...
T Consensus         2 a~~~~~la~~~~~~g~~~~A~~~~~~al~   30 (42)
T PF13374_consen    2 ASALNNLANAYRAQGRYEEALELLEEALE   30 (42)
T ss_dssp             HHHHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence            45789999999999999999999999765

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=82.49  E-value=21  Score=34.90  Aligned_cols=50  Identities=16%  Similarity=0.272  Sum_probs=31.7

Q ss_pred             ChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 005729          490 RYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQ  539 (680)
Q Consensus       490 ~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~  539 (680)
                      ++++++.++..=++.|+-||..+++.+|+.+.+.+++.+|.++...|...
T Consensus       115 ~pq~~i~~l~npIqYGiF~dqf~~c~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  115 DPQKAIYTLVNPIQYGIFPDQFTFCLLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             ChHHHHHHHhCcchhccccchhhHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            45566666666666666666666666666666666666666666655544

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=82.09  E-value=63  Score=32.94  Aligned_cols=66  Identities=15%  Similarity=0.120  Sum_probs=47.4

Q ss_pred             CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCC---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 005729          473 PDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFP---CTTTYNIMINLLGEQERWEDVKRLLGNMRA  538 (680)
Q Consensus       473 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p---~~~t~~~li~~~~~~g~~~~A~~~~~~m~~  538 (680)
                      ....+|..++..+.+.|+++.|...+.++...+...   .......-.+.+-..|+..+|...++...+
T Consensus       144 ~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~  212 (352)
T PF02259_consen  144 ELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLK  212 (352)
T ss_pred             HHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            345578888888888999999998888887643111   234444456667778888888888887776

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=81.84  E-value=93  Score=34.75  Aligned_cols=28  Identities=18%  Similarity=0.146  Sum_probs=14.4

Q ss_pred             HHHHHHHHHHHHc---CCHHHHHHHHHHHHH
Q 005729          371 HTYSLLIDAYANA---GRWESARIVLKEMEV  398 (680)
Q Consensus       371 ~~~~~li~~~~~~---g~~~~A~~~~~~m~~  398 (680)
                      .-+..||..|++.   .+..+|.++|-.+..
T Consensus       325 ln~arLI~~Y~~~F~~td~~~Al~Y~~li~~  355 (613)
T PF04097_consen  325 LNFARLIGQYTRSFEITDPREALQYLYLICL  355 (613)
T ss_dssp             --HHHHHHHHHHTTTTT-HHHHHHHHHGGGG
T ss_pred             cCHHHHHHHHHHHHhccCHHHHHHHHHHHHH
Confidence            3455666666653   455566666655543

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.

>KOG0687 consensus 26S proteasome regulatory complex, subunit RPN7/PSMD6 [Posttranslational modification, protein turnover, chaperones]

Probab=81.68  E-value=57  Score=32.24  Aligned_cols=99  Identities=16%  Similarity=0.200  Sum_probs=56.6

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHHHHHH-HHHHHHhcCCHHHHHHHHHHHHHCCCCC
Q 005729          546 VTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNS-LINAFGEDQRDAEAFAVLQYMKENGLKP  624 (680)
Q Consensus       546 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~-li~~~~~~g~~~~A~~~~~~m~~~g~~p  624 (680)
                      ..+.....-||+-|+.+.|.+.+.       +.+++-...|.+.|...+.. +.-.|..+.-+.+-++..+.+.+.|-..
T Consensus       105 ea~~~kaeYycqigDkena~~~~~-------~t~~ktvs~g~kiDVvf~~iRlglfy~D~~lV~~~iekak~liE~GgDW  177 (393)
T KOG0687|consen  105 EAMLRKAEYYCQIGDKENALEALR-------KTYEKTVSLGHKIDVVFYKIRLGLFYLDHDLVTESIEKAKSLIEEGGDW  177 (393)
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHH-------HHHHHHhhcccchhhHHHHHHHHHhhccHHHHHHHHHHHHHHHHhCCCh
Confidence            455566677888888888777765       33444455566667664432 3333444444555566666666666554


Q ss_pred             CH----HHHHHHHHHHHhcCCcCcHHHHHHHHH
Q 005729          625 DV----VTYTTLMKALIRVDKFHKVPAVYEEMI  653 (680)
Q Consensus       625 ~~----~~~~~l~~~~~~~g~~~~A~~~~~~m~  653 (680)
                      +.    .+|..+-  +....++++|..++-+.+
T Consensus       178 eRrNRlKvY~Gly--~msvR~Fk~Aa~Lfld~v  208 (393)
T KOG0687|consen  178 ERRNRLKVYQGLY--CMSVRNFKEAADLFLDSV  208 (393)
T ss_pred             hhhhhHHHHHHHH--HHHHHhHHHHHHHHHHHc
Confidence            33    2333332  234456777777776655

>PF09477 Type_III_YscG: Bacterial type II secretion system chaperone protein (type_III_yscG); InterPro: IPR013348 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)

Probab=81.15  E-value=27  Score=28.20  Aligned_cols=81  Identities=16%  Similarity=0.167  Sum_probs=60.3

Q ss_pred             CCCChHHHHHHHHHHHHCCCCCchHHHHHHHHHHhcccCCHHHHHHh-hCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Q 005729          139 SNSSIDLAYAVVSWLQKHNLCYSYELLYSILIHALGRSEKLYEAFLL-SQRQRLTPLTYNALISACARNDDLEKALNLMS  217 (680)
Q Consensus       139 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~-~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~  217 (680)
                      .....++|..+..|+...+.  ....+.-+.+..+...|++.+|+.. .....||...|-+|-.  .+.|-.+++...+.
T Consensus        18 G~HcH~EA~tIa~wL~~~~~--~~E~v~lIr~~sLmNrG~Yq~ALl~~~~~~~pdL~p~~AL~a--~klGL~~~~e~~l~   93 (116)
T PF09477_consen   18 GHHCHQEANTIADWLEQEGE--MEEVVALIRLSSLMNRGDYQEALLLPQCHCYPDLEPWAALCA--WKLGLASALESRLT   93 (116)
T ss_dssp             TTT-HHHHHHHHHHHHHTTT--THHHHHHHHHHHHHHTT-HHHHHHHHTTS--GGGHHHHHHHH--HHCT-HHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHHhhHHHHHHHHhcccCCCccHHHHHHHHH--HhhccHHHHHHHHH
Confidence            34467899999999999883  3445556667888999999999777 6677889999988765  68899999999999


Q ss_pred             HHHHcC
Q 005729          218 KMRQDG  223 (680)
Q Consensus       218 ~m~~~g  223 (680)
                      ++...|
T Consensus        94 rla~~g   99 (116)
T PF09477_consen   94 RLASSG   99 (116)
T ss_dssp             HHCT-S
T ss_pred             HHHhCC
Confidence            888776

The secretion system delivers effector proteins, designated Yops (Yersinia outer proteins), in Yersinia. This entry consists of YscG from Yersinia, and functionally equivalent type III secretion proteins in other species: e.g. AscG in Aeromonas and LscG in Photorhabdus luminescens.; GO: 0009405 pathogenesis; PDB: 3PH0_D 2UWJ_G 2P58_C.

>KOG2471 consensus TPR repeat-containing protein [General function prediction only]

Probab=81.14  E-value=63  Score=33.84  Aligned_cols=115  Identities=17%  Similarity=0.093  Sum_probs=71.9

Q ss_pred             HHHhcCCHHHHHHHHHHHH---HCCCCCCH-----HHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCC
Q 005729          519 LLGEQERWEDVKRLLGNMR---AQGLLPNV-----VTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPS  590 (680)
Q Consensus       519 ~~~~~g~~~~A~~~~~~m~---~~~~~p~~-----~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~  590 (680)
                      .+.-.|++.+|.+++...-   +.|...+.     ..+|.|.-...+.|.+.-+..+|.    +|++-+..-...|++|.
T Consensus       249 ~eY~~gn~~kA~KlL~~sni~~~~g~~~T~q~~~cif~NNlGcIh~~~~~y~~~~~~F~----kAL~N~c~qL~~g~~~~  324 (696)
T KOG2471|consen  249 LEYAHGNHPKAMKLLLVSNIHKEAGGTITPQLSSCIFNNNLGCIHYQLGCYQASSVLFL----KALRNSCSQLRNGLKPA  324 (696)
T ss_pred             HHHHhcchHHHHHHHHhcccccccCccccchhhhheeecCcceEeeehhhHHHHHHHHH----HHHHHHHHHHhccCCCC
Confidence            3455678888877765432   11322221     123455555556666666666654    44443444444566554


Q ss_pred             H-----------HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 005729          591 N-----------LALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALIRV  639 (680)
Q Consensus       591 ~-----------~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~  639 (680)
                      .           .+||+= -.|...|+.-.|.+.|.+..+. +.-++..|..|..+|...
T Consensus       325 ~~~tls~nks~eilYNcG-~~~Lh~grPl~AfqCf~~av~v-fh~nPrlWLRlAEcCima  382 (696)
T KOG2471|consen  325 KTFTLSQNKSMEILYNCG-LLYLHSGRPLLAFQCFQKAVHV-FHRNPRLWLRLAECCIMA  382 (696)
T ss_pred             cceehhcccchhhHHhhh-HHHHhcCCcHHHHHHHHHHHHH-HhcCcHHHHHHHHHHHHH
Confidence            2           345543 3567899999999999998864 567899999999998644

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=81.06  E-value=4.6  Score=24.60  Aligned_cols=29  Identities=24%  Similarity=0.195  Sum_probs=25.8

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Q 005729          194 LTYNALISACARNDDLEKALNLMSKMRQD  222 (680)
Q Consensus       194 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~  222 (680)
                      .+|..+...|...|++++|+..|++..+.
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~   30 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALEL   30 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHH
Confidence            57899999999999999999999999875

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 ....

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=80.53  E-value=1e+02  Score=34.40  Aligned_cols=102  Identities=11%  Similarity=0.091  Sum_probs=66.1

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHhCCCCC---CHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHc
Q 005729          272 IVGFAKAGDASKAMRFLGMAQGVGLSP---KTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKM  348 (680)
Q Consensus       272 i~~~~~~g~~~~A~~~~~~~~~~g~~p---~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~  348 (680)
                      |..+.+.+.+++|+++.+.....  .|   -...+..+|..+.-.|++++|-...-.|...    +..-|-..+..+...
T Consensus       363 i~Wll~~k~yeeAl~~~k~~~~~--~~~~~i~kv~~~yI~HLl~~~~y~~Aas~~p~m~gn----~~~eWe~~V~~f~e~  436 (846)
T KOG2066|consen  363 IDWLLEKKKYEEALDAAKASIGN--EERFVIKKVGKTYIDHLLFEGKYDEAASLCPKMLGN----NAAEWELWVFKFAEL  436 (846)
T ss_pred             HHHHHHhhHHHHHHHHHHhccCC--ccccchHHHHHHHHHHHHhcchHHHHHhhhHHHhcc----hHHHHHHHHHHhccc
Confidence            55667788888888887765432  33   2345777888888889999988888888754    556666666666666


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH
Q 005729          349 GYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYAN  382 (680)
Q Consensus       349 g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~  382 (680)
                      ++......   -+.......+...|..++..+..
T Consensus       437 ~~l~~Ia~---~lPt~~~rL~p~vYemvLve~L~  467 (846)
T KOG2066|consen  437 DQLTDIAP---YLPTGPPRLKPLVYEMVLVEFLA  467 (846)
T ss_pred             cccchhhc---cCCCCCcccCchHHHHHHHHHHH
Confidence            65544332   22322223455667776666665

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=80.38  E-value=1e+02  Score=34.39  Aligned_cols=69  Identities=10%  Similarity=-0.046  Sum_probs=43.4

Q ss_pred             HhcCCHHHHHHHHHHHHHCC--CC----CCHHHHHHHHH--HHHhcCCcCcHHHHHH--------HHHHcCCCCCHHHHH
Q 005729          602 GEDQRDAEAFAVLQYMKENG--LK----PDVVTYTTLMK--ALIRVDKFHKVPAVYE--------EMILSGCTPDRKARA  665 (680)
Q Consensus       602 ~~~g~~~~A~~~~~~m~~~g--~~----p~~~~~~~l~~--~~~~~g~~~~A~~~~~--------~m~~~g~~pd~~~~~  665 (680)
                      +-.+++..|...++.|.+..  .+    .....+..++.  .+...|+.+.|...|.        .....+...+..++.
T Consensus       372 ~~~~~~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~yL~gl~~q~~g~l~~A~~~y~~~~~~~~~~~~~~~~~~El~ila  451 (608)
T PF10345_consen  372 FIRGDWSKATQELEFMRQLCQRSPSKLYESLYPLLHYLLGLYYQSTGDLEAALYQYQKPRFLLCEAANRKSKFRELYILA  451 (608)
T ss_pred             HHCcCHHHHHHHHHHHHHHHhcCccchhhhhhHHHHHHHHHHHHHcCCHHHHHHHHhhhHHhhhhhhccCCcchHHHHHH
Confidence            45789999999999998531  11    12223333333  3456699999999997        555555555555555


Q ss_pred             HHHHH
Q 005729          666 MLRSA  670 (680)
Q Consensus       666 ~l~~a  670 (680)
                      .+-.+
T Consensus       452 ~LNl~  456 (608)
T PF10345_consen  452 ALNLA  456 (608)
T ss_pred             HHHHH
Confidence            44333

It is associated with the cohesin complex and is required in G1 for cohesin binding to chromosomes, but is dispensable in G2 when cohesion has been established. It is often referred to as Ssl3 in Schizosaccharomyces pombe (Fission yeast), and Scc4 in Saccharomyces cerevisiae (Baker's yeast). It complexes with Mis4 [].

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=80.22  E-value=28  Score=27.76  Aligned_cols=85  Identities=15%  Similarity=0.103  Sum_probs=63.9

Q ss_pred             ChHHHHHHHHHHHHCCCCCchHHHHHHHHHHhcccCCHHHHHHh-hCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 005729          142 SIDLAYAVVSWLQKHNLCYSYELLYSILIHALGRSEKLYEAFLL-SQRQRLTPLTYNALISACARNDDLEKALNLMSKMR  220 (680)
Q Consensus       142 ~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~-~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  220 (680)
                      ..++|..+-.|+...+.  ....+.-+-+..+...|++.+|..+ ...+-||...|-+|-.  .+.|..+++...+.+|.
T Consensus        20 cHqEA~tIAdwL~~~~~--~~E~v~lIRlsSLmNrG~Yq~Al~l~~~~~~pdlepw~ALce--~rlGl~s~l~~rl~rla   95 (115)
T TIGR02508        20 CHQEANTIADWLHLKGE--SEEAVQLIRLSSLMNRGDYQSALQLGNKLCYPDLEPWLALCE--WRLGLGSALESRLNRLA   95 (115)
T ss_pred             HHHHHHHHHHHHhcCCc--hHHHHHHHHHHHHHccchHHHHHHhcCCCCCchHHHHHHHHH--HhhccHHHHHHHHHHHH
Confidence            45788899999988762  2344555567888999999999998 5567889999988765  57788888888888888


Q ss_pred             HcCCCCChhhH
Q 005729          221 QDGYHCDFINY  231 (680)
Q Consensus       221 ~~g~~p~~~~~  231 (680)
                      ..| .|....|
T Consensus        96 ~sg-~p~lq~F  105 (115)
T TIGR02508        96 ASG-DPRLQTF  105 (115)
T ss_pred             hCC-CHHHHHH
Confidence            876 3444333

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.

---

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	680
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-17
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	3e-17
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	6e-17
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	4e-13
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-09
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-07
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-07
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	9e-11
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-09
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-05
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	6e-07
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	3e-06
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	6e-05
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	1e-05
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	2e-05
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	2e-05
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	2e-05
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	9e-05
3v6t_A	499	DHAX3; tandem repeats, DNA specific binding protei	1e-04
3v6t_A	499	DHAX3; tandem repeats, DNA specific binding protei	1e-04
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	1e-04
3ugm_A	1047	TAL effector avrbs3/PTHA; TAL effector; 3.00A {Xan	2e-04
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	9e-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 = 85.6 bits (210), Expect = 2e-17
 Identities = 28/218 (12%), Positives = 68/218 (31%), Gaps = 4/218 (1%)

Query: 297 SPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEF 356
           SP     A ++            +A   +  ++ L  + +   A  K  +    L  A  
Sbjct: 89  SPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHH 148

Query: 357 VV---SEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILA 413
           ++       +   L     Y+ ++  +A  G ++    VL  ++ +   P+   Y+  L 
Sbjct: 149 LLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQ 208

Query: 414 GYRDRGEWQRTFQ-VLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIE 472
               + +   T +  L++M   G++    F  V++    +   L                
Sbjct: 209 CMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQL 268

Query: 473 PDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCT 510
           P  +  + L+   +         +L   ++        
Sbjct: 269 PPPVNTSKLLRDVYAKDGRVSYPKLHLPLKTLQCLFEK 306

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 85.6 bits (210), Expect = 3e-17
 Identities = 20/191 (10%), Positives = 53/191 (27%), Gaps = 4/191 (2%)

Query: 388 SARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMI 447
            A  +      +   P     +R+L     +           +   + +           
Sbjct: 75  MAGCLEDCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFF 134

Query: 448 DTF---GKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQER 504
                  +    HH +        +        +N ++    + G +     +   +++ 
Sbjct: 135 KCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDA 194

Query: 505 GYFPCTTTYNIMINLLGEQER-WEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDD 563
           G  P   +Y   +  +G Q++    ++R L  M  +GL    +    L+    ++     
Sbjct: 195 GLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKA 254

Query: 564 AIECLEGLSDQ 574
             +     S  
Sbjct: 255 VHKVKPTFSLP 265

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 84.5 bits (207), Expect = 6e-17
 Identities = 23/203 (11%), Positives = 58/203 (28%), Gaps = 4/203 (1%)

Query: 268 LNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELK 327
           L  ++                G      LS +     A       + +   A  +     
Sbjct: 95  LARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHH 154

Query: 328 E---SGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAG 384
                        YNA++ G+ + G  K+  +V+  ++ +G+ PD  +Y+  +       
Sbjct: 155 GQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQD 214

Query: 385 R-WESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFY 443
           +   +    L++M     K  +   + +L+        +   +V          P     
Sbjct: 215 QDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNT 274

Query: 444 NVMIDTFGKYNCLHHAMAAFDRM 466
           + ++      +           +
Sbjct: 275 SKLLRDVYAKDGRVSYPKLHLPL 297

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 72.2 bits (175), Expect = 4e-13
 Identities = 23/168 (13%), Positives = 49/168 (29%), Gaps = 9/168 (5%)

Query: 494 AEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVD 553
           A  L +  ++    P       ++     +   +  +   G      L            
Sbjct: 76  AGCLEDCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFK 135

Query: 554 IYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAV 613
               + +   A   L              R      +    N+++  +       E   V
Sbjct: 136 CCLLTDQLPLAHHLLV--------VHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYV 187

Query: 614 LQYMKENGLKPDVVTYTTLMKALIRVDKFHK-VPAVYEEMILSGCTPD 660
           L  +K+ GL PD+++Y   ++ + R D+    +    E+M   G    
Sbjct: 188 LFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQ 235

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 60.2 bits (144), Expect = 2e-09
 Identities = 40/209 (19%), Positives = 72/209 (34%), Gaps = 3/209 (1%)

Query: 195 TYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSL-LQKLY 253
               L+        L+       +  Q              +    T+++  +  L  ++
Sbjct: 94  QLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVH 153

Query: 254 KEIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNS 313
                 +  L   + N V++G+A+ G   + +  L M +  GL+P   +YAA +  +   
Sbjct: 154 HGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQ 213

Query: 314 GRTIEA-EAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHT 372
            +     E   E++ + GLK +      LL    +   LK    V         LP    
Sbjct: 214 DQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVN 273

Query: 373 YS-LLIDAYANAGRWESARIVLKEMEVSH 400
            S LL D YA  GR    ++ L    +  
Sbjct: 274 TSKLLRDVYAKDGRVSYPKLHLPLKTLQC 302

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 53.7 bits (127), Expect = 2e-07
 Identities = 16/97 (16%), Positives = 27/97 (27%), Gaps = 4/97 (4%)

Query: 580 RVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKE---NGLKPDVVTYTTLMKAL 636
                  L      L +         +   A  +L              +  Y  +M   
Sbjct: 116 GQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGW 175

Query: 637 IRVDKFHKVPAVYEEMILSGCTPDRKA-RAMLRSALR 672
            R   F ++  V   +  +G TPD  +  A L+   R
Sbjct: 176 ARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGR 212

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 53.7 bits (127), Expect = 2e-07
 Identities = 35/249 (14%), Positives = 84/249 (33%), Gaps = 15/249 (6%)

Query: 68  EEDDDDVLSLQKQRYDFTPLLNFLSENSNSESAS-ALASSPSSLN-RVEFKLAESYRAVP 125
           +  + D  + Q +       L    ++   ++ +  L   P  L+ ++   L +  R  P
Sbjct: 28  KILEKDKRTQQMRMQRLKAKLQMPFQSGEFKALTRRLQVEPRLLSKQMAGCLEDCTRQAP 87

Query: 126 APLWHSLLKNL---CSSNSSIDLAYAVVSWLQKHNLCYSYELLYSILIHALGRSEKLYEA 182
              W   L  L        S+D+  A  S           +            +++L  A
Sbjct: 88  ESPWEEQLARLLQEAPGKLSLDVEQAP-SGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLA 146

Query: 183 FLLSQRQR--------LTPLTYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLV 234
             L             LT   YNA++   AR    ++ + ++  ++  G   D ++Y+  
Sbjct: 147 HHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAA 206

Query: 235 IQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGV 294
           +Q + R ++ D+  +++  +++  + ++L       ++    +A       +        
Sbjct: 207 LQCMGRQDQ-DAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLP 265

Query: 295 GLSPKTATY 303
              P     
Sbjct: 266 PQLPPPVNT 274

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 64.5 bits (156), Expect = 9e-11
 Identities = 50/358 (13%), Positives = 99/358 (27%), Gaps = 100/358 (27%)

Query: 338 YNALLKGYVKMGYLKDAEFV-VSEMERSGVL-------------PDEHTYSLLIDAYANA 383
           Y  +L  +    ++ + +   V +M +S +L                 T   L     + 
Sbjct: 18  YKDILSVFED-AFVDNFDCKDVQDMPKS-ILSKEEIDHIIMSKDAVSGTL-RLFWTLLSK 74

Query: 384 GRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFY 443
                  +V K +E        F+ S I    R      R +   ++   +  +     Y
Sbjct: 75  Q----EEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAK-Y 129

Query: 444 NVM-IDTFGKY-NCLH----------HAMA-------AFDRMLSEGIE---PDTITWNTL 481
           NV  +  + K    L             +        A D  LS  ++      I W  L
Sbjct: 130 NVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNL 189

Query: 482 IDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQE-------RWEDVKRLLG 534
                     +  E + E +Q          Y I  N     +       R   ++  L 
Sbjct: 190 -------KNCNSPETVLEMLQ-------KLLYQIDPNWTSRSDHSSNIKLRIHSIQAELR 235

Query: 535 NMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSD-QAVNAF----RVMRT----- 584
            +       N +    LV          +       + + +A NAF    +++ T     
Sbjct: 236 RLLKSKPYENCL----LV--------LLN-------VQNAKAWNAFNLSCKILLTTRFKQ 276

Query: 585 -----DGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALI 637
                     ++++L+        D+            +   L  +V+T      ++I
Sbjct: 277 VTDFLSAATTTHISLDHHSMTLTPDEVK-SLLLKYLDCRPQDLPREVLTTNPRRLSII 333

>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 = 59.5 bits (143), Expect = 3e-09
 Identities = 68/367 (18%), Positives = 107/367 (29%), Gaps = 118/367 (32%)

Query: 32  AFSVSTITGITTATASGESSFSSSSFTSKQNDTEEEEEDDDDVLSLQKQRYDFTPLLNFL 91
           AF++S    +TT         S+++ T    D        D+V SL         LL +L
Sbjct: 261 AFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSL---------LLKYL 311

Query: 92  SENSNSESASALASSPSSLNRVEFKLAESYRAVPAPLWHSLLKNLCSS-NSSIDLAYAVV 150
                      L ++P  L+ +    AES R   A  W +     C    + I+ +  V+
Sbjct: 312 DCRPQDLPREVLTTNPRRLSII----AESIRDGLA-TWDNWKHVNCDKLTTIIESSLNVL 366

Query: 151 S----------------------------WLQKH--------NLCYSYELL------YSI 168
                                        W            N  + Y L+       +I
Sbjct: 367 EPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTI 426

Query: 169 LIHALGRSEKLYEAFLLSQRQRLTPLTYNALISACARNDDLEKALNLMSKMRQDGYHCDF 228
            I ++    K+      +  + +    YN  I     +DDL            D Y    
Sbjct: 427 SIPSIYLELKVKLENEYALHRSIVD-HYN--IPKTFDSDDL-------IPPYLDQYFYSH 476

Query: 229 INYSL-------------------------VIQSLTRTNKIDS--SLLQ--KLYKEIECD 259
           I + L                         +    T  N   S  + LQ  K YK   CD
Sbjct: 477 IGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICD 536

Query: 260 KIELDGQLLNDVIVGFAKAGDASKAMRFL-GMAQGVGLSPKTATYAAVITALSNSGRTIE 318
                 +L+N +             + FL  + + +  S  T     +  AL       E
Sbjct: 537 NDPKYERLVNAI-------------LDFLPKIEENLICSKYTDL---LRIALMA-----E 575

Query: 319 AEAVFEE 325
            EA+FEE
Sbjct: 576 DEAIFEE 582

>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 = 47.9 bits (113), Expect = 1e-05
 Identities = 62/492 (12%), Positives = 147/492 (29%), Gaps = 157/492 (31%)

Query: 66  EEEEDDDDVLSLQKQRYDFTPLLNFLSENSNSESASALASSPSSLNRVEFKLAESYRAVP 125
                +  +  LQK  Y   P  N+ S + +S +          ++ ++ +L    ++ P
Sbjct: 191 NCNSPETVLEMLQKLLYQIDP--NWTSRSDHSSNI------KLRIHSIQAELRRLLKSKP 242

Query: 126 APLWHSL--LKNLCSSN---------------SSIDLAYAVVSWLQKHNLCYSYELLYSI 168
               + L  L N+ ++                    +   + +    H    S +     
Sbjct: 243 YE--NCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTH---ISLDHHSMT 297

Query: 169 LIHALGRSEKLYEAFLLSQRQRL-------TPLTYNALISACARNDDLEKALNLMSKMRQ 221
           L       + L   +L  + Q L        P    ++I+   R+               
Sbjct: 298 LTPD--EVKSLLLKYLDCRPQDLPREVLTTNPRRL-SIIAESIRDG----------LATW 344

Query: 222 DGY-HCDFINYSLVIQ-SLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAG 279
           D + H +    + +I+ SL   N ++ +  +K++  +               +  F    
Sbjct: 345 DNWKHVNCDKLTTIIESSL---NVLEPAEYRKMFDRL--------------SV--FPP-- 383

Query: 280 DASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGL-----KPR 334
                           +         +++ +       +   V  +L +  L     K  
Sbjct: 384 -------------SAHIPTI------LLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKES 424

Query: 335 TKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLK 394
           T +  ++        YL+    +  ++E    L   H    ++D Y     ++S  ++  
Sbjct: 425 TISIPSI--------YLE----LKVKLENEYAL---H--RSIVDHYNIPKTFDSDDLIPP 467

Query: 395 EMEVSHAKPNSFIYSRILAGY----RDRGEWQRTFQVL--------KEMKSSGV--EPDT 440
            ++        + YS I  G+     +  E    F+++        ++++          
Sbjct: 468 YLD-------QYFYSHI--GHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASG 518

Query: 441 HFYNVMID--TFGKYNCLHHAMAAFDRMLSE------GIEPDTITWNTLIDCHFKC---- 488
              N +     +  Y C +     ++R+++        IE +      LI   +      
Sbjct: 519 SILNTLQQLKFYKPYICDND--PKYERLVNAILDFLPKIEEN------LICSKYTDLLRI 570

Query: 489 GRYDRAEELFEE 500
                 E +FEE
Sbjct: 571 ALMAEDEAIFEE 582

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2 Length = 373

 Score = 51.1 bits (122), Expect = 6e-07
 Identities = 38/269 (14%), Positives = 77/269 (28%), Gaps = 31/269 (11%)

Query: 372 TYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSF---IYSRILAG--YRDRGEW----- 421
             S+L +     G    +  ++++ E    + + +   ++S I        +G       
Sbjct: 55  ATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFAQGFLQTAWE 114

Query: 422 --QRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDR---MLSEGIEPDTI 476
             ++ FQ++ E     +        +       +  L  A A+      +LS       +
Sbjct: 115 TQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQL 174

Query: 477 TW-NTLIDCHFKCGRYDRAEELFEE----MQERGYFPCTTTY--NIMINLLGEQERWEDV 529
                LI C    G  D A          +    Y     +    + +            
Sbjct: 175 QCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAA 234

Query: 530 KRLLGNMRAQGLLPNVVT---YTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDG 586
              L +        N      +  +       G F+ A   LE L++ A +   +     
Sbjct: 235 ANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDL-- 292

Query: 587 LKPSNLALNSLINAFGEDQRDAEAFAVLQ 615
               N  L  L   + +  R ++A  VL 
Sbjct: 293 ----NRNLLLLNQLYWQAGRKSDAQRVLL 317

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus} Length = 291

 Score = 48.6 bits (115), Expect = 3e-06
 Identities = 40/275 (14%), Positives = 83/275 (30%), Gaps = 20/275 (7%)

Query: 296 LSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAE 355
            SP+      V    +   +  +   V +E+K S   P  +A     +            
Sbjct: 28  SSPERDVERDVFLYRAYLAQR-KYGVVLDEIKPSS-APELQAVRMFAEYLASHSRRDAIV 85

Query: 356 FVVSEMERSGVLPDEHTYSLLI-DAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAG 414
             +       V     T+ L+    Y      ++A   L + +      +    +  +  
Sbjct: 86  AELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQGD------SLECMAMTVQI 139

Query: 415 YRDRGEWQRTFQVLKEMKSSGVEPD---THFYNVMIDTFGKYNCLHHAMAAFDRMLSEGI 471
                      + LK+M+    + D   T      +        L  A   F  M  +  
Sbjct: 140 LLKLDRLDLARKELKKMQD--QDEDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKC- 196

Query: 472 EPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKR 531
            P  +  N    CH   GR++ AE + +E  ++      T  N+++      +  E   R
Sbjct: 197 SPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDSGHPETLINLVVLSQHLGKPPEVTNR 256

Query: 532 LLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIE 566
            L   + +    +   +  + +   +   FD  + 
Sbjct: 257 YLS--QLKDAHRS---HPFIKEYRAKENDFDRLVL 286

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus} Length = 291

 Score = 44.3 bits (104), Expect = 6e-05
 Identities = 33/247 (13%), Positives = 69/247 (27%), Gaps = 27/247 (10%)

Query: 369 DEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGY-RDRGEWQRTFQV 427
           D      L  AY    ++      +K       +       R+ A Y             
Sbjct: 33  DVERDVFLYRAYLAQRKYGVVLDEIKPSSAPELQAV-----RMFAEYLASHSRRDAIVAE 87

Query: 428 LKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFK 487
           L    S  V+     + +M  +        +       + +             +    K
Sbjct: 88  LDREMSRSVDVTNTTFLLMAAS-----IYFYDQNPDAALRTLHQGDSLECMAMTVQILLK 142

Query: 488 CGRYDRAEELFEEMQERG-YFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVV 546
             R D A +  ++MQ++      T      ++L    E+ +D   +   M A    P ++
Sbjct: 143 LDRLDLARKELKKMQDQDEDATLTQLATAWVSLAAGGEKLQDAYYIFQEM-ADKCSPTLL 201

Query: 547 TYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNL-ALNSLINAFGEDQ 605
                   +   GR++ A   L+    +A++             +   L +L+       
Sbjct: 202 LLNGQAACHMAQGRWEAAEGVLQ----EALD---------KDSGHPETLINLVVLSQHLG 248

Query: 606 RDAEAFA 612
           +  E   
Sbjct: 249 KPPEVTN 255

>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} Length = 330

 Score = 46.9 bits (112), Expect = 1e-05
 Identities = 45/327 (13%), Positives = 106/327 (32%), Gaps = 43/327 (13%)

Query: 303 YAAVITALSNSGRTIEAEAVFEELKESGLKP-RTKAYNALLKGYVKMGYLKDAEFVVSEM 361
             ++      +        +   + E    P         +   V++    +  ++  ++
Sbjct: 25  VVSLAERHYYNCDFKMCYKLTSVVME--KDPFHASCLPVHIGTLVELNKANELFYLSHKL 82

Query: 362 ERSGVLPDEH-TYSLLIDAYANAGR-WESARIVLKEMEVSHAKPNSFIYSRILAG--YRD 417
               + P    ++  +   Y   G   E AR  L +   +  +   +  + I  G  +  
Sbjct: 83  --VDLYPSNPVSWFAVGCYYLMVGHKNEHARRYLSK--ATTLEKT-YGPAWIAYGHSFAV 137

Query: 418 RGEWQRTFQVLKEMKSSGVEPDTHF-YNVMIDTFGKYNCLHHAMAAFDRMLSEGIEP-DT 475
             E  +         ++ +    H     +   +G  N    A   F + LS  I P D 
Sbjct: 138 ESEHDQAMAAYF--TAAQLMKGCHLPMLYIGLEYGLTNNSKLAERFFSQALS--IAPEDP 193

Query: 476 ITWNTLIDCHFKCGRYDRAEELFEE--------MQERGYFPCTTTYNIMINLLGEQERWE 527
              + +    F+ G +  AE+ F +          E          N + ++  + +++ 
Sbjct: 194 FVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYA 253

Query: 528 DVKRLLGNMRAQGLLPN-VVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDG 586
           +        +A  L+P    TY+ +  I+   G F++A++        A+          
Sbjct: 254 EALDYH--RQALVLIPQNASTYSAIGYIHSLMGNFENAVDYF----HTALG--------- 298

Query: 587 LKPSN-LALNSLINAFGEDQRDAEAFA 612
           L+  +  ++  L +       D+EA+ 
Sbjct: 299 LRRDDTFSVTMLGHCIEMYIGDSEAYI 325

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe} Length = 597

 Score = 47.1 bits (112), Expect = 2e-05
 Identities = 30/206 (14%), Positives = 55/206 (26%), Gaps = 10/206 (4%)

Query: 368 PDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQV 427
            +     L    Y N   ++ A+   KE          +     L         +    V
Sbjct: 198 LEASMCYLRGQVYTNLSNFDRAKECYKE--ALMVDAKCYEAFDQLVSNHLLTADEEWDLV 255

Query: 428 LKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLS--EGIEPDTITWNTLIDCH 485
           LK   S+  + D  F   +             +   +  LS   G+E  +       D  
Sbjct: 256 LKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSSINGLEKSSDLLLCKADTL 315

Query: 486 FKCGRYDRAEELFEEMQERGYFP-CTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPN 544
           F   R+     +  ++ E    P     Y + +  L E      +  +          P 
Sbjct: 316 FVRSRFIDVLAITTKILEI--DPYNLDVYPLHLASLHESGEKNKLYLISN--DLVDRHPE 371

Query: 545 -VVTYTTLVDIYGQSGRFDDAIECLE 569
             VT+  +   Y    +  +A     
Sbjct: 372 KAVTWLAVGIYYLCVNKISEARRYFS 397

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe} Length = 597

 Score = 46.8 bits (111), Expect = 2e-05
 Identities = 81/560 (14%), Positives = 163/560 (29%), Gaps = 55/560 (9%)

Query: 34  SVSTITGITTATASGESSFSSSSFTSKQNDTEEEEEDDDDVL------SLQKQRYDFTPL 87
           S  +   I+  T    ++ +  SF  ++N    +    +D L      +L +Q+Y     
Sbjct: 46  SQLSTLTISPMTYLANNTSTDGSFLKERNAQNTDSLSREDYLRLWRHDALMQQQYK-CAA 104

Query: 88  LNF---LSENSNSESASALASSPSSLNRVEFKLAESYRAVPAPLWHSLLKNLCSSNSSID 144
                 L    N   A  LA       +V     +  RA    L    L N   S++   
Sbjct: 105 FVGEKVLDITGNPNDAFWLA-------QVYCCTGDYARAK-CLLTKEDLYN--RSSACRY 154

Query: 145 LAYAVVSWLQKHNLCYSYELLYSILIHALGRSEKLYEAFLLSQRQRLTPLTYNALISACA 204
           LA   +  L       +   L           +   +  +     +L             
Sbjct: 155 LAAFCLVKLYDWQGALN---LLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYT 211

Query: 205 RNDDLEKALNLMSK-MRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIEL 263
              + ++A     + +  D    +  +  +    LT   + D  +L+  Y     +    
Sbjct: 212 NLSNFDRAKECYKEALMVDAKCYEAFDQLVSNHLLTADEEWDL-VLKLNYSTYSKEDAAF 270

Query: 264 DGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVF 323
              L    +   +   +  +A  +L    G  L   +         L    R I+  A+ 
Sbjct: 271 LRSLYMLKLNKTSHEDELRRAEDYLSSING--LEKSSDLLLCKADTLFVRSRFIDVLAIT 328

Query: 324 EELKESGLKP-RTKAYNALLKGYVKMGYLKDAEFVVSE-MERSGVLPDEH-TYSLLIDAY 380
            ++ E  + P     Y   L    + G       + ++ ++R    P++  T+  +   Y
Sbjct: 329 TKILE--IDPYNLDVYPLHLASLHESGEKNKLYLISNDLVDRH---PEKAVTWLAVGIYY 383

Query: 381 ANAGRWESARIVLKEMEVSHAKPNSFIYSRILAG--YRDRGEWQRTFQVLKEMKSSGVEP 438
               +   AR    +   S   P  F  + I     +   GE  +         ++ +  
Sbjct: 384 LCVNKISEARRYFSK--SSTMDPQ-FGPAWIGFAHSFAIEGEHDQAISAYT--TAARLFQ 438

Query: 439 DTHF-YNVMIDTFGKYNCLHHAMAAFDRMLSEGIEP-DTITWNTLIDCHFKCGRYDRAEE 496
            TH  Y  +     +   +  A        +  +   D +  N L    F       A  
Sbjct: 439 GTHLPYLFLGMQHMQLGNILLANEYLQSSYA--LFQYDPLLLNELGVVAFNKSDMQTAIN 496

Query: 497 LFEE------MQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPN-VVTYT 549
            F+         +    P   T+  + +   + + ++     L   +   L  N    +T
Sbjct: 497 HFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDAL--NQGLLLSTNDANVHT 554

Query: 550 TLVDIYGQSGRFDDAIECLE 569
            +  +Y        AI  L 
Sbjct: 555 AIALVYLHKKIPGLAITHLH 574

>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 Length = 388

 Score = 46.4 bits (111), Expect = 2e-05
 Identities = 32/171 (18%), Positives = 56/171 (32%), Gaps = 25/171 (14%)

Query: 459 AMAAFDRMLSEGIEPD-TITWNTLIDCHFKCGRYDRAEELFEE-MQERGYFPCTTTYNIM 516
           A     ++     EPD T     L   HF+C R DR+       +++         Y+ +
Sbjct: 18  AERHCMQLWR--QEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAE--AYSNL 73

Query: 517 INLLGEQERWEDVKRLLGNMRAQGLLPNVV-TYTTLVDIYGQSGRFDDAIECLEGLSDQA 575
            N+  E+ + ++         A  L P+ +  Y  L      +G  + A++        A
Sbjct: 74  GNVYKERGQLQEAIEHYR--HALRLKPDFIDGYINLAAALVAAGDMEGAVQAY----VSA 127

Query: 576 VNAFRVMRTDGLKPSNL-ALNSLINAFGEDQRDAEAFAVLQYMKENGLKPD 625
           +            P      + L N      R  EA A      E   +P+
Sbjct: 128 LQ---------YNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIE--TQPN 167

>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 Length = 388

 Score = 44.5 bits (106), Expect = 9e-05
 Identities = 66/329 (20%), Positives = 107/329 (32%), Gaps = 45/329 (13%)

Query: 309 ALSNSGRTIEAEAVFEELKESGLKPR-TKAYNALLKGYVKMGYLKDAEFVVSEMERSGVL 367
               +G    AE    +L     +P  T     L   + +   L  +         +   
Sbjct: 8   REYQAGDFEAAERHCMQLWR--QEPDNTGVLLLLSSIHFQCRRLDRSA---HFSTLAIKQ 62

Query: 368 -PDEH-TYSLLIDAYANAGRWESARIVLKEMEVSHA---KPN-SFIYSRILAGYRDRGEW 421
            P     YS L + Y   G+ + A    +     HA   KP+    Y  + A     G+ 
Sbjct: 63  NPLLAEAYSNLGNVYKERGQLQEAIEHYR-----HALRLKPDFIDGYINLAAALVAAGDM 117

Query: 422 QRTFQVLKEMKSSGVEPDTH-FYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPD-TITWN 479
           +   Q      +    PD +   + + +       L  A A + + +    +P+  + W+
Sbjct: 118 EGAVQAYV--SALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIE--TQPNFAVAWS 173

Query: 480 TLIDCHFKCGRYDRAEELFEEMQERGYFP-CTTTYNIMINLLGEQERWEDVKRLLGNMRA 538
            L       G    A   FE+       P     Y  + N+L E   ++        +RA
Sbjct: 174 NLGCVFNAQGEIWLAIHHFEKAVT--LDPNFLDAYINLGNVLKEARIFDRAVAAY--LRA 229

Query: 539 QGLLPN-VVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSN-LALNS 596
             L PN  V +  L  +Y + G  D AI+       +A+          L+P    A  +
Sbjct: 230 LSLSPNHAVVHGNLACVYYEQGLIDLAIDTY----RRAIE---------LQPHFPDAYCN 276

Query: 597 LINAFGEDQRDAEAFAVLQYMKENGLKPD 625
           L NA  E    AEA     Y     L P 
Sbjct: 277 LANALKEKGSVAEAEDC--YNTALRLCPT 303

>3v6t_A DHAX3; tandem repeats, DNA specific binding protein, DNA binding DNA complex; HET: DNA; 1.85A {Xanthomonas} PDB: 3v6p_A 2kq5_A Length = 499

 Score = 44.4 bits (105), Expect = 1e-04
 Identities = 56/428 (13%), Positives = 107/428 (25%), Gaps = 69/428 (16%)

Query: 171 HALGRSEKLYEAFLLSQRQRLTP---LTYNALISACARNDDLEKALNLMSK------MRQ 221
            AL   ++L       Q   LTP   +   +        + +++ L ++ +       + 
Sbjct: 83  QALETVQRLLPVL--CQAHGLTPQQVVAIASHDGGKQALETVQRLLPVLCQAHGLTPEQV 140

Query: 222 DGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDA 281
                   ++    Q+L     +   L Q     +  +        +     G       
Sbjct: 141 VAIA----SHDGGKQALETVQALLPVLCQAH--GLTPE----QVVAIASNGGGKQALETV 190

Query: 282 SKAMRFLGMAQGVGLSPKTA-TYAAVITALSNSGRTIEAEAVFEELKESGLKPR-TKAYN 339
            + +  L  A   GL+P+     A+                V    +  GL P+   A  
Sbjct: 191 QRLLPVLCQA--HGLTPQQVVAIASNGGGKQALETVQRLLPVLC--QAHGLTPQQVVAIA 246

Query: 340 ALLKGYVKMGYLKDA------------EFVVSEMERSGVLPDEHTYSLLIDAYANAGRWE 387
           +   G   +  ++              + VV+    SG      T   L+     A    
Sbjct: 247 SNGGGKQALETVQRLLPVLCQAHGLTPQQVVAIASNSGGKQALETVQRLLPVLCQA---- 302

Query: 388 SARIVLKEMEVSHAKPNSF--IYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPD-THFYN 444
                L         P     I S      +     QR   VL   ++ G+ P       
Sbjct: 303 ---HGLT--------PQQVVAIASNGGG-KQALETVQRLLPVLC--QAHGLTPQQVVAIA 348

Query: 445 VMIDTFGKYNCLHHAMAAFDRMLSEGIEPD-TITWNTLIDCHFKCGRYDRAEELFEEMQE 503
                      +   +    +    G+ P+  +   +            R   +    Q 
Sbjct: 349 SHDGGKQALETVQRLLPVLCQAH--GLTPEQVVAIASNGGGKQALETVQRLLPVLC--QA 404

Query: 504 RGYFP-CTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPN-VVTYTTLVDIYGQSGRF 561
            G  P                E  +  + L    +A GL P  VV   +           
Sbjct: 405 HGLTPEQVVAIASHDGGKQALETVQ--RLLPVLCQAHGLTPQQVVAIASNGGGRPALESI 462

Query: 562 DDAIECLE 569
              +   +
Sbjct: 463 VAQLSRPD 470

>3v6t_A DHAX3; tandem repeats, DNA specific binding protein, DNA binding DNA complex; HET: DNA; 1.85A {Xanthomonas} PDB: 3v6p_A 2kq5_A Length = 499

 Score = 44.0 bits (104), Expect = 1e-04
 Identities = 24/174 (13%), Positives = 43/174 (24%), Gaps = 25/174 (14%)

Query: 456 LHHAMAAFDRMLSEGIEPD-TITWNTLIDCHFKCGRYDRAEELFEEMQERGYFP-CTTTY 513
           +   +    +    G+ P+  +   +                +    Q  G  P      
Sbjct: 122 VQRLLPVLCQAH--GLTPEQVVAIASHDGGKQALETVQALLPVLC--QAHGLTPEQVVAI 177

Query: 514 NIMINLLGEQERWEDVKRLLGNMRAQGLLPN-VVTYTTLVDIYGQSGRFDDAIECLEGLS 572
                     E  + +  +L   +A GL P  VV   +              +  L    
Sbjct: 178 ASNGGGKQALETVQRLLPVLC--QAHGLTPQQVVAIASNGGGKQALETVQRLLPVL---- 231

Query: 573 DQAVNAFRVMRTDGLKPSN-LALNSLINAFGEDQRDAEAFAVLQYMKENGLKPD 625
            QA          GL P   +A+ S        +            + +GL P 
Sbjct: 232 CQAH---------GLTPQQVVAIASNGGGKQALETVQRLLP--VLCQAHGLTPQ 274

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis} Length = 378

 Score = 43.7 bits (103), Expect = 1e-04
 Identities = 15/109 (13%), Positives = 32/109 (29%), Gaps = 9/109 (8%)

Query: 477 TWNTLIDCHFKCGRYDRAEELFEE----MQERGYFPCTTTYNIMINLLGEQERWEDVKRL 532
               L     K G+  +A +  EE    +  R +      +  +  +  E      +  L
Sbjct: 263 VLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDL 322

Query: 533 LGNMRAQGLLPNVV-TYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFR 580
           L     + L   +     +   ++  S  F+ A         + + A  
Sbjct: 323 LSYFEKKNLHAYIEACARSAAAVFESSCHFEQAAAFYR----KVLKAQE 367

>3ugm_A TAL effector avrbs3/PTHA; TAL effector; 3.00A {Xanthomonas oryzae} Length = 1047

 Score = 43.9 bits (103), Expect = 2e-04
 Identities = 34/207 (16%), Positives = 59/207 (28%), Gaps = 28/207 (13%)

Query: 459 AMAAFDRMLSEGIEPD-TITWNTLIDCHFKCGRYDRAEELFEEMQERGYFP-CTTTYNIM 516
            +    +    G+ P   +   +            R   +    Q  G  P         
Sbjct: 211 LLPVLCQAH--GLTPAQVVAIASHDGGKQALETMQRLLPVLC--QAHGLPPDQVVAIASN 266

Query: 517 INLLGEQERWEDVKRLLGNMRAQGLLPN-VVTYTTLVDIYGQSGRFDDAIECLEGLSDQA 575
           I      E  + +  +L   +A GL P+ VV   +              +  L     QA
Sbjct: 267 IGGKQALETVQRLLPVLC--QAHGLTPDQVVAIASHGGGKQALETVQRLLPVL----CQA 320

Query: 576 VNAFRVMRTDGLKPSNL-ALNSLINAFGEDQRDAEAFAVLQYMKENGLKPD-VVTYTTLM 633
                     GL P  + A+ S        +       +    + +GL PD VV   +  
Sbjct: 321 H---------GLTPDQVVAIASHDGGKQALETVQR--LLPVLCQAHGLTPDQVVAIASNG 369

Query: 634 KALIRVDKFHKVPAVYEEMILSGCTPD 660
                ++   ++  V  +    G TPD
Sbjct: 370 GGKQALETVQRLLPVLCQAH--GLTPD 394

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis} Length = 383

 Score = 41.3 bits (97), Expect = 9e-04
 Identities = 14/99 (14%), Positives = 34/99 (34%), Gaps = 5/99 (5%)

Query: 476 ITWNTLIDCHFKCGRYDRAEELFEE----MQERGYFPCTTTYNIMINLLGEQERWEDVKR 531
             +  +   H+K G+ D+A E   +     Q+ G     + +  + +L       E ++ 
Sbjct: 265 QAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQG 324

Query: 532 LLGNMRAQGLLPNVV-TYTTLVDIYGQSGRFDDAIECLE 569
               + ++ L  ++      +   Y +   F  A     
Sbjct: 325 FFDFLESKMLYADLEDFAIDVAKYYHERKNFQKASAYFL 363

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	680
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.97
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.96
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.96
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.96
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.92
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.9
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.9
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.89
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.89
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.87
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.86
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.84
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.81
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.8
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.79
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.79
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.78
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.77
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.76
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.73
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.73
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.73
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.73
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.72
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.72
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.72
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.71
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.71
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.71
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.7
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.69
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.69
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.68
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.67
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.59
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.57
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.54
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.53
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.53
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.52
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.51
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.5
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.5
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.49
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.48
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.48
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.47
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.47
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.47
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.46
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.46
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.46
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.45
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.44
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.44
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.43
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.42
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.42
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.42
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.39
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.36
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.35
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.35
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.34
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.33
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.32
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.31
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.29
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.28
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.28
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.27
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.27
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.24
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.22
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.2
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.19
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.15
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.14
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.13
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.07
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.07
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.06
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.06
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.0
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.93
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	98.91
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	98.9
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.87
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	98.87
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	98.83
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.82
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	98.81
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	98.81
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.76
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	98.76
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.73
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.72
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.71
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.68
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.66
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.66
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.66
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.65
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.65
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.63
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.63
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.63
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.62
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.61
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.61
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.59
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.59
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.59
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	98.59
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.57
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.55
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.48
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.46
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.43
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.39
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.38
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.38
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.38
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.36
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.36
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.36
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.34
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.34
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.34
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.3
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.29
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.27
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.27
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.26
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.26
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.26
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.25
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.21
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.2
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.19
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.16
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.16
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.15
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.14
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.12
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.12
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.11
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.11
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.11
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.09
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.07
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.04
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.03
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.01
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.01
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	97.99
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	97.99
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	97.98
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	97.97
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	97.97
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	97.96
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	97.94
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	97.93
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	97.93
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	97.92
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	97.92
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	97.92
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	97.91
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	97.9
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	97.9
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	97.89
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	97.88
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	97.87
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	97.82
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	97.81
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.77
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	97.76
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	97.72
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	97.69
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	97.67
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.64
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	97.64
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.61
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	97.59
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.59
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	97.57
3k9i_A	117	BH0479 protein; putative protein binding protein,	97.56
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	97.55
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	97.55
3k9i_A	117	BH0479 protein; putative protein binding protein,	97.54
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.48
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.47
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.43
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.4
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.4
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.37
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	97.28
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.25
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.11
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.05
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.01
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	96.94
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	96.88
2l6j_A	111	TPR repeat-containing protein associated with HSP;	96.87
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	96.82
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	96.73
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	96.7
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.65
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.55
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.47
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.4
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	96.4
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	96.18
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	96.13
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.13
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	96.06
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	95.91
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	95.79
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	95.51
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	95.32
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	95.09
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	95.07
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	94.5
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	94.43
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	94.22
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	93.74
1pc2_A	152	Mitochondria fission protein; unknown function; NM	93.72
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	93.63
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	93.33
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	91.34
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	90.85
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	90.61
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	90.43
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	89.73
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	89.73
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	89.52
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	89.28
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	89.18
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	88.56
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	86.86
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	85.42
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	85.39
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	85.28
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	85.1
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	84.66
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	83.19
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	80.44

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=8.2e-38  Score=347.30  Aligned_cols=485  Identities=11%  Similarity=0.008  Sum_probs=344.1

Q ss_pred             HHHHHHHHHHhcccCCHHHHHHh---hCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHH
Q 005729          163 ELLYSILIHALGRSEKLYEAFLL---SQRQRLTPLTYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLT  239 (680)
Q Consensus       163 ~~~~~~li~~~~~~g~~~~A~~~---~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~  239 (680)
                      ...++.++..|.+.|++++|+.+   .....|+..+|+.++.+|.+.|++++|+.+|+++...  .++..+++.++.++.
T Consensus        84 ~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~  161 (597)
T 2xpi_A           84 EDYLRLWRHDALMQQQYKCAAFVGEKVLDITGNPNDAFWLAQVYCCTGDYARAKCLLTKEDLY--NRSSACRYLAAFCLV  161 (597)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHTTCHHHHHHHHHHTCGG--GTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCchHHHHHHHHHHhhCCCchHHHHHHHHHHHcCcHHHHHHHHHHHhcc--ccchhHHHHHHHHHH
Confidence            34445555555555555555443   1112234444555555555555555555555544322  344445555555555


Q ss_pred             hcCCCChHHHHHHHHHHH-hC--------------CCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHH
Q 005729          240 RTNKIDSSLLQKLYKEIE-CD--------------KIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYA  304 (680)
Q Consensus       240 ~~g~~~~~~~~~l~~~~~-~~--------------~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~  304 (680)
                      +.|++++  +..+|+++. ..              +.+.+..+|+.++.+|.+.|++++|+++|+++.+.+ +.+...+.
T Consensus       162 ~~g~~~~--A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~  238 (597)
T 2xpi_A          162 KLYDWQG--ALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVD-AKCYEAFD  238 (597)
T ss_dssp             HTTCHHH--HHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             HHhhHHH--HHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-chhhHHHH
Confidence            5555432  224444211 11              112234455555555555555555555555544432 11223333


Q ss_pred             HHHHHHHhcCChHHHH--HH-HHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 005729          305 AVITALSNSGRTIEAE--AV-FEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYA  381 (680)
Q Consensus       305 ~li~~~~~~g~~~~A~--~l-~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~  381 (680)
                      .+...+...+..+.+.  .+ +..+...+..+...+|+.++..|.+.|++++|.++|+++.+.  +++..+|+.++.+|.
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            3333222221111111  01 222322222233344555677788899999999999999875  579999999999999


Q ss_pred             HcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHH
Q 005729          382 NAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMA  461 (680)
Q Consensus       382 ~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~  461 (680)
                      +.|++++|+++|+++.+.+. .+..++..++.++.+.|++++|.++++++.+.. +.+..+++.++.+|.+.|++++|.+
T Consensus       317 ~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~  394 (597)
T 2xpi_A          317 VRSRFIDVLAITTKILEIDP-YNLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEKAVTWLAVGIYYLCVNKISEARR  394 (597)
T ss_dssp             HTTCHHHHHHHHHHHHHHCT-TCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHcCc-ccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHhccHHHHHH
Confidence            99999999999999987763 477889999999999999999999999998654 6678999999999999999999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 005729          462 AFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGL  541 (680)
Q Consensus       462 ~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~  541 (680)
                      +|+++.+.. +.+..+|+.++.+|.+.|++++|.++|+++.+.+ +.+..+|+.++.+|.+.|++++|.++|+++.+.. 
T Consensus       395 ~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-  471 (597)
T 2xpi_A          395 YFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQLGNILLANEYLQSSYALF-  471 (597)
T ss_dssp             HHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-
Confidence            999998754 4568899999999999999999999999999876 6688999999999999999999999999999864 


Q ss_pred             CCCHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 005729          542 LPNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPS--NLALNSLINAFGEDQRDAEAFAVLQYMKE  619 (680)
Q Consensus       542 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~  619 (680)
                      +.+..+|+.++..|.+.|++++|.++|+...+       ...+.+..|+  ..+|..++.+|.+.|++++|.++++++.+
T Consensus       472 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-------~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  544 (597)
T 2xpi_A          472 QYDPLLLNELGVVAFNKSDMQTAINHFQNALL-------LVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLL  544 (597)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH-------HHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHH-------hhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            34789999999999999999999988763322       2223367788  67999999999999999999999999998


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCcCcHHHHHHHHHHcCCCCCH-HHHHHHHH
Q 005729          620 NGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPDR-KARAMLRS  669 (680)
Q Consensus       620 ~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd~-~~~~~l~~  669 (680)
                      .+ +.+..+|..++.+|.+.|++++|.++++++++.  .|+. ..+..+..
T Consensus       545 ~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~~l~~  592 (597)
T 2xpi_A          545 LS-TNDANVHTAIALVYLHKKIPGLAITHLHESLAI--SPNEIMASDLLKR  592 (597)
T ss_dssp             HS-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             hC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhc--CCCChHHHHHHHH
Confidence            54 347899999999999999999999999999985  5554 44444443

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=7.4e-36  Score=331.53  Aligned_cols=481  Identities=11%  Similarity=0.017  Sum_probs=401.3

Q ss_pred             hHHHHHHHHhhCCCChHHHHHHHHHHHHCCCCCchHHHHHHHHHHhcccCCHHHHHHh-h--CCCCCCHHHHHHHHHHHH
Q 005729          128 LWHSLLKNLCSSNSSIDLAYAVVSWLQKHNLCYSYELLYSILIHALGRSEKLYEAFLL-S--QRQRLTPLTYNALISACA  204 (680)
Q Consensus       128 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~-~--~~~~~~~~~~~~li~~~~  204 (680)
                      .|..++..+. ..++++.|..+|..+.+..  |+ ...+..++.+|.+.|++++|... .  ...++++.+|+.++..|.
T Consensus        86 ~~~~~~~~~~-~~g~~~~A~~~~~~~~~~~--p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~  161 (597)
T 2xpi_A           86 YLRLWRHDAL-MQQQYKCAAFVGEKVLDIT--GN-PNDAFWLAQVYCCTGDYARAKCLLTKEDLYNRSSACRYLAAFCLV  161 (597)
T ss_dssp             HHHHHHHHHH-HTTCHHHHHHHHHHHHHHH--CC-HHHHHHHHHHHHHTTCHHHHHHHHHHTCGGGTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHH-HccCchHHHHHHHHHHhhC--CC-chHHHHHHHHHHHcCcHHHHHHHHHHHhccccchhHHHHHHHHHH
Confidence            3455555544 5689999999999998765  43 46788899999999999999987 2  225788999999999999


Q ss_pred             HcCCHHHHHHHHHHHHHc---------------CCCCChhhHHHHHHHHHhcCCCChHHHHHHHHHHHhCCCCcCHHHHH
Q 005729          205 RNDDLEKALNLMSKMRQD---------------GYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLN  269 (680)
Q Consensus       205 ~~g~~~~A~~~~~~m~~~---------------g~~p~~~~~~~ll~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~~  269 (680)
                      +.|++++|+.+|+++...               |...+..+|+.+..++.+.|+++.  +..+|+++.+.+ +.+...+.
T Consensus       162 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~--A~~~~~~~~~~~-p~~~~~~~  238 (597)
T 2xpi_A          162 KLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDR--AKECYKEALMVD-AKCYEAFD  238 (597)
T ss_dssp             HTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHH--HHHHHHHHHHHC-TTCHHHHH
T ss_pred             HHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHHH--HHHHHHHHHHhC-chhhHHHH
Confidence            999999999999954322               234468899999999999999855  569999998754 33566667


Q ss_pred             HHHHHHHHcCCHHHHHH--H-HHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 005729          270 DVIVGFAKAGDASKAMR--F-LGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYV  346 (680)
Q Consensus       270 ~li~~~~~~g~~~~A~~--~-~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~  346 (680)
                      .+...+...+..+.+..  + +..+...+..+...+|+.++..|.+.|++++|.++|+++.+.  +++..+|+.++.+|.
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            66665554433332221  1 455555444455667888899999999999999999999876  579999999999999


Q ss_pred             HcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 005729          347 KMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQ  426 (680)
Q Consensus       347 ~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~  426 (680)
                      +.|++++|.++|+++.+.+. .+..+++.++.+|.+.|++++|.++++++.+.. +.+..+|+.++.+|.+.|++++|.+
T Consensus       317 ~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~  394 (597)
T 2xpi_A          317 VRSRFIDVLAITTKILEIDP-YNLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEKAVTWLAVGIYYLCVNKISEARR  394 (597)
T ss_dssp             HTTCHHHHHHHHHHHHHHCT-TCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHcCc-ccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHhccHHHHHH
Confidence            99999999999999997653 377889999999999999999999999998654 5678899999999999999999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCC
Q 005729          427 VLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGY  506 (680)
Q Consensus       427 l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~  506 (680)
                      +|+++.+.. +.+..+|+.++.+|.+.|++++|.++|+++.+.+ +.+..+|+.++.+|.+.|++++|.++|+++.+.. 
T Consensus       395 ~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-  471 (597)
T 2xpi_A          395 YFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQLGNILLANEYLQSSYALF-  471 (597)
T ss_dssp             HHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-
Confidence            999998754 5578899999999999999999999999999875 4578899999999999999999999999999875 


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCCC--HHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHH
Q 005729          507 FPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQ----GLLPN--VVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFR  580 (680)
Q Consensus       507 ~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~----~~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~  580 (680)
                      +.+..+|+.++..|.+.|++++|.++++++.+.    +..|+  ..+|..++.+|.+.|++++|.+.++           
T Consensus       472 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~-----------  540 (597)
T 2xpi_A          472 QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALN-----------  540 (597)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHH-----------
T ss_pred             CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHH-----------
Confidence            568999999999999999999999999999876    66787  7899999999999999999988765           


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHH
Q 005729          581 VMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKP-DVVTYTTLMKAL  636 (680)
Q Consensus       581 ~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~l~~~~  636 (680)
                      ++.+.+ +.+..+|..++.+|.+.|++++|.++++++.+  +.| +...+..+..+|
T Consensus       541 ~~~~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~--~~p~~~~~~~~l~~~~  594 (597)
T 2xpi_A          541 QGLLLS-TNDANVHTAIALVYLHKKIPGLAITHLHESLA--ISPNEIMASDLLKRAL  594 (597)
T ss_dssp             HHHHHS-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHTT
T ss_pred             HHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHh--cCCCChHHHHHHHHHH
Confidence            333322 34678999999999999999999999999998  455 566776666654

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=99.97  E-value=3.8e-29  Score=266.81  Aligned_cols=204  Identities=16%  Similarity=0.184  Sum_probs=172.9

Q ss_pred             HHHHHHHHhCCCCcC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC---------hHHH
Q 005729          250 QKLYKEIECDKIELD-GQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGR---------TIEA  319 (680)
Q Consensus       250 ~~l~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~---------~~~A  319 (680)
                      +.+...+.+.+.... ..+++.+|.+|++.|++++|+++|++|.+.|+.||..|||+||.+|++.+.         +++|
T Consensus        10 e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A   89 (501)
T 4g26_A           10 ENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRG   89 (501)
T ss_dssp             --------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHH
T ss_pred             HHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHH
Confidence            455666666665544 346788899999999999999999999999999999999999999987665         6789


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 005729          320 EAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVS  399 (680)
Q Consensus       320 ~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  399 (680)
                      .++|++|.+.|+.||..|||.||.+|++.|++++|.++|++|.+.|+.||..+|++||.+|++.|++++|.++|++|.+.
T Consensus        90 ~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~  169 (501)
T 4g26_A           90 FDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVES  169 (501)
T ss_dssp             HHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcc
Q 005729          400 HAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKY  453 (680)
Q Consensus       400 ~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~  453 (680)
                      |+.||..+|+.+|.+|++.|++++|.++|++|++.|+.|+..||+.++..|+..
T Consensus       170 G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          170 EVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             TCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSH
T ss_pred             CCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcC
Confidence            999999999999999999999999999999999999999999999999988764

>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=99.96  E-value=9.7e-29  Score=263.65  Aligned_cols=205  Identities=16%  Similarity=0.214  Sum_probs=111.4

Q ss_pred             HHHHHHHHHHHcCCCCCH-HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC---------HH
Q 005729          318 EAEAVFEELKESGLKPRT-KAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGR---------WE  387 (680)
Q Consensus       318 ~A~~l~~~m~~~g~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~---------~~  387 (680)
                      .+..+.+++.+.+..... ..++.+|++|++.|++++|.++|++|.+.|+.||..+||+||.+|++.+.         ++
T Consensus         8 ~~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~   87 (501)
T 4g26_A            8 PSENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLS   87 (501)
T ss_dssp             ----------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHH
T ss_pred             hHHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHH
Confidence            344555566655554332 34666777777777777777777777777777777777777777766544         34


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHH
Q 005729          388 SARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRML  467 (680)
Q Consensus       388 ~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~  467 (680)
                      +|.++|++|...|+.||..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.
T Consensus        88 ~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~  167 (501)
T 4g26_A           88 RGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMV  167 (501)
T ss_dssp             HHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHH
Confidence            55555555555555555555555555555555555555555555555555555555555555555555555555555555


Q ss_pred             HCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 005729          468 SEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGE  522 (680)
Q Consensus       468 ~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~  522 (680)
                      +.|+.||..+|++||.+|++.|++++|.++|++|.+.|..|+..||+.++..++.
T Consensus       168 ~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s  222 (501)
T 4g26_A          168 ESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKS  222 (501)
T ss_dssp             HTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHS
T ss_pred             hcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhc
Confidence            5555555555555555555555555555555555555555555555555555443

>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=4.5e-25  Score=230.69  Aligned_cols=359  Identities=14%  Similarity=0.029  Sum_probs=165.8

Q ss_pred             HHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHH
Q 005729          275 FAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDA  354 (680)
Q Consensus       275 ~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A  354 (680)
                      +.+.|++++|++.++.+.+.. +.+...+..+...+.+.|++++|...++...+.. +.+..+|..+...|.+.|++++|
T Consensus         9 ~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~-p~~~~~~~~lg~~~~~~g~~~~A   86 (388)
T 1w3b_A            9 EYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQLQEA   86 (388)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHHH
Confidence            334444444444444443321 1122333334444444444444444444444332 23444444444444445555555


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 005729          355 EFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSS  434 (680)
Q Consensus       355 ~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~  434 (680)
                      ...|+++.+.. +.+..+|..+..+|.+.|++++|.+.|+++.+..+ .+...+..+...+...|++++|.+.|+++.+.
T Consensus        87 ~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  164 (388)
T 1w3b_A           87 IEHYRHALRLK-PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNP-DLYCVRSDLGNLLKALGRLEEAKACYLKAIET  164 (388)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCT-TCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcC-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence            55444444432 11233444444445555555555555544444321 12333444444444445555555555544443


Q ss_pred             CCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHH
Q 005729          435 GVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYN  514 (680)
Q Consensus       435 ~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~  514 (680)
                      . +.+..+|..+...+.+.|++++|...|+++.+.. +.+...|..+...+...|++++|...|++..+.. +.+..++.
T Consensus       165 ~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~  241 (388)
T 1w3b_A          165 Q-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHG  241 (388)
T ss_dssp             C-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             C-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCCHHHHH
Confidence            2 2334444555555555555555555555554432 2234445555555555555555555555554443 23344555


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHHHH
Q 005729          515 IMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLAL  594 (680)
Q Consensus       515 ~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~  594 (680)
                      .+...+.+.|++++|...++++.+.+ +.+..++..+..+|.+.|++++|.+.++...+           . .+.+..+|
T Consensus       242 ~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~-----------~-~p~~~~~~  308 (388)
T 1w3b_A          242 NLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALR-----------L-CPTHADSL  308 (388)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH-----------H-CTTCHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh-----------h-CcccHHHH
Confidence            55555555555555555555555432 11344455555555555555555555431111           0 12233455


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCcCcHHHHHHHHHH
Q 005729          595 NSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMIL  654 (680)
Q Consensus       595 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  654 (680)
                      ..++.++.+.|++++|+.+++++.+. .+.+..++..+..+|.+.|++++|.+.++++++
T Consensus       309 ~~l~~~~~~~g~~~~A~~~~~~al~~-~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~  367 (388)
T 1w3b_A          309 NNLANIKREQGNIEEAVRLYRKALEV-FPEFAAAHSNLASVLQQQGKLQEALMHYKEAIR  367 (388)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHHTTS-CTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhc-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            55555555555555555555555542 122344555555555555555555555555554

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.96  E-value=1.8e-24  Score=226.07  Aligned_cols=381  Identities=13%  Similarity=0.100  Sum_probs=325.5

Q ss_pred             HHHHHhcCCCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 005729          235 IQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSG  314 (680)
Q Consensus       235 l~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g  314 (680)
                      ...+.+.|+++.+  ...+..+.+.. +.+...+..+...+.+.|++++|..+++...+.. +.+..+|..+...+.+.|
T Consensus         6 a~~~~~~g~~~~A--~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~-p~~~~~~~~lg~~~~~~g   81 (388)
T 1w3b_A            6 AHREYQAGDFEAA--ERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERG   81 (388)
T ss_dssp             HHHHHHHTCHHHH--HHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHCCCHHHH--HHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCC
Confidence            3456778888554  57777776542 4456778888889999999999999999888753 456789999999999999


Q ss_pred             ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Q 005729          315 RTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLK  394 (680)
Q Consensus       315 ~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~  394 (680)
                      ++++|+..|+++.+.. +.+..+|..+...+.+.|++++|.+.|+++.+.+. .+...+..+...|...|++++|.+.|+
T Consensus        82 ~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~  159 (388)
T 1w3b_A           82 QLQEAIEHYRHALRLK-PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNP-DLYCVRSDLGNLLKALGRLEEAKACYL  159 (388)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCT-TCTHHHHHHHHHHHTTSCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHccCHHHHHHHHH
Confidence            9999999999998864 34667899999999999999999999999998642 356678888999999999999999999


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCC
Q 005729          395 EMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPD  474 (680)
Q Consensus       395 ~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~  474 (680)
                      ++.... +.+..+|..+...+...|++++|...|+++.+.+ +.+...+..+...+...|++++|...|.+..+.. +.+
T Consensus       160 ~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~  236 (388)
T 1w3b_A          160 KAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNH  236 (388)
T ss_dssp             HHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTC
T ss_pred             HHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCC
Confidence            998764 3467899999999999999999999999998865 5668889999999999999999999999998764 346


Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 005729          475 TITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDI  554 (680)
Q Consensus       475 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~  554 (680)
                      ..++..+...|.+.|++++|.+.|+++.+.+ +.+..+|..+...+.+.|++++|...++++.+.. +.+..++..+...
T Consensus       237 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~  314 (388)
T 1w3b_A          237 AVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANI  314 (388)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHH
Confidence            8899999999999999999999999999876 5568899999999999999999999999999863 4578999999999


Q ss_pred             HHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHH
Q 005729          555 YGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKP-SNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKP-DVVTYTTL  632 (680)
Q Consensus       555 ~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~l  632 (680)
                      +.+.|++++|.+.++           ++.+  ..| +..+|..++.+|.+.|++++|+..++++.+  +.| +...|..+
T Consensus       315 ~~~~g~~~~A~~~~~-----------~al~--~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~--~~p~~~~a~~~l  379 (388)
T 1w3b_A          315 KREQGNIEEAVRLYR-----------KALE--VFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIR--ISPTFADAYSNM  379 (388)
T ss_dssp             HHTTTCHHHHHHHHH-----------HHTT--SCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT--TCTTCHHHHHHH
T ss_pred             HHHcCCHHHHHHHHH-----------HHHh--cCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--hCCCCHHHHHhH
Confidence            999999999887754           4443  334 456899999999999999999999999998  455 56788888


Q ss_pred             HHHHHhcCC
Q 005729          633 MKALIRVDK  641 (680)
Q Consensus       633 ~~~~~~~g~  641 (680)
                      ...+...|+
T Consensus       380 g~~~~~~~~  388 (388)
T 1w3b_A          380 GNTLKEMQD  388 (388)
T ss_dssp             HHHHHHTCC
T ss_pred             HHHHHHccC
Confidence            887776653

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.92  E-value=7.2e-22  Score=214.33  Aligned_cols=447  Identities=11%  Similarity=0.033  Sum_probs=307.6

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCCChHHHHHHHHHHHhCCCCcCHHHHHHHH
Q 005729          193 PLTYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVI  272 (680)
Q Consensus       193 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~~~li  272 (680)
                      ...|......+.+.|++++|+..|+++.+.+  |+...|..+..++.+.|+++.  +...++.+.+.. +.+...+..+.
T Consensus         6 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~--A~~~~~~al~~~-p~~~~~~~~l~   80 (514)
T 2gw1_A            6 ALALKDKGNQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKK--VVEMSTKALELK-PDYSKVLLRRA   80 (514)
T ss_dssp             HHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHH--HHHHHHHHHHHC-SCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHH--HHHHHHHHhccC-hHHHHHHHHHH
Confidence            3467778888888899999999998888765  677667666666666666643  345666555432 34556667777


Q ss_pred             HHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHH
Q 005729          273 VGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLK  352 (680)
Q Consensus       273 ~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~  352 (680)
                      .+|.+.|++++|++.|+.+.+.+ +++......++..+........+.+.+..+...+..|+...++.-...........
T Consensus        81 ~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  159 (514)
T 2gw1_A           81 SANEGLGKFADAMFDLSVLSLNG-DFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLP  159 (514)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHSS-SCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCC
T ss_pred             HHHHHHhhHHHHHHHHHHHHhcC-CCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCc
Confidence            77777777777777777776654 22333333444444333333333333332222221111111111111111111111


Q ss_pred             HHHHHHHHHHHCCC---------CCCHHHHHHHHHHHHH---cCCHHHHHHHHHHHHH-----CCC--------CCCHHH
Q 005729          353 DAEFVVSEMERSGV---------LPDEHTYSLLIDAYAN---AGRWESARIVLKEMEV-----SHA--------KPNSFI  407 (680)
Q Consensus       353 ~A~~~~~~m~~~g~---------~~~~~~~~~li~~~~~---~g~~~~A~~~~~~m~~-----~~~--------~~~~~~  407 (680)
                      ....+...+.....         +.+...+..+...+..   .|++++|+.+|+++..     ...        +.+...
T Consensus       160 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  239 (514)
T 2gw1_A          160 SVTSMASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAIS  239 (514)
T ss_dssp             CHHHHHHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHH
T ss_pred             hhHHHHHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHH
Confidence            11111111111111         1124555555555554   8999999999999887     311        223567


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH
Q 005729          408 YSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFK  487 (680)
Q Consensus       408 ~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~  487 (680)
                      +..+...+...|++++|...++++.+..  |+...+..+...+...|++++|...++.+.+.. +.+...|..+...|..
T Consensus       240 ~~~~~~~~~~~~~~~~A~~~~~~~l~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~  316 (514)
T 2gw1_A          240 LEHTGIFKFLKNDPLGAHEDIKKAIELF--PRVNSYIYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQMNFI  316 (514)
T ss_dssp             HHHHHHHHHHSSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhhC--ccHHHHHHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHHHHHH
Confidence            8888899999999999999999988764  338889999999999999999999999998765 3467789999999999


Q ss_pred             cCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHH
Q 005729          488 CGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIEC  567 (680)
Q Consensus       488 ~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~  567 (680)
                      .|++++|...|+++.+.. +.+...+..+...+...|++++|...++++.+.. +.+...+..+...|.+.|++++|...
T Consensus       317 ~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~  394 (514)
T 2gw1_A          317 LQNYDQAGKDFDKAKELD-PENIFPYIQLACLAYRENKFDDCETLFSEAKRKF-PEAPEVPNFFAEILTDKNDFDKALKQ  394 (514)
T ss_dssp             TTCTTHHHHHHHHHHHTC-SSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             hCCHHHHHHHHHHHHHhC-hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-ccCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            999999999999999875 5567889999999999999999999999998863 33678899999999999999999988


Q ss_pred             HhhhHHHHHHHHHHHHHCCCCCC----HHHHHHHHHHHHh---cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC
Q 005729          568 LEGLSDQAVNAFRVMRTDGLKPS----NLALNSLINAFGE---DQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALIRVD  640 (680)
Q Consensus       568 ~~~~~~~a~~~~~~m~~~g~~p~----~~~~~~li~~~~~---~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g  640 (680)
                      ++...+    .   ...   .++    ...|..+..++..   .|++++|...++++.+.. +.+..++..+...|.+.|
T Consensus       395 ~~~a~~----~---~~~---~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g  463 (514)
T 2gw1_A          395 YDLAIE----L---ENK---LDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLD-PRSEQAKIGLAQMKLQQE  463 (514)
T ss_dssp             HHHHHH----H---HHT---SSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHH----h---hhc---cchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhc
Confidence            763322    1   111   122    3489999999999   999999999999999842 336788999999999999


Q ss_pred             CcCcHHHHHHHHHHcCCCCCHHH
Q 005729          641 KFHKVPAVYEEMILSGCTPDRKA  663 (680)
Q Consensus       641 ~~~~A~~~~~~m~~~g~~pd~~~  663 (680)
                      ++++|.+.++++++.  .|+...
T Consensus       464 ~~~~A~~~~~~a~~~--~~~~~~  484 (514)
T 2gw1_A          464 DIDEAITLFEESADL--ARTMEE  484 (514)
T ss_dssp             CHHHHHHHHHHHHHH--CSSHHH
T ss_pred             CHHHHHHHHHHHHHh--ccccHH
Confidence            999999999999985  566544

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.90  E-value=2.5e-20  Score=198.62  Aligned_cols=345  Identities=14%  Similarity=0.078  Sum_probs=226.1

Q ss_pred             cCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 005729          263 LDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALL  342 (680)
Q Consensus       263 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li  342 (680)
                      .+...+..+...|.+.|++++|+++|+.+.+.. +.+..+|..+..++...|++++|+..|+++.+.+ +.+..++..+.
T Consensus        24 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~  101 (450)
T 2y4t_A           24 ADVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLK-MDFTAARLQRG  101 (450)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCcHHHHHHHH
Confidence            345555666666666666666666666655431 2345556666666666666666666666665543 23455555666


Q ss_pred             HHHHHcCCHHHHHHHHHHHHHCCCCCCH---HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC
Q 005729          343 KGYVKMGYLKDAEFVVSEMERSGVLPDE---HTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRG  419 (680)
Q Consensus       343 ~~~~~~g~~~~A~~~~~~m~~~g~~~~~---~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g  419 (680)
                      ..|.+.|++++|...|+++.+.+. .+.   ..+..++..+...                       .+..+...+.+.|
T Consensus       102 ~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~-----------------------~~~~~a~~~~~~~  157 (450)
T 2y4t_A          102 HLLLKQGKLDEAEDDFKKVLKSNP-SENEEKEAQSQLIKSDEMQ-----------------------RLRSQALNAFGSG  157 (450)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTSCC-CHHHHHHHHHHHHHHHHHH-----------------------HHHHHHHHHHHHT
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcCC-CChhhHHHHHHHHHHHHHH-----------------------HHHHHHHHHHHcC
Confidence            666666666666666666655421 122   3444443331111                       1122234466777


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHH
Q 005729          420 EWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFE  499 (680)
Q Consensus       420 ~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~  499 (680)
                      ++++|...|+++.+.. +.+..++..+..+|.+.|++++|...|+++.+.. +.+..+|..+...|...|++++|...|+
T Consensus       158 ~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~  235 (450)
T 2y4t_A          158 DYTAAIAFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVR  235 (450)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            7888888887777653 4567777778888888888888888888777653 3467778888888888888888888888


Q ss_pred             HHHHCCCCCCHHHHHHH------------HHHHHhcCCHHHHHHHHHHHHHCCCCCC-----HHHHHHHHHHHHhcCChH
Q 005729          500 EMQERGYFPCTTTYNIM------------INLLGEQERWEDVKRLLGNMRAQGLLPN-----VVTYTTLVDIYGQSGRFD  562 (680)
Q Consensus       500 ~m~~~~~~p~~~t~~~l------------i~~~~~~g~~~~A~~~~~~m~~~~~~p~-----~~~~~~li~~~~~~g~~~  562 (680)
                      ++.+.. +.+...+..+            ...+.+.|++++|...++++.+.  .|+     ...+..++.++.+.|+++
T Consensus       236 ~~~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~~~~~~l~~~~~~~g~~~  312 (450)
T 2y4t_A          236 ECLKLD-QDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKT--EPSIAEYTVRSKERICHCFSKDEKPV  312 (450)
T ss_dssp             HHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CCSSHHHHHHHHHHHHHHHHTTTCHH
T ss_pred             HHHHhC-CChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHHHHCCCHH
Confidence            887654 3344445444            77888899999999999999875  343     447888889999999999


Q ss_pred             HHHHHHhhhHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHH------
Q 005729          563 DAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKP-DVVTYTTLMKA------  635 (680)
Q Consensus       563 ~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~l~~~------  635 (680)
                      +|+..++.           +... .+.+..+|..++.+|...|++++|...++++.+  +.| +...+..+..+      
T Consensus       313 ~A~~~~~~-----------a~~~-~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~l~~~~~~~~~  378 (450)
T 2y4t_A          313 EAIRVCSE-----------VLQM-EPDNVNALKDRAEAYLIEEMYDEAIQDYETAQE--HNENDQQIREGLEKAQRLLKQ  378 (450)
T ss_dssp             HHHHHHHH-----------HHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--TSSSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHH-----------HHHh-CcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHH--hCcchHHHHHHHHHHHHHhhc
Confidence            88877652           2221 123567899999999999999999999999988  455 45666666633      


Q ss_pred             ------HHhcC-----CcCcHHHHHHHH
Q 005729          636 ------LIRVD-----KFHKVPAVYEEM  652 (680)
Q Consensus       636 ------~~~~g-----~~~~A~~~~~~m  652 (680)
                            |...|     +.+++.+.|+++
T Consensus       379 ~~~~~~y~~lg~~~~~~~~~~~~~y~~~  406 (450)
T 2y4t_A          379 SQKRDYYKILGVKRNAKKQEIIKAYRKL  406 (450)
T ss_dssp             HHSCCSGGGSCSSTTCCTTHHHHHHHHH
T ss_pred             ccchhHHHHhCCCccCCHHHHHHHHHHH
Confidence                  33334     556778888874

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.90  E-value=1.8e-20  Score=199.67  Aligned_cols=316  Identities=12%  Similarity=0.068  Sum_probs=228.2

Q ss_pred             HHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 005729          212 ALNLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGMA  291 (680)
Q Consensus       212 A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~  291 (680)
                      +...+.+..... +.+...+..+...+.+.|+++.  +..+|+.+.... +.+...+..+..+|...|++++|++.|+.+
T Consensus        11 ~~~~~~~~~~~~-p~~~~~~~~~~~~~~~~g~~~~--A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a   86 (450)
T 2y4t_A           11 VDLGTENLYFQS-MADVEKHLELGKKLLAAGQLAD--ALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKV   86 (450)
T ss_dssp             -------------CHHHHHHHHHHHHHHHTTCHHH--HHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             cccccccccccc-HHHHHHHHHHHHHHHHCCCHHH--HHHHHHHHHHhC-CccHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            344444444432 3466778888899999999855  568999887642 457899999999999999999999999999


Q ss_pred             HhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH---HHHHHHHHH------------HHHcCCHHHHHH
Q 005729          292 QGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRT---KAYNALLKG------------YVKMGYLKDAEF  356 (680)
Q Consensus       292 ~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~---~~~~~li~~------------~~~~g~~~~A~~  356 (680)
                      .+.+ +.+..++..+...|.+.|++++|.+.|+++.+.. +.+.   ..+..++..            +.+.|++++|..
T Consensus        87 l~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~  164 (450)
T 2y4t_A           87 IQLK-MDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSN-PSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIA  164 (450)
T ss_dssp             HHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            8864 3457889999999999999999999999999863 2334   667777544            778888888888


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 005729          357 VVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGV  436 (680)
Q Consensus       357 ~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~  436 (680)
                      .++++.+.. +.+...+..+..+|.+.|++++|++.|+++.... +.+..++..+...|...|++++|...|+++.+.. 
T Consensus       165 ~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-  241 (450)
T 2y4t_A          165 FLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRECLKLD-  241 (450)
T ss_dssp             HHHHHHHHC-TTCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-
Confidence            888887654 3467788888888888888888888888887653 3467788888888888888888888888887653 


Q ss_pred             CCCHHHHHHH------------HHHHHccCCHHHHHHHHHHHHHCCCCCC-----HHHHHHHHHHHHHcCChhHHHHHHH
Q 005729          437 EPDTHFYNVM------------IDTFGKYNCLHHAMAAFDRMLSEGIEPD-----TITWNTLIDCHFKCGRYDRAEELFE  499 (680)
Q Consensus       437 ~p~~~~~~~l------------i~~~~~~g~~~~A~~~~~~m~~~~~~~~-----~~~~~~li~~~~~~g~~~~A~~~~~  499 (680)
                      +.+...+..+            ...+.+.|++++|...|+.+.+..  |+     ...|..+...+.+.|++++|...++
T Consensus       242 p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~--p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  319 (450)
T 2y4t_A          242 QDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTE--PSIAEYTVRSKERICHCFSKDEKPVEAIRVCS  319 (450)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CcchHHHHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            3344444444            566666777777777777766542  33     3356666666777777777777777


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 005729          500 EMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQ  539 (680)
Q Consensus       500 ~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~  539 (680)
                      ++.+.. +.+...|..+..+|...|++++|...++++.+.
T Consensus       320 ~a~~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~  358 (450)
T 2y4t_A          320 EVLQME-PDNVNALKDRAEAYLIEEMYDEAIQDYETAQEH  358 (450)
T ss_dssp             HHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHhC-cccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            766553 445666777777777777777777777777663

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.89  E-value=1.5e-20  Score=203.82  Aligned_cols=432  Identities=11%  Similarity=0.001  Sum_probs=284.6

Q ss_pred             HhhCCCChHHHHHHHHHHHHCCCCCchHHHHHHHHHHhcccCCHHHHHHh----hCCCCCCHHHHHHHHHHHHHcCCHHH
Q 005729          136 LCSSNSSIDLAYAVVSWLQKHNLCYSYELLYSILIHALGRSEKLYEAFLL----SQRQRLTPLTYNALISACARNDDLEK  211 (680)
Q Consensus       136 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~----~~~~~~~~~~~~~li~~~~~~g~~~~  211 (680)
                      .....|+++.|...|..+++.+  | +..++..++.+|.+.|++++|...    ....+.+..+|..++.+|.+.|++++
T Consensus        15 ~~~~~g~~~~A~~~~~~al~~~--p-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~   91 (514)
T 2gw1_A           15 QFFRNKKYDDAIKYYNWALELK--E-DPVFYSNLSACYVSVGDLKKVVEMSTKALELKPDYSKVLLRRASANEGLGKFAD   91 (514)
T ss_dssp             HHHHTSCHHHHHHHHHHHHHHC--C-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhccHHHHHHHHHHHHhcC--c-cHHHHHhHHHHHHHHhhHHHHHHHHHHHhccChHHHHHHHHHHHHHHHHhhHHH
Confidence            3345577888888888887766  3 466777778888888888887765    33455667778888888888888888


Q ss_pred             HHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 005729          212 ALNLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGMA  291 (680)
Q Consensus       212 A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~  291 (680)
                      |+..|+++...+ +++......++..+...                                     .....+.+.+..+
T Consensus        92 A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~-------------------------------------~~~~~~~~~l~~~  133 (514)
T 2gw1_A           92 AMFDLSVLSLNG-DFNDASIEPMLERNLNK-------------------------------------QAMSKLKEKFGDI  133 (514)
T ss_dssp             HHHHHHHHHHSS-SCCGGGTHHHHHHHHHH-------------------------------------HHHHHHTTC----
T ss_pred             HHHHHHHHHhcC-CCccchHHHHHHHHHHH-------------------------------------HHHHHHHHHHHHH
Confidence            888888877765 23333333333222211                                     1111111111111


Q ss_pred             HhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC---------CCCHHHHHHHHHHHHH---cCCHHHHHHHHH
Q 005729          292 QGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGL---------KPRTKAYNALLKGYVK---MGYLKDAEFVVS  359 (680)
Q Consensus       292 ~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~---------~p~~~~~~~li~~~~~---~g~~~~A~~~~~  359 (680)
                      ...+..|+...+..-...............+...+.....         +.+...+..+...+..   .|++++|...++
T Consensus       134 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~  213 (514)
T 2gw1_A          134 DTATATPTELSTQPAKERKDKQENLPSVTSMASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFT  213 (514)
T ss_dssp             -----------------------CCCCHHHHHHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHH
T ss_pred             HHHHHhhhhccCChhhHHHhhccCCchhHHHHHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHH
Confidence            1100011111000000000000011111111111111100         1124444444444443   778888888888


Q ss_pred             HHHH-----CCC--------CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 005729          360 EMER-----SGV--------LPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQ  426 (680)
Q Consensus       360 ~m~~-----~g~--------~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~  426 (680)
                      ++.+     ..-        +.+..++..+...|...|++++|...++++......  ...+..+...+...|++++|..
T Consensus       214 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~~~--~~~~~~l~~~~~~~~~~~~A~~  291 (514)
T 2gw1_A          214 KAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGAHEDIKKAIELFPR--VNSYIYMALIMADRNDSTEYYN  291 (514)
T ss_dssp             HHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHTSSCCTTGGG
T ss_pred             HHHHHhhhhhccCccccccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCcc--HHHHHHHHHHHHHCCCHHHHHH
Confidence            8776     311        123556777888888889999999988888876543  7788888888888999999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCC
Q 005729          427 VLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGY  506 (680)
Q Consensus       427 l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~  506 (680)
                      .++++.+.. +.+...+..+...+...|++++|...|+.+.+.. +.+...+..+...|...|++++|..+|+++.+.. 
T Consensus       292 ~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-  368 (514)
T 2gw1_A          292 YFDKALKLD-SNNSSVYYHRGQMNFILQNYDQAGKDFDKAKELD-PENIFPYIQLACLAYRENKFDDCETLFSEAKRKF-  368 (514)
T ss_dssp             HHHHHHTTC-TTCTHHHHHHHHHHHHTTCTTHHHHHHHHHHHTC-SSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-
T ss_pred             HHHHHhhcC-cCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-
Confidence            988887764 4567788888889999999999999999988765 3466788888999999999999999999988764 


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-CC----HHHHHHHHHHHHh---cCChHHHHHHHhhhHHHHHHH
Q 005729          507 FPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLL-PN----VVTYTTLVDIYGQ---SGRFDDAIECLEGLSDQAVNA  578 (680)
Q Consensus       507 ~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~-p~----~~~~~~li~~~~~---~g~~~~A~~~~~~~~~~a~~~  578 (680)
                      +.+...+..+...+...|++++|...++++.+.... ++    ...+..+...|.+   .|++++|.+.++..       
T Consensus       369 ~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a-------  441 (514)
T 2gw1_A          369 PEAPEVPNFFAEILTDKNDFDKALKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKA-------  441 (514)
T ss_dssp             TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHH-------
T ss_pred             ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHH-------
Confidence            456778888999999999999999999998875221 11    3488899999999   99999988876532       


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHH
Q 005729          579 FRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVV  627 (680)
Q Consensus       579 ~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~  627 (680)
                          ... .+.+..+|..+..+|.+.|++++|...++++.+  +.|+..
T Consensus       442 ----~~~-~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~--~~~~~~  483 (514)
T 2gw1_A          442 ----SKL-DPRSEQAKIGLAQMKLQQEDIDEAITLFEESAD--LARTME  483 (514)
T ss_dssp             ----HHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCSSHH
T ss_pred             ----HHh-CcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHH--hccccH
Confidence                221 123456889999999999999999999999998  456644

>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=7.1e-20  Score=199.88  Aligned_cols=436  Identities=12%  Similarity=0.055  Sum_probs=310.1

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCCChHHHHHHHHHHHhCCCCcCHHHHHHHH
Q 005729          193 PLTYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVI  272 (680)
Q Consensus       193 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~~~li  272 (680)
                      ...|..+...+.+.|++++|+..|+++.+.. +.+...+..+...+.+.|+++.  +...++.+.... +.+...+..+.
T Consensus        25 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~--A~~~~~~al~~~-p~~~~~~~~la  100 (537)
T 3fp2_A           25 AVQLKNRGNHFFTAKNFNEAIKYYQYAIELD-PNEPVFYSNISACYISTGDLEK--VIEFTTKALEIK-PDHSKALLRRA  100 (537)
T ss_dssp             HHHHHHHHHHHHHTTCCC-CHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHH--HHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHH--HHHHHHHHHhcC-CchHHHHHHHH
Confidence            4578889999999999999999999998864 3356666677777777777644  346666666543 34566777777


Q ss_pred             HHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHc------CCCCCHHHHHHHHHHHH
Q 005729          273 VGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKES------GLKPRTKAYNALLKGYV  346 (680)
Q Consensus       273 ~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~------g~~p~~~~~~~li~~~~  346 (680)
                      ..|...|++++|++.|+.+ ..  .|+.  ....+..+...+...+|...++.+...      ...|+..    .+..+.
T Consensus       101 ~~~~~~g~~~~A~~~~~~~-~~--~~~~--~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~----~~~~~~  171 (537)
T 3fp2_A          101 SANESLGNFTDAMFDLSVL-SL--NGDF--DGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNT----SLASFF  171 (537)
T ss_dssp             HHHHHHTCHHHHHHHHHHH-C---------------CHHHHHHHHHHHHHHHHHCC-------CCCCCHH----HHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHH-hc--CCCC--ChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHh----HHHHHH
Confidence            7777777777777777533 21  2221  122344455555566777777776542      1223332    233344


Q ss_pred             HcCCHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHH--------HcCCHHHHHHHHHHHHHCCCCCC------HHHHHHH
Q 005729          347 KMGYLKDAEFVVSEMERSGVLPDEH-TYSLLIDAYA--------NAGRWESARIVLKEMEVSHAKPN------SFIYSRI  411 (680)
Q Consensus       347 ~~g~~~~A~~~~~~m~~~g~~~~~~-~~~~li~~~~--------~~g~~~~A~~~~~~m~~~~~~~~------~~~~~~l  411 (680)
                      ...+.+.+...+......  .+... ....+...+.        ..|++++|..+++++.+......      ..++..+
T Consensus       172 ~~~~~~~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~  249 (537)
T 3fp2_A          172 GIFDSHLEVSSVNTSSNY--DTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSANTVDDPLRENAALALCYT  249 (537)
T ss_dssp             HTSCHHHHHHTSCCCCSS--CSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHH
T ss_pred             HhcChHHHHHHHhhcccc--ccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHCCCcchhhHHHHHHHHHH
Confidence            455555554444333222  12211 2223332222        23588999999999987643211      2356777


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCh
Q 005729          412 LAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRY  491 (680)
Q Consensus       412 l~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~  491 (680)
                      ...+...|++++|...++++.+.  .|+...+..+...+...|++++|...|+.+.+.. +.+..+|..+...|...|++
T Consensus       250 g~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~  326 (537)
T 3fp2_A          250 GIFHFLKNNLLDAQVLLQESINL--HPTPNSYIFLALTLADKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDY  326 (537)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHhcccHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCH
Confidence            78889999999999999999886  4668889999999999999999999999998765 44688899999999999999


Q ss_pred             hHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHhhh
Q 005729          492 DRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGL  571 (680)
Q Consensus       492 ~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~  571 (680)
                      ++|...|+++.+.. +.+...|..+...+...|++++|..+++++.+.. +.+...+..+...|...|++++|.+.++..
T Consensus       327 ~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a  404 (537)
T 3fp2_A          327 KNAKEDFQKAQSLN-PENVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIA  404 (537)
T ss_dssp             HHHHHHHHHHHHHC-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            99999999999875 4567889999999999999999999999999864 336778999999999999999999887633


Q ss_pred             HHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHhc----------CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC
Q 005729          572 SDQAVNAFRVMRTD-GLKPSNLALNSLINAFGED----------QRDAEAFAVLQYMKENGLKPDVVTYTTLMKALIRVD  640 (680)
Q Consensus       572 ~~~a~~~~~~m~~~-g~~p~~~~~~~li~~~~~~----------g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g  640 (680)
                      .+    ..   ... ........+..+..++...          |++++|+..++++.+.. +.+...+..+...|.+.|
T Consensus       405 ~~----~~---~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~~~~g  476 (537)
T 3fp2_A          405 KR----LE---EVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELD-PRSEQAKIGLAQLKLQME  476 (537)
T ss_dssp             HH----HH---HHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HH----cC---CcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhc
Confidence            32    21   111 1122233455666778777          99999999999999842 336788999999999999


Q ss_pred             CcCcHHHHHHHHHHcC
Q 005729          641 KFHKVPAVYEEMILSG  656 (680)
Q Consensus       641 ~~~~A~~~~~~m~~~g  656 (680)
                      ++++|.+.++++++..
T Consensus       477 ~~~~A~~~~~~al~~~  492 (537)
T 3fp2_A          477 KIDEAIELFEDSAILA  492 (537)
T ss_dssp             CHHHHHHHHHHHHHHC
T ss_pred             cHHHHHHHHHHHHHhC
Confidence            9999999999999864

>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=99.87  E-value=3.8e-19  Score=194.12  Aligned_cols=402  Identities=12%  Similarity=0.061  Sum_probs=275.8

Q ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCCChHHHHHHHHHHHhCCCCcCHHHHH
Q 005729          190 RLTPLTYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLN  269 (680)
Q Consensus       190 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~~  269 (680)
                      +.++.+|..+...|.+.|++++|+..|+++.+.+ +.+...+..+...+...|+++.+  ...|+.+ ..  .|  ...+
T Consensus        56 p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A--~~~~~~~-~~--~~--~~~~  127 (537)
T 3fp2_A           56 PNEPVFYSNISACYISTGDLEKVIEFTTKALEIK-PDHSKALLRRASANESLGNFTDA--MFDLSVL-SL--NG--DFDG  127 (537)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHH--HHHHHHH-C-----------
T ss_pred             CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CchHHHHHHHHHHHHHcCCHHHH--HHHHHHH-hc--CC--CCCh
Confidence            3445555556666666666666666666655543 22344455555555555555332  3444322 11  11  1122


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhCC------CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH-HHHHHH
Q 005729          270 DVIVGFAKAGDASKAMRFLGMAQGVG------LSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTK-AYNALL  342 (680)
Q Consensus       270 ~li~~~~~~g~~~~A~~~~~~~~~~g------~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~-~~~~li  342 (680)
                      ..+..+...+...+|.+.++.+....      ..|+.    ..+..+....+.+.+...+......  .+... ....+.
T Consensus       128 ~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~l~  201 (537)
T 3fp2_A          128 ASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSN----TSLASFFGIFDSHLEVSSVNTSSNY--DTAYALLSDALQ  201 (537)
T ss_dssp             ----CHHHHHHHHHHHHHHHHHCC-------CCCCCH----HHHHHHHHTSCHHHHHHTSCCCCSS--CSSHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchH----hHHHHHHHhcChHHHHHHHhhcccc--ccHHHHHHHHHH
Confidence            23455666677789999999886531      23333    3344455566666665554443322  22222 222222


Q ss_pred             HHHH--------HcCCHHHHHHHHHHHHHCCCCCC-------HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHH
Q 005729          343 KGYV--------KMGYLKDAEFVVSEMERSGVLPD-------EHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFI  407 (680)
Q Consensus       343 ~~~~--------~~g~~~~A~~~~~~m~~~g~~~~-------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~  407 (680)
                      ..+.        ..|++++|..+++++.+.... +       ..++..+...+...|++++|...+++.....  |+...
T Consensus       202 ~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~p~-~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~--~~~~~  278 (537)
T 3fp2_A          202 RLYSATDEGYLVANDLLTKSTDMYHSLLSANTV-DDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESINLH--PTPNS  278 (537)
T ss_dssp             HHHTCSHHHHHHHHHHHHHHHHHHHHHHC--CC-CHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHH
T ss_pred             HHHHhhhhhhHHHHHHHHHHHHHHHHHHHHCCC-cchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhcC--CCchH
Confidence            2222        225789999999999876422 3       2356777788899999999999999998864  45888


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH
Q 005729          408 YSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFK  487 (680)
Q Consensus       408 ~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~  487 (680)
                      +..+...+...|++++|...++++.+.. +.+..++..+...+...|++++|...|+++.+.. +.+...|..+...|..
T Consensus       279 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~  356 (537)
T 3fp2_A          279 YIFLALTLADKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLN-PENVYPYIQLACLLYK  356 (537)
T ss_dssp             HHHHHHHTCCSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHH
Confidence            9999999999999999999999988765 5678899999999999999999999999998765 3456789999999999


Q ss_pred             cCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-----CCCHHHHHHHHHHHHhc----
Q 005729          488 CGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGL-----LPNVVTYTTLVDIYGQS----  558 (680)
Q Consensus       488 ~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~-----~p~~~~~~~li~~~~~~----  558 (680)
                      .|++++|..+|+++.+.. +.+...+..+...+...|++++|...++++.+...     ......+..+...|.+.    
T Consensus       357 ~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  435 (537)
T 3fp2_A          357 QGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQD  435 (537)
T ss_dssp             TTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC-
T ss_pred             cCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhcc
Confidence            999999999999999875 56678899999999999999999999999876421     11223345556677777    


Q ss_pred             ------CChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC
Q 005729          559 ------GRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPD  625 (680)
Q Consensus       559 ------g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~  625 (680)
                            |++++|...++           +..+. .+.+..+|..+..+|.+.|++++|.+.|+++.+  +.|+
T Consensus       436 ~~~~~~~~~~~A~~~~~-----------~a~~~-~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~--~~~~  494 (537)
T 3fp2_A          436 PTQLDEEKFNAAIKLLT-----------KACEL-DPRSEQAKIGLAQLKLQMEKIDEAIELFEDSAI--LART  494 (537)
T ss_dssp             ---CCHHHHHHHHHHHH-----------HHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HC--
T ss_pred             chhhhHhHHHHHHHHHH-----------HHHHh-CCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHH--hCCC
Confidence                  88888877765           33332 123456899999999999999999999999998  4454

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.86  E-value=7.7e-18  Score=173.04  Aligned_cols=337  Identities=14%  Similarity=0.091  Sum_probs=232.3

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 005729          299 KTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLID  378 (680)
Q Consensus       299 ~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~  378 (680)
                      +...+..+...+...|++++|+..|+++.+.. +.+..++..+...+...|++++|...++++.+.. +.+...+..+..
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~   79 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGH   79 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHH
Confidence            34566777777888888888888888877653 3466777777788888888888888888777653 225677777777


Q ss_pred             HHHHcCCHHHHHHHHHHHHHCCCC--CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCH
Q 005729          379 AYANAGRWESARIVLKEMEVSHAK--PNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCL  456 (680)
Q Consensus       379 ~~~~~g~~~~A~~~~~~m~~~~~~--~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~  456 (680)
                      .|...|++++|...|++.......  .+...+..+...+.                       ...+..+...+...|++
T Consensus        80 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~-----------------------~~~~~~~a~~~~~~~~~  136 (359)
T 3ieg_A           80 LLLKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKADE-----------------------MQRLRSQALDAFDGADY  136 (359)
T ss_dssp             HHHHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHH-----------------------HHHHHHHHHHHHHTTCH
T ss_pred             HHHHcCChHHHHHHHHHHHhcCCcccChHHHHHHHHHHHH-----------------------HHHHHHHHHHHHHccCH
Confidence            888888888888888777764320  12223322211100                       01122234556666777


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 005729          457 HHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNM  536 (680)
Q Consensus       457 ~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m  536 (680)
                      ++|...++.+.+.. +.+...+..+...|...|++++|...++++.+.. +.+..++..+...+...|++++|...++++
T Consensus       137 ~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a  214 (359)
T 3ieg_A          137 TAAITFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVREC  214 (359)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            77777777766543 3456667777777777777777777777776654 556667777777777777777777777777


Q ss_pred             HHCCCCCCHHHHH------------HHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCH-----HHHHHHHH
Q 005729          537 RAQGLLPNVVTYT------------TLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSN-----LALNSLIN  599 (680)
Q Consensus       537 ~~~~~~p~~~~~~------------~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~-----~~~~~li~  599 (680)
                      .+... .+...+.            .+...+.+.|++++|.+.++           +....  .|+.     ..|..+..
T Consensus       215 ~~~~~-~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~-----------~~~~~--~~~~~~~~~~~~~~la~  280 (359)
T 3ieg_A          215 LKLDQ-DHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYE-----------SVMKT--EPSVAEYTVRSKERICH  280 (359)
T ss_dssp             HHHCT-TCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHH-----------HHHHH--CCSSHHHHHHHHHHHHH
T ss_pred             HhhCc-cchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHH-----------HHHhc--CCCchHHHHHHHHHHHH
Confidence            66422 1233222            33667888999998888765           22221  2332     23566889


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCcCcHHHHHHHHHHcCCCCC-HHHHHHHHHHHHHHHhhh
Q 005729          600 AFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPD-RKARAMLRSALRYMKQTL  678 (680)
Q Consensus       600 ~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd-~~~~~~l~~a~~~~k~~~  678 (680)
                      ++.+.|++++|+.+++++.+.. +.+..+|..+...+.+.|++++|.+.++++++.  .|+ ...+..+..+.+..++..
T Consensus       281 ~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~--~p~~~~~~~~l~~~~~~~~~~~  357 (359)
T 3ieg_A          281 CFSKDEKPVEAIRICSEVLQME-PDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEH--NENDQQIREGLEKAQRLLKQSQ  357 (359)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCChHHHHHHHHHHHHHHHhc
Confidence            9999999999999999999842 337889999999999999999999999999985  565 567788888888887765


Q ss_pred             c
Q 005729          679 K  679 (680)
Q Consensus       679 ~  679 (680)
                      +
T Consensus       358 ~  358 (359)
T 3ieg_A          358 K  358 (359)
T ss_dssp             C
T ss_pred             c
Confidence            4

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.84  E-value=2.9e-17  Score=168.74  Aligned_cols=332  Identities=13%  Similarity=0.033  Sum_probs=236.2

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 005729          264 DGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLK  343 (680)
Q Consensus       264 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~  343 (680)
                      |+..+..+...+...|++++|++.|+.+.+.. +.+..++..+...+...|++++|...|+++.+.. +.+...+..+..
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~   79 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGH   79 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHH
Confidence            45678888999999999999999999998753 3457889999999999999999999999999864 447789999999


Q ss_pred             HHHHcCCHHHHHHHHHHHHHCCCC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH
Q 005729          344 GYVKMGYLKDAEFVVSEMERSGVL--PDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEW  421 (680)
Q Consensus       344 ~~~~~g~~~~A~~~~~~m~~~g~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~  421 (680)
                      .+...|++++|...++++.+....  .+...+..+...+.                       ...+..+...+...|++
T Consensus        80 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~-----------------------~~~~~~~a~~~~~~~~~  136 (359)
T 3ieg_A           80 LLLKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKADE-----------------------MQRLRSQALDAFDGADY  136 (359)
T ss_dssp             HHHHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHH-----------------------HHHHHHHHHHHHHTTCH
T ss_pred             HHHHcCChHHHHHHHHHHHhcCCcccChHHHHHHHHHHHH-----------------------HHHHHHHHHHHHHccCH
Confidence            999999999999999999986320  13344444322111                       01123344555666666


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHH
Q 005729          422 QRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEM  501 (680)
Q Consensus       422 ~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  501 (680)
                      ++|.+.++++.+.. +.+...+..+...+...|++++|...++.+.+.. +.+...+..+...|...|++++|...|++.
T Consensus       137 ~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a  214 (359)
T 3ieg_A          137 TAAITFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVREC  214 (359)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            66666666665543 4455666666666677777777777777666553 345666777777777777777777777777


Q ss_pred             HHCCCCCCHHHHH------------HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHhcCChHHHH
Q 005729          502 QERGYFPCTTTYN------------IMINLLGEQERWEDVKRLLGNMRAQGLLPNV----VTYTTLVDIYGQSGRFDDAI  565 (680)
Q Consensus       502 ~~~~~~p~~~t~~------------~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~----~~~~~li~~~~~~g~~~~A~  565 (680)
                      .+.. +.+...+.            .+...+.+.|++++|...++++.+.... +.    ..+..+..+|.+.|++++|.
T Consensus       215 ~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~la~~~~~~~~~~~A~  292 (359)
T 3ieg_A          215 LKLD-QDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPS-VAEYTVRSKERICHCFSKDEKPVEAI  292 (359)
T ss_dssp             HHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-SHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HhhC-ccchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-chHHHHHHHHHHHHHHHHccCHHHHH
Confidence            6653 33333332            2356678889999999999998875322 33    23556778899999999888


Q ss_pred             HHHhhhHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHh
Q 005729          566 ECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPD-VVTYTTLMKALIR  638 (680)
Q Consensus       566 ~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~-~~~~~~l~~~~~~  638 (680)
                      +.++...           +. .+.+..+|..+..+|.+.|++++|...++++.+  +.|+ ...+..+..+...
T Consensus       293 ~~~~~~~-----------~~-~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~--~~p~~~~~~~~l~~~~~~  352 (359)
T 3ieg_A          293 RICSEVL-----------QM-EPDNVNALKDRAEAYLIEEMYDEAIQDYEAAQE--HNENDQQIREGLEKAQRL  352 (359)
T ss_dssp             HHHHHHH-----------HH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--TCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHH-----------Hh-CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--cCCCChHHHHHHHHHHHH
Confidence            8765322           21 123566899999999999999999999999998  4564 5566666655443

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.81  E-value=7.2e-15  Score=158.19  Aligned_cols=354  Identities=15%  Similarity=0.094  Sum_probs=259.5

Q ss_pred             CHHHHHHHHHHHHH----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCChHHHHHHHHHHHHcCCCCCH
Q 005729          264 DGQLLNDVIVGFAK----AGDASKAMRFLGMAQGVGLSPKTATYAAVITALSN----SGRTIEAEAVFEELKESGLKPRT  335 (680)
Q Consensus       264 ~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~l~~~m~~~g~~p~~  335 (680)
                      +...+..+...|..    .+++++|++.|++..+.|   +...+..+...|..    .+++++|.+.|++..+.|   +.
T Consensus        38 ~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~  111 (490)
T 2xm6_A           38 EAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---LP  111 (490)
T ss_dssp             CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CH
T ss_pred             CHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CH
Confidence            55666666666766    778888888888777653   56677777777777    788888888888887764   55


Q ss_pred             HHHHHHHHHHHH----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHHHCCCCCCHHH
Q 005729          336 KAYNALLKGYVK----MGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYAN----AGRWESARIVLKEMEVSHAKPNSFI  407 (680)
Q Consensus       336 ~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~~~~~~~~  407 (680)
                      ..+..|...|..    .+++++|...|++..+.|   +...+..|...|..    .++.++|++.|++..+.+   +...
T Consensus       112 ~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a  185 (490)
T 2xm6_A          112 QAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWS  185 (490)
T ss_dssp             HHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHH
T ss_pred             HHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHH
Confidence            667777777777    678888888888887765   56777777777777    678888888888877653   5677


Q ss_pred             HHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc----cCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 005729          408 YSRILAGYRD----RGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGK----YNCLHHAMAAFDRMLSEGIEPDTITWN  479 (680)
Q Consensus       408 ~~~ll~~~~~----~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~~~~~~~~~~  479 (680)
                      +..+...|..    .++.++|.+.|++..+.+   +...+..+...|..    .++.++|...|++..+.+   +...+.
T Consensus       186 ~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~  259 (490)
T 2xm6_A          186 CNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQF  259 (490)
T ss_dssp             HHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHHH
T ss_pred             HHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            7777777777    778888888888877754   45666777777765    678888888888877653   456666


Q ss_pred             HHHHHHHH----cCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc-----CCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 005729          480 TLIDCHFK----CGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQ-----ERWEDVKRLLGNMRAQGLLPNVVTYTT  550 (680)
Q Consensus       480 ~li~~~~~----~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~-----g~~~~A~~~~~~m~~~~~~p~~~~~~~  550 (680)
                      .+...|..    .++.++|+++|++..+.|   +...+..+...+...     ++.++|...+.+..+.|   +...+..
T Consensus       260 ~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~  333 (490)
T 2xm6_A          260 RLGYILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG---DATAQAN  333 (490)
T ss_dssp             HHHHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT---CHHHHHH
T ss_pred             HHHHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC---CHHHHHH
Confidence            67777776    788888888888887765   456666777777766     78888888888888764   4566677


Q ss_pred             HHHHHHhcC---ChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCC
Q 005729          551 LVDIYGQSG---RFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGE----DQRDAEAFAVLQYMKENGLK  623 (680)
Q Consensus       551 li~~~~~~g---~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~  623 (680)
                      +...|.+.|   ++++|           ++.|++..+.   .+...+..|...|..    .+++++|+.+|++..+.|  
T Consensus       334 lg~~y~~~g~~~~~~~A-----------~~~~~~a~~~---~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~--  397 (490)
T 2xm6_A          334 LGAIYFRLGSEEEHKKA-----------VEWFRKAAAK---GEKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQG--  397 (490)
T ss_dssp             HHHHHHHSCCHHHHHHH-----------HHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT--
T ss_pred             HHHHHHhCCCcccHHHH-----------HHHHHHHHHC---CCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCC--
Confidence            777776655   33444           4444555553   356677778888877    788888888888888754  


Q ss_pred             CCHHHHHHHHHHHHh----cCCcCcHHHHHHHHHHcCCC
Q 005729          624 PDVVTYTTLMKALIR----VDKFHKVPAVYEEMILSGCT  658 (680)
Q Consensus       624 p~~~~~~~l~~~~~~----~g~~~~A~~~~~~m~~~g~~  658 (680)
                       +...+..|...|.+    .+++++|..+|++..+.|..
T Consensus       398 -~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~  435 (490)
T 2xm6_A          398 -LSAAQVQLGEIYYYGLGVERDYVQAWAWFDTASTNDMN  435 (490)
T ss_dssp             -CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHHHCC
T ss_pred             -CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCC
Confidence             56677778888877    78888888888888877643

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.80  E-value=1.3e-14  Score=156.27  Aligned_cols=353  Identities=12%  Similarity=0.044  Sum_probs=269.7

Q ss_pred             CCHHHHHHHHHHHHH----cCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCCChHHHHHHHHHHHhCCCCcCHH
Q 005729          191 LTPLTYNALISACAR----NDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQ  266 (680)
Q Consensus       191 ~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~  266 (680)
                      .++.++..+...|..    .+++++|+..|++..+.|   +.                                     .
T Consensus        37 g~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~---~~-------------------------------------~   76 (490)
T 2xm6_A           37 GEAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQG---YT-------------------------------------P   76 (490)
T ss_dssp             TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CH-------------------------------------H
T ss_pred             CCHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC---CH-------------------------------------H
Confidence            355566667777776    788888888888877654   12                                     2


Q ss_pred             HHHHHHHHHHH----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCChHHHHHHHHHHHHcCCCCCHHHH
Q 005729          267 LLNDVIVGFAK----AGDASKAMRFLGMAQGVGLSPKTATYAAVITALSN----SGRTIEAEAVFEELKESGLKPRTKAY  338 (680)
Q Consensus       267 ~~~~li~~~~~----~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~l~~~m~~~g~~p~~~~~  338 (680)
                      .+..|...|..    .+++++|++.|++..+.|   +...+..+...|..    .+++++|+..|++..+.|   +...+
T Consensus        77 a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~  150 (490)
T 2xm6_A           77 AEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---LPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQ  150 (490)
T ss_dssp             HHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHH
T ss_pred             HHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHH
Confidence            22333444555    677888888888877754   56667777777777    778888888888887765   56777


Q ss_pred             HHHHHHHHH----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 005729          339 NALLKGYVK----MGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYAN----AGRWESARIVLKEMEVSHAKPNSFIYSR  410 (680)
Q Consensus       339 ~~li~~~~~----~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~~~~~~~~~~~  410 (680)
                      ..|...|..    .++.++|.+.|++..+.|   +...+..|...|..    .++.++|.+.|++..+.+   +...+..
T Consensus       151 ~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~  224 (490)
T 2xm6_A          151 QSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLH  224 (490)
T ss_dssp             HHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHH
T ss_pred             HHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHH
Confidence            778777877    778888888888888764   67788888888887    788888888888887754   5667777


Q ss_pred             HHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 005729          411 ILAGYRD----RGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGK----YNCLHHAMAAFDRMLSEGIEPDTITWNTLI  482 (680)
Q Consensus       411 ll~~~~~----~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~~~~~~~~~~~li  482 (680)
                      +...|..    .+++++|..+|++..+.+   +...+..+...|..    .++.++|...|++..+.+   +...+..+.
T Consensus       225 lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg  298 (490)
T 2xm6_A          225 LADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLA  298 (490)
T ss_dssp             HHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHH
T ss_pred             HHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHH
Confidence            7777776    788889999888887754   45566677777766    788999999999888754   566777788


Q ss_pred             HHHHHc-----CChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 005729          483 DCHFKC-----GRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQE---RWEDVKRLLGNMRAQGLLPNVVTYTTLVDI  554 (680)
Q Consensus       483 ~~~~~~-----g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g---~~~~A~~~~~~m~~~~~~p~~~~~~~li~~  554 (680)
                      ..|...     +++++|..+|++..+.|   +...+..+...|...|   +.++|.+++++..+.|   +...+..|...
T Consensus       299 ~~y~~~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~  372 (490)
T 2xm6_A          299 HLYDKGAEGVAKNREQAISWYTKSAEQG---DATAQANLGAIYFRLGSEEEHKKAVEWFRKAAAKG---EKAAQFNLGNA  372 (490)
T ss_dssp             HHHHHCBTTBCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHTT---CHHHHHHHHHH
T ss_pred             HHHHcCCCCCcCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHCC---CHHHHHHHHHH
Confidence            888877     89999999999998876   4567777777777756   7889999999998864   67788888888


Q ss_pred             HHh----cCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCC
Q 005729          555 YGQ----SGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGE----DQRDAEAFAVLQYMKENG  621 (680)
Q Consensus       555 ~~~----~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g  621 (680)
                      |..    .+++++|.+.++           +..+.|   +...+..|...|.+    .++.++|..+|++..+.|
T Consensus       373 y~~g~g~~~~~~~A~~~~~-----------~A~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~  433 (490)
T 2xm6_A          373 LLQGKGVKKDEQQAAIWMR-----------KAAEQG---LSAAQVQLGEIYYYGLGVERDYVQAWAWFDTASTND  433 (490)
T ss_dssp             HHHTSSSCCCHHHHHHHHH-----------HHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHHH
T ss_pred             HHcCCCCCCCHHHHHHHHH-----------HHHhCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC
Confidence            888    778887776654           444433   56678888888887    899999999999999865

>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=1.4e-16  Score=161.71  Aligned_cols=294  Identities=10%  Similarity=-0.032  Sum_probs=247.6

Q ss_pred             CcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHH
Q 005729          262 ELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNAL  341 (680)
Q Consensus       262 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~l  341 (680)
                      +.+...+..+...+...|++++|+++|+.+.+.. +.+...+..++..+...|++++|..+++++.+.. +.+...+..+
T Consensus        19 ~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l   96 (330)
T 3hym_B           19 QENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAV   96 (330)
T ss_dssp             -CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHH
Confidence            4566677888889999999999999999988753 3345567778889999999999999999998864 4467889999


Q ss_pred             HHHHHHcC-CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 005729          342 LKGYVKMG-YLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGE  420 (680)
Q Consensus       342 i~~~~~~g-~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~  420 (680)
                      ...+...| ++++|...++++.+.. +.+...|..+...|...|++++|+..+++...... .+...+..+...|...|+
T Consensus        97 ~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~  174 (330)
T 3hym_B           97 GCYYLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMK-GCHLPMLYIGLEYGLTNN  174 (330)
T ss_dssp             HHHHHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTT-TCSHHHHHHHHHHHHTTC
T ss_pred             HHHHHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhcc-ccHHHHHHHHHHHHHHhh
Confidence            99999999 9999999999999865 33678899999999999999999999999987653 345677779999999999


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCC--------CCCCHHHHHHHHHHHHHcCChh
Q 005729          421 WQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEG--------IEPDTITWNTLIDCHFKCGRYD  492 (680)
Q Consensus       421 ~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~--------~~~~~~~~~~li~~~~~~g~~~  492 (680)
                      +++|...++++.+.. +.+...+..+...+...|++++|...+++..+..        .+.....|..+...|.+.|+++
T Consensus       175 ~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  253 (330)
T 3hym_B          175 SKLAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYA  253 (330)
T ss_dssp             HHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHH
Confidence            999999999998775 5678899999999999999999999999987641        1334678999999999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH-HhcCChH
Q 005729          493 RAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIY-GQSGRFD  562 (680)
Q Consensus       493 ~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~-~~~g~~~  562 (680)
                      +|...|++..+.. +.+...+..+...+.+.|++++|...++++.+.. +.+...+..+..++ ...|+.+
T Consensus       254 ~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~g~~~  322 (330)
T 3hym_B          254 EALDYHRQALVLI-PQNASTYSAIGYIHSLMGNFENAVDYFHTALGLR-RDDTFSVTMLGHCIEMYIGDSE  322 (330)
T ss_dssp             HHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTC-SCCHHHHHHHHHHHHTTTTC--
T ss_pred             HHHHHHHHHHhhC-ccchHHHHHHHHHHHHhccHHHHHHHHHHHHccC-CCchHHHHHHHHHHHHHhCchh
Confidence            9999999998875 5578889999999999999999999999998753 23677888888887 4555543

>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=8.5e-17  Score=163.26  Aligned_cols=290  Identities=8%  Similarity=-0.039  Sum_probs=197.5

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 005729          334 RTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILA  413 (680)
Q Consensus       334 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~  413 (680)
                      +...+..+...+...|++++|.++++++.+.. +.+...+..++..+...|++++|..+++++.+.. +.+...+..+..
T Consensus        21 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~   98 (330)
T 3hym_B           21 NLDVVVSLAERHYYNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAVGC   98 (330)
T ss_dssp             CCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHH
Confidence            44455556666666666666666666666543 2234445555666666677777777776666543 234556666666


Q ss_pred             HHHhcC-CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChh
Q 005729          414 GYRDRG-EWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYD  492 (680)
Q Consensus       414 ~~~~~g-~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~  492 (680)
                      .+...| ++++|.+.|+++.+.. +.+...+..+...+...|++++|...|+++.+.. +.+...+..+...|...|+++
T Consensus        99 ~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~  176 (330)
T 3hym_B           99 YYLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLM-KGCHLPMLYIGLEYGLTNNSK  176 (330)
T ss_dssp             HHHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT-TTCSHHHHHHHHHHHHTTCHH
T ss_pred             HHHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHHhhHH
Confidence            677777 6777777777766553 3455667777777777777777777777777654 234556666777888888888


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC--------CCCCHHHHHHHHHHHHhcCChHHH
Q 005729          493 RAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQG--------LLPNVVTYTTLVDIYGQSGRFDDA  564 (680)
Q Consensus       493 ~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~--------~~p~~~~~~~li~~~~~~g~~~~A  564 (680)
                      +|.+.|+++.+.. +.+...+..+...+...|++++|...++++.+..        ......++..+...|.+.|++++|
T Consensus       177 ~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  255 (330)
T 3hym_B          177 LAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEA  255 (330)
T ss_dssp             HHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHH
Confidence            8888888887765 5567778888888888888888888888877631        123457888888888899888888


Q ss_pred             HHHHhhhHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHH-HhcCCc
Q 005729          565 IECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKP-DVVTYTTLMKAL-IRVDKF  642 (680)
Q Consensus       565 ~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~l~~~~-~~~g~~  642 (680)
                      .+.++...           +. .+.+...|..+..+|.+.|++++|.+.++++.+  +.| +...+..+..++ ...|+.
T Consensus       256 ~~~~~~a~-----------~~-~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~l~~~~~~~~g~~  321 (330)
T 3hym_B          256 LDYHRQAL-----------VL-IPQNASTYSAIGYIHSLMGNFENAVDYFHTALG--LRRDDTFSVTMLGHCIEMYIGDS  321 (330)
T ss_dssp             HHHHHHHH-----------HH-STTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTT--TCSCCHHHHHHHHHHHHTTTTC-
T ss_pred             HHHHHHHH-----------hh-CccchHHHHHHHHHHHHhccHHHHHHHHHHHHc--cCCCchHHHHHHHHHHHHHhCch
Confidence            87765222           21 122456788888899999999999999988887  445 566777777777 444543

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.78  E-value=6.4e-15  Score=160.27  Aligned_cols=424  Identities=12%  Similarity=0.121  Sum_probs=251.4

Q ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCCChHHHHHHHHHHHhCCCCcCHHHH
Q 005729          189 QRLTPLTYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLL  268 (680)
Q Consensus       189 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~  268 (680)
                      .+.+..+|..++. +.+.|++++|..+|+++.+.. +-+...|...+..+.+.|+.+.  ++.+|++.....  |+...|
T Consensus         9 ~P~~~~~w~~l~~-~~~~~~~~~a~~~~e~al~~~-P~~~~~w~~~~~~~~~~~~~~~--a~~~~~ral~~~--p~~~lw   82 (530)
T 2ooe_A            9 NPYDLDAWSILIR-EAQNQPIDKARKTYERLVAQF-PSSGRFWKLYIEAEIKAKNYDK--VEKLFQRCLMKV--LHIDLW   82 (530)
T ss_dssp             CTTCHHHHHHHHH-HHHSSCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHH--HHHHHHHHTTTC--CCHHHH
T ss_pred             CCCCHHHHHHHHH-HHHhCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhcCCHHH--HHHHHHHHHhcC--CChHHH
Confidence            4557788888887 477888999999988888752 2233344444444444444422  334444444332  244444


Q ss_pred             HHHHHHH-HHcCCHHHHHH----HHHHHHh-CCCCC-CHHHHHHHHHHHHh---------cCChHHHHHHHHHHHHcCCC
Q 005729          269 NDVIVGF-AKAGDASKAMR----FLGMAQG-VGLSP-KTATYAAVITALSN---------SGRTIEAEAVFEELKESGLK  332 (680)
Q Consensus       269 ~~li~~~-~~~g~~~~A~~----~~~~~~~-~g~~p-~~~~~~~li~~~~~---------~g~~~~A~~l~~~m~~~g~~  332 (680)
                      ...+... ...|+.++|.+    +|+.... .|..| +...|...+....+         .|++++|..+|++..+....
T Consensus        83 ~~~~~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~P~~  162 (530)
T 2ooe_A           83 KCYLSYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVNPMI  162 (530)
T ss_dssp             HHHHHHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTSCCT
T ss_pred             HHHHHHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhchhh
Confidence            4444322 22344443333    3433322 12222 23344444443332         34444555555544441000


Q ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH------HCC---CCC
Q 005729          333 PRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEME------VSH---AKP  403 (680)
Q Consensus       333 p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~------~~~---~~~  403 (680)
                      .....|..........|. .                   +...++.  .+.++++.|..+++++.      +..   ++|
T Consensus       163 ~~~~~~~~~~~~e~~~~~-~-------------------~~~~~l~--~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p  220 (530)
T 2ooe_A          163 NIEQLWRDYNKYEEGINI-H-------------------LAKKMIE--DRSRDYMNARRVAKEYETVMKGLDRNAPSVPP  220 (530)
T ss_dssp             THHHHHHHHHHHHHHHCH-H-------------------HHHHHHH--TTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCC
T ss_pred             hHHHHHHHHHHHHHhhch-h-------------------HHHHHHH--HhhHHHHHHHHHHHHHHHHHHHhccccccCCC
Confidence            001112111110000000 0                   0000000  12345566666666532      111   233


Q ss_pred             C--------HHHHHHHHHHHHhc----CCH----HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc-------cCCHH---
Q 005729          404 N--------SFIYSRILAGYRDR----GEW----QRTFQVLKEMKSSGVEPDTHFYNVMIDTFGK-------YNCLH---  457 (680)
Q Consensus       404 ~--------~~~~~~ll~~~~~~----g~~----~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~-------~g~~~---  457 (680)
                      +        ...|...+......    ++.    .++..+|++..... +.+...|..++..+.+       .|+++   
T Consensus       221 ~~~~~~~~~~~~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~  299 (530)
T 2ooe_A          221 QNTPQEAQQVDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAK  299 (530)
T ss_dssp             C--CCHHHHHHHHHHHHHHHHHCSSCCSCSHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHH
T ss_pred             CCChhHHHHHHHHHHHHHHHHcCCccCCcchhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhh
Confidence            3        24555555433322    232    46778888877653 5577888888887765       68876   


Q ss_pred             ----HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcCCHHHHHHH
Q 005729          458 ----HAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCT-TTYNIMINLLGEQERWEDVKRL  532 (680)
Q Consensus       458 ----~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~-~t~~~li~~~~~~g~~~~A~~~  532 (680)
                          +|..+|++..+.-.+.+...|..++..+.+.|++++|..+|+++.+.. +.+. ..|..++..+.+.|++++|..+
T Consensus       300 ~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~A~~~  378 (530)
T 2ooe_A          300 LFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIE-DIDPTLVYIQYMKFARRAEGIKSGRMI  378 (530)
T ss_dssp             HHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSS-SSCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCcc-ccCchHHHHHHHHHHHHhcCHHHHHHH
Confidence                899999998863224468889999999999999999999999999863 2233 5788888888899999999999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHH-HHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 005729          533 LGNMRAQGLLPNVVTYTTLVDI-YGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAF  611 (680)
Q Consensus       533 ~~~m~~~~~~p~~~~~~~li~~-~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~  611 (680)
                      |++..+.. +.+...|...+.. +...|++++|..+|+..++    .        .+-+...|..++..+.+.|+.++|.
T Consensus       379 ~~~Al~~~-~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~----~--------~p~~~~~~~~~~~~~~~~g~~~~Ar  445 (530)
T 2ooe_A          379 FKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLK----K--------YGDIPEYVLAYIDYLSHLNEDNNTR  445 (530)
T ss_dssp             HHHHHTCT-TCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHH----H--------HTTCHHHHHHHHHHHTTTTCHHHHH
T ss_pred             HHHHHhcc-CCchHHHHHHHHHHHHHcCChhHHHHHHHHHHH----H--------CCCCHHHHHHHHHHHHhCCCHhhHH
Confidence            99998753 2233444333322 3358888888877663222    1        1224678999999999999999999


Q ss_pred             HHHHHHHHCC-CCCC--HHHHHHHHHHHHhcCCcCcHHHHHHHHHHc
Q 005729          612 AVLQYMKENG-LKPD--VVTYTTLMKALIRVDKFHKVPAVYEEMILS  655 (680)
Q Consensus       612 ~~~~~m~~~g-~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  655 (680)
                      .+|++..+.+ ..|+  ...|...+....+.|+.+.+..+.+++.+.
T Consensus       446 ~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~~  492 (530)
T 2ooe_A          446 VLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  492 (530)
T ss_dssp             HHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            9999999853 2332  458888888888899999999999998874

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.77  E-value=8.1e-17  Score=166.34  Aligned_cols=290  Identities=11%  Similarity=-0.027  Sum_probs=220.7

Q ss_pred             HHHcCCHHHHHH-HHHHHHhCCC-CC--CHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCC
Q 005729          275 FAKAGDASKAMR-FLGMAQGVGL-SP--KTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGY  350 (680)
Q Consensus       275 ~~~~g~~~~A~~-~~~~~~~~g~-~p--~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~  350 (680)
                      +...|++++|++ .|++...... .|  +...+..+...+.+.|++++|...|+++.+.. +.+..++..+...+.+.|+
T Consensus        35 ~~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~  113 (368)
T 1fch_A           35 HPWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQ  113 (368)
T ss_dssp             -----------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTC
T ss_pred             hHHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcC
Confidence            344577888887 7776554321 11  34557778888888888888888888888764 4567788888888888888


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHH-H--------------HHHHH
Q 005729          351 LKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYS-R--------------ILAGY  415 (680)
Q Consensus       351 ~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~-~--------------ll~~~  415 (680)
                      +++|...++++.+.+ +.+..++..+...|...|++++|++.++++....... ...+. .              .+..+
T Consensus       114 ~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~  191 (368)
T 1fch_A          114 ELLAISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRDWLRYTPAY-AHLVTPAEEGAGGAGLGPSKRILGSL  191 (368)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTT-GGGCC---------------CTTHHH
T ss_pred             HHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCc-HHHHHHHHHHhhhhcccHHHHHHHHH
Confidence            888888888887764 3367788888888888888888888888887754321 11111 1              23334


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhH
Q 005729          416 RDRGEWQRTFQVLKEMKSSGVEP--DTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDR  493 (680)
Q Consensus       416 ~~~g~~~~A~~l~~~m~~~~~~p--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~  493 (680)
                      ...|++++|...++++.+.. +.  +..++..+...|.+.|++++|...|+++.+.. +.+...|..+...|.+.|++++
T Consensus       192 ~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~  269 (368)
T 1fch_A          192 LSDSLFLEVKELFLAAVRLD-PTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEE  269 (368)
T ss_dssp             HHHHHHHHHHHHHHHHHHHS-TTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             hhcccHHHHHHHHHHHHHhC-cCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHcCCHHH
Confidence            48899999999999988764 22  58899999999999999999999999988764 4467899999999999999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC----------CHHHHHHHHHHHHhcCChHH
Q 005729          494 AEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLP----------NVVTYTTLVDIYGQSGRFDD  563 (680)
Q Consensus       494 A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p----------~~~~~~~li~~~~~~g~~~~  563 (680)
                      |...|+++.+.. +.+...+..+...+.+.|++++|...++++.+.....          ...+|..+..+|.+.|++++
T Consensus       270 A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  348 (368)
T 1fch_A          270 AVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDA  348 (368)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGG
T ss_pred             HHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChHh
Confidence            999999998875 5678899999999999999999999999988752211          26889999999999999999


Q ss_pred             HHHHHhh
Q 005729          564 AIECLEG  570 (680)
Q Consensus       564 A~~~~~~  570 (680)
                      |..+++.
T Consensus       349 A~~~~~~  355 (368)
T 1fch_A          349 YGAADAR  355 (368)
T ss_dssp             HHHHHTT
T ss_pred             HHHhHHH
Confidence            9988763

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.76  E-value=2.8e-14  Score=155.24  Aligned_cols=409  Identities=11%  Similarity=0.043  Sum_probs=290.7

Q ss_pred             HHHHHCCCCCchHHHHHHHHHHhcccCCHHHHHHh----hCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCC
Q 005729          151 SWLQKHNLCYSYELLYSILIHALGRSEKLYEAFLL----SQRQRLTPLTYNALISACARNDDLEKALNLMSKMRQDGYHC  226 (680)
Q Consensus       151 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~----~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  226 (680)
                      +..++.+  |.+..+|..++. +.+.|++++|+.+    ....|.+...|...+..+.+.|++++|..+|+++....  |
T Consensus         3 e~al~~~--P~~~~~w~~l~~-~~~~~~~~~a~~~~e~al~~~P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~--p   77 (530)
T 2ooe_A            3 EKKLEEN--PYDLDAWSILIR-EAQNQPIDKARKTYERLVAQFPSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKV--L   77 (530)
T ss_dssp             HHHHHHC--TTCHHHHHHHHH-HHHSSCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTC--C
T ss_pred             hhHhhhC--CCCHHHHHHHHH-HHHhCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC--C
Confidence            4444444  566677777777 4667888888766    45566778889999999999999999999999988764  6


Q ss_pred             ChhhHHHHHHHH-HhcCCCChH--HHHHHHHHHHh-CCCC-cCHHHHHHHHHHHHH---------cCCHHHHHHHHHHHH
Q 005729          227 DFINYSLVIQSL-TRTNKIDSS--LLQKLYKEIEC-DKIE-LDGQLLNDVIVGFAK---------AGDASKAMRFLGMAQ  292 (680)
Q Consensus       227 ~~~~~~~ll~~~-~~~g~~~~~--~~~~l~~~~~~-~~~~-~~~~~~~~li~~~~~---------~g~~~~A~~~~~~~~  292 (680)
                      +...|...+... ...|+.+.+  .+.++|+.... .|.. .+...|...+....+         .|++++|..+|++..
T Consensus        78 ~~~lw~~~~~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al  157 (530)
T 2ooe_A           78 HIDLWKCYLSYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGC  157 (530)
T ss_dssp             CHHHHHHHHHHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHT
T ss_pred             ChHHHHHHHHHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHH
Confidence            766666655433 234655543  23456766654 3443 356778877776654         688999999999988


Q ss_pred             hCCCCCCHHHHHHHHHHH-------------HhcCChHHHHHHHHHHH------HcC---CCCC--------HHHHHHHH
Q 005729          293 GVGLSPKTATYAAVITAL-------------SNSGRTIEAEAVFEELK------ESG---LKPR--------TKAYNALL  342 (680)
Q Consensus       293 ~~g~~p~~~~~~~li~~~-------------~~~g~~~~A~~l~~~m~------~~g---~~p~--------~~~~~~li  342 (680)
                      +.........|.......             .+.+++..|..++..+.      +..   ++|+        ...|...+
T Consensus       158 ~~P~~~~~~~~~~~~~~e~~~~~~~~~~~l~~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~~w~~~~  237 (530)
T 2ooe_A          158 VNPMINIEQLWRDYNKYEEGINIHLAKKMIEDRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQVDMWKKYI  237 (530)
T ss_dssp             TSCCTTHHHHHHHHHHHHHHHCHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHHHHHHHHHH
T ss_pred             hchhhhHHHHHHHHHHHHHhhchhHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHHHHHHHHHHHH
Confidence            731111123444332211             13456777877777632      211   2444        24566555


Q ss_pred             HHHHHc----CCH----HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH-------cCCHH-------HHHHHHHHHHHCC
Q 005729          343 KGYVKM----GYL----KDAEFVVSEMERSGVLPDEHTYSLLIDAYAN-------AGRWE-------SARIVLKEMEVSH  400 (680)
Q Consensus       343 ~~~~~~----g~~----~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~-------~g~~~-------~A~~~~~~m~~~~  400 (680)
                      ......    ++.    +.+..+|++..... +.+...|..++..+.+       .|+++       +|..+|++..+.-
T Consensus       238 ~~e~~~~~~~~~~~~~~~~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~  316 (530)
T 2ooe_A          238 QWEKSNPLRTEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTL  316 (530)
T ss_dssp             HHHHHCSSCCSCSHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTT
T ss_pred             HHHHcCCccCCcchhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHh
Confidence            443332    222    47788899888753 3478899988888876       69987       8999999988632


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-H-HHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHH
Q 005729          401 AKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPD-T-HFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITW  478 (680)
Q Consensus       401 ~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~-~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~  478 (680)
                      .+.+...|..++..+.+.|++++|..+|+++.+.  .|+ . ..|..++..+.+.|+++.|..+|++..+.. +.+...|
T Consensus       317 ~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~-~~~~~~~  393 (530)
T 2ooe_A          317 LKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVY  393 (530)
T ss_dssp             CSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCT-TCCTHHH
T ss_pred             CcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhcc-CCchHHH
Confidence            3456889999999999999999999999999986  443 3 588889999999999999999999998763 2233333


Q ss_pred             HHHHH-HHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CC--CHHHHHHHHHH
Q 005729          479 NTLID-CHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGL-LP--NVVTYTTLVDI  554 (680)
Q Consensus       479 ~~li~-~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~-~p--~~~~~~~li~~  554 (680)
                      ...+. .+...|+.++|..+|++..+.. +-+...|..++..+.+.|+.++|..+|++....+. .|  ....|...+..
T Consensus       394 ~~~a~~~~~~~~~~~~A~~~~e~al~~~-p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~  472 (530)
T 2ooe_A          394 VTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAF  472 (530)
T ss_dssp             HHHHHHHHHHTCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCChhHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHH
Confidence            32222 2346899999999999998874 45688999999999999999999999999998742 23  25588888888


Q ss_pred             HHhcCChHHHHHHHh
Q 005729          555 YGQSGRFDDAIECLE  569 (680)
Q Consensus       555 ~~~~g~~~~A~~~~~  569 (680)
                      ..+.|+.+.+..+.+
T Consensus       473 e~~~G~~~~~~~~~~  487 (530)
T 2ooe_A          473 ESNIGDLASILKVEK  487 (530)
T ss_dssp             HHHSSCHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHH
Confidence            889999999887765

>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=99.73  E-value=8.2e-13  Score=149.27  Aligned_cols=434  Identities=13%  Similarity=0.138  Sum_probs=244.2

Q ss_pred             CChHHHHHHHHHHHHCCCCCchHHHHHHHHHHhcccCCHHHHHHhhC-----------CCCCCHH----H------HHHH
Q 005729          141 SSIDLAYAVVSWLQKHNLCYSYELLYSILIHALGRSEKLYEAFLLSQ-----------RQRLTPL----T------YNAL  199 (680)
Q Consensus       141 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~-----------~~~~~~~----~------~~~l  199 (680)
                      +++.....+++.-...|  ..++.+||.|+..|...++-.+.+....           -..+|+.    +      -.-|
T Consensus       853 nrLkll~p~LE~~~~~g--~~~~~~hnalakiyid~n~npe~fL~~n~~yd~~~vgkyce~rDp~la~iay~~g~~d~el  930 (1630)
T 1xi4_A          853 NRLKLLLPWLEARIHEG--CEEPATHNALAKIYIDSNNNPERFLRENPYYDSRVVGKYCEKRDPHLACVAYERGQCDLEL  930 (1630)
T ss_pred             HHHHHHHHHHHHHHhCC--CCCHHHHHHHHHHHhccCCCHHHHhhccCcccHHHHHHHHHhcCcchHHHHhcccCCcHHH
Confidence            44555555566666677  5567899999999988776665543200           0011211    1      1224


Q ss_pred             HHHHHHcCCHHH-HHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCCChHHHHHHHHHHHhCCC--CcCHHHHHHHHHHHH
Q 005729          200 ISACARNDDLEK-ALNLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKI--ELDGQLLNDVIVGFA  276 (680)
Q Consensus       200 i~~~~~~g~~~~-A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~~~~~~l~~~~~~~~~--~~~~~~~~~li~~~~  276 (680)
                      |+..-+++.++. |.-+.++       -|...|..++.-   .    ...-+.+.+......+  ..|..-....+..|.
T Consensus       931 i~vt~~n~l~k~~arylv~r-------~d~~lW~~vl~~---~----n~~RR~Lidqv~a~aL~e~~~PeeVs~~vKaf~  996 (1630)
T 1xi4_A          931 INVCNENSLFKSLSRYLVRR-------KDPELWGSVLLE---S----NPYRRPLIDQVVQTALSETQDPEEVSVTVKAFM  996 (1630)
T ss_pred             HHHHhcchhHHHHHHHHHHh-------cCHHHHHHHhcC---C----cHHHHHHHHHHHHhhcccccCHHHhHHHHHHHH
Confidence            444555554432 2222222       245555555521   1    1112344444333221  334455567788899


Q ss_pred             HcCCHHHHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHH
Q 005729          277 KAGDASKAMRFLGMAQGVGL--SPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDA  354 (680)
Q Consensus       277 ~~g~~~~A~~~~~~~~~~g~--~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A  354 (680)
                      ..|.+.+|++++++..-.+-  .-+...-+.++.+..+. +..+..+..+++...    +   ...+...+...|.+++|
T Consensus       997 ~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd~~----d---~~eIA~Iai~lglyEEA 1068 (1630)
T 1xi4_A          997 TADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLDNY----D---APDIANIAISNELFEEA 1068 (1630)
T ss_pred             hCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhhhc----c---HHHHHHHHHhCCCHHHH
Confidence            99999999999998884321  12234445566666555 445555555544421    1   23356667777777787


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 005729          355 EFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSS  434 (680)
Q Consensus       355 ~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~  434 (680)
                      ..+|++...     .....+.++.   ..+++++|.++.++.      -+..+|..+..++.+.|++++|.+.|.+    
T Consensus      1069 f~IYkKa~~-----~~~A~~VLie---~i~nldrAiE~Aerv------n~p~vWsqLAKAql~~G~~kEAIdsYiK---- 1130 (1630)
T 1xi4_A         1069 FAIFRKFDV-----NTSAVQVLIE---HIGNLDRAYEFAERC------NEPAVWSQLAKAQLQKGMVKEAIDSYIK---- 1130 (1630)
T ss_pred             HHHHHHcCC-----HHHHHHHHHH---HHhhHHHHHHHHHhc------CCHHHHHHHHHHHHhCCCHHHHHHHHHh----
Confidence            777777531     2222233322   566777777777654      2456777777777777777777777755    


Q ss_pred             CCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHH
Q 005729          435 GVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYN  514 (680)
Q Consensus       435 ~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~  514 (680)
                        ..|...|..++.++.+.|++++|.+.+....+..  ++....+.++.+|++.+++++...+.    +   .++...|.
T Consensus      1131 --AdD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI----~---~~n~ad~~ 1199 (1630)
T 1xi4_A         1131 --ADDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI----N---GPNNAHIQ 1199 (1630)
T ss_pred             --cCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH----h---CCCHHHHH
Confidence              2456667777777777777777777777666543  23223334777777777766433332    1   34556666


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHH-----------HHHHHHH
Q 005729          515 IMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAV-----------NAFRVMR  583 (680)
Q Consensus       515 ~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~-----------~~~~~m~  583 (680)
                      .+...|...|++++|..+|...         ..|..+...|.+.|++++|++.++...+...           .-|+..+
T Consensus      1200 ~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA~n~~aWkev~~acve~~Ef~LA~ 1270 (1630)
T 1xi4_A         1200 QVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKANSTRTWKEVCFACVDGKEFRLAQ 1270 (1630)
T ss_pred             HHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHhCCHHHHHHHHHHHhhhhHHHHHH
Confidence            6777777777777777777764         3677777777777777777776641110000           0012222


Q ss_pred             HCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHh
Q 005729          584 TDG--LKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKP-DVVTYTTLMKALIR  638 (680)
Q Consensus       584 ~~g--~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~l~~~~~~  638 (680)
                      ..|  +..+...+..++..|.+.|.+++|+.+++....  +.+ ....|.-|..+|.+
T Consensus      1271 ~cgl~Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~--LeraH~gmftELaiLyaK 1326 (1630)
T 1xi4_A         1271 MCGLHIVVHADELEELINYYQDRGYFEELITMLEAALG--LERAHMGMFTELAILYSK 1326 (1630)
T ss_pred             HHHHhhhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhc--cChhHhHHHHHHHHHHHh
Confidence            211  223444555666666666666666666655554  223 23344444444443

>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=8.5e-16  Score=158.64  Aligned_cols=266  Identities=12%  Similarity=0.046  Sum_probs=219.3

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 005729          265 GQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKG  344 (680)
Q Consensus       265 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~  344 (680)
                      ...+..+...|.+.|++++|++.|+++.+.. +.+..+|..+...+...|++++|+..|+++.+.. +.+..++..+...
T Consensus        64 ~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~  141 (368)
T 1fch_A           64 HPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVS  141 (368)
T ss_dssp             CSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHH
Confidence            4556677888889999999999999988764 3467788889999999999999999999988875 4578889999999


Q ss_pred             HHHcCCHHHHHHHHHHHHHCCCCCCHHHHHH---------------HHHHHHHcCCHHHHHHHHHHHHHCCCCC-CHHHH
Q 005729          345 YVKMGYLKDAEFVVSEMERSGVLPDEHTYSL---------------LIDAYANAGRWESARIVLKEMEVSHAKP-NSFIY  408 (680)
Q Consensus       345 ~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~---------------li~~~~~~g~~~~A~~~~~~m~~~~~~~-~~~~~  408 (680)
                      |...|++++|...++++.+.... +...+..               .+..+...|++++|+..|+++....... +..++
T Consensus       142 ~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~  220 (368)
T 1fch_A          142 FTNESLQRQACEILRDWLRYTPA-YAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQ  220 (368)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTSTT-TGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHH
Confidence            99999999999999998876422 2222211               2333448999999999999998765332 58899


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc
Q 005729          409 SRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKC  488 (680)
Q Consensus       409 ~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~  488 (680)
                      ..+...+...|++++|...++++.+.. +.+..++..+...+...|++++|...|+++.+.. +.+...+..+..+|.+.
T Consensus       221 ~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~  298 (368)
T 1fch_A          221 CGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINL  298 (368)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHC
Confidence            999999999999999999999988764 5568899999999999999999999999998764 45688899999999999


Q ss_pred             CChhHHHHHHHHHHHCCCCCC-----------HHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 005729          489 GRYDRAEELFEEMQERGYFPC-----------TTTYNIMINLLGEQERWEDVKRLLGNM  536 (680)
Q Consensus       489 g~~~~A~~~~~~m~~~~~~p~-----------~~t~~~li~~~~~~g~~~~A~~~~~~m  536 (680)
                      |++++|...|+++.+.. +.+           ..+|..+..++...|+.++|..++.+.
T Consensus       299 g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  356 (368)
T 1fch_A          299 GAHREAVEHFLEALNMQ-RKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAADARD  356 (368)
T ss_dssp             TCHHHHHHHHHHHHHHH-HTC------CCCCCHHHHHHHHHHHHHHTCGGGHHHHHTTC
T ss_pred             CCHHHHHHHHHHHHHhC-CCCCCccccccchhhHHHHHHHHHHHHhCChHhHHHhHHHH
Confidence            99999999999987653 222           688999999999999999999887643

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.73  E-value=7.1e-16  Score=159.21  Aligned_cols=263  Identities=11%  Similarity=-0.040  Sum_probs=164.8

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 005729          302 TYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYA  381 (680)
Q Consensus       302 ~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~  381 (680)
                      .|..+...+.+.|++++|+.+|+++.+.. +.+..+|..+...|.+.|++++|...|+++.+.. +.+..+|..+...|.
T Consensus        67 ~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~  144 (365)
T 4eqf_A           67 GAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAVSYT  144 (365)
T ss_dssp             THHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHH
Confidence            34445555555555555555555555432 2344555555555555555555555555555432 223555555555555


Q ss_pred             HcCCHHHHHHHHHHHHHCCCC---------CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHH
Q 005729          382 NAGRWESARIVLKEMEVSHAK---------PNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEP--DTHFYNVMIDTF  450 (680)
Q Consensus       382 ~~g~~~~A~~~~~~m~~~~~~---------~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p--~~~~~~~li~~~  450 (680)
                      ..|++++|+..|+++.+....         .....+..+...+...|++++|...++++.+.. +.  +..++..+...|
T Consensus       145 ~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~l~~~~  223 (365)
T 4eqf_A          145 NTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQN-GDMIDPDLQTGLGVLF  223 (365)
T ss_dssp             HTTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHS-CSSCCHHHHHHHHHHH
T ss_pred             ccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhC-cCccCHHHHHHHHHHH
Confidence            555555555555555443210         012233445666777777777777777776653 22  577777888888


Q ss_pred             HccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 005729          451 GKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVK  530 (680)
Q Consensus       451 ~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~  530 (680)
                      ...|++++|...|+++.+.. +.+..+|..+..+|.+.|++++|...|+++.+.. +.+..+|..+...|.+.|++++|.
T Consensus       224 ~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~  301 (365)
T 4eqf_A          224 HLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQ-PGFIRSRYNLGISCINLGAYREAV  301 (365)
T ss_dssp             HHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHHHH
Confidence            88888888888888877654 3467788888888888888888888888887764 455778888888888888888888


Q ss_pred             HHHHHHHHCCCC-----------CCHHHHHHHHHHHHhcCChHHHHHHHh
Q 005729          531 RLLGNMRAQGLL-----------PNVVTYTTLVDIYGQSGRFDDAIECLE  569 (680)
Q Consensus       531 ~~~~~m~~~~~~-----------p~~~~~~~li~~~~~~g~~~~A~~~~~  569 (680)
                      ..++++.+....           .+..+|..+..++...|+.+.+..+.+
T Consensus       302 ~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  351 (365)
T 4eqf_A          302 SNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANL  351 (365)
T ss_dssp             HHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHT
T ss_pred             HHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHH
Confidence            888888764211           135788899999999999998877654

>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=99.73  E-value=1.5e-12  Score=147.26  Aligned_cols=351  Identities=13%  Similarity=0.138  Sum_probs=245.6

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHc
Q 005729          199 LISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKA  278 (680)
Q Consensus       199 li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~~~li~~~~~~  278 (680)
                      +...+...|.+++|..+|++...     .....+.++.   ..++++.+  .++.+++      -+..+|..+..++.+.
T Consensus      1055 IA~Iai~lglyEEAf~IYkKa~~-----~~~A~~VLie---~i~nldrA--iE~Aerv------n~p~vWsqLAKAql~~ 1118 (1630)
T 1xi4_A         1055 IANIAISNELFEEAFAIFRKFDV-----NTSAVQVLIE---HIGNLDRA--YEFAERC------NEPAVWSQLAKAQLQK 1118 (1630)
T ss_pred             HHHHHHhCCCHHHHHHHHHHcCC-----HHHHHHHHHH---HHhhHHHH--HHHHHhc------CCHHHHHHHHHHHHhC
Confidence            44556677888888888877521     1111222322   33333222  2333322      3577888899999999


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Q 005729          279 GDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVV  358 (680)
Q Consensus       279 g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~  358 (680)
                      |++++|++.|.+.      .|...|..++..+.+.|++++|.+.|...++..  ++....+.++.+|++.+++++...++
T Consensus      1119 G~~kEAIdsYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI 1190 (1630)
T 1xi4_A         1119 GMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI 1190 (1630)
T ss_pred             CCHHHHHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH
Confidence            9999999988664      467778888999999999999999998877654  33333445888888888888644442


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC
Q 005729          359 SEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEP  438 (680)
Q Consensus       359 ~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p  438 (680)
                          +   .++...|..+...|...|++++|..+|...         ..|..+...+.+.|++++|.+.+++.      .
T Consensus      1191 ----~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA------~ 1248 (1630)
T 1xi4_A         1191 ----N---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA------N 1248 (1630)
T ss_pred             ----h---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHh------C
Confidence                2   346667777888899999999999999874         37888999999999999999988875      4


Q ss_pred             CHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 005729          439 DTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMIN  518 (680)
Q Consensus       439 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~  518 (680)
                      +..+|..+-.+|...|++..|......+     ..+...+..++..|.+.|.+++|+.+++..+... +.....|+-+..
T Consensus      1249 n~~aWkev~~acve~~Ef~LA~~cgl~I-----iv~~deLeeli~yYe~~G~feEAI~LlE~aL~Le-raH~gmftELai 1322 (1630)
T 1xi4_A         1249 STRTWKEVCFACVDGKEFRLAQMCGLHI-----VVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAI 1322 (1630)
T ss_pred             CHHHHHHHHHHHhhhhHHHHHHHHHHhh-----hcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccC-hhHhHHHHHHHH
Confidence            5688888888888888888888876653     3466678899999999999999999998887665 445566766666


Q ss_pred             HHHhc--CCHHHHHHHHHHHHHCCCCC------CHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHH--HHHHHHHHCCCC
Q 005729          519 LLGEQ--ERWEDVKRLLGNMRAQGLLP------NVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAV--NAFRVMRTDGLK  588 (680)
Q Consensus       519 ~~~~~--g~~~~A~~~~~~m~~~~~~p------~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~--~~~~~m~~~g~~  588 (680)
                      .+++.  ++..++.+.|..-.  ++++      +...|..++..|.+.|+++.|...+-...+.|.  ..|+....  -.
T Consensus      1323 LyaKy~peklmEhlk~f~~ri--ni~k~~r~~e~~~lW~elv~LY~~~~e~dnA~~tm~~h~~~a~~~~~Fk~~i~--kv 1398 (1630)
T 1xi4_A         1323 LYSKFKPQKMREHLELFWSRV--NIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMNHPTDAWKEGQFKDIIT--KV 1398 (1630)
T ss_pred             HHHhCCHHHHHHHHHHHHHhc--ccchHhHHHHHHHHHHHHHHHHHhcccHHHHHHHHHhccHhhhhhHHHHHHhc--cc
Confidence            66653  44555555555332  2222      567899999999999999999976554433332  23444433  23


Q ss_pred             CCHHHHHHHHHHHHhcC
Q 005729          589 PSNLALNSLINAFGEDQ  605 (680)
Q Consensus       589 p~~~~~~~li~~~~~~g  605 (680)
                      .|...|-..+.-|...+
T Consensus      1399 ~n~elyykai~Fyl~~~ 1415 (1630)
T 1xi4_A         1399 ANVELYYRAIQFYLEFK 1415 (1630)
T ss_pred             ccHHHHHHHHHHHHhhC
Confidence            45566666666665444

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.72  E-value=6.9e-16  Score=159.29  Aligned_cols=268  Identities=13%  Similarity=0.032  Sum_probs=219.6

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 005729          264 DGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLK  343 (680)
Q Consensus       264 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~  343 (680)
                      +...+..+...+.+.|++++|++.|+.+.+.. +.+..+|..+...+.+.|++++|+..|+++.+.. +.+..++..+..
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~  141 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAV  141 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHH
Confidence            45568888999999999999999999998753 3467899999999999999999999999998874 456889999999


Q ss_pred             HHHHcCCHHHHHHHHHHHHHCCCC---------CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC-CCHHHHHHHHH
Q 005729          344 GYVKMGYLKDAEFVVSEMERSGVL---------PDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAK-PNSFIYSRILA  413 (680)
Q Consensus       344 ~~~~~g~~~~A~~~~~~m~~~g~~---------~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~-~~~~~~~~ll~  413 (680)
                      .|...|++++|...++++.+....         .....+..+...|...|++++|+..|+++...... .+..++..+..
T Consensus       142 ~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~  221 (365)
T 4eqf_A          142 SYTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGV  221 (365)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHH
T ss_pred             HHHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHH
Confidence            999999999999999999874211         01233445688899999999999999999887533 26889999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhH
Q 005729          414 GYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDR  493 (680)
Q Consensus       414 ~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~  493 (680)
                      .|...|++++|.+.|+++.+.. +.+..++..+...|.+.|++++|...|+++.+.. +.+...|..+..+|.+.|++++
T Consensus       222 ~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~  299 (365)
T 4eqf_A          222 LFHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQ-PGFIRSRYNLGISCINLGAYRE  299 (365)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHH
Confidence            9999999999999999988764 5678999999999999999999999999998864 3468899999999999999999


Q ss_pred             HHHHHHHHHHCCC---C--------CCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 005729          494 AEELFEEMQERGY---F--------PCTTTYNIMINLLGEQERWEDVKRLLGN  535 (680)
Q Consensus       494 A~~~~~~m~~~~~---~--------p~~~t~~~li~~~~~~g~~~~A~~~~~~  535 (680)
                      |...|+++.+...   .        .+...|..+..++...|+.+.+..+..+
T Consensus       300 A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          300 AVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             HHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             HHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence            9999999876420   0        1357889999999999999998887664

>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=99.72  E-value=7.8e-16  Score=156.47  Aligned_cols=344  Identities=14%  Similarity=0.155  Sum_probs=151.4

Q ss_pred             ccCCHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCCChHHHHHHHH
Q 005729          175 RSEKLYEAFLLSQRQRLTPLTYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYK  254 (680)
Q Consensus       175 ~~g~~~~A~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~~~~~~l~~  254 (680)
                      +.|++++|....... +++.+|..|+.++.+.|++++|++.|.+.      +|..+|..++.++...|+++++  ...+.
T Consensus        15 ~~~~ld~A~~fae~~-~~~~vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~EeA--i~yl~   85 (449)
T 1b89_A           15 HIGNLDRAYEFAERC-NEPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEEL--VKYLQ   85 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhC-CChHHHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHH--HHHHH
Confidence            556677777763322 23348888888888888888888888653      4666778888888888877654  35554


Q ss_pred             HHHhCCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC
Q 005729          255 EIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPR  334 (680)
Q Consensus       255 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~  334 (680)
                      ...+.  .+++.+.+.++.+|.+.|+++++.++++       .|+..+|+.+...|...|++++|...|..+        
T Consensus        86 ~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a--------  148 (449)
T 1b89_A           86 MARKK--ARESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV--------  148 (449)
T ss_dssp             -------------------------CHHHHTTTTT-------CC----------------CTTTHHHHHHHT--------
T ss_pred             HHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh--------
Confidence            44442  4456778888888888898888887774       367778999999999999999999999876        


Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 005729          335 TKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAG  414 (680)
Q Consensus       335 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~  414 (680)
                       ..|..++.++.+.|++++|.+.+.++      .++.+|..++.+|+..|+++.|......     +.....-...++..
T Consensus       149 -~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~-----L~~~ad~l~~lv~~  216 (449)
T 1b89_A          149 -SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLH-----IVVHADELEELINY  216 (449)
T ss_dssp             -TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTT-----TTTCHHHHHHHHHH
T ss_pred             -hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHH-----HHhCHhhHHHHHHH
Confidence             36888889999999999999988888      2788899999999999999988554443     23344445578888


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcc--CCHHHHHHHHHHHHHCCCCC------CHHHHHHHHHHHH
Q 005729          415 YRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKY--NCLHHAMAAFDRMLSEGIEP------DTITWNTLIDCHF  486 (680)
Q Consensus       415 ~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~--g~~~~A~~~~~~m~~~~~~~------~~~~~~~li~~~~  486 (680)
                      |.+.|.+++|..+++...... +-....|+-|.-.|++-  +++.+..+.|..-  ..+++      +...|..+.-.|.
T Consensus       217 Yek~G~~eEai~lLe~aL~le-~ah~~~ftel~il~~ky~p~k~~ehl~~~~~~--ini~k~~~~~~~~~~w~e~~~ly~  293 (449)
T 1b89_A          217 YQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFKPQKMREHLELFWSR--VNIPKVLRAAEQAHLWAELVFLYD  293 (449)
T ss_dssp             HHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTCHHHHHHHHHHHSTT--SCHHHHHHHHHTTTCHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHhCCc-HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH--hcCcHHHHHHHHHHHHHHHHHHHH
Confidence            889999999999998887665 56677777777777664  3444444444321  11111      3456888888888


Q ss_pred             HcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHH
Q 005729          487 KCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIE  566 (680)
Q Consensus       487 ~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~  566 (680)
                      +.++++.|...   |.++  +++..--..+.....+..+.+--.+...-.++.  .|  ..++.|+.++...=+..++.+
T Consensus       294 ~~~e~d~A~~t---m~~h--~~~a~~~~~f~~~~~kv~n~elyYkai~fyl~~--~p--~~l~~ll~~l~~~ld~~r~v~  364 (449)
T 1b89_A          294 KYEEYDNAIIT---MMNH--PTDAWKEGQFKDIITKVANVELYYRAIQFYLEF--KP--LLLNDLLMVLSPRLDHTRAVN  364 (449)
T ss_dssp             HTTCHHHHHHH---HHHS--TTTTCCHHHHHHHHHHCSSTHHHHHHHHHHHHH--CG--GGHHHHHHHHGGGCCHHHHHH
T ss_pred             hhchHHHHHHH---HHhC--ChhhhhhHHHHHHHhchhHHHHHHHHHHHHHhc--CH--HHHHHHHHHHHhccCcHHHHH
Confidence            88998888763   4443  222222222333334444444333333333321  22  235555666555555555544


Q ss_pred             HH
Q 005729          567 CL  568 (680)
Q Consensus       567 ~~  568 (680)
                      ++
T Consensus       365 ~~  366 (449)
T 1b89_A          365 YF  366 (449)
T ss_dssp             HH
T ss_pred             HH
Confidence            44

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.72  E-value=2e-14  Score=153.92  Aligned_cols=369  Identities=11%  Similarity=0.013  Sum_probs=246.5

Q ss_pred             CCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC-----C--CCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHHcC-
Q 005729          260 KIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGV-----G--LSP-KTATYAAVITALSNSGRTIEAEAVFEELKESG-  330 (680)
Q Consensus       260 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-----g--~~p-~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g-  330 (680)
                      +.+.....||.|...|...|++++|++.|++..+.     +  ..| ...+|+.+..+|...|++++|...+++..+.. 
T Consensus        46 ~~~~~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~  125 (472)
T 4g1t_A           46 NREFKATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCE  125 (472)
T ss_dssp             C---CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             CChhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhH
Confidence            33445678999999999999999999999876531     1  123 46789999999999999999999998876421 


Q ss_pred             ------CCCCHHHHHHHHHHHHHc--CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH---HHHcCCHHHHHHHHHHHHHC
Q 005729          331 ------LKPRTKAYNALLKGYVKM--GYLKDAEFVVSEMERSGVLPDEHTYSLLIDA---YANAGRWESARIVLKEMEVS  399 (680)
Q Consensus       331 ------~~p~~~~~~~li~~~~~~--g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~---~~~~g~~~~A~~~~~~m~~~  399 (680)
                            ......+++.+..++.+.  +++++|...|++..+... -+...+..+...   +...++.++|++.+++..+.
T Consensus       126 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p-~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l  204 (472)
T 4g1t_A          126 KFSSPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKP-KNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRL  204 (472)
T ss_dssp             HSCCSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHH
T ss_pred             hcccccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhc
Confidence                  112356676666666654  468999999999887642 255566555544   34567788899999888775


Q ss_pred             CCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCH
Q 005729          400 HAKPNSFIYSRILAGYRD----RGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDT  475 (680)
Q Consensus       400 ~~~~~~~~~~~ll~~~~~----~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~  475 (680)
                      . +.+...+..+...+..    .+++++|.+.+++..... +.+..++..+...|...|++++|...+.+..+.. +-+.
T Consensus       205 ~-p~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~  281 (472)
T 4g1t_A          205 N-PDNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYI-PNNA  281 (472)
T ss_dssp             C-SSCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCH
T ss_pred             C-CcchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC-CChH
Confidence            4 3355666666555544    457788999999887764 5677888999999999999999999999988764 3456


Q ss_pred             HHHHHHHHHHHHc-------------------CChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 005729          476 ITWNTLIDCHFKC-------------------GRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNM  536 (680)
Q Consensus       476 ~~~~~li~~~~~~-------------------g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m  536 (680)
                      .++..+..+|...                   +..++|...|++..+.. +.+..++..+...+...|++++|...|++.
T Consensus       282 ~~~~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~ka  360 (472)
T 4g1t_A          282 YLHCQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEAN-DNLFRVCSILASLHALADQYEEAEYYFQKE  360 (472)
T ss_dssp             HHHHHHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHC-TTTCCCHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcC-CchhhhhhhHHHHHHHhccHHHHHHHHHHH
Confidence            6777776665432                   33567888888887765 455677888999999999999999999999


Q ss_pred             HHCCCCCCH--HHHHHHHH-HHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 005729          537 RAQGLLPNV--VTYTTLVD-IYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAV  613 (680)
Q Consensus       537 ~~~~~~p~~--~~~~~li~-~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~  613 (680)
                      ++....+..  ..+..+.. .+...|++++|+..++           +..+  +.|+.......         ...+.++
T Consensus       361 L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~-----------kal~--i~~~~~~~~~~---------~~~l~~~  418 (472)
T 4g1t_A          361 FSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFI-----------EGVK--INQKSREKEKM---------KDKLQKI  418 (472)
T ss_dssp             HHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHH-----------HHHH--SCCCCHHHHHH---------HHHHHHH
T ss_pred             HhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHH-----------HHHh--cCcccHHHHHH---------HHHHHHH
Confidence            986443322  12333332 2346788888777654           3333  45554333222         2334455


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHhcCCcCcHHHHHHHHHHcC
Q 005729          614 LQYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMILSG  656 (680)
Q Consensus       614 ~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g  656 (680)
                      ++...+.. +.+..+|..+..+|...|++++|.+.|++.++.|
T Consensus       419 ~~~~l~~~-p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~  460 (472)
T 4g1t_A          419 AKMRLSKN-GADSEALHVLAFLQELNEKMQQADEDSERGLESG  460 (472)
T ss_dssp             HHHHHHHC-C-CTTHHHHHHHHHHHHHHCC-------------
T ss_pred             HHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            56655532 3467899999999999999999999999999864

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.71  E-value=1.9e-17  Score=181.06  Aligned_cols=116  Identities=19%  Similarity=0.163  Sum_probs=61.6

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHh---CCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHH
Q 005729          265 GQLLNDVIVGFAKAGDASKAMRFLGMAQG---VGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNAL  341 (680)
Q Consensus       265 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~l  341 (680)
                      ..+||+||++||+.|++++|.++|+.|.+   .|+.||++|||+||++||+.|++++|.++|++|.+.|+.||.+|||+|
T Consensus       127 ~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYntL  206 (1134)
T 3spa_A          127 QQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAA  206 (1134)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHH
Confidence            34555555555555555555555544432   245555555555555555555555555555555555555555555555


Q ss_pred             HHHHHHcCC-HHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 005729          342 LKGYVKMGY-LKDAEFVVSEMERSGVLPDEHTYSLLIDAY  380 (680)
Q Consensus       342 i~~~~~~g~-~~~A~~~~~~m~~~g~~~~~~~~~~li~~~  380 (680)
                      |.++|+.|+ .++|.++|++|.+.|+.||..+|+.++.++
T Consensus       207 I~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~  246 (1134)
T 3spa_A          207 LQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEE  246 (1134)
T ss_dssp             HHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHH
T ss_pred             HHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChh
Confidence            555555554 244555555555555555555555555433

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.71  E-value=1.5e-17  Score=181.86  Aligned_cols=154  Identities=20%  Similarity=0.248  Sum_probs=125.5

Q ss_pred             CCCChhhHHHHHHHHHhcCCCChHHHHHHHHHHHh---CCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCH
Q 005729          224 YHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIEC---DKIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKT  300 (680)
Q Consensus       224 ~~p~~~~~~~ll~~~~~~g~~~~~~~~~l~~~~~~---~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~  300 (680)
                      ...-..||+++|++||+.|+++.  |..+|.+|.+   .|+.||+.+||+||.+||+.|++++|.++|++|.+.|+.||+
T Consensus       123 ~~~~~~TynaLIdglcK~G~lee--A~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDv  200 (1134)
T 3spa_A          123 LSGQQQRLLAFFKCCLLTDQLPL--AHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDL  200 (1134)
T ss_dssp             CCHHHHHHHHHHHHHHHHTCHHH--HHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCH
T ss_pred             HHhHHHHHHHHHHHHHhCCCHHH--HHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcH
Confidence            34456799999999999999965  5689988764   589999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhcCCh-HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC------HHHH
Q 005729          301 ATYAAVITALSNSGRT-IEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPD------EHTY  373 (680)
Q Consensus       301 ~~~~~li~~~~~~g~~-~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~------~~~~  373 (680)
                      +|||++|+++|+.|+. ++|.++|++|.+.|+.||..+|+.++..+.+.+    +++.++++ ..+..|+      ..+.
T Consensus       201 vTYntLI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~----vL~~Vrkv-~P~f~p~~~~~~~~~t~  275 (1134)
T 3spa_A          201 LSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRAT----VLKAVHKV-KPTFSLPPQLPPPVNTS  275 (1134)
T ss_dssp             HHHHHHHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHH----HHHHHGGG-CCCCCCCCCCCCCCCCC
T ss_pred             HHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHH----HHHHHHHh-CcccCCCCCCcccccch
Confidence            9999999999999985 789999999999999999999999987766543    33334444 2334443      4455


Q ss_pred             HHHHHHHHHcC
Q 005729          374 SLLIDAYANAG  384 (680)
Q Consensus       374 ~~li~~~~~~g  384 (680)
                      ..|.+.|.+.+
T Consensus       276 ~LL~dl~s~d~  286 (1134)
T 3spa_A          276 KLLRDVYAKDG  286 (1134)
T ss_dssp             TTTHHHHCCCS
T ss_pred             HHHHHHHccCC
Confidence            56666666655

>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=99.71  E-value=4.1e-15  Score=150.53  Aligned_cols=277  Identities=10%  Similarity=-0.029  Sum_probs=178.0

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 005729          266 QLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGY  345 (680)
Q Consensus       266 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~  345 (680)
                      ..+..+...+...|++++|+++|+++.+.. +.+...+..+...+...|++++|...|+++.+.. +.+..++..+...+
T Consensus        22 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~   99 (327)
T 3cv0_A           22 ENPMEEGLSMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSH   99 (327)
T ss_dssp             SCHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHHHH
Confidence            344555566666666666666666665532 2245556666666666666666666666665542 23455566666666


Q ss_pred             HHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHH-HH-HHHhcCCHHH
Q 005729          346 VKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRI-LA-GYRDRGEWQR  423 (680)
Q Consensus       346 ~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~l-l~-~~~~~g~~~~  423 (680)
                      ...|++++|...++++.+.... +...+..+...+                      ++......+ .. .+...|++++
T Consensus       100 ~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~----------------------~~~~~~~~~~~~~~~~~~~~~~~  156 (327)
T 3cv0_A          100 TNEHNANAALASLRAWLLSQPQ-YEQLGSVNLQAD----------------------VDIDDLNVQSEDFFFAAPNEYRE  156 (327)
T ss_dssp             HHTTCHHHHHHHHHHHHHTSTT-TTTC------------------------------------------CCTTSHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhCCc-cHHHHHHHhHHH----------------------HHHHHHHHHHHhHHHHHcccHHH
Confidence            6666666666666666554211 111111110000                      000011111 11 2556677777


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHH
Q 005729          424 TFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQE  503 (680)
Q Consensus       424 A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  503 (680)
                      |...++++.+.. +.+...+..+...+...|++++|...++++.+.. +.+...|..+...|...|++++|...|+++.+
T Consensus       157 A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~  234 (327)
T 3cv0_A          157 CRTLLHAALEMN-PNDAQLHASLGVLYNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEALDAYNRALD  234 (327)
T ss_dssp             HHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            887777776654 4467777788888888888888888888877654 34577888888888888888888888888877


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-----------CHHHHHHHHHHHHhcCChHHHHHHHhh
Q 005729          504 RGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLP-----------NVVTYTTLVDIYGQSGRFDDAIECLEG  570 (680)
Q Consensus       504 ~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p-----------~~~~~~~li~~~~~~g~~~~A~~~~~~  570 (680)
                      .. +.+...+..+...+.+.|++++|...++++.+.....           +...+..+..+|.+.|++++|..+++.
T Consensus       235 ~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  311 (327)
T 3cv0_A          235 IN-PGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQ  311 (327)
T ss_dssp             HC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTC
T ss_pred             cC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHH
Confidence            65 4567788888888888999999998888887753221           367888889999999999999888763

>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=99.70  E-value=3.9e-15  Score=150.71  Aligned_cols=280  Identities=13%  Similarity=0.046  Sum_probs=183.8

Q ss_pred             ChhhHHHHHHHHHhcCCCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 005729          227 DFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAV  306 (680)
Q Consensus       227 ~~~~~~~ll~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~l  306 (680)
                      +...+......+...|+++.  +..+++.+.... +.+...+..+...|...|++++|.+.|+++.+.. +.+..++..+
T Consensus        20 ~~~~~~~~a~~~~~~~~~~~--A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l   95 (327)
T 3cv0_A           20 YHENPMEEGLSMLKLANLAE--AALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAAL   95 (327)
T ss_dssp             GSSCHHHHHHHHHHTTCHHH--HHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccHHH--HHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHH
Confidence            34456667778888998855  468888887653 4478889999999999999999999999988753 3467889999


Q ss_pred             HHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH--HHHHcC
Q 005729          307 ITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLID--AYANAG  384 (680)
Q Consensus       307 i~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~--~~~~~g  384 (680)
                      ...+...|++++|.+.++++.+... .+...+..+...+                      ++......+..  .+...|
T Consensus        96 a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~----------------------~~~~~~~~~~~~~~~~~~~  152 (327)
T 3cv0_A           96 AVSHTNEHNANAALASLRAWLLSQP-QYEQLGSVNLQAD----------------------VDIDDLNVQSEDFFFAAPN  152 (327)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHTST-TTTTC------------------------------------------CCTTSHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCC-ccHHHHHHHhHHH----------------------HHHHHHHHHHHhHHHHHcc
Confidence            9999999999999999999988642 2222232221000                      01111111211  244555


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHH
Q 005729          385 RWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFD  464 (680)
Q Consensus       385 ~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~  464 (680)
                      ++++|.+.++++.... +.+...+..+...+...|++++|.+.++++.+.. +.+..++..+...+...|++++|...|+
T Consensus       153 ~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~  230 (327)
T 3cv0_A          153 EYRECRTLLHAALEMN-PNDAQLHASLGVLYNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEALDAYN  230 (327)
T ss_dssp             HHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            5666666666655443 2245556666666666666666666666655543 3455666667777777777777777777


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCC-----------CHHHHHHHHHHHHhcCCHHHHHHHH
Q 005729          465 RMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFP-----------CTTTYNIMINLLGEQERWEDVKRLL  533 (680)
Q Consensus       465 ~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p-----------~~~t~~~li~~~~~~g~~~~A~~~~  533 (680)
                      ++.+.. +.+...|..+...|.+.|++++|.+.|+++.+.....           +...|..+..++.+.|++++|..++
T Consensus       231 ~a~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  309 (327)
T 3cv0_A          231 RALDIN-PGYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTY  309 (327)
T ss_dssp             HHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHT
T ss_pred             HHHHcC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHH
Confidence            766543 3356677777777777788888888777776553111           3667777778888888888887777


Q ss_pred             HHH
Q 005729          534 GNM  536 (680)
Q Consensus       534 ~~m  536 (680)
                      ++.
T Consensus       310 ~~~  312 (327)
T 3cv0_A          310 AQN  312 (327)
T ss_dssp             TCC
T ss_pred             HHH
Confidence            644

>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=99.69  E-value=4.4e-16  Score=158.30  Aligned_cols=266  Identities=13%  Similarity=0.140  Sum_probs=120.9

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 005729          266 QLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGY  345 (680)
Q Consensus       266 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~  345 (680)
                      .+|..|+.++.+.|++++|++.|.+.      +|..+|..++..+...|++++|+..++..++.  .++..+.+.++.+|
T Consensus        33 ~vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~EeAi~yl~~ark~--~~~~~i~~~Li~~Y  104 (449)
T 1b89_A           33 AVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKK--ARESYVETELIFAL  104 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CccchhHHHHHHHH
Confidence            47778888888888888888888542      46668888888888888888888876666653  34567788888888


Q ss_pred             HHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 005729          346 VKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTF  425 (680)
Q Consensus       346 ~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~  425 (680)
                      .+.|+++++.++++       .|+..+|+.+...|...|++++|...|..+         ..|..++.++.+.|++++|.
T Consensus       105 ~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~~~LA~~L~~Lg~yq~AV  168 (449)
T 1b89_A          105 AKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAV  168 (449)
T ss_dssp             ----CHHHHTTTTT-------CC----------------CTTTHHHHHHHT---------TCHHHHHHHHHTTTCHHHHH
T ss_pred             HHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhHHHHHHHHHHhccHHHHH
Confidence            88888888777774       256678888888888888888888888866         26788888888888888888


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCC
Q 005729          426 QVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERG  505 (680)
Q Consensus       426 ~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  505 (680)
                      +.++++      .++.+|..++.+|...|+++.|......+.     ..+.....++..|.+.|++++|..+++......
T Consensus       169 ea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~-----~~ad~l~~lv~~Yek~G~~eEai~lLe~aL~le  237 (449)
T 1b89_A          169 DGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV-----VHADELEELINYYQDRGYFEELITMLEAALGLE  237 (449)
T ss_dssp             HHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT-----TCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST
T ss_pred             HHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHHH-----hCHhhHHHHHHHHHHCCCHHHHHHHHHHHhCCc
Confidence            888876      367888888888888888888855544322     334445567888888888888888888887665


Q ss_pred             CCCCHHHHHHHHHHHHhc--CCHHHHHHHHHHHHHCCCCC------CHHHHHHHHHHHHhcCChHHHHHHHh
Q 005729          506 YFPCTTTYNIMINLLGEQ--ERWEDVKRLLGNMRAQGLLP------NVVTYTTLVDIYGQSGRFDDAIECLE  569 (680)
Q Consensus       506 ~~p~~~t~~~li~~~~~~--g~~~~A~~~~~~m~~~~~~p------~~~~~~~li~~~~~~g~~~~A~~~~~  569 (680)
                       +.....|+-+..+|++-  ++..+..+.|..-  .+++|      +...|..++..|.+.++++.|...+-
T Consensus       238 -~ah~~~ftel~il~~ky~p~k~~ehl~~~~~~--ini~k~~~~~~~~~~w~e~~~ly~~~~e~d~A~~tm~  306 (449)
T 1b89_A          238 -RAHMGMFTELAILYSKFKPQKMREHLELFWSR--VNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMM  306 (449)
T ss_dssp             -TCCHHHHHHHHHHHHTTCHHHHHHHHHHHSTT--SCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             -HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH--hcCcHHHHHHHHHHHHHHHHHHHHhhchHHHHHHHHH
Confidence             55667777776666654  3333344333311  12222      34567778888888888888877654

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.69  E-value=1.2e-14  Score=144.55  Aligned_cols=273  Identities=12%  Similarity=0.082  Sum_probs=211.6

Q ss_pred             HHHHHcCCHHHHHHHHHHHHhCCCCCCH--HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCC
Q 005729          273 VGFAKAGDASKAMRFLGMAQGVGLSPKT--ATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGY  350 (680)
Q Consensus       273 ~~~~~~g~~~~A~~~~~~~~~~g~~p~~--~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~  350 (680)
                      +-....|+++.|++.++.....  .|+.  .....+.++|...|++++|+..++.    .-+|+..++..+...+...++
T Consensus         7 ~~~~~~g~y~~ai~~~~~~~~~--~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~----~~~~~~~a~~~la~~~~~~~~   80 (291)
T 3mkr_A            7 KNAFYIGSYQQCINEAQRVKPS--SPERDVERDVFLYRAYLAQRKYGVVLDEIKP----SSAPELQAVRMFAEYLASHSR   80 (291)
T ss_dssp             HHHHHTTCHHHHHHHHHHSCCC--SHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT----TSCHHHHHHHHHHHHHHCSTT
T ss_pred             HHHHHHHHHHHHHHHHHhcccC--CchhhHHHHHHHHHHHHHCCCHHHHHHHhcc----cCChhHHHHHHHHHHHcCCCc
Confidence            3455679999999988876543  3443  3556678899999999999887654    235677888889999999999


Q ss_pred             HHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 005729          351 LKDAEFVVSEMERSGVLP-DEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLK  429 (680)
Q Consensus       351 ~~~A~~~~~~m~~~g~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~  429 (680)
                      .++|.+.++++...+..| +...+..+...|...|++++|++.+++      +.+...+..++..+.+.|++++|.+.|+
T Consensus        81 ~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l~  154 (291)
T 3mkr_A           81 RDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKELK  154 (291)
T ss_dssp             HHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            999999999998776444 566777788999999999999999987      4678889999999999999999999999


Q ss_pred             HHHHCCCCCCHHHH---HHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCC
Q 005729          430 EMKSSGVEPDTHFY---NVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGY  506 (680)
Q Consensus       430 ~m~~~~~~p~~~~~---~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~  506 (680)
                      ++.+..  |+....   ..++..+...|++++|..+|+++.+.. +.+...|+.+..++.+.|++++|...|++..+.. 
T Consensus       155 ~~~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~-  230 (291)
T 3mkr_A          155 KMQDQD--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKC-SPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD-  230 (291)
T ss_dssp             HHHHHC--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-
T ss_pred             HHHhhC--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-
Confidence            998764  443211   223344455689999999999998774 5688899999999999999999999999998876 


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHH-HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHH
Q 005729          507 FPCTTTYNIMINLLGEQERWED-VKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIE  566 (680)
Q Consensus       507 ~p~~~t~~~li~~~~~~g~~~~-A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~  566 (680)
                      +-+..++..++..+...|+.++ +.++++++.+.  .|+...   +.+...+.+.++++..
T Consensus       231 p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~--~P~~~~---~~d~~~~~~~fd~~~~  286 (291)
T 3mkr_A          231 SGHPETLINLVVLSQHLGKPPEVTNRYLSQLKDA--HRSHPF---IKEYRAKENDFDRLVL  286 (291)
T ss_dssp             TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH--CTTCHH---HHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHh--CCCChH---HHHHHHHHHHHHHHHH
Confidence            6678889999999999999876 67888988875  454322   2334555555555443

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.68  E-value=2e-14  Score=142.86  Aligned_cols=251  Identities=14%  Similarity=0.113  Sum_probs=125.6

Q ss_pred             HHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHH
Q 005729          343 KGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQ  422 (680)
Q Consensus       343 ~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~  422 (680)
                      +-....|++..|+..++................+.++|...|++++|+..++.    ..+|+..++..+...+...++.+
T Consensus         7 ~~~~~~g~y~~ai~~~~~~~~~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~----~~~~~~~a~~~la~~~~~~~~~~   82 (291)
T 3mkr_A            7 KNAFYIGSYQQCINEAQRVKPSSPERDVERDVFLYRAYLAQRKYGVVLDEIKP----SSAPELQAVRMFAEYLASHSRRD   82 (291)
T ss_dssp             HHHHHTTCHHHHHHHHHHSCCCSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT----TSCHHHHHHHHHHHHHHCSTTHH
T ss_pred             HHHHHHHHHHHHHHHHHhcccCCchhhHHHHHHHHHHHHHCCCHHHHHHHhcc----cCChhHHHHHHHHHHHcCCCcHH
Confidence            33445566666666665554332111123344455666666666666654433    12344455555555666666666


Q ss_pred             HHHHHHHHHHHCCC-CCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHH
Q 005729          423 RTFQVLKEMKSSGV-EPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEM  501 (680)
Q Consensus       423 ~A~~l~~~m~~~~~-~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  501 (680)
                      +|++.++++...+. +.+...+..+...+...|++++|.+.+++      +.+...+..++..|.+.|++++|.+.|+++
T Consensus        83 ~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~  156 (291)
T 3mkr_A           83 AIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKELKKM  156 (291)
T ss_dssp             HHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            66666666555442 22344445555555666666666665554      234555555556666666666666666665


Q ss_pred             HHCCCCCCHHHH---HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHH
Q 005729          502 QERGYFPCTTTY---NIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNA  578 (680)
Q Consensus       502 ~~~~~~p~~~t~---~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~  578 (680)
                      .+..  |+....   ...+..+...|++++|..+|+++.+. .+.+...++.+..++.+.|++++|.+.++.        
T Consensus       157 ~~~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~-~p~~~~~~~~la~~~~~~g~~~eA~~~l~~--------  225 (291)
T 3mkr_A          157 QDQD--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK-CSPTLLLLNGQAACHMAQGRWEAAEGVLQE--------  225 (291)
T ss_dssp             HHHC--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH-SCCCHHHHHHHHHHHHHTTCHHHHHHHHHH--------
T ss_pred             HhhC--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh-CCCcHHHHHHHHHHHHHcCCHHHHHHHHHH--------
Confidence            5543  222111   11112222335555555555555554 223455555555555555555555544331        


Q ss_pred             HHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHH-HHHHHHHHHH
Q 005729          579 FRVMRTDGLKP-SNLALNSLINAFGEDQRDAE-AFAVLQYMKE  619 (680)
Q Consensus       579 ~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~-A~~~~~~m~~  619 (680)
                         ...  ..| +..++..++..+...|+.++ +.++++++.+
T Consensus       226 ---al~--~~p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~  263 (291)
T 3mkr_A          226 ---ALD--KDSGHPETLINLVVLSQHLGKPPEVTNRYLSQLKD  263 (291)
T ss_dssp             ---HHH--HCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             ---HHH--hCCCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHH
Confidence               111  122 23355555555555555543 3455555554

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.67  E-value=2.3e-13  Score=145.62  Aligned_cols=372  Identities=12%  Similarity=-0.003  Sum_probs=222.3

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCCChHHHHHHHHHHHh-CCCCcCHHHHHH
Q 005729          192 TPLTYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIEC-DKIELDGQLLND  270 (680)
Q Consensus       192 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~~~~~~l~~~~~~-~~~~~~~~~~~~  270 (680)
                      ....||.|...+...|++++|++.|++..+.                              +..... ...+....+|+.
T Consensus        50 ~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~------------------------------~~~~~~~~~~~~~~~~~~n   99 (472)
T 4g1t_A           50 KATMCNLLAYLKHLKGQNEAALECLRKAEEL------------------------------IQQEHADQAEIRSLVTWGN   99 (472)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHH------------------------------HHHHSGGGCTTTTHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH------------------------------HHhcCccccchHHHHHHHH
Confidence            3568999999999999999999999987542                              000000 011223456777


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhC-----C-CCC-CHHHHHHHHHHHHhc--CChHHHHHHHHHHHHcCCCCCHHHHHHH
Q 005729          271 VIVGFAKAGDASKAMRFLGMAQGV-----G-LSP-KTATYAAVITALSNS--GRTIEAEAVFEELKESGLKPRTKAYNAL  341 (680)
Q Consensus       271 li~~~~~~g~~~~A~~~~~~~~~~-----g-~~p-~~~~~~~li~~~~~~--g~~~~A~~l~~~m~~~g~~p~~~~~~~l  341 (680)
                      +...|...|++++|...+++..+.     + ..+ ...++.....++...  +++++|++.|++..+.. +-+...+..+
T Consensus       100 la~~y~~~g~~~~A~~~~~ka~~i~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~-p~~~~~~~~~  178 (472)
T 4g1t_A          100 YAWVYYHMGRLSDVQIYVDKVKHVCEKFSSPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKK-PKNPEFTSGL  178 (472)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHSCCSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS-TTCHHHHHHH
T ss_pred             HHHHHHHcCChHHHHHHHHHHHHHhHhcccccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhC-CCCHHHHHHH
Confidence            777777777877777777665431     0 111 234555555555443  45777888887777653 2244444444


Q ss_pred             HHH---HHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 005729          342 LKG---YVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYAN----AGRWESARIVLKEMEVSHAKPNSFIYSRILAG  414 (680)
Q Consensus       342 i~~---~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~  414 (680)
                      ...   +...++.++|++.+++..+.+ +.+...+..+...+..    .+++++|.+.+++..... +.+...+..+...
T Consensus       179 ~~~~~~l~~~~~~~~al~~~~~al~l~-p~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~  256 (472)
T 4g1t_A          179 AIASYRLDNWPPSQNAIDPLRQAIRLN-PDNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVTDVLRSAAKF  256 (472)
T ss_dssp             HHHHHHHHHSCCCCCTHHHHHHHHHHC-SSCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHC-SSCHHHHHHHHHH
T ss_pred             HHHHHHhcCchHHHHHHHHHHHHhhcC-CcchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHH
Confidence            433   334566677777777776653 2245555555544443    356677777777776554 3456677777777


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc-------------------cCCHHHHHHHHHHHHHCCCCCCH
Q 005729          415 YRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGK-------------------YNCLHHAMAAFDRMLSEGIEPDT  475 (680)
Q Consensus       415 ~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~-------------------~g~~~~A~~~~~~m~~~~~~~~~  475 (680)
                      |...|++++|...+++..+.. +.+..++..+...|..                   .+..+.|...|+...+.. +.+.
T Consensus       257 ~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~  334 (472)
T 4g1t_A          257 YRRKDEPDKAIELLKKALEYI-PNNAYLHCQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEAN-DNLF  334 (472)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHC-TTTC
T ss_pred             HHHcCchHHHHHHHHHHHHhC-CChHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcC-Cchh
Confidence            888888888888887776653 3455556555554432                   123567788888777654 3355


Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHH--HHHHHHH-HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 005729          476 ITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTT--TYNIMIN-LLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLV  552 (680)
Q Consensus       476 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~--t~~~li~-~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li  552 (680)
                      ..+..+...|...|++++|.+.|++..+....+...  .+..+.. ...+.|+.++|...+.+.++.  .|+.......+
T Consensus       335 ~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i--~~~~~~~~~~~  412 (472)
T 4g1t_A          335 RVCSILASLHALADQYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKI--NQKSREKEKMK  412 (472)
T ss_dssp             CCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHS--CCCCHHHHHHH
T ss_pred             hhhhhHHHHHHHhccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CcccHHHHHHH
Confidence            678889999999999999999999998875322211  2222322 235689999999999999885  44432221111


Q ss_pred             HHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 005729          553 DIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENG  621 (680)
Q Consensus       553 ~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  621 (680)
                      .                    .+..++++.... -+.+..+|..+..+|...|++++|++.|++..+.|
T Consensus       413 ~--------------------~l~~~~~~~l~~-~p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~  460 (472)
T 4g1t_A          413 D--------------------KLQKIAKMRLSK-NGADSEALHVLAFLQELNEKMQQADEDSERGLESG  460 (472)
T ss_dssp             H--------------------HHHHHHHHHHHH-CC-CTTHHHHHHHHHHHHHHCC-------------
T ss_pred             H--------------------HHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            1                    111222222221 13345689999999999999999999999999853

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.59  E-value=4.1e-13  Score=130.57  Aligned_cols=222  Identities=10%  Similarity=0.030  Sum_probs=113.7

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC--CC----HHHHHHH
Q 005729          303 YAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVL--PD----EHTYSLL  376 (680)
Q Consensus       303 ~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~--~~----~~~~~~l  376 (680)
                      |..+...+...|++++|+..|++..+..  .+..+|..+...+...|++++|...+++..+....  ++    ..+|..+
T Consensus         8 ~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~l   85 (258)
T 3uq3_A            8 EKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFARI   85 (258)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHHH
Confidence            3344444444444444444444444433  33444444444444444444444444444332100  01    3444445


Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCH
Q 005729          377 IDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCL  456 (680)
Q Consensus       377 i~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~  456 (680)
                      ...|...|++++|+..|++.....  |+.       ..+...|++++|...++++.... +.+...+..+...+...|++
T Consensus        86 ~~~~~~~~~~~~A~~~~~~a~~~~--~~~-------~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~  155 (258)
T 3uq3_A           86 GNAYHKLGDLKKTIEYYQKSLTEH--RTA-------DILTKLRNAEKELKKAEAEAYVN-PEKAEEARLEGKEYFTKSDW  155 (258)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC--CCH-------HHHHHHHHHHHHHHHHHHHHHCC-HHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcccHHHHHHHHHHHHhcC--chh-------HHHHHHhHHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHhcCH
Confidence            555555555555555555554432  221       23344455555555555555432 22344555555556666666


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 005729          457 HHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNM  536 (680)
Q Consensus       457 ~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m  536 (680)
                      ++|...|++..+.. +.+...|..+...|.+.|++++|...|++..+.. +.+...|..+...+.+.|++++|...+++.
T Consensus       156 ~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a  233 (258)
T 3uq3_A          156 PNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVKEYASALETLDAA  233 (258)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            66666666655543 2345566666666666666666666666666553 344556666666666666666666666666


Q ss_pred             HH
Q 005729          537 RA  538 (680)
Q Consensus       537 ~~  538 (680)
                      .+
T Consensus       234 ~~  235 (258)
T 3uq3_A          234 RT  235 (258)
T ss_dssp             HH
T ss_pred             HH
Confidence            54

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.57  E-value=8.3e-13  Score=128.37  Aligned_cols=226  Identities=13%  Similarity=0.109  Sum_probs=194.2

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC--CCC----HHHH
Q 005729          265 GQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGL--KPR----TKAY  338 (680)
Q Consensus       265 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~--~p~----~~~~  338 (680)
                      ...+..+...+...|++++|++.|+.+.+..  .+...|..+...+...|++++|+..+++..+...  .++    ..+|
T Consensus         5 a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~   82 (258)
T 3uq3_A            5 ADKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSF   82 (258)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHH
Confidence            4567788889999999999999999998876  7788999999999999999999999999876432  112    5788


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 005729          339 NALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDR  418 (680)
Q Consensus       339 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~  418 (680)
                      ..+...+.+.|++++|...++++.+.  .|+.       ..+.+.|++++|...++++.... +.+...+..+...+...
T Consensus        83 ~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~-------~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~  152 (258)
T 3uq3_A           83 ARIGNAYHKLGDLKKTIEYYQKSLTE--HRTA-------DILTKLRNAEKELKKAEAEAYVN-PEKAEEARLEGKEYFTK  152 (258)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH--CCCH-------HHHHHHHHHHHHHHHHHHHHHCC-HHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhc--Cchh-------HHHHHHhHHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHh
Confidence            99999999999999999999999885  3443       45667788999999999998753 23566788899999999


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHH
Q 005729          419 GEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELF  498 (680)
Q Consensus       419 g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~  498 (680)
                      |++++|...+++..+.. +.+..++..+...|.+.|++++|...|+...+.. +.+...|..+...|.+.|++++|...|
T Consensus       153 ~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~  230 (258)
T 3uq3_A          153 SDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVKEYASALETL  230 (258)
T ss_dssp             TCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhhHHHHHHHH
Confidence            99999999999988765 5678899999999999999999999999998765 446888999999999999999999999


Q ss_pred             HHHHHC
Q 005729          499 EEMQER  504 (680)
Q Consensus       499 ~~m~~~  504 (680)
                      ++..+.
T Consensus       231 ~~a~~~  236 (258)
T 3uq3_A          231 DAARTK  236 (258)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            998765

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.54  E-value=1.2e-12  Score=124.09  Aligned_cols=199  Identities=16%  Similarity=0.048  Sum_probs=122.7

Q ss_pred             CcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHH
Q 005729          262 ELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNAL  341 (680)
Q Consensus       262 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~l  341 (680)
                      +++...+..+...+.+.|++++|+..|++..+.. +.+...+..+...+.+.|++++|+..|++..+.. +.+...+..+
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~l   79 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVL   79 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHH
Confidence            3455667777777778888888888888777643 2346677777777778888888888887777654 3456677777


Q ss_pred             HHHHHHc-----------CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 005729          342 LKGYVKM-----------GYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSR  410 (680)
Q Consensus       342 i~~~~~~-----------g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~  410 (680)
                      ...+.+.           |++++|...+++..+... -+...|..+...|...|++++|+..|++..+..  .+...+..
T Consensus        80 g~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~  156 (217)
T 2pl2_A           80 SEAYVALYRQAEDRERGKGYLEQALSVLKDAERVNP-RYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSA  156 (217)
T ss_dssp             HHHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHH
T ss_pred             HHHHHHhhhhhhhhcccccCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHH
Confidence            7777777           777777777766665432 245666666666666777777777666666655  45666666


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHH
Q 005729          411 ILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRM  466 (680)
Q Consensus       411 ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  466 (680)
                      +..++...|++++|+..|++..+.. +.+...+..+...+.+.|++++|...|++.
T Consensus       157 la~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~  211 (217)
T 2pl2_A          157 LAELYLSMGRLDEALAQYAKALEQA-PKDLDLRVRYASALLLKGKAEEAARAAALE  211 (217)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTC--------------
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            6666666666666666666665543 345555666666666666666666665544

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.53  E-value=1.3e-12  Score=123.79  Aligned_cols=91  Identities=13%  Similarity=0.015  Sum_probs=32.0

Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 005729          441 HFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLL  520 (680)
Q Consensus       441 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~  520 (680)
                      ..+..+...+...|++++|...|++..+..  .+...+..+..+|...|++++|+..|++..+.. +.+...+..+...+
T Consensus       119 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~la~~~  195 (217)
T 2pl2_A          119 PLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSALAELYLSMGRLDEALAQYAKALEQA-PKDLDLRVRYASAL  195 (217)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHH
Confidence            333334444444444444444444443333  233344444444444444444444444444332 22333344444444


Q ss_pred             HhcCCHHHHHHHHH
Q 005729          521 GEQERWEDVKRLLG  534 (680)
Q Consensus       521 ~~~g~~~~A~~~~~  534 (680)
                      .+.|++++|...++
T Consensus       196 ~~~g~~~~A~~~~~  209 (217)
T 2pl2_A          196 LLKGKAEEAARAAA  209 (217)
T ss_dssp             TC------------
T ss_pred             HHccCHHHHHHHHH
Confidence            44444444444433

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.53  E-value=9.8e-13  Score=139.46  Aligned_cols=379  Identities=12%  Similarity=0.110  Sum_probs=213.6

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHH
Q 005729          198 ALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAK  277 (680)
Q Consensus       198 ~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~~~li~~~~~  277 (680)
                      .+...+.+.|++++|+.+|++..+.|. ++...  .                                     |...|..
T Consensus         8 ~la~~~~~~g~~~~A~~~~~~aa~~g~-~~A~~--~-------------------------------------Lg~~y~~   47 (452)
T 3e4b_A            8 RLANEALKRGDTVTAQQNYQQLAELGY-SEAQV--G-------------------------------------LADIQVG   47 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHTC-CTGGG--T-------------------------------------CC-----
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHCCC-HHHHH--H-------------------------------------HHHHHHc
Confidence            356777889999999999999877652 22211  1                                     1112222


Q ss_pred             cCCH---HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC-----ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcC
Q 005729          278 AGDA---SKAMRFLGMAQGVGLSPKTATYAAVITALSNSG-----RTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMG  349 (680)
Q Consensus       278 ~g~~---~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g-----~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g  349 (680)
                      .|+.   ++|++.|++..+.    +...+..+...+...+     ++++|+..|++..+.|..   ..+..|...|...+
T Consensus        48 ~g~~~d~~~A~~~~~~A~~~----~~~A~~~Lg~~~~~~~~~~~~~~~~A~~~~~~Aa~~g~~---~A~~~Lg~~y~~~~  120 (452)
T 3e4b_A           48 TRDPAQIKQAEATYRAAADT----SPRAQARLGRLLAAKPGATEAEHHEAESLLKKAFANGEG---NTLIPLAMLYLQYP  120 (452)
T ss_dssp             ---------------------------CHHHHHHHHHTC--CCHHHHHHHHHHHHHHHHTTCS---SCHHHHHHHHHHCG
T ss_pred             cCCCCCHHHHHHHHHHHHhC----CHHHHHHHHHHHHhCCCCCCcCHHHHHHHHHHHHHCCCH---HHHHHHHHHHHhCC
Confidence            3444   6777777666542    4444555555444444     567777777777776532   25555666666554


Q ss_pred             CHH---HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC---CHHH
Q 005729          350 YLK---DAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRG---EWQR  423 (680)
Q Consensus       350 ~~~---~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g---~~~~  423 (680)
                      ..+   ++.+.+....+.|   +...+..|...|...+.++++......+.+.-...+...+..+...|.+.|   +.++
T Consensus       121 ~~~~~~~a~~~~~~a~~~g---~~~a~~~Lg~~y~~~~~~~~~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~  197 (452)
T 3e4b_A          121 HSFPNVNAQQQISQWQAAG---YPEAGLAQVLLYRTQGTYDQHLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAE  197 (452)
T ss_dssp             GGCTTCCHHHHHHHHHHHT---CTTHHHHHHHHHHHHTCGGGGHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHH
Confidence            433   3444444444443   345566677777777755444443333322211223336777777777777   7788


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHcc----CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH-H--HHcCChhHHHH
Q 005729          424 TFQVLKEMKSSGVEPDTHFYNVMIDTFGKY----NCLHHAMAAFDRMLSEGIEPDTITWNTLIDC-H--FKCGRYDRAEE  496 (680)
Q Consensus       424 A~~l~~~m~~~~~~p~~~~~~~li~~~~~~----g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~-~--~~~g~~~~A~~  496 (680)
                      |++.|++..+.| .++...+..|...|...    ++.++|...|++.. .   -+...+..+... |  ...+++++|++
T Consensus       198 A~~~~~~aa~~g-~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa-~---g~~~a~~~Lg~~~~~~~~~~d~~~A~~  272 (452)
T 3e4b_A          198 LLKQMEAGVSRG-TVTAQRVDSVARVLGDATLGTPDEKTAQALLEKIA-P---GYPASWVSLAQLLYDFPELGDVEQMMK  272 (452)
T ss_dssp             HHHHHHHHHHTT-CSCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG-G---GSTHHHHHHHHHHHHSGGGCCHHHHHH
T ss_pred             HHHHHHHHHHCC-CHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc-C---CCHHHHHHHHHHHHhCCCCCCHHHHHH
Confidence            888888877776 56666556666666554    67888888888876 3   345556666655 3  35778888888


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHhcC-----CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCChHHHHHH
Q 005729          497 LFEEMQERGYFPCTTTYNIMINLLGEQE-----RWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQ----SGRFDDAIEC  567 (680)
Q Consensus       497 ~~~~m~~~~~~p~~~t~~~li~~~~~~g-----~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~----~g~~~~A~~~  567 (680)
                      +|++..+.|   +...+..+...|. .|     ++++|...|++.. .   -+...+..|...|..    ..++++|.+.
T Consensus       273 ~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-~---g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~  344 (452)
T 3e4b_A          273 YLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-G---REVAADYYLGQIYRRGYLGKVYPQKALDH  344 (452)
T ss_dssp             HHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-T---TCHHHHHHHHHHHHTTTTSSCCHHHHHHH
T ss_pred             HHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-C---CCHHHHHHHHHHHHCCCCCCcCHHHHHHH
Confidence            888888776   5666666766666 44     8888888888777 3   256667777777765    2255555444


Q ss_pred             HhhhHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCcC
Q 005729          568 LEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGE----DQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALIRVDKFH  643 (680)
Q Consensus       568 ~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~  643 (680)
                                 |++..+.|.   ......|...|..    ..+.++|..+|+...+.|. ++.......+......++..
T Consensus       345 -----------~~~Aa~~g~---~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g~-~~a~~~l~~l~~~~~~~~~~  409 (452)
T 3e4b_A          345 -----------LLTAARNGQ---NSADFAIAQLFSQGKGTKPDPLNAYVFSQLAKAQDT-PEANDLATQLEAPLTPAQRA  409 (452)
T ss_dssp             -----------HHHHHTTTC---TTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHHTTCC-HHHHHHHHHHHTTCCHHHHH
T ss_pred             -----------HHHHHhhCh---HHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHCCC-HHHHHHHHHHHHhCCHHHHH
Confidence                       445554442   2345556666653    4578888888888887662 22222222222222334455


Q ss_pred             cHHHHHHHHHH
Q 005729          644 KVPAVYEEMIL  654 (680)
Q Consensus       644 ~A~~~~~~m~~  654 (680)
                      +|..+.++..+
T Consensus       410 ~a~~~~~~~~~  420 (452)
T 3e4b_A          410 EGQRLVQQELA  420 (452)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            66666555443

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1

Probab=99.52  E-value=3.6e-11  Score=118.25  Aligned_cols=224  Identities=10%  Similarity=0.010  Sum_probs=142.6

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCChHHHHHHHHHHHHcCCCCCHHHHH
Q 005729          264 DGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSN----SGRTIEAEAVFEELKESGLKPRTKAYN  339 (680)
Q Consensus       264 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~l~~~m~~~g~~p~~~~~~  339 (680)
                      +...+..+...|...|++++|++.|++..+.   -+..++..+...+..    .+++++|+..|++..+.+   +...+.
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~   78 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   78 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            4455666666777777777777777777662   244566666677777    777777777777776654   566666


Q ss_pred             HHHHHHHH----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 005729          340 ALLKGYVK----MGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYAN----AGRWESARIVLKEMEVSHAKPNSFIYSRI  411 (680)
Q Consensus       340 ~li~~~~~----~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~~~~~~~~~~~l  411 (680)
                      .+...|..    .+++++|...|++..+.+   +...+..+...|..    .+++++|+..|++..+.+   +...+..+
T Consensus        79 ~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l  152 (273)
T 1ouv_A           79 LLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTIL  152 (273)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHH
T ss_pred             HHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHH
Confidence            67777777    777777777777776654   56666667777766    677777777777666643   45555556


Q ss_pred             HHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 005729          412 LAGYRD----RGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGK----YNCLHHAMAAFDRMLSEGIEPDTITWNTLID  483 (680)
Q Consensus       412 l~~~~~----~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~  483 (680)
                      ...|..    .+++++|...|++..+.+   +...+..+...|..    .+++++|...|++..+.+   +...+..+..
T Consensus       153 g~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l~~  226 (273)
T 1ouv_A          153 GSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGA  226 (273)
T ss_dssp             HHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHH
T ss_pred             HHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC---CHHHHHHHHH
Confidence            666665    666666666666665543   34555555555655    666666666666665543   2445555555


Q ss_pred             HHHH----cCChhHHHHHHHHHHHCC
Q 005729          484 CHFK----CGRYDRAEELFEEMQERG  505 (680)
Q Consensus       484 ~~~~----~g~~~~A~~~~~~m~~~~  505 (680)
                      .|.+    .+++++|.+.|++..+.|
T Consensus       227 ~~~~g~~~~~~~~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          227 MQYNGEGVTRNEKQAIENFKKGCKLG  252 (273)
T ss_dssp             HHHTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             HHHcCCCcccCHHHHHHHHHHHHHcC
Confidence            5555    566666666666655554

>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=99.51  E-value=4.8e-11  Score=117.33  Aligned_cols=224  Identities=10%  Similarity=0.006  Sum_probs=150.5

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHHHCCCCCCHHHHH
Q 005729          299 KTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVK----MGYLKDAEFVVSEMERSGVLPDEHTYS  374 (680)
Q Consensus       299 ~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~~~~~~~~  374 (680)
                      +..++..+...+...|++++|+..|++..+.   .+...+..+...|..    .+++++|...|++..+.+   +...+.
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~   78 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   78 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            4556666777777777777777777777763   345666777777777    777777777777777664   666777


Q ss_pred             HHHHHHHH----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 005729          375 LLIDAYAN----AGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRD----RGEWQRTFQVLKEMKSSGVEPDTHFYNVM  446 (680)
Q Consensus       375 ~li~~~~~----~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~----~g~~~~A~~l~~~m~~~~~~p~~~~~~~l  446 (680)
                      .+...|..    .+++++|+..|++..+.+   +...+..+...|..    .+++++|...|++..+.+   +...+..+
T Consensus        79 ~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l  152 (273)
T 1ouv_A           79 LLGNLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTIL  152 (273)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHH
T ss_pred             HHHHHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHH
Confidence            77777777    777777777777776653   56666667777776    777777777777766654   45555666


Q ss_pred             HHHHHc----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH----cCChhHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 005729          447 IDTFGK----YNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFK----CGRYDRAEELFEEMQERGYFPCTTTYNIMIN  518 (680)
Q Consensus       447 i~~~~~----~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~  518 (680)
                      ...|..    .+++++|...|++..+.+   +...+..+...|..    .+++++|+..|++..+.+   +...+..+..
T Consensus       153 g~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l~~  226 (273)
T 1ouv_A          153 GSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGA  226 (273)
T ss_dssp             HHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHH
T ss_pred             HHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC---CHHHHHHHHH
Confidence            666665    667777777777666643   44556666666666    666777777776666654   2455555666


Q ss_pred             HHHh----cCCHHHHHHHHHHHHHCC
Q 005729          519 LLGE----QERWEDVKRLLGNMRAQG  540 (680)
Q Consensus       519 ~~~~----~g~~~~A~~~~~~m~~~~  540 (680)
                      .|.+    .+++++|...+++..+.|
T Consensus       227 ~~~~g~~~~~~~~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          227 MQYNGEGVTRNEKQAIENFKKGCKLG  252 (273)
T ss_dssp             HHHTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             HHHcCCCcccCHHHHHHHHHHHHHcC
Confidence            6666    666666666666666543

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.50  E-value=9.7e-13  Score=139.47  Aligned_cols=343  Identities=14%  Similarity=0.078  Sum_probs=232.2

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCh---HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Q 005729          271 VIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRT---IEAEAVFEELKESGLKPRTKAYNALLKGYVK  347 (680)
Q Consensus       271 li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~---~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~  347 (680)
                      +...+.+.|++++|+++|++..+.|   +...+..+...|...|+.   ++|+..|++..+.    +...+..|...+..
T Consensus         9 la~~~~~~g~~~~A~~~~~~aa~~g---~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~----~~~A~~~Lg~~~~~   81 (452)
T 3e4b_A            9 LANEALKRGDTVTAQQNYQQLAELG---YSEAQVGLADIQVGTRDPAQIKQAEATYRAAADT----SPRAQARLGRLLAA   81 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHT---CCTGGGTCC--------------------------------CHHHHHHHHHT
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC----CHHHHHHHHHHHHh
Confidence            5566778899999999999988765   334455566667778888   8999999998864    45566667665555


Q ss_pred             cC-----CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHH---HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC
Q 005729          348 MG-----YLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWES---ARIVLKEMEVSHAKPNSFIYSRILAGYRDRG  419 (680)
Q Consensus       348 ~g-----~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~---A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g  419 (680)
                      .+     +.++|...|++..+.|..   ..+..|...|...+..++   +.+.+......|   +...+..+...|...+
T Consensus        82 ~~~~~~~~~~~A~~~~~~Aa~~g~~---~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g---~~~a~~~Lg~~y~~~~  155 (452)
T 3e4b_A           82 KPGATEAEHHEAESLLKKAFANGEG---NTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAG---YPEAGLAQVLLYRTQG  155 (452)
T ss_dssp             C--CCHHHHHHHHHHHHHHHHTTCS---SCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHT---CTTHHHHHHHHHHHHT
T ss_pred             CCCCCCcCHHHHHHHHHHHHHCCCH---HHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCC
Confidence            55     788999999999987633   367778888887665443   445555554443   3456667778888877


Q ss_pred             CHHHHH----HHHHHHHHCCCCCCHHHHHHHHHHHHccC---CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc----
Q 005729          420 EWQRTF----QVLKEMKSSGVEPDTHFYNVMIDTFGKYN---CLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKC----  488 (680)
Q Consensus       420 ~~~~A~----~l~~~m~~~~~~p~~~~~~~li~~~~~~g---~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~----  488 (680)
                      .++++.    .+++.... + .|+  .+..|...|.+.|   +.++|...|.+..+.| .++...+..+...|...    
T Consensus       156 ~~~~~~~~a~~~~~~a~~-~-~~~--a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g-~~~a~~~~~Lg~~y~~g~~~~  230 (452)
T 3e4b_A          156 TYDQHLDDVERICKAALN-T-TDI--CYVELATVYQKKQQPEQQAELLKQMEAGVSRG-TVTAQRVDSVARVLGDATLGT  230 (452)
T ss_dssp             CGGGGHHHHHHHHHHHTT-T-CTT--HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTT-CSCHHHHHHHHHHHTCGGGSS
T ss_pred             CcccCHHHHHHHHHHHHc-C-CHH--HHHHHHHHHHHcCCcccHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHhCCCCCC
Confidence            554444    44444332 2 333  7888888998899   9999999999999988 46777667777777655    


Q ss_pred             CChhHHHHHHHHHHHCCCCCCHHHHHHHHHH-H--HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC-----C
Q 005729          489 GRYDRAEELFEEMQERGYFPCTTTYNIMINL-L--GEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSG-----R  560 (680)
Q Consensus       489 g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~-~--~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g-----~  560 (680)
                      +++++|+++|++.. .|   +...+..+... +  ...+++++|...|++..+.|   +...+..|...|. .|     +
T Consensus       231 ~d~~~A~~~~~~aa-~g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d  302 (452)
T 3e4b_A          231 PDEKTAQALLEKIA-PG---YPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPAD  302 (452)
T ss_dssp             CCHHHHHHHHHHHG-GG---STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCC
T ss_pred             CCHHHHHHHHHHHc-CC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCC
Confidence            78999999999998 54   45566666665 4  56899999999999999876   6778888888887 55     7


Q ss_pred             hHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 005729          561 FDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGE----DQRDAEAFAVLQYMKENGLKPDVVTYTTLMKAL  636 (680)
Q Consensus       561 ~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~  636 (680)
                      +++|++.|+           +..    .-+...+..|...|..    ..++++|..+|++..+.|   +......|...|
T Consensus       303 ~~~A~~~~~-----------~Aa----~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y  364 (452)
T 3e4b_A          303 AKAAEAHFE-----------KAV----GREVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNG---QNSADFAIAQLF  364 (452)
T ss_dssp             HHHHHHHHH-----------TTT----TTCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTT---CTTHHHHHHHHH
T ss_pred             HHHHHHHHH-----------HHh----CCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhC---hHHHHHHHHHHH
Confidence            777776654           333    3456677788877776    349999999999999876   334555666666


Q ss_pred             Hh----cCCcCcHHHHHHHHHHcCC
Q 005729          637 IR----VDKFHKVPAVYEEMILSGC  657 (680)
Q Consensus       637 ~~----~g~~~~A~~~~~~m~~~g~  657 (680)
                      ..    ..+..+|..+|++..+.|.
T Consensus       365 ~~G~g~~~d~~~A~~~~~~A~~~g~  389 (452)
T 3e4b_A          365 SQGKGTKPDPLNAYVFSQLAKAQDT  389 (452)
T ss_dssp             HSCTTBCCCHHHHHHHHHHHHTTCC
T ss_pred             HhCCCCCCCHHHHHHHHHHHHHCCC
Confidence            54    4578899999999888774

>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=99.50  E-value=1.4e-11  Score=119.41  Aligned_cols=199  Identities=14%  Similarity=-0.007  Sum_probs=90.9

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 005729          302 TYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYA  381 (680)
Q Consensus       302 ~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~  381 (680)
                      .|..+...+...|++++|.+.|+++.+.. +.+...+..+...|...|++++|.+.++++.+.. +.+...+..+...|.
T Consensus        39 ~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~  116 (252)
T 2ho1_A           39 AYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGFLY  116 (252)
T ss_dssp             HHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHH
Confidence            34444444445555555555555544432 2234444455555555555555555555544432 123444444555555


Q ss_pred             HcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHH
Q 005729          382 NAGRWESARIVLKEMEVSHAKP-NSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAM  460 (680)
Q Consensus       382 ~~g~~~~A~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~  460 (680)
                      ..|++++|++.++++...+..| +...+..+...+...|++++|.+.++++.+.. +.+...+..+...+...|++++|.
T Consensus       117 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~  195 (252)
T 2ho1_A          117 EQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-RNQPSVALEMADLLYKEREYVPAR  195 (252)
T ss_dssp             HTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCCHHHHH
Confidence            5555555555555544311112 23334444444444445555544444444332 223444444444444444444444


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHC
Q 005729          461 AAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQER  504 (680)
Q Consensus       461 ~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  504 (680)
                      ..++.+.+.. +.+...+..+...+.+.|++++|.++++++.+.
T Consensus       196 ~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~  238 (252)
T 2ho1_A          196 QYYDLFAQGG-GQNARSLLLGIRLAKVFEDRDTAASYGLQLKRL  238 (252)
T ss_dssp             HHHHHHHTTS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhC-cCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            4444444332 223344444444444555555555555554443

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.49  E-value=4.9e-12  Score=124.15  Aligned_cols=195  Identities=9%  Similarity=-0.019  Sum_probs=98.3

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC--CHHHHHHHHHHHH
Q 005729          269 NDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKP--RTKAYNALLKGYV  346 (680)
Q Consensus       269 ~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p--~~~~~~~li~~~~  346 (680)
                      ......+...|++++|++.|+.+.+.. +.+...+..+...+...|++++|+..+++..+.+..+  ....|..+...+.
T Consensus         7 ~~~a~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~   85 (272)
T 3u4t_A            7 FRYADFLFKNNNYAEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILM   85 (272)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHH
Confidence            344455666666666666666666542 1233355556666666666666666666665532111  1223555666666


Q ss_pred             HcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 005729          347 KMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQ  426 (680)
Q Consensus       347 ~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~  426 (680)
                      ..|++++|...+++..+... .+..+|..+...|...|++++|+..|++..+.. +.+...+..+...+...+++++|.+
T Consensus        86 ~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~  163 (272)
T 3u4t_A           86 KKGQDSLAIQQYQAAVDRDT-TRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYYYNKEYVKADS  163 (272)
T ss_dssp             HTTCHHHHHHHHHHHHHHST-TCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HcccHHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHHHHHHHHHHHH
Confidence            66666666666666555431 234555555555666666666665555554432 2233444444422222335555555


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHccCC---HHHHHHHHHHHH
Q 005729          427 VLKEMKSSGVEPDTHFYNVMIDTFGKYNC---LHHAMAAFDRML  467 (680)
Q Consensus       427 l~~~m~~~~~~p~~~~~~~li~~~~~~g~---~~~A~~~~~~m~  467 (680)
                      .|+++.+.. +.+...+..+...+...|+   .++|...+++..
T Consensus       164 ~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~  206 (272)
T 3u4t_A          164 SFVKVLELK-PNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLI  206 (272)
T ss_dssp             HHHHHHHHS-TTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHH
T ss_pred             HHHHHHHhC-ccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHH
Confidence            555544432 2223444444444444444   344444444433

>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=99.48  E-value=1.1e-11  Score=127.30  Aligned_cols=246  Identities=9%  Similarity=0.035  Sum_probs=168.5

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC-hHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 005729          266 QLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGR-TIEAEAVFEELKESGLKPRTKAYNALLKG  344 (680)
Q Consensus       266 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~-~~~A~~l~~~m~~~g~~p~~~~~~~li~~  344 (680)
                      ..|+.+...+.+.|++++|++.|+++++.. +-+...|+.+..++...|+ +++|+..|++.++.. +-+...|+.+..+
T Consensus        98 ~a~~~lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~-P~~~~a~~~~g~~  175 (382)
T 2h6f_A           98 DVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVL  175 (382)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHH
Confidence            345556666777888888888888887743 2346678888888888886 888888888888764 3467788888888


Q ss_pred             HHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh-cCCHHH
Q 005729          345 YVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRD-RGEWQR  423 (680)
Q Consensus       345 ~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~-~g~~~~  423 (680)
                      +.+.|++++|+..|+++++... -+...|..+..++.+.|++++|+..|+++.+..+ -+...|+.+..++.. .|..++
T Consensus       176 ~~~~g~~~eAl~~~~kal~ldP-~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P-~~~~a~~~lg~~l~~l~~~~~e  253 (382)
T 2h6f_A          176 VEWLRDPSQELEFIADILNQDA-KNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDV-RNNSVWNQRYFVISNTTGYNDR  253 (382)
T ss_dssp             HHHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCSCSH
T ss_pred             HHHccCHHHHHHHHHHHHHhCc-cCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhcCcchH
Confidence            8888888888888888887653 3678888888888888888888888888877653 367777777777777 555466


Q ss_pred             H-----HHHHHHHHHCCCCCCHHHHHHHHHHHHccC--CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcC-------
Q 005729          424 T-----FQVLKEMKSSGVEPDTHFYNVMIDTFGKYN--CLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCG-------  489 (680)
Q Consensus       424 A-----~~l~~~m~~~~~~p~~~~~~~li~~~~~~g--~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g-------  489 (680)
                      |     +..|++..... +-+...|+.+...+.+.|  ++++|.+.+..+ +.. +.+...+..+...|.+.|       
T Consensus       254 A~~~~el~~~~~Al~l~-P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~~-p~~~~al~~La~~~~~~~~~~~~~~  330 (382)
T 2h6f_A          254 AVLEREVQYTLEMIKLV-PHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QPS-HSSPYLIAFLVDIYEDMLENQCDNK  330 (382)
T ss_dssp             HHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TTT-CCCHHHHHHHHHHHHHHHHTTCSSH
T ss_pred             HHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHccCccchHHHHHHHHHh-ccC-CCCHHHHHHHHHHHHHHhcccccch
Confidence            6     36666665543 445566666666666666  466666666665 222 334556666666666653       


Q ss_pred             --ChhHHHHHHHHH-HHCCCCCCHHHHHHHHHH
Q 005729          490 --RYDRAEELFEEM-QERGYFPCTTTYNIMINL  519 (680)
Q Consensus       490 --~~~~A~~~~~~m-~~~~~~p~~~t~~~li~~  519 (680)
                        ..++|+++|+++ .+.+ +.....|..+...
T Consensus       331 ~~~~~~A~~~~~~l~~~~D-P~r~~~w~~~~~~  362 (382)
T 2h6f_A          331 EDILNKALELCEILAKEKD-TIRKEYWRYIGRS  362 (382)
T ss_dssp             HHHHHHHHHHHHHHHHTTC-GGGHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhC-chhHHHHHHHHHH
Confidence              246666777666 4443 3333444444443

>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=99.48  E-value=1.9e-11  Score=118.50  Aligned_cols=201  Identities=13%  Similarity=0.098  Sum_probs=170.1

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 005729          335 TKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAG  414 (680)
Q Consensus       335 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~  414 (680)
                      ...+..+...+...|++++|...++++.+.. +.+...+..+...|...|++++|.+.++++.+.. +.+...+..+...
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~  114 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGF  114 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHH
Confidence            4667888888999999999999999988764 3468889999999999999999999999988764 3467888889999


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhH
Q 005729          415 YRDRGEWQRTFQVLKEMKSSGVEP-DTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDR  493 (680)
Q Consensus       415 ~~~~g~~~~A~~l~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~  493 (680)
                      +...|++++|.++++++.+.+..| +...+..+...+...|++++|...|+++.+.. +.+...+..+...|...|++++
T Consensus       115 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~  193 (252)
T 2ho1_A          115 LYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-RNQPSVALEMADLLYKEREYVP  193 (252)
T ss_dssp             HHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCCHHH
Confidence            999999999999999988732334 56778888889999999999999999988764 3467888889999999999999


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 005729          494 AEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQ  539 (680)
Q Consensus       494 A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~  539 (680)
                      |..+|+++.+.. +.+...+..+...+...|+.++|.++++++.+.
T Consensus       194 A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~  238 (252)
T 2ho1_A          194 ARQYYDLFAQGG-GQNARSLLLGIRLAKVFEDRDTAASYGLQLKRL  238 (252)
T ss_dssp             HHHHHHHHHTTS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-cCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            999999988765 567778888888899999999999999999875

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.47  E-value=3.8e-11  Score=113.76  Aligned_cols=197  Identities=11%  Similarity=-0.078  Sum_probs=79.0

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH
Q 005729          303 YAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYAN  382 (680)
Q Consensus       303 ~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~  382 (680)
                      |..+...+...|++++|.+.|+++.+.. +.+...+..+...+...|++++|...++++.+.. +.+..++..+...|..
T Consensus        11 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~   88 (225)
T 2vq2_A           11 KTQLAMEYMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGWFLCG   88 (225)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHHHHHH
Confidence            3344444444444444444444444332 1233344444444444444444444444444322 1133344444444444


Q ss_pred             c-CCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHH
Q 005729          383 A-GRWESARIVLKEMEVSHAKP-NSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAM  460 (680)
Q Consensus       383 ~-g~~~~A~~~~~~m~~~~~~~-~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~  460 (680)
                      . |++++|...++++...+..| +...+..+...+...|++++|...++++.+.. +.+...+..+...+.+.|++++|.
T Consensus        89 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~  167 (225)
T 2vq2_A           89 RLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQ-PQFPPAFKELARTKMLAGQLGDAD  167 (225)
T ss_dssp             TTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             hcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCchHHHHHHHHHHHcCCHHHHH
Confidence            4 44444444444444311111 12333344444444444444444444433321 222333444444444444444444


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHH
Q 005729          461 AAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQ  502 (680)
Q Consensus       461 ~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  502 (680)
                      ..++.+.+.....+...+..+...+...|+.++|..+++.+.
T Consensus       168 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~  209 (225)
T 2vq2_A          168 YYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQ  209 (225)
T ss_dssp             HHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            444444332210233333334444444444444444444443

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.47  E-value=3e-12  Score=125.87  Aligned_cols=247  Identities=12%  Similarity=-0.043  Sum_probs=150.7

Q ss_pred             HcCCHHHHHHHHHHHHhCCCC---CCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHH
Q 005729          277 KAGDASKAMRFLGMAQGVGLS---PKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKD  353 (680)
Q Consensus       277 ~~g~~~~A~~~~~~~~~~g~~---p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~  353 (680)
                      ..|++++|++.|+.+.+....   .+..+|..+...+...|++++|...|+++.+.. +.+..+|..+...|...|++++
T Consensus        17 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~   95 (275)
T 1xnf_A           17 PTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDA   95 (275)
T ss_dssp             CCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHH
T ss_pred             ccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHHH
Confidence            346788888888887765321   135567777888888888888888888877764 3467778888888888888888


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 005729          354 AEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKS  433 (680)
Q Consensus       354 A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~  433 (680)
                      |...++++.+.. +.+...+..+...|...|++++|...|+++.+..  |+.......+..+...|++++|...+++...
T Consensus        96 A~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  172 (275)
T 1xnf_A           96 AYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD--PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFE  172 (275)
T ss_dssp             HHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHhcCHHHHHHHHHHHHh
Confidence            888888877653 2256777777788888888888888888777653  3333333334444556777777777766554


Q ss_pred             CCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCC---CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCH
Q 005729          434 SGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIE---PDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCT  510 (680)
Q Consensus       434 ~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~  510 (680)
                      .. +++...+ .++..+...++.++|...+....+....   .+...|..+...|.+.|++++|...|++..+.. +.+.
T Consensus       173 ~~-~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~  249 (275)
T 1xnf_A          173 KS-DKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN-VHNF  249 (275)
T ss_dssp             HS-CCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-CTTC
T ss_pred             cC-CcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC-chhH
Confidence            42 2333333 3555556666666666666665543110   013455566666666666666666666665543 1122


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHH
Q 005729          511 TTYNIMINLLGEQERWEDVKRLL  533 (680)
Q Consensus       511 ~t~~~li~~~~~~g~~~~A~~~~  533 (680)
                      ..   ...++...|++++|.+.+
T Consensus       250 ~~---~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          250 VE---HRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             HH---HHHHHHHHHHHHHC----
T ss_pred             HH---HHHHHHHHHHHHhhHHHH
Confidence            22   233444555555554443

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.47  E-value=5.1e-12  Score=121.63  Aligned_cols=196  Identities=11%  Similarity=0.028  Sum_probs=81.7

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc
Q 005729          304 AAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANA  383 (680)
Q Consensus       304 ~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~  383 (680)
                      ..+...+...|++++|...|+++.+.. +.+...+..+...+...|++++|...++++.+.. +.+...+..+...|...
T Consensus        27 ~~~a~~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~  104 (243)
T 2q7f_A           27 GQQMGRGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGNVYVVK  104 (243)
T ss_dssp             ---------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHHHHHHh
Confidence            333333444444444444444443321 2233444444444444444444444444444322 11334444444444444


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHH
Q 005729          384 GRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAF  463 (680)
Q Consensus       384 g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~  463 (680)
                      |++++|.+.++++.+.. +.+...+..+...+...|++++|...++++.+.. +.+...+..+...+.+.|++++|...|
T Consensus       105 ~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~  182 (243)
T 2q7f_A          105 EMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLANEGMLDEALSQF  182 (243)
T ss_dssp             TCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            44444444444444332 1233344444444444444444444444444332 233444444455555555555555555


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHC
Q 005729          464 DRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQER  504 (680)
Q Consensus       464 ~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  504 (680)
                      +.+.+.. +.+...+..+...|.+.|++++|.+.|+++.+.
T Consensus       183 ~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  222 (243)
T 2q7f_A          183 AAVTEQD-PGHADAFYNAGVTYAYKENREKALEMLDKAIDI  222 (243)
T ss_dssp             HHHHHHC-TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHcc
Confidence            5544432 223445555555555555555555555555544

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.46  E-value=1.7e-11  Score=120.25  Aligned_cols=244  Identities=12%  Similarity=0.036  Sum_probs=191.6

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC--CHHHHHHHHHH
Q 005729          302 TYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLP--DEHTYSLLIDA  379 (680)
Q Consensus       302 ~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~--~~~~~~~li~~  379 (680)
                      .+......+...|++++|+..|++..+.. +.+...+..+...|...|++++|...+++..+....+  ....|..+...
T Consensus         5 ~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~   83 (272)
T 3u4t_A            5 VEFRYADFLFKNNNYAEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKI   83 (272)
T ss_dssp             CHHHHHHHHHTTTCHHHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHH
Confidence            45566788899999999999999998864 3355588889999999999999999999998843222  24458889999


Q ss_pred             HHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHH
Q 005729          380 YANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHA  459 (680)
Q Consensus       380 ~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A  459 (680)
                      |...|++++|++.|++..+... .+...+..+...|...|++++|...|++..+.. +.+...+..+...+...+++++|
T Consensus        84 ~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A  161 (272)
T 3u4t_A           84 LMKKGQDSLAIQQYQAAVDRDT-TRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPT-TTDPKVFYELGQAYYYNKEYVKA  161 (272)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHST-TCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSS-CCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcccHHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcC-CCcHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999987653 466789999999999999999999999988763 55677777777344445599999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC---hhHHHHHHHHHHHCC-CCCC------HHHHHHHHHHHHhcCCHHHH
Q 005729          460 MAAFDRMLSEGIEPDTITWNTLIDCHFKCGR---YDRAEELFEEMQERG-YFPC------TTTYNIMINLLGEQERWEDV  529 (680)
Q Consensus       460 ~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~---~~~A~~~~~~m~~~~-~~p~------~~t~~~li~~~~~~g~~~~A  529 (680)
                      ...|+++.+.. +.+...+..+...+...|+   +++|...|++..+.. -.|+      ...|..+...+.+.|++++|
T Consensus       162 ~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  240 (272)
T 3u4t_A          162 DSSFVKVLELK-PNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKA  240 (272)
T ss_dssp             HHHHHHHHHHS-TTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHhC-ccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHH
Confidence            99999998764 3457788888888888888   888999998877541 1122      25777888889999999999


Q ss_pred             HHHHHHHHHCCCCC-CHHHHHHH
Q 005729          530 KRLLGNMRAQGLLP-NVVTYTTL  551 (680)
Q Consensus       530 ~~~~~~m~~~~~~p-~~~~~~~l  551 (680)
                      ...++++.+..  | +......+
T Consensus       241 ~~~~~~al~~~--p~~~~a~~~l  261 (272)
T 3u4t_A          241 DAAWKNILALD--PTNKKAIDGL  261 (272)
T ss_dssp             HHHHHHHHHHC--TTCHHHHHHH
T ss_pred             HHHHHHHHhcC--ccHHHHHHHh
Confidence            99999998853  4 44444333

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.46  E-value=4.2e-11  Score=113.47  Aligned_cols=202  Identities=11%  Similarity=0.013  Sum_probs=168.5

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 005729          334 RTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILA  413 (680)
Q Consensus       334 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~  413 (680)
                      +...+..+...+...|++++|.+.++++.+.. +.+...+..+...|...|++++|.+.+++..... +.+..++..+..
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~   84 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGW   84 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHH
Confidence            45678888899999999999999999988764 3367888899999999999999999999988764 346778888999


Q ss_pred             HHHhc-CCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCh
Q 005729          414 GYRDR-GEWQRTFQVLKEMKSSGVEP-DTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRY  491 (680)
Q Consensus       414 ~~~~~-g~~~~A~~l~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~  491 (680)
                      .+... |++++|...++++.+.+..| +...+..+...+...|++++|...++++.+.. +.+...+..+...|.+.|++
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~  163 (225)
T 2vq2_A           85 FLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQ-PQFPPAFKELARTKMLAGQL  163 (225)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCchHHHHHHHHHHHcCCH
Confidence            99999 99999999999988732233 36778888889999999999999999988764 34578888899999999999


Q ss_pred             hHHHHHHHHHHHCCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 005729          492 DRAEELFEEMQERGYF-PCTTTYNIMINLLGEQERWEDVKRLLGNMRAQ  539 (680)
Q Consensus       492 ~~A~~~~~~m~~~~~~-p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~  539 (680)
                      ++|..+++++.+.. + .+...+..+...+...|+.+++..+++.+.+.
T Consensus       164 ~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  211 (225)
T 2vq2_A          164 GDADYYFKKYQSRV-EVLQADDLLLGWKIAKALGNAQAAYEYEAQLQAN  211 (225)
T ss_dssp             HHHHHHHHHHHHHH-CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-CCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh
Confidence            99999999988765 4 57777888888888999999999999888764

>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=99.46  E-value=1.4e-11  Score=126.57  Aligned_cols=248  Identities=7%  Similarity=0.023  Sum_probs=207.4

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCC-HHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 005729          300 TATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGY-LKDAEFVVSEMERSGVLPDEHTYSLLID  378 (680)
Q Consensus       300 ~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~-~~~A~~~~~~m~~~g~~~~~~~~~~li~  378 (680)
                      ...|..+...+.+.|++++|+..|++.++.. +-+...|+.+...+...|+ +++|+..|+++.+... -+...|..+..
T Consensus        97 ~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P-~~~~a~~~~g~  174 (382)
T 2h6f_A           97 RDVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQP-KNYQVWHHRRV  174 (382)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCC-CCHHHHHHHHH
Confidence            4568888889999999999999999999875 4478899999999999997 9999999999998753 37899999999


Q ss_pred             HHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc-cCCHH
Q 005729          379 AYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGK-YNCLH  457 (680)
Q Consensus       379 ~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~-~g~~~  457 (680)
                      +|...|++++|+..|+++.... +-+...|..+..++.+.|++++|+..|+++.+.. +-+...|+.+..++.+ .|..+
T Consensus       175 ~~~~~g~~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~-P~~~~a~~~lg~~l~~l~~~~~  252 (382)
T 2h6f_A          175 LVEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYND  252 (382)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSCS
T ss_pred             HHHHccCHHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCcch
Confidence            9999999999999999999875 3578899999999999999999999999999875 5678899999999988 66657


Q ss_pred             HH-----HHHHHHHHHCCCCCCHHHHHHHHHHHHHcC--ChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC------
Q 005729          458 HA-----MAAFDRMLSEGIEPDTITWNTLIDCHFKCG--RYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQE------  524 (680)
Q Consensus       458 ~A-----~~~~~~m~~~~~~~~~~~~~~li~~~~~~g--~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g------  524 (680)
                      +|     +..|++.++.. +-+...|+.+...+.+.|  ++++|++.+.++ +.. +.+...+..+...|.+.|      
T Consensus       253 eA~~~~el~~~~~Al~l~-P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~~-p~~~~al~~La~~~~~~~~~~~~~  329 (382)
T 2h6f_A          253 RAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QPS-HSSPYLIAFLVDIYEDMLENQCDN  329 (382)
T ss_dssp             HHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TTT-CCCHHHHHHHHHHHHHHHHTTCSS
T ss_pred             HHHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHccCccchHHHHHHHHHh-ccC-CCCHHHHHHHHHHHHHHhcccccc
Confidence            77     58888888764 346788999999999888  689999999998 443 567888889999998874      


Q ss_pred             ---CHHHHHHHHHHH-HHCCCCCC-HHHHHHHHHHHH
Q 005729          525 ---RWEDVKRLLGNM-RAQGLLPN-VVTYTTLVDIYG  556 (680)
Q Consensus       525 ---~~~~A~~~~~~m-~~~~~~p~-~~~~~~li~~~~  556 (680)
                         ..++|.++++++ .+.  .|. ...|..+...+.
T Consensus       330 ~~~~~~~A~~~~~~l~~~~--DP~r~~~w~~~~~~l~  364 (382)
T 2h6f_A          330 KEDILNKALELCEILAKEK--DTIRKEYWRYIGRSLQ  364 (382)
T ss_dssp             HHHHHHHHHHHHHHHHHTT--CGGGHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHh--CchhHHHHHHHHHHHH
Confidence               358999999999 653  453 455555555443

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.45  E-value=6.8e-12  Score=120.70  Aligned_cols=212  Identities=11%  Similarity=0.065  Sum_probs=161.0

Q ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 005729          333 PRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRIL  412 (680)
Q Consensus       333 p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll  412 (680)
                      .....|..+...+...|++++|...|+++.+.. +.+...+..+...|...|++++|++.+++..... +.+...+..+.
T Consensus        21 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la   98 (243)
T 2q7f_A           21 MASMTGGQQMGRGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAG   98 (243)
T ss_dssp             ---------------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHH
Confidence            355677788888999999999999999998764 3468889999999999999999999999988764 34778888999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChh
Q 005729          413 AGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYD  492 (680)
Q Consensus       413 ~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~  492 (680)
                      ..+...|++++|.+.++++.+.. +.+...+..+...+.+.|++++|...++++.+.. +.+...+..+...|.+.|+++
T Consensus        99 ~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~  176 (243)
T 2q7f_A           99 NVYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLANEGMLD  176 (243)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCH
T ss_pred             HHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcCCHH
Confidence            99999999999999999988764 5577888889999999999999999999988764 346788889999999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 005729          493 RAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTT  550 (680)
Q Consensus       493 ~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~  550 (680)
                      +|...|+++.+.. +.+..++..+...+...|++++|...++++.+.... +...+..
T Consensus       177 ~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~  232 (243)
T 2q7f_A          177 EALSQFAAVTEQD-PGHADAFYNAGVTYAYKENREKALEMLDKAIDIQPD-HMLALHA  232 (243)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHCTT-CHHHHHH
T ss_pred             HHHHHHHHHHHhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHccCcc-hHHHHHH
Confidence            9999999988775 556888999999999999999999999999885322 4444443

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.44  E-value=7.3e-12  Score=123.04  Aligned_cols=248  Identities=12%  Similarity=0.019  Sum_probs=175.2

Q ss_pred             HHcCCHHHHHHHHHHHHHCCCC---CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHH
Q 005729          381 ANAGRWESARIVLKEMEVSHAK---PNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLH  457 (680)
Q Consensus       381 ~~~g~~~~A~~~~~~m~~~~~~---~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~  457 (680)
                      ...|++++|+..|+++.+....   .+...+..+...+...|++++|...|+++.+.. +.+..++..+...|...|+++
T Consensus        16 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~   94 (275)
T 1xnf_A           16 QPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFD   94 (275)
T ss_dssp             CCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHH
T ss_pred             CccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHH
Confidence            3457889999999998876321   245678888888899999999999999888764 456888888888999999999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 005729          458 HAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMR  537 (680)
Q Consensus       458 ~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~  537 (680)
                      +|...|+++.+.. +.+...+..+...|.+.|++++|...|+++.+..  |+.......+..+...|++++|...+.+..
T Consensus        95 ~A~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  171 (275)
T 1xnf_A           95 AAYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD--PNDPFRSLWLYLAEQKLDEKQAKEVLKQHF  171 (275)
T ss_dssp             HHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            9999999888764 3457788888888999999999999999888764  444444445555667788999999988777


Q ss_pred             HCCCCCCHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCC--CCC-HHHHHHHHHHHHhcCCHHHHHHHH
Q 005729          538 AQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGL--KPS-NLALNSLINAFGEDQRDAEAFAVL  614 (680)
Q Consensus       538 ~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~--~p~-~~~~~~li~~~~~~g~~~~A~~~~  614 (680)
                      ... +++...+ .++..+...++.++|.+.++           +......  .|+ ..+|..+..+|.+.|++++|...+
T Consensus       172 ~~~-~~~~~~~-~~~~~~~~~~~~~~a~~~~~-----------~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  238 (275)
T 1xnf_A          172 EKS-DKEQWGW-NIVEFYLGNISEQTLMERLK-----------ADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALF  238 (275)
T ss_dssp             HHS-CCCSTHH-HHHHHHTTSSCHHHHHHHHH-----------HHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             hcC-CcchHHH-HHHHHHHHhcCHHHHHHHHH-----------HHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHH
Confidence            653 2333333 36666777777776666544           2222100  111 357788888888888899998888


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHhcCCcCcHHHHH
Q 005729          615 QYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVY  649 (680)
Q Consensus       615 ~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~  649 (680)
                      +++.+.  .|+.  +.....++...|++++|.+.+
T Consensus       239 ~~al~~--~p~~--~~~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          239 KLAVAN--NVHN--FVEHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             HHHHTT--CCTT--CHHHHHHHHHHHHHHHC----
T ss_pred             HHHHhC--Cchh--HHHHHHHHHHHHHHHhhHHHH
Confidence            888873  4532  223345666777777776665

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.44  E-value=3.2e-12  Score=133.92  Aligned_cols=281  Identities=13%  Similarity=0.015  Sum_probs=174.6

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHHcCCHHHHHHHHHHHHHC----C-CCCCHH
Q 005729          336 KAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDE----HTYSLLIDAYANAGRWESARIVLKEMEVS----H-AKPNSF  406 (680)
Q Consensus       336 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~----~~~~~li~~~~~~g~~~~A~~~~~~m~~~----~-~~~~~~  406 (680)
                      ..+..+...+...|++++|...|+++.+.+.. +.    ..|..+...|...|++++|+..+++....    + ......
T Consensus        49 ~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  127 (411)
T 4a1s_A           49 LELALEGERLCNAGDCRAGVAFFQAAIQAGTE-DLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAK  127 (411)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHhCcHHHHHHHHHHHHHhccc-ChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHH
Confidence            33445556666777777777777777664322 22    35666666666777777777766665432    0 011123


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCC-CCCCHHHHHHHHHHH
Q 005729          407 IYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEG-IEPDTITWNTLIDCH  485 (680)
Q Consensus       407 ~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~-~~~~~~~~~~li~~~  485 (680)
                      .+..+...|...|++++|...+++..+..                               .+.+ ......++..+...|
T Consensus       128 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~-------------------------------~~~~~~~~~~~~~~~l~~~~  176 (411)
T 4a1s_A          128 SSGNLGNTLKVMGRFDEAAICCERHLTLA-------------------------------RQLGDRLSEGRALYNLGNVY  176 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHH-------------------------------HHHTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHH-------------------------------HHhhchHHHHHHHHHHHHHH
Confidence            34444444444455555544444433210                               0000 011233566666667


Q ss_pred             HHcCC-----------------hhHHHHHHHHHHHC----CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-C
Q 005729          486 FKCGR-----------------YDRAEELFEEMQER----GY-FPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGL-L  542 (680)
Q Consensus       486 ~~~g~-----------------~~~A~~~~~~m~~~----~~-~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~-~  542 (680)
                      ...|+                 +++|.+.+++..+.    +. .....++..+...+...|++++|...+++..+... .
T Consensus       177 ~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~  256 (411)
T 4a1s_A          177 HAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREF  256 (411)
T ss_dssp             HHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhc
Confidence            77777                 77777777665432    11 11234677777788888888888888888765311 0


Q ss_pred             CC----HHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 005729          543 PN----VVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKP-SNLALNSLINAFGEDQRDAEAFAVLQYM  617 (680)
Q Consensus       543 p~----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m  617 (680)
                      .+    ...+..+...|...|++++|.+.++.    ++.+....   +..+ ...++..+..+|...|++++|..++++.
T Consensus       257 ~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~----al~~~~~~---~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a  329 (411)
T 4a1s_A          257 GDRAAERRANSNLGNSHIFLGQFEDAAEHYKR----TLALAVEL---GEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRH  329 (411)
T ss_dssp             TCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHH----HHHHHHHT---TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHH----HHHHHHHc---CCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            12    23778889999999999999988763    33333321   1111 1357889999999999999999999998


Q ss_pred             HHC----CCCC-CHHHHHHHHHHHHhcCCcCcHHHHHHHHHHc
Q 005729          618 KEN----GLKP-DVVTYTTLMKALIRVDKFHKVPAVYEEMILS  655 (680)
Q Consensus       618 ~~~----g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  655 (680)
                      .+.    +-.+ ...++..+...|.+.|++++|.+++++.++.
T Consensus       330 l~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  372 (411)
T 4a1s_A          330 LAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAEQHLQL  372 (411)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence            752    1111 1357888999999999999999999999875

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.43  E-value=4.7e-12  Score=132.11  Aligned_cols=308  Identities=14%  Similarity=0.075  Sum_probs=191.1

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHHC----CCCC-
Q 005729          298 PKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPR----TKAYNALLKGYVKMGYLKDAEFVVSEMERS----GVLP-  368 (680)
Q Consensus       298 p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~~-  368 (680)
                      .....+......+...|++++|...|++..+.+. .+    ..++..+...|...|++++|...+++..+.    +-.+ 
T Consensus         7 ~~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~   85 (406)
T 3sf4_A            7 ASCLELALEGERLCKSGDCRAGVSFFEAAVQVGT-EDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLG   85 (406)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-SCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHH
Confidence            3445566666777777777777777777766532 22    245666666777777777777777665431    1111 


Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 005729          369 DEHTYSLLIDAYANAGRWESARIVLKEMEVSHAK-PNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMI  447 (680)
Q Consensus       369 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~-~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li  447 (680)
                      ...++..+...|...|++++|...+++....... .+.                               .....++..+.
T Consensus        86 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~-------------------------------~~~~~~~~~l~  134 (406)
T 3sf4_A           86 EAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDK-------------------------------VGEARALYNLG  134 (406)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCH-------------------------------HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccc-------------------------------cchHHHHHHHH
Confidence            1334555556666666666666666655432100 010                               00123444555


Q ss_pred             HHHHccCC--------------------HHHHHHHHHHHHHC----CC-CCCHHHHHHHHHHHHHcCChhHHHHHHHHHH
Q 005729          448 DTFGKYNC--------------------LHHAMAAFDRMLSE----GI-EPDTITWNTLIDCHFKCGRYDRAEELFEEMQ  502 (680)
Q Consensus       448 ~~~~~~g~--------------------~~~A~~~~~~m~~~----~~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  502 (680)
                      ..|...|+                    +++|...+.+..+.    +. .....++..+...|...|++++|...+++..
T Consensus       135 ~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al  214 (406)
T 3sf4_A          135 NVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRL  214 (406)
T ss_dssp             HHHHHHHHTCC-------CCCCHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHH
T ss_pred             HHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            55555555                    56666655554321    10 1123467777888888888888888888876


Q ss_pred             HCCC-CCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-CC----HHHHHHHHHHHHhcCChHHHHHHHhhhH
Q 005729          503 ERGY-FPC----TTTYNIMINLLGEQERWEDVKRLLGNMRAQGLL-PN----VVTYTTLVDIYGQSGRFDDAIECLEGLS  572 (680)
Q Consensus       503 ~~~~-~p~----~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~-p~----~~~~~~li~~~~~~g~~~~A~~~~~~~~  572 (680)
                      +... .++    ..++..+...+...|++++|...+++..+.... .+    ..++..+...|.+.|++++|.+.++.  
T Consensus       215 ~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~--  292 (406)
T 3sf4_A          215 LIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLK--  292 (406)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH--
T ss_pred             HHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHH--
Confidence            4310 112    236777888888999999999999887753110 11    56788899999999999999988763  


Q ss_pred             HHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHH----CCCCC-CHHHHHHHHHHHHhcCCcCc
Q 005729          573 DQAVNAFRVMRTDGLKPS-NLALNSLINAFGEDQRDAEAFAVLQYMKE----NGLKP-DVVTYTTLMKALIRVDKFHK  644 (680)
Q Consensus       573 ~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~----~g~~p-~~~~~~~l~~~~~~~g~~~~  644 (680)
                        ++++....   +-.+. ..++..+..+|...|++++|..++++..+    .|..+ ...++..+...+...|+...
T Consensus       293 --a~~~~~~~---~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  365 (406)
T 3sf4_A          293 --HLAIAQEL---NDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISREVGDKSGELTARLNLSDLQMVLGLSYS  365 (406)
T ss_dssp             --HHHHHHHT---TCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTSC
T ss_pred             --HHHHHHhc---CCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCcchhHHHHHHHHHHHHhhHhHH
Confidence              33333221   11111 34788999999999999999999998875    22222 24577788888888887643

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.42  E-value=3.5e-12  Score=133.64  Aligned_cols=283  Identities=16%  Similarity=0.079  Sum_probs=193.8

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH----HHHHHHHHHHHHcCCHHHHHHHHHHHHHC----CC-CCCH
Q 005729          300 TATYAAVITALSNSGRTIEAEAVFEELKESGLKPRT----KAYNALLKGYVKMGYLKDAEFVVSEMERS----GV-LPDE  370 (680)
Q Consensus       300 ~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~----~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~-~~~~  370 (680)
                      ...+..+...+...|++++|+..|+++.+.+. .+.    ..|..+...|...|++++|...+++..+.    +- ....
T Consensus        48 ~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  126 (411)
T 4a1s_A           48 CLELALEGERLCNAGDCRAGVAFFQAAIQAGT-EDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEA  126 (411)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-SCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHHhCcHHHHHHHHHHHHHhcc-cChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHH
Confidence            44566777889999999999999999998742 233    47888999999999999999999988653    11 2235


Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHCC-----CCCCHHHHHHHHHHHHhcCC-----------------HHHHHHHH
Q 005729          371 HTYSLLIDAYANAGRWESARIVLKEMEVSH-----AKPNSFIYSRILAGYRDRGE-----------------WQRTFQVL  428 (680)
Q Consensus       371 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~-----~~~~~~~~~~ll~~~~~~g~-----------------~~~A~~l~  428 (680)
                      .++..+...|...|++++|...+++.....     ......++..+...|...|+                 +++|.+.+
T Consensus       127 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~  206 (411)
T 4a1s_A          127 KSSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFY  206 (411)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHH
Confidence            678889999999999999999999876431     01122345555555555555                 44444444


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCC-C
Q 005729          429 KEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGY-F  507 (680)
Q Consensus       429 ~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~-~  507 (680)
                      ++..+                            +.....  ........+..+...|...|++++|..+|++..+... .
T Consensus       207 ~~al~----------------------------~~~~~~--~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~  256 (411)
T 4a1s_A          207 QENLK----------------------------LMRDLG--DRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREF  256 (411)
T ss_dssp             HHHHH----------------------------HHHHHT--CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHH----------------------------HHHHcC--CHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhc
Confidence            33221                            111110  0011234666777777888888888888877654310 0


Q ss_pred             CC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC--C---CCHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHH
Q 005729          508 PC----TTTYNIMINLLGEQERWEDVKRLLGNMRAQGL--L---PNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNA  578 (680)
Q Consensus       508 p~----~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~--~---p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~  578 (680)
                      .+    ...+..+...+...|++++|...+++..+...  .   ....++..+...|...|++++|...++.    ++.+
T Consensus       257 ~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~----al~~  332 (411)
T 4a1s_A          257 GDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNR----HLAI  332 (411)
T ss_dssp             TCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH----HHHH
T ss_pred             CCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHH----HHHH
Confidence            11    23677788888888999999888888765311  1   1246788889999999999999988763    3333


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 005729          579 FRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKE  619 (680)
Q Consensus       579 ~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  619 (680)
                      ......  ......+|..+..+|.+.|++++|..++++..+
T Consensus       333 ~~~~~~--~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  371 (411)
T 4a1s_A          333 AQELGD--RIGEARACWSLGNAHSAIGGHERALKYAEQHLQ  371 (411)
T ss_dssp             HHHHTC--HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHCCC--hHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            333210  011134788899999999999999999999987

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=99.42  E-value=5.5e-09  Score=114.58  Aligned_cols=431  Identities=11%  Similarity=0.061  Sum_probs=258.1

Q ss_pred             CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCC-CChHHHHHHHHHHHhCC-CCcCH
Q 005729          188 RQRLTPLTYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRTNK-IDSSLLQKLYKEIECDK-IELDG  265 (680)
Q Consensus       188 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~-~~~~~~~~l~~~~~~~~-~~~~~  265 (680)
                      ..+.|..+|..+|..+.+.+.++.|..+|+++... ++.....|...+..-.+.+. .+...+..+|+..+... .+|++
T Consensus        61 ~np~d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~-fP~~~~lW~~Yi~~E~~~~~~~~~~~v~~lfeRal~~~~~~~sv  139 (679)
T 4e6h_A           61 EQPTDIFLYVKLLKHHVSLKQWKQVYETFDKLHDR-FPLMANIWCMRLSLEFDKMEELDAAVIEPVLARCLSKELGNNDL  139 (679)
T ss_dssp             HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTC--CCCHHHHHHHHHHHTCSSSCCCCH
T ss_pred             HCcCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHHhcCCCCCH
Confidence            34568889999999999999999999999999876 34455556665655555554 01234567777766543 23677


Q ss_pred             HHHHHHHHHHHHcCCH--------HHHHHHHHHHHh-CCC-CCC-HHHHHHHHHHHHh---------cCChHHHHHHHHH
Q 005729          266 QLLNDVIVGFAKAGDA--------SKAMRFLGMAQG-VGL-SPK-TATYAAVITALSN---------SGRTIEAEAVFEE  325 (680)
Q Consensus       266 ~~~~~li~~~~~~g~~--------~~A~~~~~~~~~-~g~-~p~-~~~~~~li~~~~~---------~g~~~~A~~l~~~  325 (680)
                      ..|...+....+.++.        +...++|+..+. .|. .++ ...|...+.....         .++++.+..+|++
T Consensus       140 ~LW~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~eeq~~~~~~R~iy~r  219 (679)
T 4e6h_A          140 SLWLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEEQQRVQYIRKLYKT  219 (679)
T ss_dssp             HHHHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHHHHhHHHHHHHHHHH
Confidence            7777766655554443        223356665443 454 443 3566666654432         3345666677777


Q ss_pred             HHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC--CCC-
Q 005729          326 LKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVS--HAK-  402 (680)
Q Consensus       326 m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--~~~-  402 (680)
                      .+......-..+|......--..+. ..+.+++.+                     ...+++.|...+.++...  ++. 
T Consensus       220 aL~iP~~~~~~~w~~Y~~fe~~~~~-~~a~~~~~e---------------------~~~~y~~Ar~~~~e~~~~~~~l~r  277 (679)
T 4e6h_A          220 LLCQPMDCLESMWQRYTQWEQDVNQ-LTARRHIGE---------------------LSAQYMNARSLYQDWLNITKGLKR  277 (679)
T ss_dssp             HTTSCCSSHHHHHHHHHHHHHHHCT-TTHHHHHHH---------------------HHHHHHHHHHHHHHHHHHTTTCCC
T ss_pred             HHhCccHHHHHHHHHHHHHHHhcCc-chHHHHHHH---------------------hhHHHHHHHHHHHHHHHHHHhHhh
Confidence            6642111112233222111111010 001111111                     011223333344332210  110 


Q ss_pred             --------------C-----C---HHHHHHHHHHHHhcC-------CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcc
Q 005729          403 --------------P-----N---SFIYSRILAGYRDRG-------EWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKY  453 (680)
Q Consensus       403 --------------~-----~---~~~~~~ll~~~~~~g-------~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~  453 (680)
                                    |     +   ...|...+..--..+       ..+++..+|+++.... +-....|...+..+...
T Consensus       278 ~~p~~~~~~~~~~~p~~~~~~~~ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~~-p~~~~lW~~ya~~~~~~  356 (679)
T 4e6h_A          278 NLPITLNQATESNLPKPNEYDVQQLLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQHV-CFAPEIWFNMANYQGEK  356 (679)
T ss_dssp             CCCSSSTTCCTTTSCCTTCCCHHHHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHH
T ss_pred             ccccccccchhccCCCCchhHHHHHHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHHc-CCCHHHHHHHHHHHHhc
Confidence                          0     0   134444444333322       1344566787776542 55777888888888888


Q ss_pred             CCHHHHH-HHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCC---------CCCC------------HH
Q 005729          454 NCLHHAM-AAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERG---------YFPC------------TT  511 (680)
Q Consensus       454 g~~~~A~-~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~---------~~p~------------~~  511 (680)
                      |+.+.|. ++|++.... ++.+...|-..+...-+.|++++|.++|+++.+..         -.|+            ..
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            8888886 999888764 34566677788888888999999999998887631         0131            33


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc-CChHHHHHHHhhhHHHHHHHHHHHHHCCCCCC
Q 005729          512 TYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQS-GRFDDAIECLEGLSDQAVNAFRVMRTDGLKPS  590 (680)
Q Consensus       512 t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~-g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~  590 (680)
                      .|...+....+.|..+.|..+|.++.+.-......+|...+..-.+. ++.+.|.++|+..++           . ..-+
T Consensus       436 vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk-----------~-~p~~  503 (679)
T 4e6h_A          436 VYCVYMNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYHISKDTKTACKVLELGLK-----------Y-FATD  503 (679)
T ss_dssp             HHHHHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHH-----------H-HTTC
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHH-----------H-CCCc
Confidence            67777887788889999999999998751112334444433333344 447888877663222           1 2234


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHhcCCcCcHHHHHHHHHHc
Q 005729          591 NLALNSLINAFGEDQRDAEAFAVLQYMKENGLKP--DVVTYTTLMKALIRVDKFHKVPAVYEEMILS  655 (680)
Q Consensus       591 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p--~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  655 (680)
                      ...|...+......|+.+.|..+|++.......+  ....|...+.--.+.|+.+.+..+.+++.+.
T Consensus       504 ~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~  570 (679)
T 4e6h_A          504 GEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEK  570 (679)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            5567788888888899999999999988753211  3457888888888889999999999999886

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.42  E-value=8.9e-12  Score=130.02  Aligned_cols=307  Identities=17%  Similarity=0.085  Sum_probs=203.2

Q ss_pred             CcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCC----HHHHHHHHHHHHhcCChHHHHHHHHHHHHc----CCCC
Q 005729          262 ELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPK----TATYAAVITALSNSGRTIEAEAVFEELKES----GLKP  333 (680)
Q Consensus       262 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~----~~~~~~li~~~~~~g~~~~A~~l~~~m~~~----g~~p  333 (680)
                      +.....+......+...|++++|+..|+++.+.+. .+    ...|..+...+...|++++|...+++..+.    +..|
T Consensus         6 ~~~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~   84 (406)
T 3sf4_A            6 EASCLELALEGERLCKSGDCRAGVSFFEAAVQVGT-EDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQL   84 (406)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-SCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccH
Confidence            45566777888899999999999999999887532 23    357888999999999999999999987543    2111


Q ss_pred             -CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHHHcCC--------------------HH
Q 005729          334 -RTKAYNALLKGYVKMGYLKDAEFVVSEMERSGV-LPD----EHTYSLLIDAYANAGR--------------------WE  387 (680)
Q Consensus       334 -~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~~~----~~~~~~li~~~~~~g~--------------------~~  387 (680)
                       ...++..+...|...|++++|...+++..+... ..+    ..++..+...|...|+                    ++
T Consensus        85 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~  164 (406)
T 3sf4_A           85 GEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQ  164 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHH
Confidence             255788889999999999999999998875310 012    3467777788888888                    66


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CCCHHHHHHHHHHHHccCCHHHHHHHHHHH
Q 005729          388 SARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGV-EPDTHFYNVMIDTFGKYNCLHHAMAAFDRM  466 (680)
Q Consensus       388 ~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~-~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  466 (680)
                      +|+..+++....                            +..   .+. .....++..+...|...|++++|...+++.
T Consensus       165 ~A~~~~~~al~~----------------------------~~~---~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a  213 (406)
T 3sf4_A          165 AAVDFYEENLSL----------------------------VTA---LGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQR  213 (406)
T ss_dssp             HHHHHHHHHHHH----------------------------HHH---TTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH----------------------------HHh---ccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            666666554321                            111   000 011234455555555666666666666555


Q ss_pred             HHCCC-CCC----HHHHHHHHHHHHHcCChhHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 005729          467 LSEGI-EPD----TITWNTLIDCHFKCGRYDRAEELFEEMQERGY-FPC----TTTYNIMINLLGEQERWEDVKRLLGNM  536 (680)
Q Consensus       467 ~~~~~-~~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~-~p~----~~t~~~li~~~~~~g~~~~A~~~~~~m  536 (680)
                      .+... .++    ...+..+...|...|++++|...+++..+... ..+    ..++..+...+...|++++|...+.+.
T Consensus       214 l~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a  293 (406)
T 3sf4_A          214 LLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKH  293 (406)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHH
Confidence            43200 011    23667777778888888888888877654310 011    456777788888888888888888887


Q ss_pred             HHCCC-CCC----HHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCH
Q 005729          537 RAQGL-LPN----VVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPS-NLALNSLINAFGEDQRD  607 (680)
Q Consensus       537 ~~~~~-~p~----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~  607 (680)
                      .+... ..+    ..++..+...|.+.|++++|.+.++    +++++....   +..+. ..++..+...+...|+.
T Consensus       294 ~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~----~al~~~~~~---~~~~~~~~~~~~l~~~~~~~g~~  363 (406)
T 3sf4_A          294 LAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMHFAE----KHLEISREV---GDKSGELTARLNLSDLQMVLGLS  363 (406)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHH----HHHHHHHHT---TCHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHH----HHHHHHHHh---cCCcchhHHHHHHHHHHHHhhHh
Confidence            65311 111    5577888899999999999998876    333333332   22222 23667777777766655

>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=1.4e-11  Score=124.60  Aligned_cols=279  Identities=15%  Similarity=0.033  Sum_probs=166.6

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 005729          338 YNALLKGYVKMGYLKDAEFVVSEMERSGVLPD----EHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILA  413 (680)
Q Consensus       338 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~  413 (680)
                      +......+...|++++|...++++.+.... +    ...+..+...|...|++++|.+.+++.....             
T Consensus         8 l~~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-------------   73 (338)
T 3ro2_A            8 LALEGERLCKSGDCRAGVSFFEAAVQVGTE-DLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLA-------------   73 (338)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-------------
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHhhCcc-cHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHh-------------
Confidence            333445555666666666666666554211 2    2445555555666666666666555543210             


Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCC-CCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHHH
Q 005729          414 GYRDRGEWQRTFQVLKEMKSSGV-EPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGI-EPD----TITWNTLIDCHFK  487 (680)
Q Consensus       414 ~~~~~g~~~~A~~l~~~m~~~~~-~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~-~~~----~~~~~~li~~~~~  487 (680)
                                        ...+. +....++..+...|...|++++|...+.+..+... ..+    ..++..+...|..
T Consensus        74 ------------------~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~  135 (338)
T 3ro2_A           74 ------------------RTIGDQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHA  135 (338)
T ss_dssp             ------------------HHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             ------------------hcccccHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHH
Confidence                              00000 01123444445555555555555555554432100 011    2355666666666


Q ss_pred             cCC--------------------hhHHHHHHHHHHHC----CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC---
Q 005729          488 CGR--------------------YDRAEELFEEMQER----GY-FPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQ---  539 (680)
Q Consensus       488 ~g~--------------------~~~A~~~~~~m~~~----~~-~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~---  539 (680)
                      .|+                    +++|.+.+++..+.    +. ......+..+...+...|++++|...+++..+.   
T Consensus       136 ~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~  215 (338)
T 3ro2_A          136 KGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKE  215 (338)
T ss_dssp             HHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHH
T ss_pred             cCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHh
Confidence            666                    77777776665432    10 111345667777788888888888888877643   


Q ss_pred             -CCCC-CHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHH
Q 005729          540 -GLLP-NVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPS-NLALNSLINAFGEDQRDAEAFAVLQY  616 (680)
Q Consensus       540 -~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~  616 (680)
                       +..+ ...++..+...|...|++++|.+.++.    ++++...   .+..+. ..++..+...|...|++++|..++++
T Consensus       216 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~----al~~~~~---~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  288 (338)
T 3ro2_A          216 FGDKAAERRAYSNLGNAYIFLGEFETASEYYKK----TLLLARQ---LKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLK  288 (338)
T ss_dssp             HTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHH----HHHHHHH---TTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             cCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHH----HHHHHHh---hcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence             1110 133778888899999999999988763    3333222   111111 34788899999999999999999998


Q ss_pred             HHHC----CCCC-CHHHHHHHHHHHHhcCCcCcHHHHHHHHHHc
Q 005729          617 MKEN----GLKP-DVVTYTTLMKALIRVDKFHKVPAVYEEMILS  655 (680)
Q Consensus       617 m~~~----g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  655 (680)
                      +.+.    +-.+ ...++..+...|.+.|++++|..++++.++.
T Consensus       289 a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  332 (338)
T 3ro2_A          289 HLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEI  332 (338)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC
T ss_pred             HHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence            8752    1111 1347788999999999999999999999874

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.36  E-value=3.2e-11  Score=121.92  Aligned_cols=283  Identities=14%  Similarity=0.072  Sum_probs=187.5

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHHC----CCC-CCH
Q 005729          300 TATYAAVITALSNSGRTIEAEAVFEELKESGLKPR----TKAYNALLKGYVKMGYLKDAEFVVSEMERS----GVL-PDE  370 (680)
Q Consensus       300 ~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~-~~~  370 (680)
                      ...+......+...|++++|...|+++.+... .+    ...+..+...+...|++++|...+++..+.    +.. ...
T Consensus         5 ~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~   83 (338)
T 3ro2_A            5 CLELALEGERLCKSGDCRAGVSFFEAAVQVGT-EDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEA   83 (338)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-SCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhhCc-ccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHH
Confidence            34566677889999999999999999988642 23    467888999999999999999999987642    111 124


Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHHhcCC--------------------HHHHH
Q 005729          371 HTYSLLIDAYANAGRWESARIVLKEMEVSHA-KPN----SFIYSRILAGYRDRGE--------------------WQRTF  425 (680)
Q Consensus       371 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~-~~~----~~~~~~ll~~~~~~g~--------------------~~~A~  425 (680)
                      .++..+...|...|++++|...+++...... ..+    ..++..+...+...|+                    +++|.
T Consensus        84 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~  163 (338)
T 3ro2_A           84 KASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAV  163 (338)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHH
Confidence            5677778888888888888888887654211 011    2244555555555555                    44444


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHC-
Q 005729          426 QVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQER-  504 (680)
Q Consensus       426 ~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-  504 (680)
                      +.+++...                            +.....  ........+..+...|...|++++|...+++..+. 
T Consensus       164 ~~~~~a~~----------------------------~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~  213 (338)
T 3ro2_A          164 DLYEENLS----------------------------LVTALG--DRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIA  213 (338)
T ss_dssp             HHHHHHHH----------------------------HHHHHT--CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHH----------------------------HHHhcC--CHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHH
Confidence            44433221                            111100  00111335666777777788888888888776543 


Q ss_pred             ---CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-CC----HHHHHHHHHHHHhcCChHHHHHHHhhhHHHH
Q 005729          505 ---GY-FPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLL-PN----VVTYTTLVDIYGQSGRFDDAIECLEGLSDQA  575 (680)
Q Consensus       505 ---~~-~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~-p~----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a  575 (680)
                         +. .....++..+...+...|++++|...+++..+.... .+    ..++..+...|...|++++|...++.    +
T Consensus       214 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~----a  289 (338)
T 3ro2_A          214 KEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLK----H  289 (338)
T ss_dssp             HHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH----H
T ss_pred             HhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHH----H
Confidence               10 011236777778888888888888888877653110 11    55778888999999999999988763    3


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 005729          576 VNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKE  619 (680)
Q Consensus       576 ~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  619 (680)
                      +..+.....  ......++..+..+|.+.|++++|..+++++.+
T Consensus       290 ~~~~~~~~~--~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  331 (338)
T 3ro2_A          290 LAIAQELKD--RIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  331 (338)
T ss_dssp             HHHHHHHTC--HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHhcCC--cHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence            333333211  011134788899999999999999999999987

>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=99.35  E-value=1.7e-08  Score=110.68  Aligned_cols=214  Identities=9%  Similarity=-0.002  Sum_probs=143.4

Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHH-HHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 005729          352 KDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESAR-IVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKE  430 (680)
Q Consensus       352 ~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~-~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~  430 (680)
                      +.+..+|++....- +-+...|...+..+...|+.++|. ++|++.... ++.+...|...+...-+.|++++|.++|+.
T Consensus       326 ~Rv~~~Ye~aL~~~-p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek  403 (679)
T 4e6h_A          326 ARMTYVYMQAAQHV-CFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTILS  403 (679)
T ss_dssp             HHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-CCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            34556677776542 346777877777777888888886 888887754 344566677777777788888888888888


Q ss_pred             HHHCC---------CCCC------------HHHHHHHHHHHHccCCHHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHHHc
Q 005729          431 MKSSG---------VEPD------------THFYNVMIDTFGKYNCLHHAMAAFDRMLSE-GIEPDTITWNTLIDCHFKC  488 (680)
Q Consensus       431 m~~~~---------~~p~------------~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-~~~~~~~~~~~li~~~~~~  488 (680)
                      +....         ..|+            ..+|...+....+.|.++.|..+|....+. + ......|...+..-.+.
T Consensus       404 ~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~-~~~~~lyi~~A~lE~~~  482 (679)
T 4e6h_A          404 CIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKK-LVTPDIYLENAYIEYHI  482 (679)
T ss_dssp             HHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGG-GSCTHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHHh
Confidence            76531         0131            235667777777778888888888888765 2 12223333322222333


Q ss_pred             -CChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHhcCChHHHH
Q 005729          489 -GRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLP--NVVTYTTLVDIYGQSGRFDDAI  565 (680)
Q Consensus       489 -g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p--~~~~~~~li~~~~~~g~~~~A~  565 (680)
                       ++.+.|..+|+..++. .+-+...|...+......|+.+.|..+|++.+.....+  ....|...++.-.+.|+.+.+.
T Consensus       483 ~~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~  561 (679)
T 4e6h_A          483 SKDTKTACKVLELGLKY-FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVR  561 (679)
T ss_dssp             TSCCHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHH
T ss_pred             CCCHHHHHHHHHHHHHH-CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence             4478888888888776 34456666777777777888888888888887753322  3456777777777788887777


Q ss_pred             HHHh
Q 005729          566 ECLE  569 (680)
Q Consensus       566 ~~~~  569 (680)
                      ++.+
T Consensus       562 ~v~~  565 (679)
T 4e6h_A          562 TLEK  565 (679)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6654

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.35  E-value=8.5e-11  Score=121.87  Aligned_cols=235  Identities=13%  Similarity=0.013  Sum_probs=163.0

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHHccCCHHHHHHHHHHHHHCC--C----CCCHHHHH
Q 005729          411 ILAGYRDRGEWQRTFQVLKEMKSS----GVEP-DTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEG--I----EPDTITWN  479 (680)
Q Consensus       411 ll~~~~~~g~~~~A~~l~~~m~~~----~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~--~----~~~~~~~~  479 (680)
                      ....+...|++++|...+++..+.    +-.+ ...++..+...|...|+++.|...+.+..+..  .    .....+++
T Consensus       109 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  188 (383)
T 3ulq_A          109 RGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHS  188 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHH
Confidence            445556677777777777776543    1111 23566777777777788888877777765421  0    11235678


Q ss_pred             HHHHHHHHcCChhHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CC-CCCHHHHH
Q 005729          480 TLIDCHFKCGRYDRAEELFEEMQERGY-FPC----TTTYNIMINLLGEQERWEDVKRLLGNMRAQ----GL-LPNVVTYT  549 (680)
Q Consensus       480 ~li~~~~~~g~~~~A~~~~~~m~~~~~-~p~----~~t~~~li~~~~~~g~~~~A~~~~~~m~~~----~~-~p~~~~~~  549 (680)
                      .+...|...|++++|.+.|++..+... .++    ..++..+...|...|++++|...+.+..+.    +. .....++.
T Consensus       189 ~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  268 (383)
T 3ulq_A          189 LFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYF  268 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHH
Confidence            888889999999999999988764310 011    246788888999999999999999988772    22 33467888


Q ss_pred             HHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHHCCCCCC-
Q 005729          550 TLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQR---DAEAFAVLQYMKENGLKPD-  625 (680)
Q Consensus       550 ~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~---~~~A~~~~~~m~~~g~~p~-  625 (680)
                      .+...|.+.|++++|.+.++    +|+++.....   -......+..+...+...|+   +++|+.++++.   +..|+ 
T Consensus       269 ~l~~~~~~~g~~~~A~~~~~----~al~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~---~~~~~~  338 (383)
T 3ulq_A          269 LITQIHYKLGKIDKAHEYHS----KGMAYSQKAG---DVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK---MLYADL  338 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHH----HHHHHHHHHT---CHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT---TCHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHH----HHHHHHHHcC---CHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC---cCHHHH
Confidence            99999999999999998876    3444333321   11112246778888888999   77777776655   33333 


Q ss_pred             HHHHHHHHHHHHhcCCcCcHHHHHHHHHHc
Q 005729          626 VVTYTTLMKALIRVDKFHKVPAVYEEMILS  655 (680)
Q Consensus       626 ~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  655 (680)
                      ...+..+...|.+.|++++|.+++++.++.
T Consensus       339 ~~~~~~la~~y~~~g~~~~A~~~~~~al~~  368 (383)
T 3ulq_A          339 EDFAIDVAKYYHERKNFQKASAYFLKVEQV  368 (383)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            346778899999999999999999998753

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.34  E-value=1e-09  Score=109.83  Aligned_cols=218  Identities=10%  Similarity=0.027  Sum_probs=133.8

Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHH-------HcCCH-------HHHHHHHHHHHH-CCCCCCHHHHHHHHHHHH
Q 005729          317 IEAEAVFEELKESGLKPRTKAYNALLKGYV-------KMGYL-------KDAEFVVSEMER-SGVLPDEHTYSLLIDAYA  381 (680)
Q Consensus       317 ~~A~~l~~~m~~~g~~p~~~~~~~li~~~~-------~~g~~-------~~A~~~~~~m~~-~g~~~~~~~~~~li~~~~  381 (680)
                      ++|..+|++..... +.+...|..++..+.       +.|++       ++|..+|++..+ .. +-+...|..++..+.
T Consensus        33 ~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~-p~~~~~~~~~~~~~~  110 (308)
T 2ond_A           33 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLL-KKNMLLYFAYADYEE  110 (308)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTT-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhC-cccHHHHHHHHHHHH
Confidence            45556666655532 335555655555554       23554       667777776665 22 224556666666677


Q ss_pred             HcCCHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH-HccCCHHHH
Q 005729          382 NAGRWESARIVLKEMEVSHAKPNS-FIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTF-GKYNCLHHA  459 (680)
Q Consensus       382 ~~g~~~~A~~~~~~m~~~~~~~~~-~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~-~~~g~~~~A  459 (680)
                      +.|++++|.++|++..+.... +. ..|..++..+.+.|++++|..+|++..+.. +.+...|....... ...|+.+.|
T Consensus       111 ~~~~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~a~~~~~~~~~~~~A  188 (308)
T 2ond_A          111 SRMKYEKVHSIYNRLLAIEDI-DPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVA  188 (308)
T ss_dssp             HTTCHHHHHHHHHHHHTSSSS-CTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHTSCCHHHH
T ss_pred             hcCCHHHHHHHHHHHHhcccc-CccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHcCCHHHH
Confidence            777777777777776654221 22 256666666667777777777777766543 23334443333222 125777777


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCC-CCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 005729          460 MAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERG-YFP--CTTTYNIMINLLGEQERWEDVKRLLGNM  536 (680)
Q Consensus       460 ~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~-~~p--~~~t~~~li~~~~~~g~~~~A~~~~~~m  536 (680)
                      ..+|+...+.. +.+...|..++..+.+.|++++|..+|++..+.. +.|  ....|..++....+.|+.++|..+++++
T Consensus       189 ~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a  267 (308)
T 2ond_A          189 FKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRR  267 (308)
T ss_dssp             HHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            77777776543 2356677777777777777777777777777752 233  3566777777777777777777777777


Q ss_pred             HHC
Q 005729          537 RAQ  539 (680)
Q Consensus       537 ~~~  539 (680)
                      .+.
T Consensus       268 ~~~  270 (308)
T 2ond_A          268 FTA  270 (308)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            764

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.33  E-value=1.5e-09  Score=108.59  Aligned_cols=220  Identities=13%  Similarity=0.102  Sum_probs=173.1

Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHH-------hcCCh-------HHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Q 005729          282 SKAMRFLGMAQGVGLSPKTATYAAVITALS-------NSGRT-------IEAEAVFEELKESGLKPRTKAYNALLKGYVK  347 (680)
Q Consensus       282 ~~A~~~~~~~~~~g~~p~~~~~~~li~~~~-------~~g~~-------~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~  347 (680)
                      ++|+.+|++..... +.+...|..++..+.       +.|++       ++|..+|++..+.-.+-+...|..++..+.+
T Consensus        33 ~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~  111 (308)
T 2ond_A           33 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  111 (308)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHh
Confidence            67888888877642 345667877777765       35776       8999999999873123466789999999999


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH-hcCCHHHHH
Q 005729          348 MGYLKDAEFVVSEMERSGVLPDEH-TYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYR-DRGEWQRTF  425 (680)
Q Consensus       348 ~g~~~~A~~~~~~m~~~g~~~~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~-~~g~~~~A~  425 (680)
                      .|++++|..+|+++.+.... +.. .|..++..+.+.|++++|..+|++..+... .+...|........ ..|+.++|.
T Consensus       112 ~~~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p-~~~~~~~~~a~~~~~~~~~~~~A~  189 (308)
T 2ond_A          112 RMKYEKVHSIYNRLLAIEDI-DPTLVYIQYMKFARRAEGIKSGRMIFKKAREDAR-TRHHVYVTAALMEYYCSKDKSVAF  189 (308)
T ss_dssp             TTCHHHHHHHHHHHHTSSSS-CTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTSTT-CCTHHHHHHHHHHHHTSCCHHHHH
T ss_pred             cCCHHHHHHHHHHHHhcccc-CccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHcCCHHHHH
Confidence            99999999999999985322 333 899999999999999999999999987653 34455544433322 369999999


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCC-CCC--CHHHHHHHHHHHHHcCChhHHHHHHHHHH
Q 005729          426 QVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEG-IEP--DTITWNTLIDCHFKCGRYDRAEELFEEMQ  502 (680)
Q Consensus       426 ~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~-~~~--~~~~~~~li~~~~~~g~~~~A~~~~~~m~  502 (680)
                      .+|++..+.. +.+...|..++..+.+.|++++|..+|++..+.. ..|  ....|..++..+.+.|+.+.|..+++++.
T Consensus       190 ~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~  268 (308)
T 2ond_A          190 KIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRF  268 (308)
T ss_dssp             HHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            9999987753 4578889999999999999999999999999863 343  56789999999999999999999999998


Q ss_pred             HCC
Q 005729          503 ERG  505 (680)
Q Consensus       503 ~~~  505 (680)
                      +..
T Consensus       269 ~~~  271 (308)
T 2ond_A          269 TAF  271 (308)
T ss_dssp             HHT
T ss_pred             HHc
Confidence            763

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.32  E-value=1.3e-10  Score=123.81  Aligned_cols=212  Identities=10%  Similarity=0.025  Sum_probs=171.1

Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCH-HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHH
Q 005729          421 WQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCL-HHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFE  499 (680)
Q Consensus       421 ~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~-~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~  499 (680)
                      ++++.+.+++..... +.+...+..+...+...|++ ++|...|++..+.. +.+...|..+...|.+.|++++|.+.|+
T Consensus        84 ~~~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~  161 (474)
T 4abn_A           84 MEKTLQQMEEVLGSA-QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCFS  161 (474)
T ss_dssp             HHHHHHHHHHHHTTC-CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccC-chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            455666666655443 45778888888888888898 99999998888764 3457889999999999999999999999


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHhc---------CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc--------CChH
Q 005729          500 EMQERGYFPCTTTYNIMINLLGEQ---------ERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQS--------GRFD  562 (680)
Q Consensus       500 ~m~~~~~~p~~~t~~~li~~~~~~---------g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~--------g~~~  562 (680)
                      +..+..  |+...+..+...+...         |++++|...+++..+.. +-+...|..+..+|...        |+++
T Consensus       162 ~al~~~--p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~~g~~~  238 (474)
T 4abn_A          162 GALTHC--KNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQNPKISQ  238 (474)
T ss_dssp             HHHTTC--CCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCCHHHHH
T ss_pred             HHHhhC--CCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhccccchHH
Confidence            998874  6678888888888888         99999999999999863 23688899999999888        8888


Q ss_pred             HHHHHHhhhHHHHHHHHHHHHHCCCCC----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHH
Q 005729          563 DAIECLEGLSDQAVNAFRVMRTDGLKP----SNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKP-DVVTYTTLMKALI  637 (680)
Q Consensus       563 ~A~~~~~~~~~~a~~~~~~m~~~g~~p----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~l~~~~~  637 (680)
                      +|++.|+           +..+  +.|    +...|..+..+|...|++++|++.|++..+.  .| +...+..+..++.
T Consensus       239 ~A~~~~~-----------~al~--~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~a~~~l~~~~~  303 (474)
T 4abn_A          239 QALSAYA-----------QAEK--VDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAAL--DPAWPEPQQREQQLLE  303 (474)
T ss_dssp             HHHHHHH-----------HHHH--HCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHH
T ss_pred             HHHHHHH-----------HHHH--hCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHH
Confidence            8877765           3333  234    6679999999999999999999999999984  45 5678889999999


Q ss_pred             hcCCcCcHHHHHHHH
Q 005729          638 RVDKFHKVPAVYEEM  652 (680)
Q Consensus       638 ~~g~~~~A~~~~~~m  652 (680)
                      ..|++++|.+.+.++
T Consensus       304 ~lg~~~eAi~~~~~~  318 (474)
T 4abn_A          304 FLSRLTSLLESKGKT  318 (474)
T ss_dssp             HHHHHHHHHHHTTTC
T ss_pred             HHHHHHHHHHHhccc
Confidence            999999988766543

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.31  E-value=5e-10  Score=102.58  Aligned_cols=164  Identities=13%  Similarity=0.067  Sum_probs=76.6

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 005729          371 HTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTF  450 (680)
Q Consensus       371 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~  450 (680)
                      ..|..+...|.+.|++++|++.|++..+.. +-+...+..+..+|.+.|++++|...+....... +.+...+..+...+
T Consensus         6 ~iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~   83 (184)
T 3vtx_A            6 TIYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGSAN   83 (184)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHHHH
Confidence            344444444444444444444444444332 1233344444444444444444444444443332 22334444444444


Q ss_pred             HccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 005729          451 GKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVK  530 (680)
Q Consensus       451 ~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~  530 (680)
                      ...++++.+...+.+..+.. +.+...+..+...|.+.|++++|++.|++..+.. +.+..+|..+...+.+.|++++|.
T Consensus        84 ~~~~~~~~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~~~~A~  161 (184)
T 3vtx_A           84 FMIDEKQAAIDALQRAIALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGLRDEAV  161 (184)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCCHHHHH
Confidence            44455555555554444332 2234445555555555555555555555555443 334455555555555555555555


Q ss_pred             HHHHHHHH
Q 005729          531 RLLGNMRA  538 (680)
Q Consensus       531 ~~~~~m~~  538 (680)
                      ..+++.++
T Consensus       162 ~~~~~al~  169 (184)
T 3vtx_A          162 KYFKKALE  169 (184)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            55555554

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.29  E-value=1.8e-10  Score=119.38  Aligned_cols=290  Identities=10%  Similarity=-0.002  Sum_probs=202.7

Q ss_pred             HHHcCCHHHHHHHHHHHHhC--CC--CCCHHHHHHHHHHH--HhcCChHHHH-----------HHHHHHHHcCCCCCHHH
Q 005729          275 FAKAGDASKAMRFLGMAQGV--GL--SPKTATYAAVITAL--SNSGRTIEAE-----------AVFEELKESGLKPRTKA  337 (680)
Q Consensus       275 ~~~~g~~~~A~~~~~~~~~~--g~--~p~~~~~~~li~~~--~~~g~~~~A~-----------~l~~~m~~~g~~p~~~~  337 (680)
                      +.+.+++++|..+.+.+.+.  .+  .++...|-.++..-  ...++.+.+.           ++++.+....  .+...
T Consensus        22 ~i~~~~~~~A~~l~~~i~~~~~~~~~~~~~~~y~~ll~~r~~~~~~~~~~~~~~~~e~~~~~~~~~~~i~~~~--~~~~~   99 (383)
T 3ulq_A           22 YIRRFSIPDAEYLRREIKQELDQMEEDQDLHLYYSLMEFRHNLMLEYLEPLEKMRIEEQPRLSDLLLEIDKKQ--ARLTG   99 (383)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHGGGGGSCGGGSCCHHHHHHHHHHHT--HHHHH
T ss_pred             HHHHcCHHHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHHHHhhcCcccccccccccchhhHHHHHHhcC--CCchh
Confidence            45678999999988877542  12  23334444443322  2233344444           6666665431  11121


Q ss_pred             ------HHHHHHHHHHcCCHHHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC-C--
Q 005729          338 ------YNALLKGYVKMGYLKDAEFVVSEMERS----GVLP-DEHTYSLLIDAYANAGRWESARIVLKEMEVSHAK-P--  403 (680)
Q Consensus       338 ------~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~-~--  403 (680)
                            +......+...|++++|...+++..+.    +-.+ ...++..+...|...|++++|+..+++....... +  
T Consensus       100 ~l~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~  179 (383)
T 3ulq_A          100 LLEYYFNFFRGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAY  179 (383)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTT
T ss_pred             HHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccc
Confidence                  223556778899999999999998763    1111 2467888999999999999999999987653111 1  


Q ss_pred             ---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CC-CCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHC----CC
Q 005729          404 ---NSFIYSRILAGYRDRGEWQRTFQVLKEMKSS----GV-EPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSE----GI  471 (680)
Q Consensus       404 ---~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~----~~-~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----~~  471 (680)
                         ...+++.+...|...|++++|...+++..+.    +. .....++..+...|...|++++|...|++..+.    +.
T Consensus       180 ~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~  259 (383)
T 3ulq_A          180 NIRLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNI  259 (383)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             hHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcc
Confidence               2357888899999999999999999987643    11 111247888999999999999999999988762    22


Q ss_pred             -CCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHC----CCCCCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHHCCCCC
Q 005729          472 -EPDTITWNTLIDCHFKCGRYDRAEELFEEMQER----GYFPCTTTYNIMINLLGEQER---WEDVKRLLGNMRAQGLLP  543 (680)
Q Consensus       472 -~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----~~~p~~~t~~~li~~~~~~g~---~~~A~~~~~~m~~~~~~p  543 (680)
                       +....++..+...|.+.|++++|...+++..+.    +-+.....+..+...+...|+   +++|..++++.   +..+
T Consensus       260 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~---~~~~  336 (383)
T 3ulq_A          260 LPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK---MLYA  336 (383)
T ss_dssp             GGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT---TCHH
T ss_pred             chhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC---cCHH
Confidence             334677899999999999999999999987653    212223345667778888898   66677666655   3333


Q ss_pred             -CHHHHHHHHHHHHhcCChHHHHHHHh
Q 005729          544 -NVVTYTTLVDIYGQSGRFDDAIECLE  569 (680)
Q Consensus       544 -~~~~~~~li~~~~~~g~~~~A~~~~~  569 (680)
                       ....+..+...|.+.|++++|.+.++
T Consensus       337 ~~~~~~~~la~~y~~~g~~~~A~~~~~  363 (383)
T 3ulq_A          337 DLEDFAIDVAKYYHERKNFQKASAYFL  363 (383)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence             34577789999999999999998876

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.28  E-value=9.2e-10  Score=100.79  Aligned_cols=166  Identities=15%  Similarity=0.071  Sum_probs=88.4

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 005729          335 TKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAG  414 (680)
Q Consensus       335 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~  414 (680)
                      ..+|..+...|.+.|++++|.+.|++..+... -+..+|..+...|.+.|++++|+..+....... +.+...+..+...
T Consensus         5 ~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~   82 (184)
T 3vtx_A            5 TTIYMDIGDKKRTKGDFDGAIRAYKKVLKADP-NNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGSA   82 (184)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHHH
Confidence            34455555555555555555555555544321 244455555555555555555555555544432 2234444444555


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHH
Q 005729          415 YRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRA  494 (680)
Q Consensus       415 ~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A  494 (680)
                      +...++++.+...+.+..... +.+...+..+...|.+.|++++|.+.|++..+.. +.+...|..+..+|.+.|++++|
T Consensus        83 ~~~~~~~~~a~~~~~~a~~~~-~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~~~~A  160 (184)
T 3vtx_A           83 NFMIDEKQAAIDALQRAIALN-TVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGLRDEA  160 (184)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCCHHHH
Confidence            555555555555555544432 3345555555566666666666666666655543 23455666666666666666666


Q ss_pred             HHHHHHHHHC
Q 005729          495 EELFEEMQER  504 (680)
Q Consensus       495 ~~~~~~m~~~  504 (680)
                      ++.|++.++.
T Consensus       161 ~~~~~~al~~  170 (184)
T 3vtx_A          161 VKYFKKALEK  170 (184)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHHhC
Confidence            6666666554

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.28  E-value=2.3e-11  Score=121.70  Aligned_cols=135  Identities=13%  Similarity=0.088  Sum_probs=73.7

Q ss_pred             cCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC-------CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHc------
Q 005729          263 LDGQLLNDVIVGFAKAGDASKAMRFLGMAQGV-------GLSPKTATYAAVITALSNSGRTIEAEAVFEELKES------  329 (680)
Q Consensus       263 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-------g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~------  329 (680)
                      .+..++..+...|...|++++|+++|+++.+.       .......++..+...+...|++++|...+++..+.      
T Consensus        25 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~  104 (311)
T 3nf1_A           25 ARLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLG  104 (311)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhC
Confidence            34566777777777777777777777766542       11222445566666666666666666666665543      


Q ss_pred             CC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC------CC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 005729          330 GL-KPRTKAYNALLKGYVKMGYLKDAEFVVSEMERS------GV-LPDEHTYSLLIDAYANAGRWESARIVLKEME  397 (680)
Q Consensus       330 g~-~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------g~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  397 (680)
                      +- +....++..+...|...|++++|...++++.+.      +- ......+..+...|...|++++|++.+++..
T Consensus       105 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~  180 (311)
T 3nf1_A          105 KDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRAL  180 (311)
T ss_dssp             TTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             CCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            11 112344555555566666666666666555432      11 1122334444555555555555555555443

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.27  E-value=2.4e-11  Score=121.55  Aligned_cols=240  Identities=12%  Similarity=0.082  Sum_probs=143.1

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHHc-------CCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC------
Q 005729          298 PKTATYAAVITALSNSGRTIEAEAVFEELKES-------GLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERS------  364 (680)
Q Consensus       298 p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~-------g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------  364 (680)
                      .+..++..+...+...|++++|..+|+++.+.       ..+....++..+...|...|++++|...+++..+.      
T Consensus        25 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~  104 (311)
T 3nf1_A           25 ARLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLG  104 (311)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhC
Confidence            34556677777777777777777777776652       22334556677777777777777777777776542      


Q ss_pred             C-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC------CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC--
Q 005729          365 G-VLPDEHTYSLLIDAYANAGRWESARIVLKEMEVS------HA-KPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSS--  434 (680)
Q Consensus       365 g-~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------~~-~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~--  434 (680)
                      + ......++..+...|...|++++|...+++....      +. ......+..+...+...|++++|.+.++++.+.  
T Consensus       105 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~  184 (311)
T 3nf1_A          105 KDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQ  184 (311)
T ss_dssp             TTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHH
T ss_pred             CCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHH
Confidence            1 1223456677777777777777777777776543      11 223445666777777777777777777776543  


Q ss_pred             ----C-CCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCC-------CC---C----CHHHHHHHHHHHHHcCChhHHH
Q 005729          435 ----G-VEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEG-------IE---P----DTITWNTLIDCHFKCGRYDRAE  495 (680)
Q Consensus       435 ----~-~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~-------~~---~----~~~~~~~li~~~~~~g~~~~A~  495 (680)
                          + .+....++..+...|...|++++|...++++.+..       ..   .    ....+..+...+...+.+.+|.
T Consensus       185 ~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  264 (311)
T 3nf1_A          185 TKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYG  264 (311)
T ss_dssp             HTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCCC
T ss_pred             HHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHH
Confidence                1 12234466677777777777777777777766420       00   0    1223344455555666777777


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 005729          496 ELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRA  538 (680)
Q Consensus       496 ~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~  538 (680)
                      ..+....... +....++..+...|.+.|++++|...+++..+
T Consensus       265 ~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          265 GWYKACKVDS-PTVTTTLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             ---------C-HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHhhcCCCC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            7777766543 34456677777788888888888888877765

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.27  E-value=3.5e-10  Score=120.54  Aligned_cols=212  Identities=8%  Similarity=0.012  Sum_probs=147.1

Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCH-HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 005729          351 LKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRW-ESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLK  429 (680)
Q Consensus       351 ~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~-~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~  429 (680)
                      ++++...++...... +.+...+..+...|...|++ ++|++.|++..+.. +.+...|..+..+|...|++++|.+.|+
T Consensus        84 ~~~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~  161 (474)
T 4abn_A           84 MEKTLQQMEEVLGSA-QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCFS  161 (474)
T ss_dssp             HHHHHHHHHHHHTTC-CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccC-chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            344555555544332 23566666666666666776 77777776666543 2345666667777777777777777777


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHcc---------CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc--------CChh
Q 005729          430 EMKSSGVEPDTHFYNVMIDTFGKY---------NCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKC--------GRYD  492 (680)
Q Consensus       430 ~m~~~~~~p~~~~~~~li~~~~~~---------g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~--------g~~~  492 (680)
                      +..+.  .|+...+..+...|...         |++++|...|++..+.. +.+...|..+..+|...        |+++
T Consensus       162 ~al~~--~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~~g~~~  238 (474)
T 4abn_A          162 GALTH--CKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQNPKISQ  238 (474)
T ss_dssp             HHHTT--CCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCCHHHHH
T ss_pred             HHHhh--CCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhccccchHH
Confidence            76655  35566667777777777         77777777777777654 34567777777777777        7888


Q ss_pred             HHHHHHHHHHHCCCC---CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHh
Q 005729          493 RAEELFEEMQERGYF---PCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLE  569 (680)
Q Consensus       493 ~A~~~~~~m~~~~~~---p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~  569 (680)
                      +|++.|++..+.. +   -+...|..+..+|...|++++|...+++..+.. +-+...+..+..++...|++++|++.+.
T Consensus       239 ~A~~~~~~al~~~-p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~a~~~l~~~~~~lg~~~eAi~~~~  316 (474)
T 4abn_A          239 QALSAYAQAEKVD-RKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALD-PAWPEPQQREQQLLEFLSRLTSLLESKG  316 (474)
T ss_dssp             HHHHHHHHHHHHC-GGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHhC-CCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            8888888887764 3   477788888888888888888888888887753 2256677788888888888888877655

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.24  E-value=7.1e-10  Score=114.66  Aligned_cols=233  Identities=10%  Similarity=-0.006  Sum_probs=155.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCC-CC----CHHHHHHHHHHHHccCCHHHHHHHHHHHHHCC--C---C-CCHHHHH
Q 005729          411 ILAGYRDRGEWQRTFQVLKEMKSSGV-EP----DTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEG--I---E-PDTITWN  479 (680)
Q Consensus       411 ll~~~~~~g~~~~A~~l~~~m~~~~~-~p----~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~--~---~-~~~~~~~  479 (680)
                      ....+...|++++|...|++..+... .+    ...++..+...|...|+++.|...+.+..+..  .   . ....+++
T Consensus       107 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  186 (378)
T 3q15_A          107 RGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLF  186 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHH
T ss_pred             HHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHH
Confidence            34455667777777777777654310 12    23566677777788888888888777765421  0   1 1244677


Q ss_pred             HHHHHHHHcCChhHHHHHHHHHHHC----CCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-----CCCCCCHHHHH
Q 005729          480 TLIDCHFKCGRYDRAEELFEEMQER----GYF-PCTTTYNIMINLLGEQERWEDVKRLLGNMRA-----QGLLPNVVTYT  549 (680)
Q Consensus       480 ~li~~~~~~g~~~~A~~~~~~m~~~----~~~-p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~-----~~~~p~~~~~~  549 (680)
                      .+...|...|++++|.+.|++..+.    +-. ....++..+...+...|++++|...+.+..+     ... ....++.
T Consensus       187 ~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~-~~~~~~~  265 (378)
T 3q15_A          187 VIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPD-LLPKVLF  265 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGG-GHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCCh-hHHHHHH
Confidence            7888888888888888888877653    111 1134677778888888999999988888876     322 2367788


Q ss_pred             HHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHHCCCCCC-
Q 005729          550 TLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQR---DAEAFAVLQYMKENGLKPD-  625 (680)
Q Consensus       550 ~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~---~~~A~~~~~~m~~~g~~p~-  625 (680)
                      .+...|.+.|++++|...++.    ++++.   ...+-......+..+...+...++   +++|+.++++   .+..|+ 
T Consensus       266 ~la~~~~~~g~~~~A~~~~~~----al~~~---~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~---~~~~~~~  335 (378)
T 3q15_A          266 GLSWTLCKAGQTQKAFQFIEE----GLDHI---TARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEK---KNLHAYI  335 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHH----HHHHC---CTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHH---TTCHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHH----HHHHH---HHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHh---CCChhHH
Confidence            888899999999988887652    22221   111212222356667777777888   7777776665   233333 


Q ss_pred             HHHHHHHHHHHHhcCCcCcHHHHHHHHHH
Q 005729          626 VVTYTTLMKALIRVDKFHKVPAVYEEMIL  654 (680)
Q Consensus       626 ~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  654 (680)
                      ...+..+...|.+.|++++|.+.+++.++
T Consensus       336 ~~~~~~la~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          336 EACARSAAAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            34666788899999999999999998874

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.22  E-value=7.1e-09  Score=106.82  Aligned_cols=204  Identities=14%  Similarity=0.071  Sum_probs=125.0

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHH----CCCC--C-CHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCC----CCHHH
Q 005729          409 SRILAGYRDRGEWQRTFQVLKEMKS----SGVE--P-DTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIE----PDTIT  477 (680)
Q Consensus       409 ~~ll~~~~~~g~~~~A~~l~~~m~~----~~~~--p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~----~~~~~  477 (680)
                      ..+...+...|++++|...+++...    .+..  | ....+..+...+...|++++|...+++..+....    .....
T Consensus        97 ~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  176 (373)
T 1hz4_A           97 IQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQC  176 (373)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHH
Confidence            3444455555555555555555432    1111  2 2334455666667777777777777766543211    12356


Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHHHCCCCC-C-HHHHH----HHHHHHHhcCCHHHHHHHHHHHHHCCCCC---CHHHH
Q 005729          478 WNTLIDCHFKCGRYDRAEELFEEMQERGYFP-C-TTTYN----IMINLLGEQERWEDVKRLLGNMRAQGLLP---NVVTY  548 (680)
Q Consensus       478 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p-~-~~t~~----~li~~~~~~g~~~~A~~~~~~m~~~~~~p---~~~~~  548 (680)
                      +..+...+...|++++|...+++.....-.+ . .....    ..+..+...|++++|...+.+.......+   ....+
T Consensus       177 ~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~  256 (373)
T 1hz4_A          177 LAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQW  256 (373)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHH
Confidence            6777778888888888888888876431111 1 11111    22344668889999988888876543211   13356


Q ss_pred             HHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 005729          549 TTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNL-ALNSLINAFGEDQRDAEAFAVLQYMKE  619 (680)
Q Consensus       549 ~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~-~~~~li~~~~~~g~~~~A~~~~~~m~~  619 (680)
                      ..+...+...|++++|...++...+    ..   ...|..++.. .+..+..++...|+.++|...+++..+
T Consensus       257 ~~la~~~~~~g~~~~A~~~l~~a~~----~~---~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~  321 (373)
T 1hz4_A          257 RNIARAQILLGEFEPAEIVLEELNE----NA---RSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  321 (373)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH----HH---HHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHH----HH---HhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            7778889999999999988763332    22   2223222332 667778889999999999999998875

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.20  E-value=4.3e-09  Score=108.72  Aligned_cols=304  Identities=9%  Similarity=-0.015  Sum_probs=204.8

Q ss_pred             CHHHHHHHHHHH--HHcCCHHHHHHHHHHHHhC--CC--CCCHHHHHHHHHHH--HhcCChHHHH---------HHHHHH
Q 005729          264 DGQLLNDVIVGF--AKAGDASKAMRFLGMAQGV--GL--SPKTATYAAVITAL--SNSGRTIEAE---------AVFEEL  326 (680)
Q Consensus       264 ~~~~~~~li~~~--~~~g~~~~A~~~~~~~~~~--g~--~p~~~~~~~li~~~--~~~g~~~~A~---------~l~~~m  326 (680)
                      ...+-+.|-..|  ...+++++|.++++.+.+.  .+  ..+...|-.++..-  ...+....+.         +.++.+
T Consensus         9 ~~~v~~~l~~wy~~i~~~~~~~A~~l~~~i~~~~~~~~~~~~~~~yy~l~~~r~~~~~~~~~~~~~~~~~~~~~~~l~~i   88 (378)
T 3q15_A            9 SSRVGVKINEWYKMIRQFSVPDAEILKAEVEQDIQQMEEDQDLLIYYSLMCFRHQLMLDYLEPGKTYGNRPTVTELLETI   88 (378)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHGGGBCCCHHHHHHHHHHHHHHHHHHHTCCC--------CHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHhhcCcccccccccchHHHHHHH
Confidence            344444455555  6788999999998876542  12  22333444444321  1112222222         555555


Q ss_pred             HHcCCCCC--H--HHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 005729          327 KESGLKPR--T--KAYNALLKGYVKMGYLKDAEFVVSEMERSGV-LPD----EHTYSLLIDAYANAGRWESARIVLKEME  397 (680)
Q Consensus       327 ~~~g~~p~--~--~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~-~~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~  397 (680)
                      .....+.+  .  ..+......+...|++++|...+++..+.-. .++    ..++..+...|...|++++|+..+++..
T Consensus        89 ~~~~~~~~~~l~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al  168 (378)
T 3q15_A           89 ETPQKKLTGLLKYYSLFFRGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQAL  168 (378)
T ss_dssp             HGGGHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             hccCCCCccHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHH
Confidence            43211111  1  1233345566789999999999999875311 122    4578888999999999999999998876


Q ss_pred             HCCC---C---CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCC-CCHHHHHHHHHHHHccCCHHHHHHHHHHH
Q 005729          398 VSHA---K---PNSFIYSRILAGYRDRGEWQRTFQVLKEMKSS----GVE-PDTHFYNVMIDTFGKYNCLHHAMAAFDRM  466 (680)
Q Consensus       398 ~~~~---~---~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~----~~~-p~~~~~~~li~~~~~~g~~~~A~~~~~~m  466 (680)
                      ....   .   ....+++.+...|...|++++|.+.|++..+.    +.. ....++..+...|...|++++|...|++.
T Consensus       169 ~~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~a  248 (378)
T 3q15_A          169 DIYQNHPLYSIRTIQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKA  248 (378)
T ss_dssp             HHHHTSTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHhCCCchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            4311   1   12457788999999999999999999887652    211 12357788889999999999999999998


Q ss_pred             HH-----CCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHC----CCCCCHHHHHHHHHHHHhcCC---HHHHHHHHH
Q 005729          467 LS-----EGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQER----GYFPCTTTYNIMINLLGEQER---WEDVKRLLG  534 (680)
Q Consensus       467 ~~-----~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----~~~p~~~t~~~li~~~~~~g~---~~~A~~~~~  534 (680)
                      .+     .. +....++..+...|.+.|++++|...+++..+.    +-+.....+..+...+...++   +.+|...++
T Consensus       249 l~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~  327 (378)
T 3q15_A          249 AKVSREKVP-DLLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFE  327 (378)
T ss_dssp             HHHHHHHCG-GGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHH
T ss_pred             HHHHHhhCC-hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHH
Confidence            86     43 233678889999999999999999999998764    222234456666667777888   667776666


Q ss_pred             HHHHCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHhhh
Q 005729          535 NMRAQGLLP-NVVTYTTLVDIYGQSGRFDDAIECLEGL  571 (680)
Q Consensus       535 ~m~~~~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~  571 (680)
                      +   .+..+ ....+..+...|.+.|++++|...++..
T Consensus       328 ~---~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~a  362 (378)
T 3q15_A          328 K---KNLHAYIEACARSAAAVFESSCHFEQAAAFYRKV  362 (378)
T ss_dssp             H---TTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             h---CCChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            5   32222 2456778999999999999999988743

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.19  E-value=8.5e-09  Score=106.21  Aligned_cols=162  Identities=10%  Similarity=0.006  Sum_probs=90.6

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhCCCCCCH----HHHHHHHHHHHhcCChHHHHHHHHHHHHcCC-CCC----HHHHHHH
Q 005729          271 VIVGFAKAGDASKAMRFLGMAQGVGLSPKT----ATYAAVITALSNSGRTIEAEAVFEELKESGL-KPR----TKAYNAL  341 (680)
Q Consensus       271 li~~~~~~g~~~~A~~~~~~~~~~g~~p~~----~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~-~p~----~~~~~~l  341 (680)
                      ....+...|++++|.+.++.........+.    .+++.+...+...|++++|.+.+++..+... ..+    ..+++.+
T Consensus        20 ~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l   99 (373)
T 1hz4_A           20 RAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQ   99 (373)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHH
Confidence            344566778888888888877664322222    1455666677777888888777777654210 011    1234556


Q ss_pred             HHHHHHcCCHHHHHHHHHHHHHC----CCC--C-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC----CHHHHHH
Q 005729          342 LKGYVKMGYLKDAEFVVSEMERS----GVL--P-DEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKP----NSFIYSR  410 (680)
Q Consensus       342 i~~~~~~g~~~~A~~~~~~m~~~----g~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~----~~~~~~~  410 (680)
                      ...+...|++++|...+++..+.    +..  | ....+..+...|...|++++|...+++........    ...++..
T Consensus       100 a~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  179 (373)
T 1hz4_A          100 SEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAM  179 (373)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHH
Confidence            66667777777777777665431    111  1 12344555666666677777766666655432111    1234444


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHH
Q 005729          411 ILAGYRDRGEWQRTFQVLKEMK  432 (680)
Q Consensus       411 ll~~~~~~g~~~~A~~l~~~m~  432 (680)
                      +...+...|++++|...+++..
T Consensus       180 la~~~~~~g~~~~A~~~l~~a~  201 (373)
T 1hz4_A          180 LIQCSLARGDLDNARSQLNRLE  201 (373)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHH
Confidence            5555555555555555555543

>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=99.15  E-value=4.4e-09  Score=95.80  Aligned_cols=127  Identities=12%  Similarity=0.027  Sum_probs=52.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH
Q 005729          408 YSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFK  487 (680)
Q Consensus       408 ~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~  487 (680)
                      +..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...++++.+.. +.+...+..+...|..
T Consensus        45 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~  122 (186)
T 3as5_A           45 ALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTYVQVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDN  122 (186)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHH
Confidence            3333333333333333333333333221 2233333344444444444444444444443322 2233444444444444


Q ss_pred             cCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 005729          488 CGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMR  537 (680)
Q Consensus       488 ~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~  537 (680)
                      .|++++|.++++++.+.. +.+...+..+...+...|++++|...++++.
T Consensus       123 ~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~  171 (186)
T 3as5_A          123 LGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRHEEALPHFKKAN  171 (186)
T ss_dssp             TTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             cCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            444444444444444432 2334444444444444444444444444443

>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=99.14  E-value=2e-09  Score=119.55  Aligned_cols=164  Identities=15%  Similarity=0.156  Sum_probs=120.0

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 005729          474 DTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVD  553 (680)
Q Consensus       474 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~  553 (680)
                      +...|+.|...|.+.|++++|++.|++.++.. +-+..+|..+..+|.+.|++++|...|++.++.+. -+...|..+..
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 HADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISP-TFADAYSNMGN   85 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHH
Confidence            35567777777778888888888887777764 44567777777788888888888888887777432 14677777888


Q ss_pred             HHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHH
Q 005729          554 IYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPS-NLALNSLINAFGEDQRDAEAFAVLQYMKENGLKP-DVVTYTT  631 (680)
Q Consensus       554 ~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~  631 (680)
                      +|.+.|++++|++.|+..           .+  +.|+ ...|..+..+|.+.|++++|++.|++..+  +.| +...|..
T Consensus        86 ~l~~~g~~~~A~~~~~kA-----------l~--l~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~--l~P~~~~a~~~  150 (723)
T 4gyw_A           86 TLKEMQDVQGALQCYTRA-----------IQ--INPAFADAHSNLASIHKDSGNIPEAIASYRTALK--LKPDFPDAYCN  150 (723)
T ss_dssp             HHHHTTCHHHHHHHHHHH-----------HH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCSCCHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHH-----------HH--hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCChHHHhh
Confidence            888888888777765522           22  2344 45788888888888888888888888887  445 4667788


Q ss_pred             HHHHHHhcCCcCcHHHHHHHHHH
Q 005729          632 LMKALIRVDKFHKVPAVYEEMIL  654 (680)
Q Consensus       632 l~~~~~~~g~~~~A~~~~~~m~~  654 (680)
                      +..+|...|++++|.+.++++++
T Consensus       151 L~~~l~~~g~~~~A~~~~~kal~  173 (723)
T 4gyw_A          151 LAHCLQIVCDWTDYDERMKKLVS  173 (723)
T ss_dssp             HHHHHHHTTCCTTHHHHHHHHHH
T ss_pred             hhhHHHhcccHHHHHHHHHHHHH
Confidence            88888888888888888877764

>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=99.13  E-value=6.8e-09  Score=94.53  Aligned_cols=161  Identities=12%  Similarity=0.078  Sum_probs=79.5

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 005729          339 NALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDR  418 (680)
Q Consensus       339 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~  418 (680)
                      ..+...+...|++++|...++++.+.. +.+...+..+...|...|++++|...++++.+.. +.+...+..+...+...
T Consensus        12 ~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~   89 (186)
T 3as5_A           12 RDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTYVQV   89 (186)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHh
Confidence            333444444444444444444443322 1234444444444444444444444444444332 22344444444455555


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHH
Q 005729          419 GEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELF  498 (680)
Q Consensus       419 g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~  498 (680)
                      |++++|.+.++++.+.. +.+...+..+...+...|++++|...++.+.+.. +.+...+..+...|...|++++|...+
T Consensus        90 ~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~  167 (186)
T 3as5_A           90 QKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRHEEALPHF  167 (186)
T ss_dssp             TCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCHHHHHHHH
Confidence            55555555555544432 3344555555555555566666666665555443 234555666666666666666666666


Q ss_pred             HHHHH
Q 005729          499 EEMQE  503 (680)
Q Consensus       499 ~~m~~  503 (680)
                      ++..+
T Consensus       168 ~~~~~  172 (186)
T 3as5_A          168 KKANE  172 (186)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            66554

>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=99.07  E-value=2.3e-08  Score=95.02  Aligned_cols=195  Identities=12%  Similarity=0.010  Sum_probs=145.3

Q ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 005729          333 PRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRIL  412 (680)
Q Consensus       333 p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll  412 (680)
                      .|...+......+...|++++|...|++..+....++...+..+..+|...|++++|++.|++..+... .+...|..+.
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l~   83 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNY-NLANAYIGKS   83 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC-SHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCc-chHHHHHHHH
Confidence            456788888888999999999999999988865436777777788899999999999999999887643 3567888888


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCCH-------HHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCC---HHHHHHHH
Q 005729          413 AGYRDRGEWQRTFQVLKEMKSSGVEPDT-------HFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPD---TITWNTLI  482 (680)
Q Consensus       413 ~~~~~~g~~~~A~~l~~~m~~~~~~p~~-------~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~---~~~~~~li  482 (680)
                      ..|...|++++|...+++..+.. +.+.       ..|..+...+...|++++|...|++..+..  |+   ...|..+.
T Consensus        84 ~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~~~l~  160 (228)
T 4i17_A           84 AAYRDMKNNQEYIATLTEGIKAV-PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVT--SKKWKTDALYSLG  160 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSS--CHHHHHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcC--CCcccHHHHHHHH
Confidence            99999999999999999887753 3344       457777778888899999999999888753  43   45677777


Q ss_pred             HHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 005729          483 DCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQ  539 (680)
Q Consensus       483 ~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~  539 (680)
                      .+|...|     ..+++++...+ ..+...|....  ....+.+++|...+++..+.
T Consensus       161 ~~~~~~~-----~~~~~~a~~~~-~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l  209 (228)
T 4i17_A          161 VLFYNNG-----ADVLRKATPLA-SSNKEKYASEK--AKADAAFKKAVDYLGEAVTL  209 (228)
T ss_dssp             HHHHHHH-----HHHHHHHGGGT-TTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHH-----HHHHHHHHhcc-cCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhc
Confidence            7775543     34455555543 33444444433  23456678888888888875

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=99.07  E-value=1.1e-09  Score=107.49  Aligned_cols=177  Identities=14%  Similarity=0.134  Sum_probs=126.8

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHHHHC------C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC------C
Q 005729          474 DTITWNTLIDCHFKCGRYDRAEELFEEMQER------G-YFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQ------G  540 (680)
Q Consensus       474 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------~-~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~------~  540 (680)
                      ...++..+...|...|++++|...|+++.+.      + .+....++..+...+...|++++|...+.++.+.      .
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            3556777777777888888888887776643      1 1223456777778888888888888888877654      1


Q ss_pred             CCC-CHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 005729          541 LLP-NVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPS-NLALNSLINAFGEDQRDAEAFAVLQYMK  618 (680)
Q Consensus       541 ~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~  618 (680)
                      ..| ...++..+...|...|++++|.+.++    ++++++...... -.|+ ..++..+..+|...|++++|..+++++.
T Consensus       122 ~~~~~~~~~~~la~~~~~~g~~~~A~~~~~----~al~~~~~~~~~-~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l  196 (283)
T 3edt_B          122 FHPDVAKQLNNLALLCQNQGKAEEVEYYYR----RALEIYATRLGP-DDPNVAKTKNNLASCYLKQGKYQDAETLYKEIL  196 (283)
T ss_dssp             TCHHHHHHHHHHHHHHHTTTCHHHHHHHHH----HHHHHHHHHSCT-TCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHcCCHHHHHHHHH----HHHHHHHHhcCC-CCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            112 35678888899999999999998876    344443333211 1222 3478899999999999999999999887


Q ss_pred             HC------C-----------------------------------------CCC-CHHHHHHHHHHHHhcCCcCcHHHHHH
Q 005729          619 EN------G-----------------------------------------LKP-DVVTYTTLMKALIRVDKFHKVPAVYE  650 (680)
Q Consensus       619 ~~------g-----------------------------------------~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~  650 (680)
                      +.      +                                         ..| ...++..+...|.+.|++++|..+++
T Consensus       197 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~  276 (283)
T 3edt_B          197 TRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPTVNTTLRSLGALYRRQGKLEAAHTLED  276 (283)
T ss_dssp             HHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            52      0                                         112 23577888999999999999999999


Q ss_pred             HHHHc
Q 005729          651 EMILS  655 (680)
Q Consensus       651 ~m~~~  655 (680)
                      +.++.
T Consensus       277 ~al~~  281 (283)
T 3edt_B          277 CASRN  281 (283)
T ss_dssp             HHHTT
T ss_pred             HHHHh
Confidence            98753

>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=6.7e-09  Score=115.32  Aligned_cols=164  Identities=12%  Similarity=0.057  Sum_probs=86.6

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 005729          335 TKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAG  414 (680)
Q Consensus       335 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~  414 (680)
                      ...|+.|...|.+.|++++|++.|++..+... -+..+|..|...|.+.|++++|++.|++..+.. +-+...|..+..+
T Consensus         9 a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P-~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~-P~~~~a~~nLg~~   86 (723)
T 4gyw_A            9 ADSLNNLANIKREQGNIEEAVRLYRKALEVFP-EFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSNMGNT   86 (723)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            44556666666666666666666666555431 245555556666666666666666666555443 1234455555555


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHH
Q 005729          415 YRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRA  494 (680)
Q Consensus       415 ~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A  494 (680)
                      |.+.|++++|++.|++..+.. +-+...|+.+...|.+.|++++|+..|++..+.. +-+...|..+..+|...|++++|
T Consensus        87 l~~~g~~~~A~~~~~kAl~l~-P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~-P~~~~a~~~L~~~l~~~g~~~~A  164 (723)
T 4gyw_A           87 LKEMQDVQGALQCYTRAIQIN-PAFADAHSNLASIHKDSGNIPEAIASYRTALKLK-PDFPDAYCNLAHCLQIVCDWTDY  164 (723)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCCTTH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHhhhhhHHHhcccHHHH
Confidence            555555555555555554432 3334455555555555555555555555554432 12344455555555555555555


Q ss_pred             HHHHHHHH
Q 005729          495 EELFEEMQ  502 (680)
Q Consensus       495 ~~~~~~m~  502 (680)
                      .+.++++.
T Consensus       165 ~~~~~kal  172 (723)
T 4gyw_A          165 DERMKKLV  172 (723)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            55554443

>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=99.06  E-value=2.6e-08  Score=94.62  Aligned_cols=206  Identities=9%  Similarity=-0.032  Sum_probs=160.5

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 005729          298 PKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLI  377 (680)
Q Consensus       298 p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li  377 (680)
                      .|...+......+...|++++|+..|++..+...+++...+..+..++...|++++|...+++..+.... +...|..+.
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~   83 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYN-LANAYIGKS   83 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCS-HHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcc-hHHHHHHHH
Confidence            4568888999999999999999999999998764478888888999999999999999999999987532 677899999


Q ss_pred             HHHHHcCCHHHHHHHHHHHHHCCCCCCH-------HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC--CHHHHHHHHH
Q 005729          378 DAYANAGRWESARIVLKEMEVSHAKPNS-------FIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEP--DTHFYNVMID  448 (680)
Q Consensus       378 ~~~~~~g~~~~A~~~~~~m~~~~~~~~~-------~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p--~~~~~~~li~  448 (680)
                      ..|...|++++|+..+++..+..+ .+.       ..|..+...+...|++++|.+.|++..+.. +.  +...+..+..
T Consensus        84 ~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~l~~  161 (228)
T 4i17_A           84 AAYRDMKNNQEYIATLTEGIKAVP-GNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVT-SKKWKTDALYSLGV  161 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSS-CHHHHHHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcC-CCcccHHHHHHHHH
Confidence            999999999999999999987643 344       458888889999999999999999998763 33  3567777777


Q ss_pred             HHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHH
Q 005729          449 TFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNI  515 (680)
Q Consensus       449 ~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~  515 (680)
                      .|...     +...++.+...+ ..+...|....  ....+.+++|...|++..+.. +-+..+...
T Consensus       162 ~~~~~-----~~~~~~~a~~~~-~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l~-p~~~~~~~~  219 (228)
T 4i17_A          162 LFYNN-----GADVLRKATPLA-SSNKEKYASEK--AKADAAFKKAVDYLGEAVTLS-PNRTEIKQM  219 (228)
T ss_dssp             HHHHH-----HHHHHHHHGGGT-TTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             HHHHH-----HHHHHHHHHhcc-cCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhcC-CCCHHHHHH
Confidence            77544     344556655543 23444554443  334567899999999998875 334444433

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=99.00  E-value=2.6e-09  Score=104.85  Aligned_cols=156  Identities=13%  Similarity=0.047  Sum_probs=84.7

Q ss_pred             HcCCHHHHHHHHHHHHh-------CCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHc------CC-CCCHHHHHHHH
Q 005729          277 KAGDASKAMRFLGMAQG-------VGLSPKTATYAAVITALSNSGRTIEAEAVFEELKES------GL-KPRTKAYNALL  342 (680)
Q Consensus       277 ~~g~~~~A~~~~~~~~~-------~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~------g~-~p~~~~~~~li  342 (680)
                      ..|++++|++.|++..+       ...+....++..+...+...|++++|+..+++..+.      +- +....++..+.
T Consensus        13 ~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~   92 (283)
T 3edt_B           13 GLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLA   92 (283)
T ss_dssp             CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHH
Confidence            34555555555554432       111123456666777777777777777777776543      11 12344566666


Q ss_pred             HHHHHcCCHHHHHHHHHHHHHC------C-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC------C-CCCCHHHH
Q 005729          343 KGYVKMGYLKDAEFVVSEMERS------G-VLPDEHTYSLLIDAYANAGRWESARIVLKEMEVS------H-AKPNSFIY  408 (680)
Q Consensus       343 ~~~~~~g~~~~A~~~~~~m~~~------g-~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------~-~~~~~~~~  408 (680)
                      ..|...|++++|...+++..+.      . .+....++..+...|...|++++|+..+++....      . .+....++
T Consensus        93 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  172 (283)
T 3edt_B           93 VLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTK  172 (283)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHH
T ss_pred             HHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHH
Confidence            6677777777777776666542      0 0112445555666666666666666666665443      0 11122344


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHH
Q 005729          409 SRILAGYRDRGEWQRTFQVLKEMK  432 (680)
Q Consensus       409 ~~ll~~~~~~g~~~~A~~l~~~m~  432 (680)
                      ..+...|...|++++|...+++..
T Consensus       173 ~~la~~~~~~g~~~~A~~~~~~~l  196 (283)
T 3edt_B          173 NNLASCYLKQGKYQDAETLYKEIL  196 (283)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHH
Confidence            455555555555555555555543

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.93  E-value=6e-07  Score=87.46  Aligned_cols=199  Identities=9%  Similarity=0.046  Sum_probs=138.1

Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 005729          459 AMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGY-FPCTTTYNIMINLLGEQERWEDVKRLLGNMR  537 (680)
Q Consensus       459 A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~-~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~  537 (680)
                      |...|++..+.+ .++..++..+..++...|++++|++++.+.+..+- .-+...+..++..+.+.|+.+.|.+.+++|.
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            567777776554 45566667888888889999999999998877652 1356777888889999999999999999998


Q ss_pred             HCCCCC-----CHHHHHHHHHHHH--hcC--ChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHH
Q 005729          538 AQGLLP-----NVVTYTTLVDIYG--QSG--RFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDA  608 (680)
Q Consensus       538 ~~~~~p-----~~~~~~~li~~~~--~~g--~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~  608 (680)
                      +.  .|     +..+...|..++.  ..|  ++.+|..+|           +++.+.  .|+..+-..++.++.+.|+++
T Consensus       164 ~~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f-----------~El~~~--~p~~~~~~lLln~~~~~g~~~  228 (310)
T 3mv2_B          164 NA--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYY-----------EELSQT--FPTWKTQLGLLNLHLQQRNIA  228 (310)
T ss_dssp             HH--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHH-----------HHHHTT--SCSHHHHHHHHHHHHHHTCHH
T ss_pred             hc--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHH-----------HHHHHh--CCCcccHHHHHHHHHHcCCHH
Confidence            74  55     3566666766633  334  677766654           455443  355333344455888999999


Q ss_pred             HHHHHHHHHHHC-----CC---CC-CHHHHHHHHHHHHhcCCcCcHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHhh
Q 005729          609 EAFAVLQYMKEN-----GL---KP-DVVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPDRKARAMLRSALRYMKQT  677 (680)
Q Consensus       609 ~A~~~~~~m~~~-----g~---~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd~~~~~~l~~a~~~~k~~  677 (680)
                      +|.+.++.+.+.     +.   .| |+.+...++......|+  +|.++++++.+  ..|+.....-+...-..+++.
T Consensus       229 eAe~~L~~l~~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~--~~P~hp~i~d~~~k~~~Fd~~  302 (310)
T 3mv2_B          229 EAQGIVELLLSDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVK--LDHEHAFIKHHQEIDAKFDEL  302 (310)
T ss_dssp             HHHHHHHHHHSHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHH--TTCCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHH--hCCCChHHHHHHHHHHHHHHH
Confidence            999999976642     10   14 55666566666667786  89999999988  467776655555544444443

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=98.91  E-value=2.4e-07  Score=90.20  Aligned_cols=241  Identities=10%  Similarity=-0.003  Sum_probs=156.0

Q ss_pred             HHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHH
Q 005729          275 FAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDA  354 (680)
Q Consensus       275 ~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A  354 (680)
                      ..-.|.+..++.-...+..   ......-..+.+++...|++...         ..-.|....+..+...+ ..+    |
T Consensus        23 ~fy~G~yq~~i~e~~~~~~---~~~~~~~~~~~Rs~iAlg~~~~~---------~~~~~~~~a~~~la~~~-~~~----a   85 (310)
T 3mv2_B           23 NYYTGNFVQCLQEIEKFSK---VTDNTLLFYKAKTLLALGQYQSQ---------DPTSKLGKVLDLYVQFL-DTK----N   85 (310)
T ss_dssp             HHTTTCHHHHTHHHHTSSC---CCCHHHHHHHHHHHHHTTCCCCC---------CSSSTTHHHHHHHHHHH-TTT----C
T ss_pred             HHHhhHHHHHHHHHHhcCc---cchHHHHHHHHHHHHHcCCCccC---------CCCCHHHHHHHHHHHHh-ccc----H
Confidence            3446777777763332221   12223334455777777776532         12234444444433333 322    6


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 005729          355 EFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHA-KPNSFIYSRILAGYRDRGEWQRTFQVLKEMKS  433 (680)
Q Consensus       355 ~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~-~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~  433 (680)
                      ...|++..+.+ .++..++..+..++...|++++|++++.+....+. .-+...+..++..+.+.|+.+.|.+.+++|.+
T Consensus        86 ~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~  164 (310)
T 3mv2_B           86 IEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTN  164 (310)
T ss_dssp             CHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            77777776654 45566666788888888999999999888766553 23566777888888899999999999988877


Q ss_pred             CCCCC-----CHHHHHHHHHHH--HccC--CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHC
Q 005729          434 SGVEP-----DTHFYNVMIDTF--GKYN--CLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQER  504 (680)
Q Consensus       434 ~~~~p-----~~~~~~~li~~~--~~~g--~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  504 (680)
                      .  .|     +..+...|+.++  ...|  +..+|..+|+++.+.  .|+..+-..++.++.+.|++++|.+.++.+.+.
T Consensus       165 ~--~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~  240 (310)
T 3mv2_B          165 A--IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVELLLSD  240 (310)
T ss_dssp             H--SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSH
T ss_pred             c--CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            5  45     355566666553  2233  888899999988765  355344444555788889999999998876543


Q ss_pred             C---------CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 005729          505 G---------YFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQ  539 (680)
Q Consensus       505 ~---------~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~  539 (680)
                      .         -+-+..++..+|......|+  +|.+++.++.+.
T Consensus       241 ~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~  282 (310)
T 3mv2_B          241 YYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKL  282 (310)
T ss_dssp             HHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHT
T ss_pred             cccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHh
Confidence            0         03456666556555566676  788888888885

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=98.90  E-value=4e-08  Score=97.32  Aligned_cols=166  Identities=11%  Similarity=0.008  Sum_probs=108.2

Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHHHCCC---CC--CHHHHHHHHHHHHHc-CChhHHHHHHHHHHHCCCC-CC----
Q 005729          441 HFYNVMIDTFGKYNCLHHAMAAFDRMLSEGI---EP--DTITWNTLIDCHFKC-GRYDRAEELFEEMQERGYF-PC----  509 (680)
Q Consensus       441 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~---~~--~~~~~~~li~~~~~~-g~~~~A~~~~~~m~~~~~~-p~----  509 (680)
                      .+|+.+...|.+.|++++|...|++..+...   .+  -..+++.+...|... |++++|+..|++..+.... .+    
T Consensus        78 ~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~  157 (292)
T 1qqe_A           78 NTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALS  157 (292)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHH
Confidence            4555555666666666666666655543210   01  134677888888886 9999999999888754200 01    


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCH------HHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHH
Q 005729          510 TTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNV------VTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMR  583 (680)
Q Consensus       510 ~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~------~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~  583 (680)
                      ..++..+...+.+.|++++|...+++..+.......      ..+..+..++...|++++|+..++...           
T Consensus       158 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al-----------  226 (292)
T 1qqe_A          158 NKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQ-----------  226 (292)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGG-----------
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH-----------
Confidence            356788888999999999999999999886433221      257778888999999999988776322           


Q ss_pred             HCCCCCCH------HHHHHHHHHHH--hcCCHHHHHHHHHHHHH
Q 005729          584 TDGLKPSN------LALNSLINAFG--EDQRDAEAFAVLQYMKE  619 (680)
Q Consensus       584 ~~g~~p~~------~~~~~li~~~~--~~g~~~~A~~~~~~m~~  619 (680)
                      +  +.|+.      ..+..++.+|.  ..+++++|+..|+++..
T Consensus       227 ~--l~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~~  268 (292)
T 1qqe_A          227 S--EDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMR  268 (292)
T ss_dssp             C--C---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSC
T ss_pred             h--hCCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCCc
Confidence            1  22322      23455666664  45678888888876654

>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=98.87  E-value=1.2e-07  Score=80.79  Aligned_cols=127  Identities=14%  Similarity=0.242  Sum_probs=55.8

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc
Q 005729          373 YSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGK  452 (680)
Q Consensus       373 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~  452 (680)
                      |..+...|...|++++|..+++++.... +.+...+..+...+...|++++|...++++.+.+ +.+...+..+...+..
T Consensus         4 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~   81 (136)
T 2fo7_A            4 WYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYK   81 (136)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHHHH
Confidence            4444555555555555555555554432 1234444444444444555555555554444332 2233344444444444


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHH
Q 005729          453 YNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQ  502 (680)
Q Consensus       453 ~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  502 (680)
                      .|++++|...++.+.+.. +.+...+..+...+.+.|++++|...|+++.
T Consensus        82 ~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~  130 (136)
T 2fo7_A           82 QGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKAL  130 (136)
T ss_dssp             TTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             hcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHH
Confidence            444444444444443322 1223333444444444444444444444433

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=98.87  E-value=1.1e-07  Score=94.20  Aligned_cols=56  Identities=14%  Similarity=0.124  Sum_probs=28.8

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHhC----CCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 005729          272 IVGFAKAGDASKAMRFLGMAQGV----GLSPK-TATYAAVITALSNSGRTIEAEAVFEELK  327 (680)
Q Consensus       272 i~~~~~~g~~~~A~~~~~~~~~~----g~~p~-~~~~~~li~~~~~~g~~~~A~~l~~~m~  327 (680)
                      ...|...|++++|++.|.+..+.    |-.++ ..+|+.+..+|.+.|++++|+..|++..
T Consensus        44 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al  104 (292)
T 1qqe_A           44 ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAI  104 (292)
T ss_dssp             HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            44555566666666666554331    11111 2355555555555566665555555544

>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=98.83  E-value=2.1e-07  Score=79.25  Aligned_cols=127  Identities=13%  Similarity=0.211  Sum_probs=57.4

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc
Q 005729          409 SRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKC  488 (680)
Q Consensus       409 ~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~  488 (680)
                      ..+...+...|++++|..+++++.+.. +.+...+..+...+...|++++|...++++.+.. +.+...+..+...+...
T Consensus         5 ~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~   82 (136)
T 2fo7_A            5 YNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQ   82 (136)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHHHHh
Confidence            334444444445555555444444332 2234444444444444445555555444444332 22334444444444444


Q ss_pred             CChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 005729          489 GRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRA  538 (680)
Q Consensus       489 g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~  538 (680)
                      |++++|.++++++.+.. +.+...+..+...+.+.|++++|...+.++.+
T Consensus        83 ~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  131 (136)
T 2fo7_A           83 GDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALE  131 (136)
T ss_dssp             TCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHccHHHHHHHHHHHHc
Confidence            55555555554444432 22344444444444444555555544444443

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.82  E-value=1.2e-07  Score=88.51  Aligned_cols=111  Identities=13%  Similarity=0.054  Sum_probs=52.6

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHH----------------HHHHHHHcCChhHHHHHHHHHHHCCC
Q 005729          443 YNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNT----------------LIDCHFKCGRYDRAEELFEEMQERGY  506 (680)
Q Consensus       443 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~----------------li~~~~~~g~~~~A~~~~~~m~~~~~  506 (680)
                      +......+...|++++|...|++..+.. +-+...|..                +..+|.+.|++++|+..|++.++.. 
T Consensus         7 ~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-   84 (208)
T 3urz_A            7 MLQKVSAAIEAGQNGQAVSYFRQTIALN-IDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQKA-   84 (208)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-HHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-
Confidence            3334445556667777777776666542 112233333                4444444555555555555444443 


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 005729          507 FPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYG  556 (680)
Q Consensus       507 ~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~  556 (680)
                      +-+...+..+...+...|++++|...+++.++... -+...+..+...|.
T Consensus        85 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~lg~~~~  133 (208)
T 3urz_A           85 PNNVDCLEACAEMQVCRGQEKDALRMYEKILQLEA-DNLAANIFLGNYYY  133 (208)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHH
Confidence            33344444444444445555555555544444321 13344444444443

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=98.81  E-value=1.3e-07  Score=88.43  Aligned_cols=172  Identities=12%  Similarity=0.085  Sum_probs=100.4

Q ss_pred             HHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHH----------------HHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 005729          479 NTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNI----------------MINLLGEQERWEDVKRLLGNMRAQGLL  542 (680)
Q Consensus       479 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~----------------li~~~~~~g~~~~A~~~~~~m~~~~~~  542 (680)
                      -.....+.+.|++++|+..|++..+.. +-+...|..                +...+.+.|++++|...+++.++... 
T Consensus         8 ~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-   85 (208)
T 3urz_A            8 LQKVSAAIEAGQNGQAVSYFRQTIALN-IDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQKAP-   85 (208)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-HHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCC-
Confidence            334445666777777777777776653 223445555                66677777777777777777776532 


Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCC--HHHHHHHHHHHHH
Q 005729          543 PNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPS-NLALNSLINAFGEDQR--DAEAFAVLQYMKE  619 (680)
Q Consensus       543 p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~--~~~A~~~~~~m~~  619 (680)
                      -+...+..+..+|...|++++|+..|+..+           +  +.|+ ..+|..+..+|...|+  .+.+...++....
T Consensus        86 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al-----------~--~~P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~~  152 (208)
T 3urz_A           86 NNVDCLEACAEMQVCRGQEKDALRMYEKIL-----------Q--LEADNLAANIFLGNYYYLTAEQEKKKLETDYKKLSS  152 (208)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHH-----------H--HCTTCHHHHHHHHHHHHHHHHHHHHHHHHHHC---C
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHH-----------H--cCCCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhC
Confidence            256677777777777777777776654222           2  2343 3466677766655443  3344444444432


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCCcCcHHHHHHHHHHcCCCCCHHHHHHHHH
Q 005729          620 NGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPDRKARAMLRS  669 (680)
Q Consensus       620 ~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd~~~~~~l~~  669 (680)
                        ..|....+..+..++...|++++|...|++.++  +.|+......+.+
T Consensus       153 --~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~--l~P~~~~~~~l~~  198 (208)
T 3urz_A          153 --PTKMQYARYRDGLSKLFTTRYEKARNSLQKVIL--RFPSTEAQKTLDK  198 (208)
T ss_dssp             --CCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTT--TSCCHHHHHHHHH
T ss_pred             --CCchhHHHHHHHHHHHHccCHHHHHHHHHHHHH--hCCCHHHHHHHHH
Confidence              222223344455556667777777777777765  4666655544444

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=98.81  E-value=2.1e-07  Score=90.35  Aligned_cols=171  Identities=15%  Similarity=0.127  Sum_probs=120.1

Q ss_pred             CCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCC---HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC-CC-CHHH
Q 005729          473 PDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPC---TTTYNIMINLLGEQERWEDVKRLLGNMRAQGL-LP-NVVT  547 (680)
Q Consensus       473 ~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~---~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~-~p-~~~~  547 (680)
                      .+...+-.+...+.+.|++++|...|+++.+.. +.+   ...+..+..++.+.|++++|...++++++... .| ....
T Consensus        13 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a   91 (261)
T 3qky_A           13 SSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYG-RTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQA   91 (261)
T ss_dssp             SSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGC-SCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHH
Confidence            345566666777777788888888888777653 223   56677777777788888888888888777522 11 2445


Q ss_pred             HHHHHHHHHh--------cCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCH-HH-----------------HHHHHHHH
Q 005729          548 YTTLVDIYGQ--------SGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSN-LA-----------------LNSLINAF  601 (680)
Q Consensus       548 ~~~li~~~~~--------~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~-~~-----------------~~~li~~~  601 (680)
                      +..+..++.+        .|++++|+..|+.           ....  .|+. ..                 +..+..+|
T Consensus        92 ~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~-----------~l~~--~p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~  158 (261)
T 3qky_A           92 EYERAMCYYKLSPPYELDQTDTRKAIEAFQL-----------FIDR--YPNHELVDDATQKIRELRAKLARKQYEAARLY  158 (261)
T ss_dssp             HHHHHHHHHHHCCCTTSCCHHHHHHHHHHHH-----------HHHH--CTTCTTHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcccccccchhHHHHHHHHHH-----------HHHH--CcCchhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6667777777        7777777766552           2221  1221 11                 25678889


Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCC----HHHHHHHHHHHHhc----------CCcCcHHHHHHHHHHcCCCCCH
Q 005729          602 GEDQRDAEAFAVLQYMKENGLKPD----VVTYTTLMKALIRV----------DKFHKVPAVYEEMILSGCTPDR  661 (680)
Q Consensus       602 ~~~g~~~~A~~~~~~m~~~g~~p~----~~~~~~l~~~~~~~----------g~~~~A~~~~~~m~~~g~~pd~  661 (680)
                      .+.|++++|+..|+++.+.  .|+    ...+..+..+|.+.          |++++|...++++++.  .|+.
T Consensus       159 ~~~g~~~~A~~~~~~~l~~--~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~  228 (261)
T 3qky_A          159 ERRELYEAAAVTYEAVFDA--YPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQI--FPDS  228 (261)
T ss_dssp             HHTTCHHHHHHHHHHHHHH--CTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHH--CTTC
T ss_pred             HHccCHHHHHHHHHHHHHH--CCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHH--CCCC
Confidence            9999999999999999873  343    45778888888876          8889999999999985  4554

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.76  E-value=2.6e-05  Score=82.81  Aligned_cols=345  Identities=7%  Similarity=-0.062  Sum_probs=204.7

Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC-hHHHHHHHHHHHHc-CC-CCCHHHHHHHHHHHH----HcCCH
Q 005729          279 GDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGR-TIEAEAVFEELKES-GL-KPRTKAYNALLKGYV----KMGYL  351 (680)
Q Consensus       279 g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~-~~~A~~l~~~m~~~-g~-~p~~~~~~~li~~~~----~~g~~  351 (680)
                      |+++.+..+|++....  .|++..|...+....+.+. .+....+|+..... |. +.+...|...+..+.    ..+++
T Consensus        28 ~~~e~~~~iferal~~--~ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~al~~vg~d~~s~~iW~~Yi~f~~~~~~~~~~~  105 (493)
T 2uy1_A           28 KDYRSLESLFGRCLKK--SYNLDLWMLYIEYVRKVSQKKFKLYEVYEFTLGQFENYWDSYGLYKEYIEEEGKIEDEQTRI  105 (493)
T ss_dssp             TCHHHHHHHHHHHSTT--CCCHHHHHHHHHHHHHHC----CTHHHHHHHHHHSTTCTTCHHHHHHHHHHTSSCSSHHHHH
T ss_pred             CCHHHHHHHHHHHhcc--CCCHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHcCCCcccHHHHHHHHHHHHhchhhhHHH
Confidence            7788888888887764  4677788877777776663 34456677766543 32 336677777666543    34567


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHH-------------HcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 005729          352 KDAEFVVSEMERSGVLPDEHTYSLLIDAYA-------------NAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDR  418 (680)
Q Consensus       352 ~~A~~~~~~m~~~g~~~~~~~~~~li~~~~-------------~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~  418 (680)
                      +.+..+|++.+......-...|......-.             ..+.+..|..+++++...-...+...|...+..-...
T Consensus       106 ~~vR~iy~rAL~~P~~~~~~lw~~Y~~fE~~~~~~~~~~~~~~~~~~y~~ar~~y~~~~~~~~~~s~~~W~~y~~~E~~~  185 (493)
T 2uy1_A          106 EKIRNGYMRALQTPMGSLSELWKDFENFELELNKITGKKIVGDTLPIFQSSFQRYQQIQPLIRGWSVKNAARLIDLEMEN  185 (493)
T ss_dssp             HHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCSHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHhChhhhHHHHHHHHHHHHHHhccccHHHHHHHHhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhcC
Confidence            778888888876321111122221111100             0122333444444443210012334555555443322


Q ss_pred             C--C-----HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCh
Q 005729          419 G--E-----WQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRY  491 (680)
Q Consensus       419 g--~-----~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~  491 (680)
                      +  -     .+.+..+|+++.... +.+...|...+..+.+.|+.+.|..+|++....  +.+...|.    .|......
T Consensus       186 ~~~~~~~~~~~Rv~~~ye~al~~~-p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l~~----~y~~~~e~  258 (493)
T 2uy1_A          186 GMKLGGRPHESRMHFIHNYILDSF-YYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFLSL----YYGLVMDE  258 (493)
T ss_dssp             TTCCCHHHHHHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHH----HHHHHTTC
T ss_pred             CccCcchhhHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHHHH----HHHhhcch
Confidence            1  1     345677888877653 556788888888888899999999999999887  33433333    23332222


Q ss_pred             hHHHHHHHHHHHCC---------C---CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC
Q 005729          492 DRAEELFEEMQERG---------Y---FPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSG  559 (680)
Q Consensus       492 ~~A~~~~~~m~~~~---------~---~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g  559 (680)
                      ++.   ++.+.+.-         .   ......|...+..+.+.+..+.|..+|.++ +. ...+..+|...+..-...+
T Consensus       259 ~~~---~~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~-~~~~~~v~i~~A~lE~~~~  333 (493)
T 2uy1_A          259 EAV---YGDLKRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GN-EGVGPHVFIYCAFIEYYAT  333 (493)
T ss_dssp             THH---HHHHHHHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TT-SCCCHHHHHHHHHHHHHHH
T ss_pred             hHH---HHHHHHHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hC-CCCChHHHHHHHHHHHHHC
Confidence            222   23322210         0   011245666777777788899999999999 32 2234555544333333333


Q ss_pred             -ChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 005729          560 -RFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALIR  638 (680)
Q Consensus       560 -~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~  638 (680)
                       +.+.|..+|+           ...+. ..-+...|...++...+.|+.+.|..+|+++.     .....|...+.--..
T Consensus       334 ~d~~~ar~ife-----------~al~~-~~~~~~~~~~yid~e~~~~~~~~aR~l~er~~-----k~~~lw~~~~~fE~~  396 (493)
T 2uy1_A          334 GSRATPYNIFS-----------SGLLK-HPDSTLLKEEFFLFLLRIGDEENARALFKRLE-----KTSRMWDSMIEYEFM  396 (493)
T ss_dssp             CCSHHHHHHHH-----------HHHHH-CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHSC-----CBHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHH-----------HHHHH-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH-----HHHHHHHHHHHHHHH
Confidence             5777777765           22221 11233456777888888999999999999872     257788888887788


Q ss_pred             cCCcCcHHHHHHHHHH
Q 005729          639 VDKFHKVPAVYEEMIL  654 (680)
Q Consensus       639 ~g~~~~A~~~~~~m~~  654 (680)
                      .|+.+.+.++++++..
T Consensus       397 ~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          397 VGSMELFRELVDQKMD  412 (493)
T ss_dssp             HSCHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHH
Confidence            8999999998888874

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=98.76  E-value=4.9e-07  Score=87.70  Aligned_cols=100  Identities=11%  Similarity=-0.046  Sum_probs=52.5

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC---HHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC--CCHHHH
Q 005729          299 KTATYAAVITALSNSGRTIEAEAVFEELKESGLKPR---TKAYNALLKGYVKMGYLKDAEFVVSEMERSGVL--PDEHTY  373 (680)
Q Consensus       299 ~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~--~~~~~~  373 (680)
                      +...+..+...+.+.|++++|+..|+++.+.. +.+   ...+..+..+|.+.|++++|...|++..+....  .....+
T Consensus        14 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~   92 (261)
T 3qky_A           14 SPQEAFERAMEFYNQGKYDRAIEYFKAVFTYG-RTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAE   92 (261)
T ss_dssp             SHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGC-SCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHH
Confidence            34455555556666666666666666665542 112   445555555666666666666666665553211  113344


Q ss_pred             HHHHHHHHH--------cCCHHHHHHHHHHHHHC
Q 005729          374 SLLIDAYAN--------AGRWESARIVLKEMEVS  399 (680)
Q Consensus       374 ~~li~~~~~--------~g~~~~A~~~~~~m~~~  399 (680)
                      ..+..+|..        .|++++|+..|+++...
T Consensus        93 ~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~  126 (261)
T 3qky_A           93 YERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDR  126 (261)
T ss_dssp             HHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcccccccchhHHHHHHHHHHHHHH
Confidence            445555555        55555555555555443

>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=98.73  E-value=1.3e-06  Score=81.83  Aligned_cols=175  Identities=11%  Similarity=0.041  Sum_probs=81.1

Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcC----CHHHHHHHHH
Q 005729          319 AEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAG----RWESARIVLK  394 (680)
Q Consensus       319 A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g----~~~~A~~~~~  394 (680)
                      |++.|++..+.|   +...+..|...|...+++++|...|++..+.|   +...+..|...|.. +    +.++|++.|+
T Consensus         5 A~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~   77 (212)
T 3rjv_A            5 PGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAE   77 (212)
T ss_dssp             TTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHH
T ss_pred             HHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHH
Confidence            344444444432   34444445555555555555555555555443   34444444444444 3    4555555555


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHHc----cCCHHHHHHHHHH
Q 005729          395 EMEVSHAKPNSFIYSRILAGYRD----RGEWQRTFQVLKEMKSSGVE-PDTHFYNVMIDTFGK----YNCLHHAMAAFDR  465 (680)
Q Consensus       395 ~m~~~~~~~~~~~~~~ll~~~~~----~g~~~~A~~l~~~m~~~~~~-p~~~~~~~li~~~~~----~g~~~~A~~~~~~  465 (680)
                      +..+.+   +...+..+...|..    .+++++|++.|++..+.|.. .+...+..|...|..    .++.++|...|++
T Consensus        78 ~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~  154 (212)
T 3rjv_A           78 KAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKG  154 (212)
T ss_dssp             HHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHH
T ss_pred             HHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHH
Confidence            554432   33444444444443    44555555555554443310 013444444444444    4455555555555


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHHc-C-----ChhHHHHHHHHHHHCC
Q 005729          466 MLSEGIEPDTITWNTLIDCHFKC-G-----RYDRAEELFEEMQERG  505 (680)
Q Consensus       466 m~~~~~~~~~~~~~~li~~~~~~-g-----~~~~A~~~~~~m~~~~  505 (680)
                      ..+.+  .+...+..|...|... |     ++++|..+|++..+.|
T Consensus       155 A~~~~--~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g  198 (212)
T 3rjv_A          155 SSSLS--RTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEG  198 (212)
T ss_dssp             HHHTS--CTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHT
T ss_pred             HHHcC--CCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcC
Confidence            54431  2233344444444432 1     4555555555555544

>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=98.72  E-value=8.6e-08  Score=106.84  Aligned_cols=149  Identities=9%  Similarity=-0.010  Sum_probs=91.1

Q ss_pred             HhcCCHHHHHHHHHHHH--------HCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH
Q 005729          416 RDRGEWQRTFQVLKEMK--------SSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFK  487 (680)
Q Consensus       416 ~~~g~~~~A~~l~~~m~--------~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~  487 (680)
                      ...|++++|++.+++..        +.. +.+...+..+...+...|++++|...|++..+.. +.+...|..+..+|.+
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDF-SESVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CC-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhccccccccc-ccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHH
Confidence            55666667776666665        222 3345566666666666666666666666666543 2355566666666666


Q ss_pred             cCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHH
Q 005729          488 CGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIEC  567 (680)
Q Consensus       488 ~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~  567 (680)
                      .|++++|.+.|++..+.. +-+...|..+..++.+.|++++ ...++++++.+. -+...+..+..+|.+.|++++|++.
T Consensus       480 ~g~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P-~~~~a~~~lg~~~~~~g~~~~A~~~  556 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDTF-PGELAPKLALAATAELAGNTDE-HKFYQTVWSTND-GVISAAFGLARARSAEGDRVGAVRT  556 (681)
T ss_dssp             HTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCC-chHHHHHHHHHHHHHcCCHHHHHHH
Confidence            666666666666666554 3345566666666666666666 666666665421 2455666666666666666666655


Q ss_pred             Hh
Q 005729          568 LE  569 (680)
Q Consensus       568 ~~  569 (680)
                      ++
T Consensus       557 ~~  558 (681)
T 2pzi_A          557 LD  558 (681)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>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=98.71  E-value=2e-06  Score=80.47  Aligned_cols=178  Identities=10%  Similarity=0.039  Sum_probs=135.0

Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC----CHHHHHHH
Q 005729          352 KDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRG----EWQRTFQV  427 (680)
Q Consensus       352 ~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g----~~~~A~~l  427 (680)
                      .+|.+.|++..+.|   +...+..|...|...+++++|++.|++..+.+   +...+..+...|.. +    ++++|++.
T Consensus         3 ~eA~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~   75 (212)
T 3rjv_A            3 TEPGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQL   75 (212)
T ss_dssp             -CTTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHH
T ss_pred             chHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHH
Confidence            35677788887765   78888888889989999999999999988764   56777777777777 6    88999999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHc----cCCHHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHHH----cCChhHHHHHH
Q 005729          428 LKEMKSSGVEPDTHFYNVMIDTFGK----YNCLHHAMAAFDRMLSEGIE-PDTITWNTLIDCHFK----CGRYDRAEELF  498 (680)
Q Consensus       428 ~~~m~~~~~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~~~-~~~~~~~~li~~~~~----~g~~~~A~~~~  498 (680)
                      |++..+.|   +...+..|...|..    .+++++|...|.+..+.+.. .+...+..|...|..    .+++++|+.+|
T Consensus        76 ~~~A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~  152 (212)
T 3rjv_A           76 AEKAVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYF  152 (212)
T ss_dssp             HHHHHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHH
T ss_pred             HHHHHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHH
Confidence            98887754   56677777777876    78888999988888876521 126777888888887    77888888888


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHhc-C-----CHHHHHHHHHHHHHCCC
Q 005729          499 EEMQERGYFPCTTTYNIMINLLGEQ-E-----RWEDVKRLLGNMRAQGL  541 (680)
Q Consensus       499 ~~m~~~~~~p~~~t~~~li~~~~~~-g-----~~~~A~~~~~~m~~~~~  541 (680)
                      ++..+.+  .+...+..|...|... |     +.++|...+++..+.|.
T Consensus       153 ~~A~~~~--~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          153 KGSSSLS--RTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             HHHHHTS--CTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHcC--CCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCC
Confidence            8887762  2444666666666543 2     78888888888887663

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.68  E-value=9.4e-06  Score=79.81  Aligned_cols=169  Identities=8%  Similarity=-0.008  Sum_probs=94.1

Q ss_pred             CHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcC--ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH----HHc---C
Q 005729          280 DASKAMRFLGMAQGVGLSPK-TATYAAVITALSNSG--RTIEAEAVFEELKESGLKPRTKAYNALLKGY----VKM---G  349 (680)
Q Consensus       280 ~~~~A~~~~~~~~~~g~~p~-~~~~~~li~~~~~~g--~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~----~~~---g  349 (680)
                      ..++|++.++.++..  .|+ ...|+.--..+...|  ++++++++++.+..... -+..+|+.--..+    ...   +
T Consensus        48 ~s~~aL~~t~~~L~~--nP~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nP-k~y~aW~~R~~iL~~~~~~l~~~~  124 (306)
T 3dra_A           48 YSERALHITELGINE--LASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNE-KNYQIWNYRQLIIGQIMELNNNDF  124 (306)
T ss_dssp             CSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCT-TCCHHHHHHHHHHHHHHHHTTTCC
T ss_pred             CCHHHHHHHHHHHHH--CcHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCc-ccHHHHHHHHHHHHHHHHhccccC
Confidence            335777777777664  343 455777777777777  77777777777776542 2445554444443    334   5


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHH--HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC------H
Q 005729          350 YLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWE--SARIVLKEMEVSHAKPNSFIYSRILAGYRDRGE------W  421 (680)
Q Consensus       350 ~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~--~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~------~  421 (680)
                      +++++..+++.+.+.. +.+..+|+.-.-.+.+.|+++  ++++.++++.+.++ .|...|+.....+...+.      +
T Consensus       125 ~~~~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~-~N~sAW~~R~~ll~~l~~~~~~~~~  202 (306)
T 3dra_A          125 DPYREFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDL-KNNSAWSHRFFLLFSKKHLATDNTI  202 (306)
T ss_dssp             CTHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHSSGGGCCHHHH
T ss_pred             CHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhccccchhhhH
Confidence            6667777777766654 236666666666666666666  66666666665542 355555544444444443      4


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccC
Q 005729          422 QRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYN  454 (680)
Q Consensus       422 ~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g  454 (680)
                      +++++.++++.... +-|...|+.+-..+.+.|
T Consensus       203 ~eEl~~~~~aI~~~-p~n~SaW~y~~~ll~~~~  234 (306)
T 3dra_A          203 DEELNYVKDKIVKC-PQNPSTWNYLLGIHERFD  234 (306)
T ss_dssp             HHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHhC-CCCccHHHHHHHHHHhcC
Confidence            44444444443332 333444444333333333

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.66  E-value=2e-05  Score=77.45  Aligned_cols=222  Identities=9%  Similarity=0.019  Sum_probs=173.9

Q ss_pred             cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcC--CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH----HHc---
Q 005729          313 SGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMG--YLKDAEFVVSEMERSGVLPDEHTYSLLIDAY----ANA---  383 (680)
Q Consensus       313 ~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g--~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~----~~~---  383 (680)
                      ....++|+++++.++..+ +-+...|+.--..+...|  +++++++.++.+...+.+ +..+|+.-...+    ...   
T Consensus        46 ~e~s~~aL~~t~~~L~~n-P~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk-~y~aW~~R~~iL~~~~~~l~~~  123 (306)
T 3dra_A           46 EEYSERALHITELGINEL-ASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEK-NYQIWNYRQLIIGQIMELNNND  123 (306)
T ss_dssp             TCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTT-CCHHHHHHHHHHHHHHHHTTTC
T ss_pred             CCCCHHHHHHHHHHHHHC-cHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcc-cHHHHHHHHHHHHHHHHhcccc
Confidence            344568999999999875 346677888888888888  999999999999987543 566776655555    555   


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHH--HHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCC------
Q 005729          384 GRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQ--RTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNC------  455 (680)
Q Consensus       384 g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~--~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~------  455 (680)
                      +++++++++++++.+.. +.+..+|+.-.-.+.+.|.++  ++++.++++.+.. +-|...|+.-...+.+.+.      
T Consensus       124 ~~~~~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d-~~N~sAW~~R~~ll~~l~~~~~~~~  201 (306)
T 3dra_A          124 FDPYREFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTD-LKNNSAWSHRFFLLFSKKHLATDNT  201 (306)
T ss_dssp             CCTHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHSSGGGCCHHH
T ss_pred             CCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccchhhh
Confidence            78999999999998875 458888888888888888888  9999999998875 5677888777777777666      


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhH-HHHHHHHHHHCC--CCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 005729          456 LHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDR-AEELFEEMQERG--YFPCTTTYNIMINLLGEQERWEDVKRL  532 (680)
Q Consensus       456 ~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~-A~~~~~~m~~~~--~~p~~~t~~~li~~~~~~g~~~~A~~~  532 (680)
                      ++++++.++.++... +-|...|+.+-..+.+.|+... +.++.+++.+.+  -+.+...+..+...+.+.|+.++|.++
T Consensus       202 ~~eEl~~~~~aI~~~-p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~  280 (306)
T 3dra_A          202 IDEELNYVKDKIVKC-PQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTV  280 (306)
T ss_dssp             HHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHH
Confidence            888888888888765 4588889888888888888444 555666665432  245778888889999999999999999


Q ss_pred             HHHHHHC
Q 005729          533 LGNMRAQ  539 (680)
Q Consensus       533 ~~~m~~~  539 (680)
                      ++.+.+.
T Consensus       281 ~~~l~~~  287 (306)
T 3dra_A          281 YDLLKSK  287 (306)
T ss_dssp             HHHHHHT
T ss_pred             HHHHHhc
Confidence            9998864

>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=3.2e-07  Score=83.08  Aligned_cols=159  Identities=12%  Similarity=0.097  Sum_probs=110.1

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH-HH
Q 005729          478 WNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDI-YG  556 (680)
Q Consensus       478 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~-~~  556 (680)
                      +..+...+.+.|++++|...|++..+.. +.+...+..+...+...|++++|...++++.+..  |+...+..+... +.
T Consensus         9 ~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~~   85 (176)
T 2r5s_A            9 LLKQVSELLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPLEY--QDNSYKSLIAKLELH   85 (176)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG--CCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc--CChHHHHHHHHHHHH
Confidence            4455566777888888888888776654 4567777788888888888888888888776643  344333222211 11


Q ss_pred             hcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC---HHHHHHH
Q 005729          557 QSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPS-NLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPD---VVTYTTL  632 (680)
Q Consensus       557 ~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~---~~~~~~l  632 (680)
                      ..+...+|+           ..+++...  ..|+ ...+..+..++...|++++|+..++++.+.  .|+   ...+..+
T Consensus        86 ~~~~~~~a~-----------~~~~~al~--~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~a~~~l  150 (176)
T 2r5s_A           86 QQAAESPEL-----------KRLEQELA--ANPDNFELACELAVQYNQVGRDEEALELLWNILKV--NLGAQDGEVKKTF  150 (176)
T ss_dssp             HHHTSCHHH-----------HHHHHHHH--HSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CTTTTTTHHHHHH
T ss_pred             hhcccchHH-----------HHHHHHHH--hCCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHh--CcccChHHHHHHH
Confidence            111222233           33444444  2454 568889999999999999999999999884  443   5688889


Q ss_pred             HHHHHhcCCcCcHHHHHHHHHH
Q 005729          633 MKALIRVDKFHKVPAVYEEMIL  654 (680)
Q Consensus       633 ~~~~~~~g~~~~A~~~~~~m~~  654 (680)
                      ...+...|+.++|...|++.+.
T Consensus       151 ~~~~~~~g~~~~A~~~y~~al~  172 (176)
T 2r5s_A          151 MDILSALGQGNAIASKYRRQLY  172 (176)
T ss_dssp             HHHHHHHCSSCHHHHHHHHHHH
T ss_pred             HHHHHHhCCCCcHHHHHHHHHH
Confidence            9999999999999999988764

>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=4.9e-07  Score=90.15  Aligned_cols=160  Identities=10%  Similarity=-0.007  Sum_probs=105.6

Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-----CH
Q 005729          476 ITWNTLIDCHFKCGRYDRAEELFEEMQER----GYFP-CTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLP-----NV  545 (680)
Q Consensus       476 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~----~~~p-~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p-----~~  545 (680)
                      .+|+.+...|.+.|++++|+..|++..+.    |-.. -..++..+...|.. |++++|...+++.++.....     ..
T Consensus        77 ~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~  155 (307)
T 2ifu_A           77 KAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAA  155 (307)
T ss_dssp             HHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHH
Confidence            35666777788888888888888876543    2111 13567777778877 99999999888877531110     14


Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC
Q 005729          546 VTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSN-LALNSLINAFGEDQRDAEAFAVLQYMKENGLKP  624 (680)
Q Consensus       546 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  624 (680)
                      .++..+...|.+.|++++|+..++.    +++++..   .+..+.. ..+..++.++...|++++|...|++.. .  .|
T Consensus       156 ~~~~~lg~~~~~~g~~~~A~~~~~~----al~~~~~---~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~al-~--~p  225 (307)
T 2ifu_A          156 ELIGKASRLLVRQQKFDEAAASLQK----EKSMYKE---MENYPTCYKKCIAQVLVQLHRADYVAAQKCVRESY-S--IP  225 (307)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHH----HHHHHHH---TTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT-T--ST
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHH----HHHHHHH---cCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHh-C--CC
Confidence            5788889999999999999988763    3333222   2222222 267777888888899999999999988 3  33


Q ss_pred             C---H---HHHHHHHHHHHhcCCcCcHHH
Q 005729          625 D---V---VTYTTLMKALIRVDKFHKVPA  647 (680)
Q Consensus       625 ~---~---~~~~~l~~~~~~~g~~~~A~~  647 (680)
                      +   .   .....++.++ ..|+.+.+.+
T Consensus       226 ~~~~~~e~~~l~~l~~~~-~~~d~~~~~~  253 (307)
T 2ifu_A          226 GFSGSEDCAALEDLLQAY-DEQDEEQLLR  253 (307)
T ss_dssp             TSTTSHHHHHHHHHHHHH-HTTCHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHH-HhcCHHHHHH
Confidence            2   1   2344455555 5666555544

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.65  E-value=9.6e-05  Score=78.45  Aligned_cols=353  Identities=10%  Similarity=-0.006  Sum_probs=205.8

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCCChHHHHHHHHHHHhC-CC-CcCHHHHHHHH
Q 005729          195 TYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLLQKLYKEIECD-KI-ELDGQLLNDVI  272 (680)
Q Consensus       195 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~~~~~~l~~~~~~~-~~-~~~~~~~~~li  272 (680)
                      +|...+..+-. |+++.|..+|++....  .|+...|...++-..+.+.. ....+.+|+..... |. ..+...|...+
T Consensus        17 vyer~l~~~P~-~~~e~~~~iferal~~--~ps~~LW~~Y~~f~~~~~~~-~~~i~~~fe~al~~vg~d~~s~~iW~~Yi   92 (493)
T 2uy1_A           17 IMEHARRLYMS-KDYRSLESLFGRCLKK--SYNLDLWMLYIEYVRKVSQK-KFKLYEVYEFTLGQFENYWDSYGLYKEYI   92 (493)
T ss_dssp             HHHHHHHHHHT-TCHHHHHHHHHHHSTT--CCCHHHHHHHHHHHHHHC-----CTHHHHHHHHHHSTTCTTCHHHHHHHH
T ss_pred             HHHHHHHHCCC-CCHHHHHHHHHHHhcc--CCCHHHHHHHHHHHHHhCch-HHHHHHHHHHHHHHcCCCcccHHHHHHHH
Confidence            33334433333 6777777888777764  36777777777666555432 12345666665542 43 33566777666


Q ss_pred             HHHH----HcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh-------------cCChHHHHHHHHHHHHcCCCCCH
Q 005729          273 VGFA----KAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSN-------------SGRTIEAEAVFEELKESGLKPRT  335 (680)
Q Consensus       273 ~~~~----~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~-------------~g~~~~A~~l~~~m~~~g~~p~~  335 (680)
                      ..+.    ..|+.+.+.++|++.+......-...|......-..             .+.+..|..+++.+...--..+.
T Consensus        93 ~f~~~~~~~~~~~~~vR~iy~rAL~~P~~~~~~lw~~Y~~fE~~~~~~~~~~~~~~~~~~y~~ar~~y~~~~~~~~~~s~  172 (493)
T 2uy1_A           93 EEEGKIEDEQTRIEKIRNGYMRALQTPMGSLSELWKDFENFELELNKITGKKIVGDTLPIFQSSFQRYQQIQPLIRGWSV  172 (493)
T ss_dssp             HHTSSCSSHHHHHHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCSH
T ss_pred             HHHHhchhhhHHHHHHHHHHHHHHhChhhhHHHHHHHHHHHHHHhccccHHHHHHHHhHHHHHHHHHHHHHHHHHhhccH
Confidence            6543    235677788888877763111111223222221111             12233344444444321001134


Q ss_pred             HHHHHHHHHHHHcC--C-----HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHH
Q 005729          336 KAYNALLKGYVKMG--Y-----LKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIY  408 (680)
Q Consensus       336 ~~~~~li~~~~~~g--~-----~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~  408 (680)
                      ..|...+..-...+  -     .+.+..+|+++.... +.+...|...+..+.+.|+.++|..+|++....  +.+...|
T Consensus       173 ~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~ye~al~~~-p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l~  249 (493)
T 2uy1_A          173 KNAARLIDLEMENGMKLGGRPHESRMHFIHNYILDSF-YYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFLS  249 (493)
T ss_dssp             HHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHH
T ss_pred             HHHHHHHHHHhcCCccCcchhhHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHHH
Confidence            45655555432221  1     345677888888753 456888888888889999999999999999887  3333333


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCC---------C---CCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHH
Q 005729          409 SRILAGYRDRGEWQRTFQVLKEMKSSG---------V---EPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTI  476 (680)
Q Consensus       409 ~~ll~~~~~~g~~~~A~~l~~~m~~~~---------~---~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~  476 (680)
                      ..    |....+.++.   ++.+.+.-         .   ......|...+....+.+.++.|..+|++. +.. ..+..
T Consensus       250 ~~----y~~~~e~~~~---~~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~~-~~~~~  320 (493)
T 2uy1_A          250 LY----YGLVMDEEAV---YGDLKRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GNE-GVGPH  320 (493)
T ss_dssp             HH----HHHHTTCTHH---HHHHHHHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TTS-CCCHH
T ss_pred             HH----HHhhcchhHH---HHHHHHHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hCC-CCChH
Confidence            22    2222111111   22222110         0   011245666666666778899999999998 321 23444


Q ss_pred             HHHHHHHHHHHc-CChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 005729          477 TWNTLIDCHFKC-GRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIY  555 (680)
Q Consensus       477 ~~~~li~~~~~~-g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~  555 (680)
                      .|......-... ++.+.|..+|+...+.. +-+...+...++...+.|+.+.|..+|+++.     .....|...++.-
T Consensus       321 v~i~~A~lE~~~~~d~~~ar~ife~al~~~-~~~~~~~~~yid~e~~~~~~~~aR~l~er~~-----k~~~lw~~~~~fE  394 (493)
T 2uy1_A          321 VFIYCAFIEYYATGSRATPYNIFSSGLLKH-PDSTLLKEEFFLFLLRIGDEENARALFKRLE-----KTSRMWDSMIEYE  394 (493)
T ss_dssp             HHHHHHHHHHHHHCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHSC-----CBHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCChHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH-----HHHHHHHHHHHHH
Confidence            554322222223 36999999999998763 3345556667777788999999999999873     2577888888877


Q ss_pred             HhcCChHHHHHHHh
Q 005729          556 GQSGRFDDAIECLE  569 (680)
Q Consensus       556 ~~~g~~~~A~~~~~  569 (680)
                      ...|+.+.+.++++
T Consensus       395 ~~~G~~~~~r~v~~  408 (493)
T 2uy1_A          395 FMVGSMELFRELVD  408 (493)
T ss_dssp             HHHSCHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHH
Confidence            88899888887765

>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=98.65  E-value=3.2e-07  Score=102.27  Aligned_cols=173  Identities=8%  Similarity=-0.068  Sum_probs=140.1

Q ss_pred             HHcCCHHHHHHHHHHHH--------HCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc
Q 005729          381 ANAGRWESARIVLKEME--------VSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGK  452 (680)
Q Consensus       381 ~~~g~~~~A~~~~~~m~--------~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~  452 (680)
                      ...|++++|++.+++..        +.. +.+...+..+...+.+.|++++|.+.|++..+.. +.+...|..+..+|..
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDF-SESVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CC-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhccccccccc-ccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHH
Confidence            67888999999998887        332 3456778888888999999999999999988764 5577888889999999


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 005729          453 YNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRL  532 (680)
Q Consensus       453 ~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~  532 (680)
                      .|++++|...|++..+.. +.+...|..+..+|.+.|++++ ++.|++..+.+ +.+...|..+..++.+.|++++|...
T Consensus       480 ~g~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~  556 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDTF-PGELAPKLALAATAELAGNTDE-HKFYQTVWSTN-DGVISAAFGLARARSAEGDRVGAVRT  556 (681)
T ss_dssp             HTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC-CchHHHHHHHHHHHHHcCCHHHHHHH
Confidence            999999999999988765 3367788899999999999999 99999998876 56788899999999999999999999


Q ss_pred             HHHHHHCCCCCC-HHHHHHHHHHHHhcCC
Q 005729          533 LGNMRAQGLLPN-VVTYTTLVDIYGQSGR  560 (680)
Q Consensus       533 ~~~m~~~~~~p~-~~~~~~li~~~~~~g~  560 (680)
                      ++++.+.  .|+ ...+..+..++...|+
T Consensus       557 ~~~al~l--~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          557 LDEVPPT--SRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HHTSCTT--STTHHHHHHHHHHHTC----
T ss_pred             HHhhccc--CcccHHHHHHHHHHHHccCC
Confidence            9988874  454 5677777778766665

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.63  E-value=3.2e-06  Score=79.85  Aligned_cols=187  Identities=10%  Similarity=0.025  Sum_probs=107.8

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC-C-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCH--HHHH
Q 005729          334 RTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVL-P-DEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNS--FIYS  409 (680)
Q Consensus       334 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~--~~~~  409 (680)
                      +...+..+...+.+.|++++|...|+++.+.... + ....+..+..+|.+.|++++|+..|+++.+..+....  ..+.
T Consensus         3 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~   82 (225)
T 2yhc_A            3 PPNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMY   82 (225)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHH
Confidence            3445566777788889999999999988865322 1 1356777888888899999999999888876533221  2444


Q ss_pred             HHHHHHHh------------------cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCC
Q 005729          410 RILAGYRD------------------RGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGI  471 (680)
Q Consensus       410 ~ll~~~~~------------------~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~  471 (680)
                      .+..++..                  .|++++|...|+++.+.. +-+...+......          ..+...+     
T Consensus        83 ~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~-P~~~~a~~a~~~l----------~~~~~~~-----  146 (225)
T 2yhc_A           83 MRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGY-PNSQYTTDATKRL----------VFLKDRL-----  146 (225)
T ss_dssp             HHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTTC-TTCTTHHHHHHHH----------HHHHHHH-----
T ss_pred             HHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHC-cCChhHHHHHHHH----------HHHHHHH-----
Confidence            44444443                  334555555555544431 1111111110000          0000000     


Q ss_pred             CCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCH---HHHHHHHHHHHhcCCHHHHHHHHHHHHHCC
Q 005729          472 EPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCT---TTYNIMINLLGEQERWEDVKRLLGNMRAQG  540 (680)
Q Consensus       472 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~---~t~~~li~~~~~~g~~~~A~~~~~~m~~~~  540 (680)
                         ......+...|.+.|++++|...|+++++.. +.+.   ..+..+..++.+.|+.++|.+.++.+...+
T Consensus       147 ---~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~  214 (225)
T 2yhc_A          147 ---AKYEYSVAEYYTERGAWVAVVNRVEGMLRDY-PDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANS  214 (225)
T ss_dssp             ---HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCC
T ss_pred             ---HHHHHHHHHHHHHcCcHHHHHHHHHHHHHHC-cCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC
Confidence               0011234556677777777777777777653 1122   456667777777777777777777776653

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.63  E-value=7.6e-07  Score=87.76  Aligned_cols=63  Identities=13%  Similarity=0.089  Sum_probs=31.8

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 005729          300 TATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMER  363 (680)
Q Consensus       300 ~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  363 (680)
                      ...+..+...+.+.|++++|...|++..+.. +-+...+..+...+.+.|++++|...++++..
T Consensus       117 ~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~  179 (287)
T 3qou_A          117 EELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPL  179 (287)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCG
T ss_pred             hhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCch
Confidence            3344445555555555555555555555432 22444455555555555555555555555443

>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=98.63  E-value=1.3e-06  Score=87.00  Aligned_cols=123  Identities=6%  Similarity=-0.002  Sum_probs=75.0

Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHHHCCCC---C--CHHHHHHHHHHHHHcCChhHHHHHHHHHHHC----CCCCC-H
Q 005729          441 HFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIE---P--DTITWNTLIDCHFKCGRYDRAEELFEEMQER----GYFPC-T  510 (680)
Q Consensus       441 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~---~--~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----~~~p~-~  510 (680)
                      .++..+...|.. |++++|...|++..+....   +  ...+++.+...|.+.|++++|+..|++..+.    +..+. .
T Consensus       117 ~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  195 (307)
T 2ifu_A          117 MALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCY  195 (307)
T ss_dssp             HHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHH
Confidence            345556666666 7777777777766542100   0  1356777888888888888888888887653    21111 2


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC--CC--HHHHHHHHHHHHhcCChHHHHH
Q 005729          511 TTYNIMINLLGEQERWEDVKRLLGNMRAQGLL--PN--VVTYTTLVDIYGQSGRFDDAIE  566 (680)
Q Consensus       511 ~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~--p~--~~~~~~li~~~~~~g~~~~A~~  566 (680)
                      ..+..+...+...|++++|...+++.. ....  ..  ......++.+| ..|+.+...+
T Consensus       196 ~~~~~~g~~~~~~g~~~~A~~~~~~al-~~p~~~~~~e~~~l~~l~~~~-~~~d~~~~~~  253 (307)
T 2ifu_A          196 KKCIAQVLVQLHRADYVAAQKCVRESY-SIPGFSGSEDCAALEDLLQAY-DEQDEEQLLR  253 (307)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHT-TSTTSTTSHHHHHHHHHHHHH-HTTCHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHh-CCCCCCCCHHHHHHHHHHHHH-HhcCHHHHHH
Confidence            255556666777788888888888887 4211  11  12344555555 4566665554

>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=98.62  E-value=4.8e-07  Score=81.87  Aligned_cols=78  Identities=9%  Similarity=0.084  Sum_probs=39.1

Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHHcCChhHHHHHHHHHH
Q 005729          424 TFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEP-DTITWNTLIDCHFKCGRYDRAEELFEEMQ  502 (680)
Q Consensus       424 A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~  502 (680)
                      |...+++..+.. +.+...+..+...+...|++++|...|+++.+....+ +...+..+...|...|+.++|...|++.+
T Consensus        93 a~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~~y~~al  171 (176)
T 2r5s_A           93 ELKRLEQELAAN-PDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIASKYRRQL  171 (176)
T ss_dssp             HHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHHHHHHHH
Confidence            344444444332 2334555555555555555555555555555443211 23345555555555566655555555443

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.61  E-value=1.1e-06  Score=86.45  Aligned_cols=161  Identities=11%  Similarity=0.005  Sum_probs=105.4

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHH-HHHH
Q 005729          405 SFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWN-TLID  483 (680)
Q Consensus       405 ~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~-~li~  483 (680)
                      ...+..+...+...|++++|...|++..+.. +.+...+..+...+.+.|++++|...++++....  |+..... ....
T Consensus       117 ~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~--p~~~~~~~~~~~  193 (287)
T 3qou_A          117 EELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQD--QDTRYQGLVAQI  193 (287)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGG--CSHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhh--cchHHHHHHHHH
Confidence            3444555555666666666666666655543 4455666666677777777777777777665542  3433222 2223


Q ss_pred             HHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCChH
Q 005729          484 CHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLP-NVVTYTTLVDIYGQSGRFD  562 (680)
Q Consensus       484 ~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~  562 (680)
                      .+.+.++.++|...+++..+.. +.+...+..+...+...|++++|...+.++++..... +...+..++..|...|+.+
T Consensus       194 ~l~~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~  272 (287)
T 3qou_A          194 ELLXQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGTGD  272 (287)
T ss_dssp             HHHHHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCTTC
T ss_pred             HHHhhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCCCC
Confidence            3556677777788887777765 5567777788888888888888888888887753221 2567778888888888888


Q ss_pred             HHHHHHh
Q 005729          563 DAIECLE  569 (680)
Q Consensus       563 ~A~~~~~  569 (680)
                      +|...++
T Consensus       273 ~a~~~~r  279 (287)
T 3qou_A          273 ALASXYR  279 (287)
T ss_dssp             HHHHHHH
T ss_pred             cHHHHHH
Confidence            8777665

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.61  E-value=3.9e-06  Score=79.24  Aligned_cols=186  Identities=10%  Similarity=0.031  Sum_probs=130.9

Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC-C-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC--HHHHH
Q 005729          299 KTATYAAVITALSNSGRTIEAEAVFEELKESGLK-P-RTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPD--EHTYS  374 (680)
Q Consensus       299 ~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~-p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~--~~~~~  374 (680)
                      +...+..+...+.+.|++++|+..|+++.+.... + ....+..+..+|.+.|++++|...|+++.+......  ...+.
T Consensus         3 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~   82 (225)
T 2yhc_A            3 PPNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMY   82 (225)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHH
Confidence            3456667788899999999999999999986321 1 135788899999999999999999999987643211  12455


Q ss_pred             HHHHHHHH------------------cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 005729          375 LLIDAYAN------------------AGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGV  436 (680)
Q Consensus       375 ~li~~~~~------------------~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~  436 (680)
                      .+..+|..                  .|+.++|+..|+++.+..+. +...+......          ..+...+.    
T Consensus        83 ~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~P~-~~~a~~a~~~l----------~~~~~~~~----  147 (225)
T 2yhc_A           83 MRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGYPN-SQYTTDATKRL----------VFLKDRLA----  147 (225)
T ss_dssp             HHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTTCTT-CTTHHHHHHHH----------HHHHHHHH----
T ss_pred             HHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHCcC-ChhHHHHHHHH----------HHHHHHHH----
Confidence            55566654                  57899999999999876432 22222211110          00111111    


Q ss_pred             CCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCC----HHHHHHHHHHHHHcCChhHHHHHHHHHHHCC
Q 005729          437 EPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPD----TITWNTLIDCHFKCGRYDRAEELFEEMQERG  505 (680)
Q Consensus       437 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~  505 (680)
                          .....+...|.+.|++++|...|+.+.+..  |+    ...+..+..+|.+.|+.++|.+.++.+...+
T Consensus       148 ----~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~  214 (225)
T 2yhc_A          148 ----KYEYSVAEYYTERGAWVAVVNRVEGMLRDY--PDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANS  214 (225)
T ss_dssp             ----HHHHHHHHHHHHHTCHHHHHHHHHHHHHHS--TTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCC
T ss_pred             ----HHHHHHHHHHHHcCcHHHHHHHHHHHHHHC--cCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC
Confidence                112345677888999999999999988763  33    2467888899999999999999999888764

>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=98.59  E-value=1.6e-07  Score=82.43  Aligned_cols=82  Identities=10%  Similarity=0.003  Sum_probs=35.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcC
Q 005729          410 RILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCG  489 (680)
Q Consensus       410 ~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g  489 (680)
                      .+...|.+.|++++|.+.|++..+.. +-+..+|..+..+|.+.|++++|...|++..+.. +-+...|..+...|.+.|
T Consensus        36 ~la~~y~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~  113 (150)
T 4ga2_A           36 YFAKLYYEAKEYDLAKKYICTYINVQ-ERDPKAHRFLGLLYELEENTDKAVECYRRSVELN-PTQKDLVLKIAELLCKND  113 (150)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcC
Confidence            33444444444444444444443332 2334444444444444444444444444444332 123344444444444444


Q ss_pred             ChhH
Q 005729          490 RYDR  493 (680)
Q Consensus       490 ~~~~  493 (680)
                      ++++
T Consensus       114 ~~~~  117 (150)
T 4ga2_A          114 VTDG  117 (150)
T ss_dssp             SSSS
T ss_pred             ChHH
Confidence            4443

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.59  E-value=9.6e-06  Score=80.06  Aligned_cols=171  Identities=12%  Similarity=0.064  Sum_probs=126.1

Q ss_pred             HHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCH------HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC---CCC--
Q 005729          476 ITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCT------TTYNIMINLLGEQERWEDVKRLLGNMRAQGL---LPN--  544 (680)
Q Consensus       476 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~------~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~---~p~--  544 (680)
                      ..+...+..+...|++++|.+.+++..+.... ..      ..+..+...+...|++++|...+.+..+...   .+.  
T Consensus        76 ~~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~  154 (293)
T 2qfc_A           76 KQFKDQVIMLCKQKRYKEIYNKVWNELKKEEY-HPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQN  154 (293)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCC-CHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhccccC-ChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHH
Confidence            34556777888999999999999988775422 22      2234455667788999999999999886421   122  


Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC--
Q 005729          545 VVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPS--NLALNSLINAFGEDQRDAEAFAVLQYMKEN--  620 (680)
Q Consensus       545 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--  620 (680)
                      ..+++.+...|...|++++|...++    +|+++++..   +..+.  ..+|..+..+|.+.|++++|+.++++..+.  
T Consensus       155 ~~~~~~lg~~y~~~~~~~~A~~~~~----kal~~~~~~---~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~  227 (293)
T 2qfc_A          155 LYIENAIANIYAENGYLKKGIDLFE----QILKQLEAL---HDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISC  227 (293)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHH----HHHHHHHHS---CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHH----HHHHHHHhc---CccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHH
Confidence            4588999999999999999998876    333333321   11111  258899999999999999999999998752  


Q ss_pred             --CCCCC-HHHHHHHHHHHHhcCCcCcH-HHHHHHHHH
Q 005729          621 --GLKPD-VVTYTTLMKALIRVDKFHKV-PAVYEEMIL  654 (680)
Q Consensus       621 --g~~p~-~~~~~~l~~~~~~~g~~~~A-~~~~~~m~~  654 (680)
                        +.... ..+|..+..+|.+.|++++| ...+++.+.
T Consensus       228 ~~~~~~~~~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~  265 (293)
T 2qfc_A          228 RINSMALIGQLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HTTBCSSHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             hcCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHH
Confidence              11111 57888999999999999999 787888763

>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=98.59  E-value=1.1e-06  Score=96.02  Aligned_cols=153  Identities=10%  Similarity=0.002  Sum_probs=84.2

Q ss_pred             cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHH
Q 005729          313 SGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIV  392 (680)
Q Consensus       313 ~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~  392 (680)
                      .|++++|++.|++..+.. +.+...|..+...|.+.|++++|.+.+++..+.. +.+...+..+...|...|++++|.+.
T Consensus         2 ~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~   79 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVL   79 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            356667777777666542 2345666667777777777777777777766653 22466666666777777777777777


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcc---CCHHHHHHHHHHHHHC
Q 005729          393 LKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKY---NCLHHAMAAFDRMLSE  469 (680)
Q Consensus       393 ~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~---g~~~~A~~~~~~m~~~  469 (680)
                      +++..+.. +.+...+..+..+|.+.|++++|.+.|++..+.. +.+...+..+...+...   |+.++|.+.+++..+.
T Consensus        80 ~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~  157 (568)
T 2vsy_A           80 LQQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLL-PEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQ  157 (568)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhc
Confidence            77666543 2345566666666666666666666666665543 33455566666666666   6666666666666554

>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=98.59  E-value=1.6e-07  Score=82.49  Aligned_cols=145  Identities=10%  Similarity=-0.036  Sum_probs=111.1

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCh
Q 005729          412 LAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRY  491 (680)
Q Consensus       412 l~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~  491 (680)
                      ...+...|++++|+..+....... +.+...+..+...|.+.|++++|...|++..+.. +-+...|..+..+|.+.|++
T Consensus         4 G~~~~~~~~~e~ai~~~~~a~~~~-p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~   81 (150)
T 4ga2_A            4 GSMRRSKADVERYIASVQGSTPSP-RQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQ-ERDPKAHRFLGLLYELEENT   81 (150)
T ss_dssp             ---CCCHHHHHHHHHHHHHHSCSH-HHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHcChHHHHHHHHHHhcccC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCch
Confidence            344556678888888888776432 2234456678889999999999999999998875 44788999999999999999


Q ss_pred             hHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHH-HHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 005729          492 DRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRL-LGNMRAQGLLPNVVTYTTLVDIYGQSGR  560 (680)
Q Consensus       492 ~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~-~~~m~~~~~~p~~~~~~~li~~~~~~g~  560 (680)
                      ++|+..|++..+.. +-+...|..+...+.+.|++++|.+. +++..+... -+..+|......+...|+
T Consensus        82 ~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P-~~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A           82 DKAVECYRRSVELN-PTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFP-GSPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHST-TCHHHHHHHHHHHHTCCC
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCc-CCHHHHHHHHHHHHHhCc
Confidence            99999999998875 55688899999999999998776654 578887532 267777777777766664

>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=98.57  E-value=1.6e-06  Score=94.73  Aligned_cols=154  Identities=10%  Similarity=0.020  Sum_probs=92.1

Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 005729          348 MGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQV  427 (680)
Q Consensus       348 ~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l  427 (680)
                      .|++++|.+.+++..+.. +.+...|..+...|...|++++|++.|++..+.. +.+...+..+...|...|++++|.+.
T Consensus         2 ~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~   79 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVL   79 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            366777777777776553 2256677777777777777777777777776653 23566677777777777777777777


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc---CChhHHHHHHHHHHHC
Q 005729          428 LKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKC---GRYDRAEELFEEMQER  504 (680)
Q Consensus       428 ~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~---g~~~~A~~~~~~m~~~  504 (680)
                      +++..+.. +.+...+..+...|.+.|++++|.+.|++..+.. +.+...+..+...+...   |+.++|.+.+++..+.
T Consensus        80 ~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~  157 (568)
T 2vsy_A           80 LQQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLL-PEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQ  157 (568)
T ss_dssp             HHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhc
Confidence            77766553 4456666777777777777777777777766553 23456666667777777   7777777777776665


Q ss_pred             C
Q 005729          505 G  505 (680)
Q Consensus       505 ~  505 (680)
                      +
T Consensus       158 ~  158 (568)
T 2vsy_A          158 G  158 (568)
T ss_dssp             T
T ss_pred             C
Confidence            4

>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=98.55  E-value=4e-05  Score=75.50  Aligned_cols=211  Identities=13%  Similarity=0.089  Sum_probs=142.2

Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHH---HHHHHHHHHHcCChhHHHHHHHHHHHCC
Q 005729          429 KEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTIT---WNTLIDCHFKCGRYDRAEELFEEMQERG  505 (680)
Q Consensus       429 ~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~---~~~li~~~~~~g~~~~A~~~~~~m~~~~  505 (680)
                      ..+......|+..+...+...+.-.-+         .+.......+...   +...+..+...|++++|..++++..+..
T Consensus        35 s~~e~g~~~~~~~~l~~i~~~l~~~~~---------~~~~~~~~~~~~~~~~l~~~i~~~~~~~~y~~a~~~~~~~l~~~  105 (293)
T 3u3w_A           35 SRIESGAVYPSMDILQGIAAKLQIPII---------HFYEVLIYSDIERKKQFKDQVIMLCKQKRYKEIYNKVWNELKKE  105 (293)
T ss_dssp             HHHHTTSCCCCHHHHHHHHHHHTCCTH---------HHHHTTTSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHCCCCCCCHHHHHHHHHHhCcCHH---------HHhCCCCCCcchhHHHHHHHHHHHHHHhhHHHHHHHHHHHhccc
Confidence            333333346777776666665543211         1111111222332   3334677889999999999999988753


Q ss_pred             C-CCCH----HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-CC----HHHHHHHHHHHHhcCChHHHHHHHhhhHHHH
Q 005729          506 Y-FPCT----TTYNIMINLLGEQERWEDVKRLLGNMRAQGLL-PN----VVTYTTLVDIYGQSGRFDDAIECLEGLSDQA  575 (680)
Q Consensus       506 ~-~p~~----~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~-p~----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a  575 (680)
                      . .|+.    ..+..+...+...|++++|...+.++.+.... ++    ..+++.+...|...|++++|...++    +|
T Consensus       106 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~----~a  181 (293)
T 3u3w_A          106 EYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAIANIYAENGYLKKGIDLFE----QI  181 (293)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHHHHHHHHHTTCHHHHHHHHH----HH
T ss_pred             cCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHcCCHHHHHHHHH----HH
Confidence            1 2221    12334666677788999999999999984222 22    3478999999999999999998877    34


Q ss_pred             HHHHHHHHHCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHH----CCCCCC-HHHHHHHHHHHHhcCC-cCcHHHH
Q 005729          576 VNAFRVMRTDGLKPSN-LALNSLINAFGEDQRDAEAFAVLQYMKE----NGLKPD-VVTYTTLMKALIRVDK-FHKVPAV  648 (680)
Q Consensus       576 ~~~~~~m~~~g~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~----~g~~p~-~~~~~~l~~~~~~~g~-~~~A~~~  648 (680)
                      ++.++...  +..+.. .+|..+..+|.+.|++++|+.++++..+    .+..+. ..+|..+..+|.+.|+ +++|.+.
T Consensus       182 l~~~~~~~--~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~~A~~~  259 (293)
T 3u3w_A          182 LKQLEALH--DNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYYQRGECLRKLEYEEAEIEDA  259 (293)
T ss_dssp             HHHHHHSS--CCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHHHHHHHHHHTTCCHHHHHHH
T ss_pred             HHHHHhcc--cchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhCCcHHHHHHH
Confidence            44333321  122222 3789999999999999999999998875    232233 5788999999999995 5999999


Q ss_pred             HHHHHH
Q 005729          649 YEEMIL  654 (680)
Q Consensus       649 ~~~m~~  654 (680)
                      +++.+.
T Consensus       260 ~~~Al~  265 (293)
T 3u3w_A          260 YKKASF  265 (293)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            999874

>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=98.48  E-value=5e-05  Score=74.80  Aligned_cols=166  Identities=9%  Similarity=-0.026  Sum_probs=115.5

Q ss_pred             HHHHHccCCHHHHHHHHHHHHHCCC-CCCH----HHHHHHHHHHHHcCChhHHHHHHHHHHHCCCC-CC----HHHHHHH
Q 005729          447 IDTFGKYNCLHHAMAAFDRMLSEGI-EPDT----ITWNTLIDCHFKCGRYDRAEELFEEMQERGYF-PC----TTTYNIM  516 (680)
Q Consensus       447 i~~~~~~g~~~~A~~~~~~m~~~~~-~~~~----~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~-p~----~~t~~~l  516 (680)
                      +..+...|++++|...++...+... .++.    ..+..+...+...|++++|+..|++..+.... ++    ..+++.+
T Consensus        82 i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~l  161 (293)
T 3u3w_A           82 VIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAI  161 (293)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHHH
Confidence            5566777788888888877765321 1221    12334556666677888888888888763211 22    3368888


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHC-----CCCC-CHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCC
Q 005729          517 INLLGEQERWEDVKRLLGNMRAQ-----GLLP-NVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPS  590 (680)
Q Consensus       517 i~~~~~~g~~~~A~~~~~~m~~~-----~~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~  590 (680)
                      ...|...|++++|...++++.+.     +..+ ...++..+...|.+.|++++|++.++    +|+++..   ..+..+.
T Consensus       162 g~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~----~al~~~~---~~~~~~~  234 (293)
T 3u3w_A          162 ANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVN----KAIEISC---RINSMAL  234 (293)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH----HHHHHHH---HTTBCTT
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHH----HHHHHHH---HcCcHHH
Confidence            88888899999999888888742     1122 23478899999999999999998876    3443332   3333333


Q ss_pred             -HHHHHHHHHHHHhcC-CHHHHHHHHHHHHH
Q 005729          591 -NLALNSLINAFGEDQ-RDAEAFAVLQYMKE  619 (680)
Q Consensus       591 -~~~~~~li~~~~~~g-~~~~A~~~~~~m~~  619 (680)
                       ..+|..+..+|.+.| .+++|.+.++++..
T Consensus       235 ~~~~~~~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          235 IGQLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCcHHHHHHHHHHHHH
Confidence             458999999999999 57999999998874

>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=98.46  E-value=1.2e-05  Score=74.90  Aligned_cols=129  Identities=17%  Similarity=0.006  Sum_probs=106.5

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Q 005729          268 LNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVK  347 (680)
Q Consensus       268 ~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~  347 (680)
                      +..+...+...|++++|++.|++..    .|+...|..+...+.+.|++++|+..|++..+.. +.+...|..+...|..
T Consensus         9 ~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~~   83 (213)
T 1hh8_A            9 LWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQ   83 (213)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHH
Confidence            4556677888999999999998774    5678889999999999999999999999988764 4577888999999999


Q ss_pred             cCCHHHHHHHHHHHHHCCCCC---------------CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC
Q 005729          348 MGYLKDAEFVVSEMERSGVLP---------------DEHTYSLLIDAYANAGRWESARIVLKEMEVSHA  401 (680)
Q Consensus       348 ~g~~~~A~~~~~~m~~~g~~~---------------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~  401 (680)
                      .|++++|...|++..+.....               ....+..+...|.+.|++++|.+.|++..+...
T Consensus        84 ~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p  152 (213)
T 1hh8_A           84 TEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKS  152 (213)
T ss_dssp             TTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCC
T ss_pred             cccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCc
Confidence            999999999999988753221               136788888899999999999999999887643

>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=98.43  E-value=1.2e-05  Score=74.80  Aligned_cols=121  Identities=12%  Similarity=0.179  Sum_probs=57.9

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChh
Q 005729          413 AGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYD  492 (680)
Q Consensus       413 ~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~  492 (680)
                      ..+...|++++|...|++..    .|+...+..+...|.+.|++++|...|++..+.. +.+...|..+..+|...|+++
T Consensus        14 ~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~   88 (213)
T 1hh8_A           14 VLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKYD   88 (213)
T ss_dssp             HHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcccHH
Confidence            33444444444444444331    2344444444444444555555555554444332 223444555555555555555


Q ss_pred             HHHHHHHHHHHCCCCCC----------------HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 005729          493 RAEELFEEMQERGYFPC----------------TTTYNIMINLLGEQERWEDVKRLLGNMRAQ  539 (680)
Q Consensus       493 ~A~~~~~~m~~~~~~p~----------------~~t~~~li~~~~~~g~~~~A~~~~~~m~~~  539 (680)
                      +|...|++..+.. +.+                ...+..+...+.+.|++++|...+++..+.
T Consensus        89 ~A~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  150 (213)
T 1hh8_A           89 LAIKDLKEALIQL-RGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSM  150 (213)
T ss_dssp             HHHHHHHHHHHTT-TTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHhC-CCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHc
Confidence            5555555554432 111                144555555555566666666666555543

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.39  E-value=8e-05  Score=73.34  Aligned_cols=160  Identities=7%  Similarity=0.005  Sum_probs=107.2

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-----HHHHHHHHHHHHccCCHHHHHHHHHHHHHCCC---CCC--HHHHH
Q 005729          410 RILAGYRDRGEWQRTFQVLKEMKSSGVEPD-----THFYNVMIDTFGKYNCLHHAMAAFDRMLSEGI---EPD--TITWN  479 (680)
Q Consensus       410 ~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~-----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~---~~~--~~~~~  479 (680)
                      ..+..+...|++++|.+.+.+..+......     ...+..+...+...|++++|...+.+..+...   .+.  ..+|+
T Consensus        80 ~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  159 (293)
T 2qfc_A           80 DQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIEN  159 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHHHHH
Confidence            344556666666666666666554321111     12233455566777788888888887765321   112  45788


Q ss_pred             HHHHHHHHcCChhHHHHHHHHHHHC-CCCCC-----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCC-CHHHH
Q 005729          480 TLIDCHFKCGRYDRAEELFEEMQER-GYFPC-----TTTYNIMINLLGEQERWEDVKRLLGNMRAQ----GLLP-NVVTY  548 (680)
Q Consensus       480 ~li~~~~~~g~~~~A~~~~~~m~~~-~~~p~-----~~t~~~li~~~~~~g~~~~A~~~~~~m~~~----~~~p-~~~~~  548 (680)
                      .+...|...|++++|..+|++..+. ...|+     ..++..+...|...|++++|...+++..+.    +... -..+|
T Consensus       160 ~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~~~~  239 (293)
T 2qfc_A          160 AIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLY  239 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHHHHH
Confidence            8888889999999999999887621 00112     257888888899999999999999887653    1111 26788


Q ss_pred             HHHHHHHHhcCChHHH-HHHHh
Q 005729          549 TTLVDIYGQSGRFDDA-IECLE  569 (680)
Q Consensus       549 ~~li~~~~~~g~~~~A-~~~~~  569 (680)
                      ..+...|.+.|++++| ...++
T Consensus       240 ~~lg~~y~~~g~~~~Ai~~~~~  261 (293)
T 2qfc_A          240 YQRGECLRKLEYEEAEIEDAYK  261 (293)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHcCCcHHHHHHHHH
Confidence            8999999999999999 65554

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.38  E-value=3e-06  Score=74.08  Aligned_cols=112  Identities=13%  Similarity=0.056  Sum_probs=90.3

Q ss_pred             CCC-CHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 005729          541 LLP-NVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKP-SNLALNSLINAFGEDQRDAEAFAVLQYMK  618 (680)
Q Consensus       541 ~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~  618 (680)
                      +.| +...+..+...+.+.|++++|+..|+.           ...  ..| +...|..+..+|...|++++|+..|+++.
T Consensus        31 l~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~-----------al~--~~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al   97 (151)
T 3gyz_A           31 IPDDMMDDIYSYAYDFYNKGRIEEAEVFFRF-----------LCI--YDFYNVDYIMGLAAIYQIKEQFQQAADLYAVAF   97 (151)
T ss_dssp             SCHHHHHHHHHHHHHHHHTTCHHHHHHHHHH-----------HHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHcCCHHHHHHHHHH-----------HHH--hCCCCHHHHHHHHHHHHHHccHHHHHHHHHHHH
Confidence            344 455778888999999999999888663           332  245 45689999999999999999999999999


Q ss_pred             HCCCCC-CHHHHHHHHHHHHhcCCcCcHHHHHHHHHHcCCCCCHHHHHHHHH
Q 005729          619 ENGLKP-DVVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPDRKARAMLRS  669 (680)
Q Consensus       619 ~~g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd~~~~~~l~~  669 (680)
                      +  +.| ++..|..+..+|.+.|++++|...|++.++.  .||.........
T Consensus        98 ~--l~P~~~~~~~~lg~~~~~lg~~~eA~~~~~~al~l--~~~~~~~~~A~~  145 (151)
T 3gyz_A           98 A--LGKNDYTPVFHTGQCQLRLKAPLKAKECFELVIQH--SNDEKLKIKAQS  145 (151)
T ss_dssp             H--HSSSCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHH
T ss_pred             h--hCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCHHHHHHHHH
Confidence            8  445 5788999999999999999999999999985  677764444333

>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=98.38  E-value=0.00027  Score=70.25  Aligned_cols=217  Identities=10%  Similarity=0.033  Sum_probs=96.0

Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcC-CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc-C-CHHHHHHHHH
Q 005729          318 EAEAVFEELKESGLKPRTKAYNALLKGYVKMG-YLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANA-G-RWESARIVLK  394 (680)
Q Consensus       318 ~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g-~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~-g-~~~~A~~~~~  394 (680)
                      +|++++++++..+ +-+..+|+.--..+...| .+++++++++.+.....+ +..+|+.-...+.+. + +.++++++++
T Consensus        72 ~AL~lt~~~L~~n-P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPK-ny~aW~hR~wlL~~l~~~~~~~EL~~~~  149 (349)
T 3q7a_A           72 RALELTEIIVRMN-PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLK-SYQVWHHRLLLLDRISPQDPVSEIEYIH  149 (349)
T ss_dssp             HHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCC-CHHHHHHHHHHHHHHCCSCCHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHhcCCChHHHHHHHH
Confidence            3444444444332 113333333333333334 244444444444443322 344444433333333 3 4444444444


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHhcCCHH--------HHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCC-------HHHH
Q 005729          395 EMEVSHAKPNSFIYSRILAGYRDRGEWQ--------RTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNC-------LHHA  459 (680)
Q Consensus       395 ~m~~~~~~~~~~~~~~ll~~~~~~g~~~--------~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~-------~~~A  459 (680)
                      ++.+.. +.|..+|+.-.-.+.+.|.++        ++++.++++.+.. +-|...|+.....+.+.+.       ++++
T Consensus       150 k~L~~d-pkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d-p~N~SAW~~R~~lL~~l~~~~~~~~~~~eE  227 (349)
T 3q7a_A          150 GSLLPD-PKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD-GRNNSAWGWRWYLRVSRPGAETSSRSLQDE  227 (349)
T ss_dssp             HHTSSC-TTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHTTSTTCCCCHHHHHHH
T ss_pred             HHHHhC-CCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccccchHHHHHH
Confidence            444332 223334433333332222222        4555555554433 3344455544444444443       4555


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCh--------------------hHHHHHHHHHHHCC-----CCCCHHHHH
Q 005729          460 MAAFDRMLSEGIEPDTITWNTLIDCHFKCGRY--------------------DRAEELFEEMQERG-----YFPCTTTYN  514 (680)
Q Consensus       460 ~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~--------------------~~A~~~~~~m~~~~-----~~p~~~t~~  514 (680)
                      ++.+++..... +-|...|+.+-..+.+.|+.                    ....+...++...+     -.++...+.
T Consensus       228 Le~~~~aI~~~-P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~  306 (349)
T 3q7a_A          228 LIYILKSIHLI-PHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTPLPVPLALE  306 (349)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCSSCCSCCHHHHH
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcccccccCCCcHHHHH
Confidence            55555555443 33555555555555544442                    12222222222211     135666677


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHC
Q 005729          515 IMINLLGEQERWEDVKRLLGNMRAQ  539 (680)
Q Consensus       515 ~li~~~~~~g~~~~A~~~~~~m~~~  539 (680)
                      .++..|...|+.++|.++++.+.+.
T Consensus       307 ~l~d~~~~~~~~~~a~~~~~~l~~~  331 (349)
T 3q7a_A          307 YLADSFIEQNRVDDAAKVFEKLSSE  331 (349)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhh
Confidence            7777777777777777777777643

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=98.38  E-value=1.4e-05  Score=70.73  Aligned_cols=61  Identities=8%  Similarity=-0.103  Sum_probs=24.3

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 005729          477 TWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRA  538 (680)
Q Consensus       477 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~  538 (680)
                      .+..+...+...|++++|...|++..+.. +.+...|..+...+...|++++|...++++.+
T Consensus        49 ~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~  109 (166)
T 1a17_A           49 YYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKFRAALRDYETVVK  109 (166)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            33333334444444444444444433332 22333344444444444444444444444433

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.36  E-value=1.7e-05  Score=66.06  Aligned_cols=26  Identities=31%  Similarity=0.616  Sum_probs=10.2

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHH
Q 005729          477 TWNTLIDCHFKCGRYDRAEELFEEMQ  502 (680)
Q Consensus       477 ~~~~li~~~~~~g~~~~A~~~~~~m~  502 (680)
                      .+..+...|...|++++|...|+++.
T Consensus        79 ~~~~la~~~~~~~~~~~A~~~~~~~~  104 (125)
T 1na0_A           79 AWYNLGNAYYKQGDYDEAIEYYQKAL  104 (125)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            33333333334444444444443333

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.36  E-value=7.1e-06  Score=75.62  Aligned_cols=160  Identities=13%  Similarity=0.037  Sum_probs=101.9

Q ss_pred             ccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHC----CC-CCCHHHHHHHHHHHHhcCCH
Q 005729          452 KYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQER----GY-FPCTTTYNIMINLLGEQERW  526 (680)
Q Consensus       452 ~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----~~-~p~~~t~~~li~~~~~~g~~  526 (680)
                      ..|++++|.+.++.+... .......+..+...|...|++++|...+++..+.    +. ......+..+...+...|++
T Consensus         4 ~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~   82 (203)
T 3gw4_A            4 EAHDYALAERQAQALLAH-PATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNW   82 (203)
T ss_dssp             ---CHHHHHHHHHHHHTS-TTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             ccccHHHHHHHHHHhcCC-hHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCH
Confidence            456677777744444331 1234566777777778888888888888776651    11 12245567777778888888


Q ss_pred             HHHHHHHHHHHHC----CCCC--CHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCC-CHHHHHHHHH
Q 005729          527 EDVKRLLGNMRAQ----GLLP--NVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKP-SNLALNSLIN  599 (680)
Q Consensus       527 ~~A~~~~~~m~~~----~~~p--~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~li~  599 (680)
                      ++|...+.+..+.    +-.+  ....+..+...+...|++++|...++.    ++.+..   ..+... -..++..+..
T Consensus        83 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~----al~~~~---~~~~~~~~~~~~~~la~  155 (203)
T 3gw4_A           83 DAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEK----SLVYAQ---QADDQVAIACAFRGLGD  155 (203)
T ss_dssp             HHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHH----HHHHHH---HTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHH----HHHHHH---hccchHHHHHHHHHHHH
Confidence            8888888877653    1111  234577788888889999999887763    333322   211111 1235677888


Q ss_pred             HHHhcCCHHHHHHHHHHHHH
Q 005729          600 AFGEDQRDAEAFAVLQYMKE  619 (680)
Q Consensus       600 ~~~~~g~~~~A~~~~~~m~~  619 (680)
                      ++...|++++|...+++..+
T Consensus       156 ~~~~~g~~~~A~~~~~~al~  175 (203)
T 3gw4_A          156 LAQQEKNLLEAQQHWLRARD  175 (203)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHCcCHHHHHHHHHHHHH
Confidence            88889999999888887764

>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=98.36  E-value=0.00019  Score=71.25  Aligned_cols=236  Identities=11%  Similarity=0.027  Sum_probs=156.1

Q ss_pred             HcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC-ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHc-C-CHHH
Q 005729          277 KAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSG-RTIEAEAVFEELKESGLKPRTKAYNALLKGYVKM-G-YLKD  353 (680)
Q Consensus       277 ~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g-~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~-g-~~~~  353 (680)
                      +.+..++|+++++.++... +-+..+|+..-..+...| .+++++++++.+.... +-+..+|+.-...+.+. + ++++
T Consensus        66 ~~e~se~AL~lt~~~L~~n-P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wlL~~l~~~~~~~  143 (349)
T 3q7a_A           66 KEEKSERALELTEIIVRMN-PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLLLDRISPQDPVS  143 (349)
T ss_dssp             TTCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHHHCCSCCHH
T ss_pred             hCCCCHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhcCCChHH
Confidence            3345567888888877643 224556777777777777 4888888888888764 34667777776666666 6 7788


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHH--------HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC-----
Q 005729          354 AEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWE--------SARIVLKEMEVSHAKPNSFIYSRILAGYRDRGE-----  420 (680)
Q Consensus       354 A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~--------~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~-----  420 (680)
                      ++++++.+.+... .|..+|+--.-.+.+.|.++        ++++.++++.+.. +-|...|+.....+.+.+.     
T Consensus       144 EL~~~~k~L~~dp-kNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d-p~N~SAW~~R~~lL~~l~~~~~~~  221 (349)
T 3q7a_A          144 EIEYIHGSLLPDP-KNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD-GRNNSAWGWRWYLRVSRPGAETSS  221 (349)
T ss_dssp             HHHHHHHHTSSCT-TCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHTTSTTCCCCH
T ss_pred             HHHHHHHHHHhCC-CCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccccch
Confidence            8888888887653 37777777666666655555        8888888887765 3477778777777777665     


Q ss_pred             --HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCH--------------------HHHHHHHHHHHHCC-----CCC
Q 005729          421 --WQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCL--------------------HHAMAAFDRMLSEG-----IEP  473 (680)
Q Consensus       421 --~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~--------------------~~A~~~~~~m~~~~-----~~~  473 (680)
                        ++++++.++++.... +-|...|+.+-..+.+.|..                    .........+...+     -.+
T Consensus       222 ~~~~eELe~~~~aI~~~-P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  300 (349)
T 3q7a_A          222 RSLQDELIYILKSIHLI-PHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTPLP  300 (349)
T ss_dssp             HHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCSSCCSC
T ss_pred             HHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcccccccCCC
Confidence              678888888877654 56777777666666554432                    22222222222211     135


Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHH
Q 005729          474 DTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMI  517 (680)
Q Consensus       474 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li  517 (680)
                      ....+..++..|...|+.++|.++++.+.+.--+....-|+-.+
T Consensus       301 s~~al~~l~d~~~~~~~~~~a~~~~~~l~~~~dpir~~yw~~~~  344 (349)
T 3q7a_A          301 VPLALEYLADSFIEQNRVDDAAKVFEKLSSEYDQMRAGYWEFRR  344 (349)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCGGGHHHHHHHH
T ss_pred             cHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhhChHHHHHHHHHH
Confidence            77788889999999999999999999987542133344444433

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.34  E-value=1.4e-05  Score=67.41  Aligned_cols=61  Identities=13%  Similarity=0.138  Sum_probs=23.0

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 005729          477 TWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRA  538 (680)
Q Consensus       477 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~  538 (680)
                      .|..+..+|.+.|++++|+..|++.++.+ +.+...|..+..++...|++++|.+.|++.++
T Consensus        49 ~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~  109 (126)
T 4gco_A           49 LYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYIRKAACLVAMREWSKAQRAYEDALQ  109 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            33333333333333333333333333332 22333333333333333333333333333333

>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=98.34  E-value=2.1e-05  Score=69.62  Aligned_cols=94  Identities=10%  Similarity=0.058  Sum_probs=39.2

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc
Q 005729          373 YSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGK  452 (680)
Q Consensus       373 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~  452 (680)
                      +..+...+...|++++|...|++..... +.+...+..+...+...|++++|...+++..+.. +.+...+..+...+..
T Consensus        16 ~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~   93 (166)
T 1a17_A           16 LKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMA   93 (166)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHH
Confidence            3334444444444444444444443322 1233344444444444444444444444433322 2233344444444444


Q ss_pred             cCCHHHHHHHHHHHHH
Q 005729          453 YNCLHHAMAAFDRMLS  468 (680)
Q Consensus       453 ~g~~~~A~~~~~~m~~  468 (680)
                      .|++++|...|++..+
T Consensus        94 ~~~~~~A~~~~~~a~~  109 (166)
T 1a17_A           94 LGKFRAALRDYETVVK  109 (166)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             hccHHHHHHHHHHHHH
Confidence            4444444444444443

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.34  E-value=2.2e-05  Score=65.38  Aligned_cols=116  Identities=14%  Similarity=0.167  Sum_probs=92.4

Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 005729          440 THFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINL  519 (680)
Q Consensus       440 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~  519 (680)
                      ...+..+...+...|++++|...++++.+.. +.+...+..+...+.+.|++++|..+|+++.+.. +.+..++..+...
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~   86 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNA   86 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHH
Confidence            4567777778888888888888888887654 3467788889999999999999999999998875 5678888999999


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 005729          520 LGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQS  558 (680)
Q Consensus       520 ~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~  558 (680)
                      +...|++++|...++++.+.. +.+...+..+...+.+.
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~  124 (125)
T 1na0_A           87 YYKQGDYDEAIEYYQKALELD-PNNAEAKQNLGNAKQKQ  124 (125)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHhc
Confidence            999999999999999998863 23566666666655443

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.30  E-value=2.1e-05  Score=66.36  Aligned_cols=108  Identities=9%  Similarity=0.101  Sum_probs=85.3

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 005729          406 FIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCH  485 (680)
Q Consensus       406 ~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~  485 (680)
                      ..+......|.+.|++++|++.|++..+.. +.+...|..+..+|.+.|++++|+..|++.++.. +.+...|..+..+|
T Consensus        14 ~~~~~~G~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~   91 (126)
T 4gco_A           14 QEEKNKGNEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYIRKAACL   91 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHHHHHHHH
Confidence            467777888888899999999888887764 5678888888888888899999998888888764 34677888888888


Q ss_pred             HHcCChhHHHHHHHHHHHCCCCCCHHHHHHH
Q 005729          486 FKCGRYDRAEELFEEMQERGYFPCTTTYNIM  516 (680)
Q Consensus       486 ~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~l  516 (680)
                      ...|++++|.+.|++.++.. +-+...+..+
T Consensus        92 ~~~~~~~~A~~~~~~al~l~-P~~~~a~~~l  121 (126)
T 4gco_A           92 VAMREWSKAQRAYEDALQVD-PSNEEAREGV  121 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHC-cCCHHHHHHH
Confidence            88899999999988888765 4445554444

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.29  E-value=1.8e-05  Score=66.99  Aligned_cols=95  Identities=8%  Similarity=0.135  Sum_probs=40.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 005729          407 IYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHF  486 (680)
Q Consensus       407 ~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~  486 (680)
                      .+..+...+...|++++|...|++..+.. +.+...+..+...+...|++++|...+++..+.. +.+...+..+..+|.
T Consensus        18 ~~~~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~   95 (133)
T 2lni_A           18 MVKNKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRKAAALE   95 (133)
T ss_dssp             HHHHHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHHHHHHH
Confidence            33334444444444444444444443322 2233444444444444444444444444444332 123344444444444


Q ss_pred             HcCChhHHHHHHHHHHH
Q 005729          487 KCGRYDRAEELFEEMQE  503 (680)
Q Consensus       487 ~~g~~~~A~~~~~~m~~  503 (680)
                      +.|++++|.+.|++..+
T Consensus        96 ~~~~~~~A~~~~~~~~~  112 (133)
T 2lni_A           96 AMKDYTKAMDVYQKALD  112 (133)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HHhhHHHHHHHHHHHHH
Confidence            44444444444444443

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.27  E-value=8.3e-06  Score=75.16  Aligned_cols=24  Identities=13%  Similarity=0.170  Sum_probs=11.6

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHH
Q 005729          478 WNTLIDCHFKCGRYDRAEELFEEM  501 (680)
Q Consensus       478 ~~~li~~~~~~g~~~~A~~~~~~m  501 (680)
                      +..+...+...|++++|...+++.
T Consensus       110 ~~~lg~~~~~~g~~~~A~~~~~~a  133 (203)
T 3gw4_A          110 AYEVATVALHFGDLAGARQEYEKS  133 (203)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHH
Confidence            444444444555555555554444

>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=98.27  E-value=7.2e-06  Score=80.38  Aligned_cols=94  Identities=13%  Similarity=-0.018  Sum_probs=44.6

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 005729          301 ATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAY  380 (680)
Q Consensus       301 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~  380 (680)
                      ..+..+...+.+.|++++|+..|++..+.. +.+...|..+...|.+.|++++|...+++..+.. +.+...+..+..+|
T Consensus         5 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~   82 (281)
T 2c2l_A            5 QELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQCQ   82 (281)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            344444555555555555555555554432 2244444445555555555555555555544432 12344444444444


Q ss_pred             HHcCCHHHHHHHHHHH
Q 005729          381 ANAGRWESARIVLKEM  396 (680)
Q Consensus       381 ~~~g~~~~A~~~~~~m  396 (680)
                      ...|++++|+..|++.
T Consensus        83 ~~~g~~~~A~~~~~~a   98 (281)
T 2c2l_A           83 LEMESYDEAIANLQRA   98 (281)
T ss_dssp             HHTTCHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHH
Confidence            4445555544444444

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.26  E-value=2e-05  Score=66.24  Aligned_cols=61  Identities=13%  Similarity=0.013  Sum_probs=23.7

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 005729          477 TWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRA  538 (680)
Q Consensus       477 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~  538 (680)
                      .+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|...+++..+
T Consensus        48 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  108 (131)
T 2vyi_A           48 YFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGLALSSLNKHVEAVAYYKKALE  108 (131)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHHHHHHhCCHHHHHHHHHHHHh
Confidence            33333333334444444444444333332 22233333333444444444444444444433

>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=98.26  E-value=1.5e-05  Score=78.00  Aligned_cols=195  Identities=8%  Similarity=-0.013  Sum_probs=130.3

Q ss_pred             CCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHH
Q 005729          438 PDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMI  517 (680)
Q Consensus       438 p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li  517 (680)
                      .+...+..+...+.+.|++++|...|+...+.. +.+...|..+..+|.+.|++++|...+++..+.. +.+...+..+.
T Consensus         2 ~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg   79 (281)
T 2c2l_A            2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLG   79 (281)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHH
Confidence            356677888889999999999999999988764 3478888999999999999999999999998875 56788888899


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHHHHHHH
Q 005729          518 NLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSL  597 (680)
Q Consensus       518 ~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l  597 (680)
                      .++...|++++|...+.+..+.+.. +...+...+....+..   ++            ..+..........+......+
T Consensus        80 ~~~~~~g~~~~A~~~~~~al~l~p~-~~~~~~~~~~~~~~~~---~~------------~~~~~~~~~~~~~~~~i~~~l  143 (281)
T 2c2l_A           80 QCQLEMESYDEAIANLQRAYSLAKE-QRLNFGDDIPSALRIA---KK------------KRWNSIEERRIHQESELHSYL  143 (281)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHH-TTCCCCSHHHHHHHHH---HH------------HHHHHHHHTCCCCCCHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCcc-chhhHHHHHHHHHHHH---HH------------HHHHHHHHHHHhhhHHHHHHH
Confidence            9999999999999999988764210 0001111111111110   00            012222333334444444444


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHhc-CCcCcHHHHHHHHHH
Q 005729          598 INAFGEDQRDAEAFAVLQYMKENGLKPDVV-TYTTLMKALIRV-DKFHKVPAVYEEMIL  654 (680)
Q Consensus       598 i~~~~~~g~~~~A~~~~~~m~~~g~~p~~~-~~~~l~~~~~~~-g~~~~A~~~~~~m~~  654 (680)
                      ...+  .|++++|++.+++..+  ..|+.. ....+...+.+. +.+++|.++|+++.+
T Consensus       144 ~~l~--~~~~~~A~~~~~~al~--~~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~  198 (281)
T 2c2l_A          144 TRLI--AAERERELEECQRNHE--GHEDDGHIRAQQACIEAKHDKYMADMDELFSQVDE  198 (281)
T ss_dssp             HHHH--HHHHHHHHTTTSGGGT--TTSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSC
T ss_pred             HHHH--HHHHHHHHHHHHhhhc--cccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            3322  6889999998888876  456543 334444444444 667888888887764

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.26  E-value=2.7e-05  Score=65.46  Aligned_cols=120  Identities=5%  Similarity=-0.062  Sum_probs=101.5

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 005729          404 NSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLID  483 (680)
Q Consensus       404 ~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~  483 (680)
                      +...+..+...+...|++++|...+++..... +.+...+..+...+...|++++|...++...+.. +.+...+..+..
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~   88 (131)
T 2vyi_A           11 EAERLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGL   88 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHH
Confidence            45678888899999999999999999988764 5578889999999999999999999999988764 346788999999


Q ss_pred             HHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH
Q 005729          484 CHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERW  526 (680)
Q Consensus       484 ~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~  526 (680)
                      .|.+.|++++|...|++..+.. +.+...+..+...+.+.|++
T Consensus        89 ~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           89 ALSSLNKHVEAVAYYKKALELD-PDNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTTC
T ss_pred             HHHHhCCHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHhcC
Confidence            9999999999999999998875 45677787777777776653

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.25  E-value=2.7e-05  Score=74.82  Aligned_cols=189  Identities=14%  Similarity=0.038  Sum_probs=103.8

Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHH-------HHHHHHcCChhHHHHHHHHHHH------------CCCC------
Q 005729          453 YNCLHHAMAAFDRMLSEGIEPDTITWNTL-------IDCHFKCGRYDRAEELFEEMQE------------RGYF------  507 (680)
Q Consensus       453 ~g~~~~A~~~~~~m~~~~~~~~~~~~~~l-------i~~~~~~g~~~~A~~~~~~m~~------------~~~~------  507 (680)
                      .++...|.+.|.++.+.. +-....|..+       ...+.+.++..+++..+..-.+            .|.-      
T Consensus        19 ~~d~~~A~~~F~~a~~~d-P~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~l~p~~l~a~~~~~g~y~~~~~~   97 (282)
T 4f3v_A           19 PMSEARSLDLFTEITNYD-ESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQISMSTLNARIAIGGLYGDITYP   97 (282)
T ss_dssp             TTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTTCCGGGGCCEEECCTTTCCCEEE
T ss_pred             CCCHHHHHHHHHHHHHhC-hhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhcCChhhhhhhhccCCcccccccc
Confidence            455666666666665543 2234455555       3444444444444444444333            1100      


Q ss_pred             --CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHC
Q 005729          508 --PCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTD  585 (680)
Q Consensus       508 --p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~  585 (680)
                        --...+..+...+...|++++|.++|..+...+  |+......+...+.+.+++++|+..++..           .. 
T Consensus        98 v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a-----------~~-  163 (282)
T 4f3v_A           98 VTSPLAITMGFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSA-----------GK-  163 (282)
T ss_dssp             CSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTG-----------GG-
T ss_pred             cCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHh-----------hc-
Confidence              001223344556666777777777776665532  43334555555666777777776665411           11 


Q ss_pred             CCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHhcCCcCcHHHHHHHHHHcCCCC
Q 005729          586 GLKPS----NLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPD--VVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTP  659 (680)
Q Consensus       586 g~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~p  659 (680)
                        .|+    ...+..+..++...|++++|+..|++.......|.  .........++.+.|+.++|...|+++...  .|
T Consensus       164 --~~d~~~~~~a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~--~P  239 (282)
T 4f3v_A          164 --WPDKFLAGAAGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTT--HP  239 (282)
T ss_dssp             --CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--SC
T ss_pred             --cCCcccHHHHHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CC
Confidence              121    22556667777777777777777777764322243  335566666777777777777777777764  44


Q ss_pred             C
Q 005729          660 D  660 (680)
Q Consensus       660 d  660 (680)
                      +
T Consensus       240 ~  240 (282)
T 4f3v_A          240 E  240 (282)
T ss_dssp             C
T ss_pred             c
Confidence            4

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.21  E-value=2.2e-05  Score=66.44  Aligned_cols=120  Identities=8%  Similarity=-0.045  Sum_probs=97.4

Q ss_pred             CCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHH
Q 005729          437 EPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIM  516 (680)
Q Consensus       437 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~l  516 (680)
                      +.+...+..+...+...|++++|...|++..+.. +.+...+..+...|...|++++|...|++..+.. +.+...+..+
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l   90 (133)
T 2lni_A           13 PDLALMVKNKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRK   90 (133)
T ss_dssp             SCHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHH
Confidence            4456778888889999999999999999988764 3467888899999999999999999999998875 5578888889


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC
Q 005729          517 INLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSG  559 (680)
Q Consensus       517 i~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g  559 (680)
                      ...+.+.|++++|...+++..+... .+...+..+..++.+.|
T Consensus        91 a~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~~l~~~~~~~~  132 (133)
T 2lni_A           91 AAALEAMKDYTKAMDVYQKALDLDS-SCKEAADGYQRCMMAQY  132 (133)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCG-GGTHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHhCC-CchHHHHHHHHHHHHhc
Confidence            9999999999999999999887532 24456666666666554

>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=98.20  E-value=1e-05  Score=72.85  Aligned_cols=119  Identities=8%  Similarity=0.091  Sum_probs=72.5

Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH-HHHcCCh--hHH
Q 005729          418 RGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDC-HFKCGRY--DRA  494 (680)
Q Consensus       418 ~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~-~~~~g~~--~~A  494 (680)
                      .|++++|...+++..+.. +.+...+..+...|...|++++|...|++..+.. +.+...+..+..+ |...|++  ++|
T Consensus        23 ~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~~~~~A  100 (177)
T 2e2e_A           23 QQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQHMTAQT  100 (177)
T ss_dssp             ----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTCCCHHH
T ss_pred             ccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCcchHHH
Confidence            445555555555554432 3455566666666666666666666666665543 2345566666666 5566776  777


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 005729          495 EELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQ  539 (680)
Q Consensus       495 ~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~  539 (680)
                      ...|+++.+.. +.+...+..+...+...|++++|...+.++.+.
T Consensus       101 ~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  144 (177)
T 2e2e_A          101 RAMIDKALALD-SNEITALMLLASDAFMQANYAQAIELWQKVMDL  144 (177)
T ss_dssp             HHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhh
Confidence            77777776654 445666666777777777777777777777764

>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=98.19  E-value=3.4e-05  Score=77.66  Aligned_cols=32  Identities=16%  Similarity=0.033  Sum_probs=24.9

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCC
Q 005729          334 RTKAYNALLKGYVKMGYLKDAEFVVSEMERSG  365 (680)
Q Consensus       334 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g  365 (680)
                      +...+..+...|.+.|++++|...|++..+..
T Consensus       146 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~  177 (336)
T 1p5q_A          146 QSTIVKERGTVYFKEGKYKQALLQYKKIVSWL  177 (336)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHh
Confidence            45677778888888888888888888877653

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.16  E-value=5.8e-05  Score=72.47  Aligned_cols=188  Identities=9%  Similarity=-0.013  Sum_probs=93.1

Q ss_pred             HcCCHHHHHHHHHHHHhCCCCCC-HHHHHHH-------HHHHHhcCChHHHHHHHHHHHH------------cCCC----
Q 005729          277 KAGDASKAMRFLGMAQGVGLSPK-TATYAAV-------ITALSNSGRTIEAEAVFEELKE------------SGLK----  332 (680)
Q Consensus       277 ~~g~~~~A~~~~~~~~~~g~~p~-~~~~~~l-------i~~~~~~g~~~~A~~l~~~m~~------------~g~~----  332 (680)
                      ..++...|.+.|.++...  .|+ ...|+-+       ..++.+.++..+++..+..-.+            .|.-    
T Consensus        18 ~~~d~~~A~~~F~~a~~~--dP~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~l~p~~l~a~~~~~g~y~~~~   95 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNY--DESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQISMSTLNARIAIGGLYGDIT   95 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTTCCGGGGCCEEECCTTTCCCE
T ss_pred             cCCCHHHHHHHHHHHHHh--ChhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhcCChhhhhhhhccCCcccccc
Confidence            467777777777777764  343 4566655       4555555555555544444333            1100    


Q ss_pred             ----CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCC--HH
Q 005729          333 ----PRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPN--SF  406 (680)
Q Consensus       333 ----p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~--~~  406 (680)
                          --...+-.+...+...|++++|.++|+.+...+  |+......+...+.+.+++++|+..|+...... .|.  ..
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 YPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAGA  172 (282)
T ss_dssp             EECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHHH
T ss_pred             cccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHHH
Confidence                002233344555666666666666666665433  322244445555666666666666665332211 010  12


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHHccCCHHHHHHHHHHHHHC
Q 005729          407 IYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPD--THFYNVMIDTFGKYNCLHHAMAAFDRMLSE  469 (680)
Q Consensus       407 ~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~--~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  469 (680)
                      .+..+..++...|++++|+..|++.......|.  .........++.+.|+.++|..+|+++...
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            344455555555555555555555543221122  223344444445555555555555555443

>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=98.16  E-value=1.2e-05  Score=68.02  Aligned_cols=109  Identities=14%  Similarity=0.124  Sum_probs=84.5

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC--C
Q 005729          546 VTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPS-NLALNSLINAFGEDQRDAEAFAVLQYMKENG--L  622 (680)
Q Consensus       546 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g--~  622 (680)
                      ..+..+...+.+.|++++|++.|+..+           +  +.|+ ...|..+..+|.+.|++++|++.+++.++..  .
T Consensus         9 ~a~~~lG~~~~~~~~~~~A~~~y~~Al-----------~--~~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~   75 (127)
T 4gcn_A            9 IAEKDLGNAAYKQKDFEKAHVHYDKAI-----------E--LDPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRET   75 (127)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHH-----------H--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHH-----------H--hCCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCccc
Confidence            456778899999999999998876322           2  2344 5689999999999999999999999998621  1


Q ss_pred             CCC----HHHHHHHHHHHHhcCCcCcHHHHHHHHHHcCCCCCHHHHHHHHH
Q 005729          623 KPD----VVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPDRKARAMLRS  669 (680)
Q Consensus       623 ~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd~~~~~~l~~  669 (680)
                      .++    ..+|..+..++...|++++|++.|++.++.  .||+.+...+.+
T Consensus        76 ~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~kal~~--~~~~~~~~~l~~  124 (127)
T 4gcn_A           76 RADYKLIAKAMSRAGNAFQKQNDLSLAVQWFHRSLSE--FRDPELVKKVKE  124 (127)
T ss_dssp             TCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCCHHHHHHHHH
T ss_pred             chhhHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CcCHHHHHHHHH
Confidence            112    246778889999999999999999999874  677776655543

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.15  E-value=2.6e-05  Score=68.04  Aligned_cols=97  Identities=9%  Similarity=-0.145  Sum_probs=57.6

Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 005729          441 HFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLL  520 (680)
Q Consensus       441 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~  520 (680)
                      ..+..+...+.+.|++++|...|++..+.. +.+...|..+..+|.+.|++++|+..|++..+.. +.+...|..+..+|
T Consensus        37 ~~~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~-P~~~~~~~~lg~~~  114 (151)
T 3gyz_A           37 DDIYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALG-KNDYTPVFHTGQCQ  114 (151)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SSCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHH
Confidence            344555555566666666666666665543 2345566666666666666666666666666554 34455566666666


Q ss_pred             HhcCCHHHHHHHHHHHHHC
Q 005729          521 GEQERWEDVKRLLGNMRAQ  539 (680)
Q Consensus       521 ~~~g~~~~A~~~~~~m~~~  539 (680)
                      .+.|++++|...|++.++.
T Consensus       115 ~~lg~~~eA~~~~~~al~l  133 (151)
T 3gyz_A          115 LRLKAPLKAKECFELVIQH  133 (151)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHh
Confidence            6666666666666666653

>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=98.14  E-value=5.2e-05  Score=76.31  Aligned_cols=31  Identities=13%  Similarity=0.143  Sum_probs=20.8

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 005729          369 DEHTYSLLIDAYANAGRWESARIVLKEMEVS  399 (680)
Q Consensus       369 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  399 (680)
                      +...+..+...|.+.|++++|+..|++....
T Consensus       146 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~  176 (336)
T 1p5q_A          146 QSTIVKERGTVYFKEGKYKQALLQYKKIVSW  176 (336)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            3556666677777777777777777766654

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.12  E-value=0.00035  Score=72.92  Aligned_cols=162  Identities=9%  Similarity=0.026  Sum_probs=94.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHC-CCCCCH----HHHHHHHHHHHccCCHHHHHHHHHHHHH----CCCCC-CHHH
Q 005729          408 YSRILAGYRDRGEWQRTFQVLKEMKSS-GVEPDT----HFYNVMIDTFGKYNCLHHAMAAFDRMLS----EGIEP-DTIT  477 (680)
Q Consensus       408 ~~~ll~~~~~~g~~~~A~~l~~~m~~~-~~~p~~----~~~~~li~~~~~~g~~~~A~~~~~~m~~----~~~~~-~~~~  477 (680)
                      +..+...|.+.|++++|.+.+..+... +..++.    .+.+.+-..+...|+.+.+..++.....    .+..+ -..+
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            444555566666666666655554321 001111    1222233333455677777777766543    22222 2456


Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHHHC--CC--CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC--CC-CC-C--HH
Q 005729          478 WNTLIDCHFKCGRYDRAEELFEEMQER--GY--FP-CTTTYNIMINLLGEQERWEDVKRLLGNMRAQ--GL-LP-N--VV  546 (680)
Q Consensus       478 ~~~li~~~~~~g~~~~A~~~~~~m~~~--~~--~p-~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~--~~-~p-~--~~  546 (680)
                      +..+...|...|++++|..+++++...  +.  .+ ....+..++..|...|++++|..++++....  .. .| .  ..
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            677788888888888888888776532  11  11 2456777778888888888888888776543  11 11 1  24


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHh
Q 005729          547 TYTTLVDIYGQSGRFDDAIECLE  569 (680)
Q Consensus       547 ~~~~li~~~~~~g~~~~A~~~~~  569 (680)
                      .+..+...+...|++++|...+.
T Consensus       218 ~~~~~g~~~~~~~~y~~A~~~~~  240 (434)
T 4b4t_Q          218 LDLMSGILHCEDKDYKTAFSYFF  240 (434)
T ss_dssp             HHHHHHHHTTSSSCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHH
Confidence            56666777778888888887665

>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=98.12  E-value=0.0028  Score=62.58  Aligned_cols=194  Identities=11%  Similarity=0.098  Sum_probs=104.6

Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccC--CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC-hhHHHHH
Q 005729          421 WQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYN--CLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGR-YDRAEEL  497 (680)
Q Consensus       421 ~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g--~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~-~~~A~~~  497 (680)
                      +++++.+++.+.... +-+..+|+.-.-.+.+.+  .++++..+++.+.+.. +.|...|+.-.-.+...|. ++++++.
T Consensus        90 l~~EL~~~~~~L~~~-PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~d-prNy~AW~~R~~vl~~l~~~~~eel~~  167 (331)
T 3dss_A           90 VKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAF  167 (331)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCcCHHHHHHH
Confidence            344555555554432 334455544444444444  3566666666666544 3455666655555555665 4666666


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHhc--------------CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc-CChH
Q 005729          498 FEEMQERGYFPCTTTYNIMINLLGEQ--------------ERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQS-GRFD  562 (680)
Q Consensus       498 ~~~m~~~~~~p~~~t~~~li~~~~~~--------------g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~-g~~~  562 (680)
                      +.++++.. +-|...|+.....+.+.              +.++++.+.+.+.+.... -|...|+.+-..+.+. |..+
T Consensus       168 ~~~~I~~~-p~N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~P-~d~SaW~Y~r~ll~~~~~~~~  245 (331)
T 3dss_A          168 TDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDP-NDQSAWFYHRWLLGAGSGRCE  245 (331)
T ss_dssp             HHHHHHHC-SCCHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHSSSCGGG
T ss_pred             HHHHHHHC-CCCHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhccCccc
Confidence            66666655 45566666555555443              346777777777777532 2566665554444443 2111


Q ss_pred             HHHHHHhhhHHHHHHHHHHHHHCCCCCCHHHHHHHHH-----HHHhcCCHHHHHHHHHHHHHCCCCC
Q 005729          563 DAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLIN-----AFGEDQRDAEAFAVLQYMKENGLKP  624 (680)
Q Consensus       563 ~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~-----~~~~~g~~~~A~~~~~~m~~~g~~p  624 (680)
                      -. ....+.++++++.++++.+  ..|+. .|..+.-     +....|..+++..++.++++  +.|
T Consensus       246 ~~-~~~~~~l~~el~~~~elle--~~pd~-~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~--~Dp  306 (331)
T 3dss_A          246 LS-VEKSTVLQSELESCKELQE--LEPEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKA--VDP  306 (331)
T ss_dssp             CC-HHHHHHHHHHHHHHHHHHH--HCTTC-HHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHH--HCG
T ss_pred             cc-hHHHHHHHHHHHHHHHHHh--hCccc-chHHHHHHHHHHhhcccccHHHHHHHHHHHHH--hCc
Confidence            11 1122445566666777766  45654 3332221     22235667777777777776  445

>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=98.11  E-value=0.0019  Score=63.85  Aligned_cols=136  Identities=7%  Similarity=-0.011  Sum_probs=81.6

Q ss_pred             HcCCHH-HHHHHHHHHHhCCCCCC-HHHHHHHHHHHHhcCC----------hHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 005729          277 KAGDAS-KAMRFLGMAQGVGLSPK-TATYAAVITALSNSGR----------TIEAEAVFEELKESGLKPRTKAYNALLKG  344 (680)
Q Consensus       277 ~~g~~~-~A~~~~~~~~~~g~~p~-~~~~~~li~~~~~~g~----------~~~A~~l~~~m~~~g~~p~~~~~~~li~~  344 (680)
                      +.|.++ +|+++++.++..  .|+ ...|+.--..+...++          +++++.+++.+.... +-+..+|+.-.-.
T Consensus        41 ~~~e~s~eaL~~t~~~L~~--nP~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~-PKny~aW~hR~wl  117 (331)
T 3dss_A           41 QAGELDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWL  117 (331)
T ss_dssp             HTTCCSHHHHHHHHHHHTT--CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HcCCCCHHHHHHHHHHHHH--CchhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            445544 678888887764  344 4456654444433332          466677777766653 3366666666666


Q ss_pred             HHHcC--CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC-HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 005729          345 YVKMG--YLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGR-WESARIVLKEMEVSHAKPNSFIYSRILAGYRD  417 (680)
Q Consensus       345 ~~~~g--~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~-~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~  417 (680)
                      +.+.|  .++++..+++.+.+... .|..+|+.-.-.+...|. ++++++.++++.+.. +-|...|+.....+..
T Consensus       118 L~~l~~~~~~~EL~~~~k~l~~dp-rNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~-p~N~SAW~~R~~ll~~  191 (331)
T 3dss_A          118 LSRLPEPNWARELELCARFLEADE-RNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQ  191 (331)
T ss_dssp             HHHCSSCCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHH
T ss_pred             HhccCcccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHH
Confidence            66666  36777777777776543 366667666666666666 467777777776654 3355566555444443

>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=98.11  E-value=2e-05  Score=70.90  Aligned_cols=118  Identities=13%  Similarity=0.151  Sum_probs=56.0

Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH-HHccCCH--HHHH
Q 005729          384 GRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDT-FGKYNCL--HHAM  460 (680)
Q Consensus       384 g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~-~~~~g~~--~~A~  460 (680)
                      |++++|+..+++..... +.+...|..+...|...|++++|...|++..+.. +.+...+..+... +...|++  ++|.
T Consensus        24 ~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~~~~~A~  101 (177)
T 2e2e_A           24 QNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQHMTAQTR  101 (177)
T ss_dssp             ---CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTCCCHHHH
T ss_pred             cCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCcchHHHH
Confidence            44444444444443332 1233444444444444555555555554444332 2334444444444 4455554  5555


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHC
Q 005729          461 AAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQER  504 (680)
Q Consensus       461 ~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  504 (680)
                      ..++...+.. +.+...+..+...|...|++++|...|+++.+.
T Consensus       102 ~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  144 (177)
T 2e2e_A          102 AMIDKALALD-SNEITALMLLASDAFMQANYAQAIELWQKVMDL  144 (177)
T ss_dssp             HHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhh
Confidence            5555555432 223445555555566666666666666665554

>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=98.11  E-value=2.2e-05  Score=68.47  Aligned_cols=99  Identities=11%  Similarity=-0.031  Sum_probs=64.4

Q ss_pred             CHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 005729          439 DTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMIN  518 (680)
Q Consensus       439 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~  518 (680)
                      +...+..+...+.+.|++++|...|+...+.. +.+...|..+..+|...|++++|+..|++..... +.+...+..+..
T Consensus        20 ~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~   97 (148)
T 2vgx_A           20 TLEQLYSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPFHAAE   97 (148)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHH
Confidence            34455555666666677777777776666543 3356666666677777777777777777766654 445566666667


Q ss_pred             HHHhcCCHHHHHHHHHHHHHC
Q 005729          519 LLGEQERWEDVKRLLGNMRAQ  539 (680)
Q Consensus       519 ~~~~~g~~~~A~~~~~~m~~~  539 (680)
                      ++...|++++|...+++.++.
T Consensus        98 ~~~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A           98 CLLQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHH
Confidence            777777777777777766653

>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=98.09  E-value=1.5e-05  Score=69.53  Aligned_cols=105  Identities=9%  Similarity=0.010  Sum_probs=87.4

Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 005729          462 AFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGL  541 (680)
Q Consensus       462 ~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~  541 (680)
                      .|+++.+.. +.+...+..+...+.+.|++++|...|++..... +.+...|..+..++...|++++|...+++++....
T Consensus         9 ~~~~al~~~-p~~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p   86 (148)
T 2vgx_A            9 TIAMLNEIS-SDTLEQLYSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDI   86 (148)
T ss_dssp             SHHHHTTCC-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST
T ss_pred             hHHHHHcCC-HhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC
Confidence            445554432 2245567788889999999999999999999876 66888999999999999999999999999998642


Q ss_pred             CCCHHHHHHHHHHHHhcCChHHHHHHHh
Q 005729          542 LPNVVTYTTLVDIYGQSGRFDDAIECLE  569 (680)
Q Consensus       542 ~p~~~~~~~li~~~~~~g~~~~A~~~~~  569 (680)
                       .+...+..+..+|...|++++|.+.|+
T Consensus        87 -~~~~~~~~lg~~~~~~g~~~~A~~~~~  113 (148)
T 2vgx_A           87 -XEPRFPFHAAECLLQXGELAEAESGLF  113 (148)
T ss_dssp             -TCTHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             -CCchHHHHHHHHHHHcCCHHHHHHHHH
Confidence             367888999999999999999998876

>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=98.07  E-value=0.00014  Score=59.65  Aligned_cols=26  Identities=15%  Similarity=0.176  Sum_probs=10.5

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHH
Q 005729          477 TWNTLIDCHFKCGRYDRAEELFEEMQ  502 (680)
Q Consensus       477 ~~~~li~~~~~~g~~~~A~~~~~~m~  502 (680)
                      .+..+..+|...|++++|.+.|++..
T Consensus        74 ~~~~~a~~~~~~~~~~~A~~~~~~~~   99 (118)
T 1elw_A           74 GYSRKAAALEFLNRFEEAKRTYEEGL   99 (118)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            33333344444444444444444433

>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=98.04  E-value=0.00019  Score=58.83  Aligned_cols=110  Identities=13%  Similarity=0.035  Sum_probs=86.0

Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 005729          440 THFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINL  519 (680)
Q Consensus       440 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~  519 (680)
                      ...+..+...+...|++++|...|+...+.. +.+...+..+...|...|++++|...+++..+.. +.+...+..+...
T Consensus         4 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~   81 (118)
T 1elw_A            4 VNELKEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAA   81 (118)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHHH
Confidence            4556667777888888888888888887654 3467788888889999999999999999988875 4568888889999


Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 005729          520 LGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLV  552 (680)
Q Consensus       520 ~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li  552 (680)
                      +...|++++|...+.+..+.+. .+...+..+.
T Consensus        82 ~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~  113 (118)
T 1elw_A           82 LEFLNRFEEAKRTYEEGLKHEA-NNPQLKEGLQ  113 (118)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTCT-TCHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHHcCC-CCHHHHHHHH
Confidence            9999999999999999987532 2444444443

>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=98.03  E-value=0.00012  Score=61.52  Aligned_cols=94  Identities=11%  Similarity=0.038  Sum_probs=50.4

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh
Q 005729          443 YNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGE  522 (680)
Q Consensus       443 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~  522 (680)
                      +..+...+.+.|++++|...|++..+.. +.+...|..+..+|.+.|++++|+..|++..+.. +.+...|..+..++..
T Consensus         7 ~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~   84 (126)
T 3upv_A            7 ARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIA   84 (126)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHH
Confidence            3444444555555555555555554432 2244555555555555555555555555555543 3345555555555555


Q ss_pred             cCCHHHHHHHHHHHHH
Q 005729          523 QERWEDVKRLLGNMRA  538 (680)
Q Consensus       523 ~g~~~~A~~~~~~m~~  538 (680)
                      .|++++|...+++..+
T Consensus        85 ~~~~~~A~~~~~~al~  100 (126)
T 3upv_A           85 VKEYASALETLDAART  100 (126)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             HhCHHHHHHHHHHHHH
Confidence            6666666655555554

>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=98.01  E-value=8.6e-05  Score=62.31  Aligned_cols=119  Identities=11%  Similarity=0.110  Sum_probs=93.3

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC--C
Q 005729          545 VVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENG--L  622 (680)
Q Consensus       545 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g--~  622 (680)
                      ...+..+...+...|++++|...++...           .. .+.+...+..+..+|...|++++|..+++++.+..  .
T Consensus         4 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~-----------~~-~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~   71 (131)
T 1elr_A            4 ALKEKELGNDAYKKKDFDTALKHYDKAK-----------EL-DPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGREN   71 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHH-----------HH-CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHH-----------hc-CCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhcccc
Confidence            4567778888999999999888765322           21 13356788999999999999999999999998732  1


Q ss_pred             CCC----HHHHHHHHHHHHhcCCcCcHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHhh
Q 005729          623 KPD----VVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPDRKARAMLRSALRYMKQT  677 (680)
Q Consensus       623 ~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd~~~~~~l~~a~~~~k~~  677 (680)
                      .++    ..++..+..++.+.|++++|.+.++++++.  .|+...+..+....+..++.
T Consensus        72 ~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~  128 (131)
T 1elr_A           72 REDYRQIAKAYARIGNSYFKEEKYKDAIHFYNKSLAE--HRTPDVLKKCQQAEKILKEQ  128 (131)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHHHHHHHC
T ss_pred             chhHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCHHHHHHHHHHHHHHHHh
Confidence            122    678889999999999999999999999985  56787777777777766654

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.01  E-value=0.00024  Score=74.10  Aligned_cols=170  Identities=11%  Similarity=-0.012  Sum_probs=97.6

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHHHC-CCCCCH----HHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCC-CHHH
Q 005729          478 WNTLIDCHFKCGRYDRAEELFEEMQER-GYFPCT----TTYNIMINLLGEQERWEDVKRLLGNMRAQ----GLLP-NVVT  547 (680)
Q Consensus       478 ~~~li~~~~~~g~~~~A~~~~~~m~~~-~~~p~~----~t~~~li~~~~~~g~~~~A~~~~~~m~~~----~~~p-~~~~  547 (680)
                      +..+...|.+.|++++|.+++..+.+. +..++.    ...+.+-..+...|+.+++..++.+....    +..+ ...+
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            455666777777777777777665432 101111    11222223334456777777777665432    2222 2456


Q ss_pred             HHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHHC--CCCC
Q 005729          548 YTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSN-LALNSLINAFGEDQRDAEAFAVLQYMKEN--GLKP  624 (680)
Q Consensus       548 ~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~--g~~p  624 (680)
                      +..+...|...|++++|..+++...       ......+-.+.. .+|..++..|...|++++|..++++....  .+..
T Consensus       138 ~~~la~~~~~~g~~~~A~~~l~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~  210 (434)
T 4b4t_Q          138 SIKLATLHYQKKQYKDSLALINDLL-------REFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYC  210 (434)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHH-------HHHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHHccChHHHHHHHHHHH-------HHHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCC
Confidence            6777777888888888777765322       122222222222 36777778888888888888887776631  1111


Q ss_pred             C----HHHHHHHHHHHHhcCCcCcHHHHHHHHHH
Q 005729          625 D----VVTYTTLMKALIRVDKFHKVPAVYEEMIL  654 (680)
Q Consensus       625 ~----~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  654 (680)
                      +    ...+..+...+...|++++|...+.+..+
T Consensus       211 ~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          211 PTQTVAELDLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             CHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            1    23455566666777888888777776653

>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=97.99  E-value=0.00012  Score=67.09  Aligned_cols=60  Identities=5%  Similarity=0.040  Sum_probs=24.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHH
Q 005729          407 IYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRML  467 (680)
Q Consensus       407 ~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~  467 (680)
                      .+..+..+|...|++++|+..+++..+.. +.+...+..+..+|...|++++|...|++..
T Consensus        90 ~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al  149 (198)
T 2fbn_A           90 CNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAA  149 (198)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            33334444444444444444444433321 2233334444444444444444444444433

>3upv_A Heat shock protein STI1; TPR-fold, adaptor protein for HSP70 and HSP90, C-terminal PA HSP70, peptide binding protein; 1.60A {Saccharomyces cerevisiae}

Probab=97.99  E-value=0.00024  Score=59.54  Aligned_cols=96  Identities=13%  Similarity=0.178  Sum_probs=55.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 005729          407 IYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHF  486 (680)
Q Consensus       407 ~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~  486 (680)
                      .|..+...+.+.|++++|...|++..+.. +.+...|..+..+|.+.|++++|...|++..+.. +.+...|..+..+|.
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~   83 (126)
T 3upv_A            6 EARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQI   83 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHH
Confidence            34444455555555555555555554442 3345556666666666666666666666665543 234556666666666


Q ss_pred             HcCChhHHHHHHHHHHHC
Q 005729          487 KCGRYDRAEELFEEMQER  504 (680)
Q Consensus       487 ~~g~~~~A~~~~~~m~~~  504 (680)
                      ..|++++|...|++..+.
T Consensus        84 ~~~~~~~A~~~~~~al~~  101 (126)
T 3upv_A           84 AVKEYASALETLDAARTK  101 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HHhCHHHHHHHHHHHHHh
Confidence            666666666666666543

>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=0.00011  Score=67.34  Aligned_cols=88  Identities=9%  Similarity=-0.017  Sum_probs=46.8

Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 005729          441 HFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLL  520 (680)
Q Consensus       441 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~  520 (680)
                      ..+..+..+|.+.|++++|...++...+.. +.+...+..+..+|...|++++|...|++..+.. +-+...+..+...+
T Consensus        89 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~  166 (198)
T 2fbn_A           89 SCNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASLN-PNNLDIRNSYELCV  166 (198)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHH
Confidence            455555555666666666666666655543 2345555556666666666666666666655543 33444555555444


Q ss_pred             HhcCCHHHHH
Q 005729          521 GEQERWEDVK  530 (680)
Q Consensus       521 ~~~g~~~~A~  530 (680)
                      ...++.+++.
T Consensus       167 ~~~~~~~~~~  176 (198)
T 2fbn_A          167 NKLKEARKKD  176 (198)
T ss_dssp             HHHHHHHC--
T ss_pred             HHHHHHHHHH
Confidence            4444444433

>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=97.97  E-value=8e-05  Score=62.53  Aligned_cols=96  Identities=17%  Similarity=0.181  Sum_probs=49.4

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCC--CCC----HHHHHHH
Q 005729          443 YNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGY--FPC----TTTYNIM  516 (680)
Q Consensus       443 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~--~p~----~~t~~~l  516 (680)
                      +..+...+...|+++.|...|+...+.. +.+...+..+...|...|++++|...+++..+...  .++    ..++..+
T Consensus         7 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~l   85 (131)
T 1elr_A            7 EKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARI   85 (131)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHHH
Confidence            3444444555555555555555544432 22444555555555555555555555555544320  111    4455555


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHC
Q 005729          517 INLLGEQERWEDVKRLLGNMRAQ  539 (680)
Q Consensus       517 i~~~~~~g~~~~A~~~~~~m~~~  539 (680)
                      ...+...|++++|...+.++.+.
T Consensus        86 a~~~~~~~~~~~A~~~~~~~~~~  108 (131)
T 1elr_A           86 GNSYFKEEKYKDAIHFYNKSLAE  108 (131)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHh
Confidence            55566666666666666666553

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=97.97  E-value=0.00016  Score=64.04  Aligned_cols=98  Identities=9%  Similarity=-0.024  Sum_probs=56.8

Q ss_pred             HHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 005729          440 THFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINL  519 (680)
Q Consensus       440 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~  519 (680)
                      ...+..+...+.+.|++++|...|++..+.. +.+...|..+..+|.+.|++++|+..|++.++.. +.+...|..+..+
T Consensus        11 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~   88 (164)
T 3sz7_A           11 SDKLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRLGLA   88 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            3444555555555566666666665555443 2245556666666666666666666666666554 3445566666666


Q ss_pred             HHhcCCHHHHHHHHHHHHHC
Q 005729          520 LGEQERWEDVKRLLGNMRAQ  539 (680)
Q Consensus       520 ~~~~g~~~~A~~~~~~m~~~  539 (680)
                      +...|++++|...|++.++.
T Consensus        89 ~~~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           89 RFDMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHccCHHHHHHHHHHHHHh
Confidence            66666666666666666553

>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=97.96  E-value=0.00016  Score=60.89  Aligned_cols=61  Identities=10%  Similarity=0.022  Sum_probs=32.8

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 005729          302 TYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMER  363 (680)
Q Consensus       302 ~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  363 (680)
                      ++..+...+.+.|++++|++.|++.++.. +.+...|+.+..+|.+.|++++|++.+++.++
T Consensus        10 a~~~lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~   70 (127)
T 4gcn_A           10 AEKDLGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVE   70 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHH
Confidence            44555555555555555555555555542 23445555555555555555555555555443

>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=97.94  E-value=0.00047  Score=58.50  Aligned_cols=94  Identities=13%  Similarity=-0.010  Sum_probs=55.4

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 005729          474 DTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVD  553 (680)
Q Consensus       474 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~  553 (680)
                      +...|..+...+...|++++|...|++..+.. +.+...|..+...+...|++++|...+.+..+.+ +.+...+..+..
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~   85 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQ   85 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHHHH
Confidence            45555556666666666666666666665553 3345556666666666666666666666666542 124556666666


Q ss_pred             HHHhcCChHHHHHHHh
Q 005729          554 IYGQSGRFDDAIECLE  569 (680)
Q Consensus       554 ~~~~~g~~~~A~~~~~  569 (680)
                      +|...|++++|+..++
T Consensus        86 ~~~~~~~~~~A~~~~~  101 (137)
T 3q49_B           86 CQLEMESYDEAIANLQ  101 (137)
T ss_dssp             HHHHTTCHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHH
Confidence            6666666666665554

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.93  E-value=0.00035  Score=60.11  Aligned_cols=59  Identities=14%  Similarity=0.017  Sum_probs=22.8

Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHH
Q 005729          444 NVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQE  503 (680)
Q Consensus       444 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  503 (680)
                      ..+...|...|++++|...++...+.. +.+...|..+..+|...|++++|...|++..+
T Consensus        69 ~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~  127 (148)
T 2dba_A           69 RNRAACHLKLEDYDKAETEASKAIEKD-GGDVKALYRRSQALEKLGRLDQAVLDLQRCVS  127 (148)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            333333333444444444443333321 11233333444444444444444444444433

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=97.93  E-value=0.0001  Score=64.54  Aligned_cols=136  Identities=15%  Similarity=0.052  Sum_probs=74.8

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCC-CHH
Q 005729          477 TWNTLIDCHFKCGRYDRAEELFEEMQERGY-FPC----TTTYNIMINLLGEQERWEDVKRLLGNMRAQ----GLLP-NVV  546 (680)
Q Consensus       477 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~-~p~----~~t~~~li~~~~~~g~~~~A~~~~~~m~~~----~~~p-~~~  546 (680)
                      ++..+...|...|++++|...+++..+... ..+    ..++..+...+...|++++|...+++..+.    +..+ ...
T Consensus        11 ~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~   90 (164)
T 3ro3_A           11 AFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQ   90 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHH
Confidence            455666666677777777777766654310 011    135555666666777777777777665542    1000 134


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 005729          547 TYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPS-NLALNSLINAFGEDQRDAEAFAVLQYMKE  619 (680)
Q Consensus       547 ~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~  619 (680)
                      .+..+...+...|++++|.+.++.    ++++...   .+..+. ...+..+...+...|++++|.+.+++..+
T Consensus        91 ~~~~l~~~~~~~~~~~~A~~~~~~----a~~~~~~---~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           91 SCYSLGNTYTLLQDYEKAIDYHLK----HLAIAQE---LKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHH----HHHHHHH---TTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHH----HHHHHHH---ccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            555666667777777777766542    2222211   111111 22456666666667777777776666554

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=97.92  E-value=9.5e-05  Score=60.06  Aligned_cols=95  Identities=7%  Similarity=0.048  Sum_probs=47.5

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCC--CHHHHHHHHHHH
Q 005729          443 YNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFP--CTTTYNIMINLL  520 (680)
Q Consensus       443 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p--~~~t~~~li~~~  520 (680)
                      +..+...+...|++++|...|++..+.. +.+...|..+...+...|++++|...|++..+.. +.  +...+..+...+
T Consensus         9 ~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l~~~~   86 (112)
T 2kck_A            9 YYLEGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAKADAL   86 (112)
T ss_dssp             GGGHHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHHHHHH
Confidence            3344444445555555555555544432 2234445555555555555555555555555443 22  344555555555


Q ss_pred             Hhc-CCHHHHHHHHHHHHHC
Q 005729          521 GEQ-ERWEDVKRLLGNMRAQ  539 (680)
Q Consensus       521 ~~~-g~~~~A~~~~~~m~~~  539 (680)
                      .+. |++++|.+.+.+..+.
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~  106 (112)
T 2kck_A           87 RYIEGKEVEAEIAEARAKLE  106 (112)
T ss_dssp             TTCSSCSHHHHHHHHHHGGG
T ss_pred             HHHhCCHHHHHHHHHHHhhc
Confidence            555 5555555555555543

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=97.92  E-value=8.8e-05  Score=63.93  Aligned_cols=86  Identities=13%  Similarity=0.187  Sum_probs=34.1

Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHH
Q 005729          415 YRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRA  494 (680)
Q Consensus       415 ~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A  494 (680)
                      +.+.|++++|...|++..... +.+...|..+..+|.+.|++++|...|++..+.. +.+...|..+..+|...|++++|
T Consensus        28 ~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A  105 (142)
T 2xcb_A           28 QYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAECHLQLGDLDGA  105 (142)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHH
Confidence            333344444444443333322 2233333344444444444444444444443332 12233344444444444444444


Q ss_pred             HHHHHHHH
Q 005729          495 EELFEEMQ  502 (680)
Q Consensus       495 ~~~~~~m~  502 (680)
                      ...|++..
T Consensus       106 ~~~~~~al  113 (142)
T 2xcb_A          106 ESGFYSAR  113 (142)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            44444443

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=97.92  E-value=0.00035  Score=61.63  Aligned_cols=110  Identities=10%  Similarity=0.014  Sum_probs=83.9

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCC---------CCC-HHHHHHHHHHHHhcCCHHHHHHHH
Q 005729          545 VVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGL---------KPS-NLALNSLINAFGEDQRDAEAFAVL  614 (680)
Q Consensus       545 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~---------~p~-~~~~~~li~~~~~~g~~~~A~~~~  614 (680)
                      ...+......+.+.|++++|+..|+    +|+.++.......-         .|. ...|..+..+|.+.|++++|+..+
T Consensus        11 a~~~~~~G~~~~~~~~~~~A~~~y~----~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~   86 (162)
T 3rkv_A           11 VEALRQKGNELFVQKDYKEAIDAYR----DALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETS   86 (162)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHH----HHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHH----HHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHH
Confidence            3456667777888888888887765    34444433332211         122 247889999999999999999999


Q ss_pred             HHHHHCCCCC-CHHHHHHHHHHHHhcCCcCcHHHHHHHHHHcCCCCCHH
Q 005729          615 QYMKENGLKP-DVVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPDRK  662 (680)
Q Consensus       615 ~~m~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd~~  662 (680)
                      ++.++.  .| +...|..+..+|...|++++|...+++.++.  .|+..
T Consensus        87 ~~al~~--~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l--~p~~~  131 (162)
T 3rkv_A           87 SEVLKR--EETNEKALFRRAKARIAAWKLDEAEEDLKLLLRN--HPAAA  131 (162)
T ss_dssp             HHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CGGGH
T ss_pred             HHHHhc--CCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc--CCCCH
Confidence            999984  45 6789999999999999999999999999985  66654

>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=97.91  E-value=0.00026  Score=60.21  Aligned_cols=99  Identities=11%  Similarity=0.025  Sum_probs=62.9

Q ss_pred             CCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHH
Q 005729          438 PDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMI  517 (680)
Q Consensus       438 p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li  517 (680)
                      .+...+..+...+...|++++|...|....+.. +.+...|..+..+|...|++++|...|++..+.. +.+...|..+.
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~   84 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLG   84 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHHH
Confidence            345556666666666666666666666665543 2345566666666666777777777776666654 44566666666


Q ss_pred             HHHHhcCCHHHHHHHHHHHHH
Q 005729          518 NLLGEQERWEDVKRLLGNMRA  538 (680)
Q Consensus       518 ~~~~~~g~~~~A~~~~~~m~~  538 (680)
                      ..+...|++++|...+.+..+
T Consensus        85 ~~~~~~~~~~~A~~~~~~a~~  105 (137)
T 3q49_B           85 QCQLEMESYDEAIANLQRAYS  105 (137)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHH
Confidence            667777777777777766654

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.90  E-value=0.00048  Score=59.23  Aligned_cols=113  Identities=18%  Similarity=0.109  Sum_probs=89.5

Q ss_pred             CCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCC----HHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHH
Q 005729          438 PDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPD----TITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTY  513 (680)
Q Consensus       438 p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~----~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~  513 (680)
                      .+...+..+...+...|++++|...|++..+..  |+    ...|..+..+|...|++++|...+++..+.. +.+...+
T Consensus        26 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  102 (148)
T 2dba_A           26 SSVEQLRKEGNELFKCGDYGGALAAYTQALGLD--ATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKAL  102 (148)
T ss_dssp             CCHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSC--CCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHH
T ss_pred             HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHc--ccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHH
Confidence            456777788888888888888888888887653  45    6778888999999999999999999998875 5568888


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 005729          514 NIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDI  554 (680)
Q Consensus       514 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~  554 (680)
                      ..+..++...|++++|...+++..+... .+...+..+...
T Consensus       103 ~~~a~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l~~~  142 (148)
T 2dba_A          103 YRRSQALEKLGRLDQAVLDLQRCVSLEP-KNKVFQEALRNI  142 (148)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHCS-SCHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHcCC-CcHHHHHHHHHH
Confidence            8899999999999999999999988532 244444444433

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=97.90  E-value=0.00023  Score=62.91  Aligned_cols=97  Identities=9%  Similarity=-0.048  Sum_probs=51.8

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 005729          301 ATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAY  380 (680)
Q Consensus       301 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~  380 (680)
                      ..|..+...+.+.|++++|+..|++..+.. +.+...|..+..+|.+.|++++|...+++..+.. +.+...|..+..+|
T Consensus        12 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~   89 (164)
T 3sz7_A           12 DKLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVD-PKYSKAWSRLGLAR   89 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            344445555555555555555555555442 2244555555555555555555555555555443 12455555555556


Q ss_pred             HHcCCHHHHHHHHHHHHHC
Q 005729          381 ANAGRWESARIVLKEMEVS  399 (680)
Q Consensus       381 ~~~g~~~~A~~~~~~m~~~  399 (680)
                      ...|++++|+..|++..+.
T Consensus        90 ~~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           90 FDMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHccCHHHHHHHHHHHHHh
Confidence            6666666666665555443

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=97.89  E-value=0.00016  Score=62.21  Aligned_cols=95  Identities=11%  Similarity=-0.061  Sum_probs=55.6

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 005729          442 FYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLG  521 (680)
Q Consensus       442 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~  521 (680)
                      .+..+...+.+.|++++|...|+...+.. +.+...|..+..+|.+.|++++|+..|++..+.+ +.+...+..+..++.
T Consensus        20 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~   97 (142)
T 2xcb_A           20 QLYALGFNQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAECHL   97 (142)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHH
Confidence            34444555566666666666666665543 2345556666666666666666666666665554 344555555666666


Q ss_pred             hcCCHHHHHHHHHHHHH
Q 005729          522 EQERWEDVKRLLGNMRA  538 (680)
Q Consensus       522 ~~g~~~~A~~~~~~m~~  538 (680)
                      ..|++++|...+++..+
T Consensus        98 ~~g~~~~A~~~~~~al~  114 (142)
T 2xcb_A           98 QLGDLDGAESGFYSARA  114 (142)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHH
Confidence            66666666666666554

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=97.88  E-value=0.00015  Score=58.82  Aligned_cols=92  Identities=13%  Similarity=0.048  Sum_probs=38.8

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHH
Q 005729          305 AVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLP--DEHTYSLLIDAYAN  382 (680)
Q Consensus       305 ~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~--~~~~~~~li~~~~~  382 (680)
                      .+...+...|++++|...|++..+.. +.+...+..+...+...|++++|...+++..+.. +.  +...+..+...|..
T Consensus        11 ~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~l~~~~~~   88 (112)
T 2kck_A           11 LEGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVI-EDEYNKDVWAAKADALRY   88 (112)
T ss_dssp             GHHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-CCTTCHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-cccchHHHHHHHHHHHHH
Confidence            33344444444444444444443332 1233344444444444444444444444444332 11  23444444444444


Q ss_pred             c-CCHHHHHHHHHHHHH
Q 005729          383 A-GRWESARIVLKEMEV  398 (680)
Q Consensus       383 ~-g~~~~A~~~~~~m~~  398 (680)
                      . |++++|.+.+++...
T Consensus        89 ~~~~~~~A~~~~~~~~~  105 (112)
T 2kck_A           89 IEGKEVEAEIAEARAKL  105 (112)
T ss_dssp             CSSCSHHHHHHHHHHGG
T ss_pred             HhCCHHHHHHHHHHHhh
Confidence            4 444444444444433

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=97.87  E-value=0.00015  Score=60.87  Aligned_cols=110  Identities=15%  Similarity=0.081  Sum_probs=82.9

Q ss_pred             HHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC
Q 005729          549 TTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSN----LALNSLINAFGEDQRDAEAFAVLQYMKENGLKP  624 (680)
Q Consensus       549 ~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~----~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p  624 (680)
                      ..+...+.+.|++++|.+.++           .....  .|+.    ..+..+..++.+.|++++|+..++++.+.  .|
T Consensus         6 ~~~a~~~~~~~~~~~A~~~~~-----------~~~~~--~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~--~p   70 (129)
T 2xev_A            6 YNVAFDALKNGKYDDASQLFL-----------SFLEL--YPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSR--YP   70 (129)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHH-----------HHHHH--CSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CT
T ss_pred             HHHHHHHHHhCCHHHHHHHHH-----------HHHHH--CCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHH--CC
Confidence            345677888899988887765           33321  2332    47888999999999999999999999984  34


Q ss_pred             C----HHHHHHHHHHHHhcCCcCcHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHH
Q 005729          625 D----VVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPDRKARAMLRSALRYMK  675 (680)
Q Consensus       625 ~----~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd~~~~~~l~~a~~~~k  675 (680)
                      +    ...+..+..++.+.|++++|...++++++.  .|+.........-+..++
T Consensus        71 ~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~a~~~l~~l~  123 (129)
T 2xev_A           71 THDKAAGGLLKLGLSQYGEGKNTEAQQTLQQVATQ--YPGSDAARVAQERLQSIR  123 (129)
T ss_dssp             TSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTSHHHHHHHHHHHHHC
T ss_pred             CCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCChHHHHHHHHHHHHH
Confidence            3    677888999999999999999999999986  566655555544444443

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=97.82  E-value=0.00014  Score=63.50  Aligned_cols=131  Identities=11%  Similarity=-0.014  Sum_probs=71.4

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCC-CC----HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC-CC----H
Q 005729          266 QLLNDVIVGFAKAGDASKAMRFLGMAQGVGLS-PK----TATYAAVITALSNSGRTIEAEAVFEELKESGLK-PR----T  335 (680)
Q Consensus       266 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~-p~----~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~-p~----~  335 (680)
                      .++..+...|...|++++|++.+++..+.... .+    ..++..+...+...|++++|.+.+++..+.... .+    .
T Consensus        10 ~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~   89 (164)
T 3ro3_A           10 RAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEA   89 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHH
Confidence            45666777788888888888888776542100 11    135666667777777777777777665432100 11    3


Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHC----CCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 005729          336 KAYNALLKGYVKMGYLKDAEFVVSEMERS----GVL-PDEHTYSLLIDAYANAGRWESARIVLKEM  396 (680)
Q Consensus       336 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~~-~~~~~~~~li~~~~~~g~~~~A~~~~~~m  396 (680)
                      ..+..+...+...|++++|...+++..+.    +.. .....+..+...|...|++++|.+.+++.
T Consensus        90 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a  155 (164)
T 3ro3_A           90 QSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKH  155 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHH
Confidence            34555556666666666666666555431    100 01223444445555555555555555443

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3

Probab=97.81  E-value=0.00012  Score=77.47  Aligned_cols=119  Identities=13%  Similarity=0.077  Sum_probs=63.5

Q ss_pred             HHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHH
Q 005729          378 DAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLH  457 (680)
Q Consensus       378 ~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~  457 (680)
                      ..|.+.|++++|++.|++..+.. +.+...|..+..+|.+.|++++|.+.+++..+.. +.+...+..+..+|.+.|+++
T Consensus        14 ~~~~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~g~~~   91 (477)
T 1wao_1           14 NDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKFR   91 (477)
T ss_dssp             SSTTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHH
Confidence            34555666666666666665543 2245566666666666666666666666665553 344555666666666666666


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHH--HHHcCChhHHHHHHH
Q 005729          458 HAMAAFDRMLSEGIEPDTITWNTLIDC--HFKCGRYDRAEELFE  499 (680)
Q Consensus       458 ~A~~~~~~m~~~~~~~~~~~~~~li~~--~~~~g~~~~A~~~~~  499 (680)
                      +|.+.|++..+.. +.+...+..+..+  +.+.|++++|++.++
T Consensus        92 eA~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           92 AALRDYETVVKVK-PHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHHS-TTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            6666666655442 1122233333333  555566666666555

>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=97.77  E-value=0.00057  Score=59.17  Aligned_cols=100  Identities=14%  Similarity=0.054  Sum_probs=70.1

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCC------CC-----HHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHH
Q 005729          514 NIMINLLGEQERWEDVKRLLGNMRAQGLL------PN-----VVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVM  582 (680)
Q Consensus       514 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~------p~-----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m  582 (680)
                      ......+.+.|++++|...|++.++....      .+     ...|..+..++.+.|++++|+..++    +|+++|+..
T Consensus        15 ~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~----kAL~l~n~~   90 (159)
T 2hr2_A           15 LSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSAD----KALHYFNRR   90 (159)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHH----HHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHH----HHHHhhhcc
Confidence            33444455556666666666655553211      02     2388889999999999999998765    566666665


Q ss_pred             HHCCCCCCHH-HH----HHHHHHHHhcCCHHHHHHHHHHHHH
Q 005729          583 RTDGLKPSNL-AL----NSLINAFGEDQRDAEAFAVLQYMKE  619 (680)
Q Consensus       583 ~~~g~~p~~~-~~----~~li~~~~~~g~~~~A~~~~~~m~~  619 (680)
                      .+  +.|+.. .|    .....++...|++++|+..|++..+
T Consensus        91 ~e--~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAle  130 (159)
T 2hr2_A           91 GE--LNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  130 (159)
T ss_dssp             CC--TTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cc--CCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHh
Confidence            54  567765 77    8888899999999999999998876

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=97.76  E-value=0.00027  Score=58.93  Aligned_cols=89  Identities=7%  Similarity=-0.065  Sum_probs=35.9

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCH
Q 005729          272 IVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYL  351 (680)
Q Consensus       272 i~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~  351 (680)
                      ...+.+.|++++|+..|+...+.. +.+...|..+..++...|++++|+..|++..+.. +.+...+..+...+.+.|++
T Consensus        24 g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~~~~~la~~~~~~g~~  101 (121)
T 1hxi_A           24 GLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHNA  101 (121)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCH
Confidence            333444444444444444444321 1123334444444444444444444444444332 11333344444444444444


Q ss_pred             HHHHHHHHHHH
Q 005729          352 KDAEFVVSEME  362 (680)
Q Consensus       352 ~~A~~~~~~m~  362 (680)
                      ++|...+++..
T Consensus       102 ~~A~~~~~~al  112 (121)
T 1hxi_A          102 NAALASLRAWL  112 (121)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            44444444433

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=97.72  E-value=0.0003  Score=58.61  Aligned_cols=89  Identities=10%  Similarity=-0.041  Sum_probs=41.9

Q ss_pred             HHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHH
Q 005729          448 DTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWE  527 (680)
Q Consensus       448 ~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~  527 (680)
                      ..+.+.|++++|...|++..+.. +.+...|..+..++...|++++|+..|++..+.. +-+...+..+..++...|+++
T Consensus        25 ~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~-P~~~~~~~~la~~~~~~g~~~  102 (121)
T 1hxi_A           25 LSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHNAN  102 (121)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHH
Confidence            33444444555555444444432 2234444444445555555555555555544443 233444444444555555555


Q ss_pred             HHHHHHHHHHH
Q 005729          528 DVKRLLGNMRA  538 (680)
Q Consensus       528 ~A~~~~~~m~~  538 (680)
                      +|...+++.++
T Consensus       103 ~A~~~~~~al~  113 (121)
T 1hxi_A          103 AALASLRAWLL  113 (121)
T ss_dssp             HHHHHHHHHHC
T ss_pred             HHHHHHHHHHH
Confidence            55555554443

>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=97.69  E-value=0.0004  Score=73.11  Aligned_cols=29  Identities=14%  Similarity=0.024  Sum_probs=16.5

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 005729          335 TKAYNALLKGYVKMGYLKDAEFVVSEMER  363 (680)
Q Consensus       335 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~  363 (680)
                      ...|..+...|.+.|++++|...|++..+
T Consensus       268 a~~~~~~G~~~~~~g~~~~A~~~y~~Al~  296 (457)
T 1kt0_A          268 AAIVKEKGTVYFKGGKYMQAVIQYGKIVS  296 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHH
Confidence            34455555555666666666666655554

>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=97.67  E-value=0.001  Score=57.57  Aligned_cols=119  Identities=13%  Similarity=0.065  Sum_probs=84.7

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCH-----HHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 005729          546 VTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSN-----LALNSLINAFGEDQRDAEAFAVLQYMKEN  620 (680)
Q Consensus       546 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~-----~~~~~li~~~~~~g~~~~A~~~~~~m~~~  620 (680)
                      ..+......+.+.|++++|+..|+..++    +-....... ..+.     ..|..+..++.+.|++++|+..+++.++.
T Consensus        12 ~~~~~~G~~l~~~g~~eeAi~~Y~kAL~----l~p~~~~~~-a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l   86 (159)
T 2hr2_A           12 YLALSDAQRQLVAGEYDEAAANCRRAME----ISHTMPPEE-AFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHY   86 (159)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHH----HHTTSCTTS-CCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHh----hCCCCcchh-hhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            4456677888899999999988763222    211100000 0022     38999999999999999999999999982


Q ss_pred             -----CCCCCH-HHH----HHHHHHHHhcCCcCcHHHHHHHHHHc-----CCCCCHHHHHHHHH
Q 005729          621 -----GLKPDV-VTY----TTLMKALIRVDKFHKVPAVYEEMILS-----GCTPDRKARAMLRS  669 (680)
Q Consensus       621 -----g~~p~~-~~~----~~l~~~~~~~g~~~~A~~~~~~m~~~-----g~~pd~~~~~~l~~  669 (680)
                           .+.|+. ..|    .....++...|++++|+..|++.++.     |+.+..........
T Consensus        87 ~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~p~d~~~~~~~~~~~~~~~  150 (159)
T 2hr2_A           87 FNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGETPGKERMMEVAI  150 (159)
T ss_dssp             HHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCCSCCTTHHHHHHHHH
T ss_pred             hhccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHH
Confidence                 117764 577    88999999999999999999999853     66666554443333

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.64  E-value=0.00035  Score=73.55  Aligned_cols=132  Identities=8%  Similarity=0.053  Sum_probs=97.8

Q ss_pred             HHHhcCCHHHHHHHHHHHHHC---CCCC----CHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCH
Q 005729          519 LLGEQERWEDVKRLLGNMRAQ---GLLP----NVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSN  591 (680)
Q Consensus       519 ~~~~~g~~~~A~~~~~~m~~~---~~~p----~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~  591 (680)
                      .+...|++++|..++++.++.   -+.+    ...+++.|..+|...|++++|..+++    ++++++.+..... .|+.
T Consensus       318 ~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~----~aL~i~~~~lG~~-Hp~~  392 (490)
T 3n71_A          318 KARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYAR----RMVDGYMKLYHHN-NAQL  392 (490)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHH----HHHHHHHHHSCTT-CHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHH----HHHHHHHHHcCCC-CHHH
Confidence            345678888888888877643   1222    24678899999999999999998765    5666666554332 3443


Q ss_pred             -HHHHHHHHHHHhcCCHHHHHHHHHHHHH-----CCCC-CC-HHHHHHHHHHHHhcCCcCcHHHHHHHHHHc
Q 005729          592 -LALNSLINAFGEDQRDAEAFAVLQYMKE-----NGLK-PD-VVTYTTLMKALIRVDKFHKVPAVYEEMILS  655 (680)
Q Consensus       592 -~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~g~~-p~-~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  655 (680)
                       .+++.|...|...|++++|+.++++..+     .|-. |+ ..+...+..++...+.+++|..+|.++.+.
T Consensus       393 a~~l~nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~  464 (490)
T 3n71_A          393 GMAVMRAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREA  464 (490)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence             4899999999999999999999998874     3422 22 234556667888899999999999999753

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=97.64  E-value=0.0016  Score=54.40  Aligned_cols=62  Identities=11%  Similarity=0.083  Sum_probs=26.5

Q ss_pred             HHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCC---HHHHHHHHHHHHHcCChhHHHHHHHHHHHC
Q 005729          442 FYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPD---TITWNTLIDCHFKCGRYDRAEELFEEMQER  504 (680)
Q Consensus       442 ~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~---~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  504 (680)
                      .+..+..++.+.|++++|...|+...+... .+   ...+..+..+|.+.|++++|...|+++.+.
T Consensus        41 ~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           41 ALYWLGESYYATRNFQLAEAQFRDLVSRYP-THDKAAGGLLKLGLSQYGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHHCC-CCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            333344444444444444444444443221 11   233444444444455555555555444443

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.61  E-value=0.0003  Score=74.08  Aligned_cols=131  Identities=12%  Similarity=0.002  Sum_probs=95.9

Q ss_pred             HHHHcCChhHHHHHHHHHHHC---CCCC----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-----CC-CC-CHHHHH
Q 005729          484 CHFKCGRYDRAEELFEEMQER---GYFP----CTTTYNIMINLLGEQERWEDVKRLLGNMRAQ-----GL-LP-NVVTYT  549 (680)
Q Consensus       484 ~~~~~g~~~~A~~~~~~m~~~---~~~p----~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~-----~~-~p-~~~~~~  549 (680)
                      .+...|++++|..++++.++.   -+.+    -..+++.|..+|...|++++|..++.+.++.     |. .| ...+++
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            345678888888888877642   1112    2456888888889999999998888887642     22 12 245788


Q ss_pred             HHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 005729          550 TLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSN-LALNSLINAFGEDQRDAEAFAVLQYMKE  619 (680)
Q Consensus       550 ~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~  619 (680)
                      .|...|...|++++|..+++    +|++++........ |+. .+.+.+..++...+.+++|..+++++++
T Consensus       398 nLa~~~~~~G~~~eA~~~~~----~Al~i~~~~lG~~H-p~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMIC----KAYAILLVTHGPSH-PITKDLEAMRMQTEMELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHH----HHHHHHHHHTCTTS-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHH----HHHHHHHHHhCCCC-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            99999999999999997765    67777666543221 332 3667788888899999999999999986

>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=97.59  E-value=0.00077  Score=70.92  Aligned_cols=29  Identities=14%  Similarity=0.109  Sum_probs=19.1

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 005729          370 EHTYSLLIDAYANAGRWESARIVLKEMEV  398 (680)
Q Consensus       370 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~  398 (680)
                      ...|..+...|.+.|++++|+..|++...
T Consensus       268 a~~~~~~G~~~~~~g~~~~A~~~y~~Al~  296 (457)
T 1kt0_A          268 AAIVKEKGTVYFKGGKYMQAVIQYGKIVS  296 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHH
Confidence            44566666667777777777777766654

>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=97.59  E-value=0.00068  Score=68.99  Aligned_cols=29  Identities=10%  Similarity=0.157  Sum_probs=21.0

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 005729          370 EHTYSLLIDAYANAGRWESARIVLKEMEV  398 (680)
Q Consensus       370 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~  398 (680)
                      ...+..+...|.+.|++++|++.|++..+
T Consensus       223 a~~~~~~g~~~~~~g~~~~Ai~~y~kAl~  251 (370)
T 1ihg_A          223 SEDLKNIGNTFFKSQNWEMAIKKYTKVLR  251 (370)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            45667777777778888888777776654

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3

Probab=97.57  E-value=0.00023  Score=75.36  Aligned_cols=115  Identities=10%  Similarity=-0.037  Sum_probs=55.9

Q ss_pred             HccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 005729          451 GKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVK  530 (680)
Q Consensus       451 ~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~  530 (680)
                      .+.|++++|.+.|++..+.. +.+...|..+..+|.+.|++++|++.+++..+.. +.+...|..+..+|.+.|++++|.
T Consensus        17 ~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~g~~~eA~   94 (477)
T 1wao_1           17 FKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKFRAAL   94 (477)
T ss_dssp             TTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHH
Confidence            34455555555555554432 2234555555555555555555555555555543 334555555555555555566665


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHH--HHhcCChHHHHHHH
Q 005729          531 RLLGNMRAQGLLPNVVTYTTLVDI--YGQSGRFDDAIECL  568 (680)
Q Consensus       531 ~~~~~m~~~~~~p~~~~~~~li~~--~~~~g~~~~A~~~~  568 (680)
                      +.+++..+.... +...+..+..+  +.+.|++++|++.+
T Consensus        95 ~~~~~al~~~p~-~~~~~~~l~~~~~~~~~g~~~~A~~~~  133 (477)
T 1wao_1           95 RDYETVVKVKPH-DKDAKMKYQECNKIVKQKAFERAIAGD  133 (477)
T ss_dssp             HHHHHHHHHSTT-CTTHHHHHHHHHHHHHHHHHCCC----
T ss_pred             HHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            555555553211 22233333333  55555555555544

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=97.56  E-value=0.0001  Score=61.01  Aligned_cols=106  Identities=14%  Similarity=0.081  Sum_probs=76.3

Q ss_pred             cCChHHHHHHHhhhHHHHHHHHHHHHHCCC-CCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 005729          558 SGRFDDAIECLEGLSDQAVNAFRVMRTDGL-KPS-NLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKA  635 (680)
Q Consensus       558 ~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~-~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~  635 (680)
                      .|++++|+..|           ++..+.+. .|+ ...|..+..+|...|++++|+..+++..+.. +-+...+..+..+
T Consensus         3 ~g~~~~A~~~~-----------~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~   70 (117)
T 3k9i_A            3 LGLEAQAVPYY-----------EKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQF-PNHQALRVFYAMV   70 (117)
T ss_dssp             ----CCCHHHH-----------HHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             CCcHHHHHHHH-----------HHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchHHHHHHHHH
Confidence            45666666554           45544321 133 3488999999999999999999999999842 3367889999999


Q ss_pred             HHhcCCcCcHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHhh
Q 005729          636 LIRVDKFHKVPAVYEEMILSGCTPDRKARAMLRSALRYMKQT  677 (680)
Q Consensus       636 ~~~~g~~~~A~~~~~~m~~~g~~pd~~~~~~l~~a~~~~k~~  677 (680)
                      +.+.|++++|.+.+++.++.  .|+.........++....+.
T Consensus        71 ~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~ai~~~~~~  110 (117)
T 3k9i_A           71 LYNLGRYEQGVELLLKIIAE--TSDDETIQSYKQAILFYADK  110 (117)
T ss_dssp             HHHHTCHHHHHHHHHHHHHH--HCCCHHHHHTHHHHHHHTTC
T ss_pred             HHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHH
Confidence            99999999999999999985  55555555566666655443

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=97.55  E-value=0.00086  Score=59.02  Aligned_cols=65  Identities=12%  Similarity=0.092  Sum_probs=52.3

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 005729          474 DTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQ  539 (680)
Q Consensus       474 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~  539 (680)
                      +...|..+..+|.+.|++++|+..+++.++.+ +.+...|..+..++...|++++|...+.+.++.
T Consensus        62 ~~~~~~nla~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  126 (162)
T 3rkv_A           62 NIPLYANMSQCYLNIGDLHEAEETSSEVLKRE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRN  126 (162)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCcHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc
Confidence            34567778888888888888888888888775 556778888888888888888888888888874

>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=97.55  E-value=0.00079  Score=68.53  Aligned_cols=140  Identities=9%  Similarity=-0.033  Sum_probs=94.0

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 005729          405 SFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDC  484 (680)
Q Consensus       405 ~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~  484 (680)
                      ...+..+...+.+.|++++|.+.|++..+.-  +..          ......+       ...+.. +.+...|..+..+
T Consensus       223 a~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~--~~~----------~~~~~~~-------~~~~~~-~~~~~~~~nla~~  282 (370)
T 1ihg_A          223 SEDLKNIGNTFFKSQNWEMAIKKYTKVLRYV--EGS----------RAAAEDA-------DGAKLQ-PVALSCVLNIGAC  282 (370)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--HHH----------HHHSCHH-------HHGGGH-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh--hcC----------ccccChH-------HHHHHH-HHHHHHHHHHHHH
Confidence            4567778888888899999988888876420  000          0000111       111110 1245677788888


Q ss_pred             HHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHH
Q 005729          485 HFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDA  564 (680)
Q Consensus       485 ~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A  564 (680)
                      |.+.|++++|++.+++.++.. +.+...|..+..+|...|++++|...++++.+... .+...+..+...+.+.++.+++
T Consensus       283 ~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P-~~~~~~~~l~~~~~~~~~~~~a  360 (370)
T 1ihg_A          283 KLKMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAP-EDKAIQAELLKVKQKIKAQKDK  360 (370)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhccCHHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHHHHH
Confidence            888888888888888888765 45677888888888888888888888888887532 2566677777777776666655


Q ss_pred             HH
Q 005729          565 IE  566 (680)
Q Consensus       565 ~~  566 (680)
                      .+
T Consensus       361 ~k  362 (370)
T 1ihg_A          361 EK  362 (370)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=97.54  E-value=0.00016  Score=59.76  Aligned_cols=86  Identities=15%  Similarity=0.112  Sum_probs=51.4

Q ss_pred             cCCHHHHHHHHHHHHHCC--CCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 005729          453 YNCLHHAMAAFDRMLSEG--IEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVK  530 (680)
Q Consensus       453 ~g~~~~A~~~~~~m~~~~--~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~  530 (680)
                      .|++++|...|++..+.+  -+.+...|..+..+|.+.|++++|...|++..+.. +-+...+..+..++.+.|++++|.
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~   81 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQF-PNHQALRVFYAMVLYNLGRYEQGV   81 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHcCCHHHHH
Confidence            355566666666666542  12234456666666667777777777777766654 445666666666677777777777


Q ss_pred             HHHHHHHHC
Q 005729          531 RLLGNMRAQ  539 (680)
Q Consensus       531 ~~~~~m~~~  539 (680)
                      ..+.+.++.
T Consensus        82 ~~~~~al~~   90 (117)
T 3k9i_A           82 ELLLKIIAE   90 (117)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHh
Confidence            777766654

>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=97.48  E-value=0.00027  Score=61.03  Aligned_cols=123  Identities=15%  Similarity=0.135  Sum_probs=87.7

Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCH-HHHHHHHH
Q 005729          521 GEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSN-LALNSLIN  599 (680)
Q Consensus       521 ~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~-~~~~~li~  599 (680)
                      .+.+.+++|.+.+++..+.+. .+...|..+..++...++++.+...+ ++.++|+..|++..+  +.|+. .+|..+..
T Consensus        13 ~r~~~feeA~~~~~~Ai~l~P-~~aea~~n~G~~l~~l~~~~~g~~al-~~~~eAi~~le~AL~--ldP~~~~A~~~LG~   88 (158)
T 1zu2_A           13 DRILLFEQIRQDAENTYKSNP-LDADNLTRWGGVLLELSQFHSISDAK-QMIQEAITKFEEALL--IDPKKDEAVWCIGN   88 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHSCHHHHH-HHHHHHHHHHHHHHH--HCTTCHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHhcccchhhhhH-hHHHHHHHHHHHHHH--hCcCcHHHHHHHHH
Confidence            455677888888888887642 27788888888888887776555444 356677778888777  45654 58999999


Q ss_pred             HHHhcC-----------CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCcCcHHHHHHHHHHc
Q 005729          600 AFGEDQ-----------RDAEAFAVLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMILS  655 (680)
Q Consensus       600 ~~~~~g-----------~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  655 (680)
                      +|...|           ++++|++.|+++.+  +.|+...|...+...      ++|.+++-++-..
T Consensus        89 ay~~lg~l~P~~~~a~g~~~eA~~~~~kAl~--l~P~~~~y~~al~~~------~ka~el~~~~~~~  147 (158)
T 1zu2_A           89 AYTSFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHYLKSLEMT------AKAPQLHAEAYKQ  147 (158)
T ss_dssp             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHH------HTHHHHHHHHHHS
T ss_pred             HHHHhcccCcchhhhhccHHHHHHHHHHHHH--hCCCCHHHHHHHHHH------HhCHhccCccccc
Confidence            998774           89999999999998  678876666555433      4455555444433

>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=97.47  E-value=0.0063  Score=65.54  Aligned_cols=170  Identities=9%  Similarity=-0.002  Sum_probs=95.1

Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC----------HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC--
Q 005729          352 KDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGR----------WESARIVLKEMEVSHAKPNSFIYSRILAGYRDRG--  419 (680)
Q Consensus       352 ~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~----------~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g--  419 (680)
                      ++|.+.++++.+.+.. +..+|+.--..+...|+          ++++++.++++.+... -+..+|+.-...+.+.+  
T Consensus        46 eeal~~~~~~l~~nP~-~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~p-K~y~aW~hR~w~l~~l~~~  123 (567)
T 1dce_A           46 ESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNP-KSYGTWHHRCWLLSRLPEP  123 (567)
T ss_dssp             HHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHTCSSC
T ss_pred             HHHHHHHHHHHHHCch-hHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcccc
Confidence            3445555555544321 34444444444444444          5556666665555432 34555555555555555  


Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccC-CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc----------
Q 005729          420 EWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYN-CLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKC----------  488 (680)
Q Consensus       420 ~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g-~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~----------  488 (680)
                      +++++++.++++.+.. +-+..+|+.-...+.+.| ..+++.+.++++.+.. +-|...|+.....+.+.          
T Consensus       124 ~~~~el~~~~k~l~~d-~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~-p~n~saW~~r~~ll~~l~~~~~~~~~~  201 (567)
T 1dce_A          124 NWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGPQG  201 (567)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCSSSCC
T ss_pred             cHHHHHHHHHHHHhhc-cccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHC-CCCccHHHHHHHHHHhhcccccccccc
Confidence            4466666666655543 345555555555555555 5666666666665544 23555666555555442          


Q ss_pred             ----CChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCH
Q 005729          489 ----GRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERW  526 (680)
Q Consensus       489 ----g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~  526 (680)
                          +.++++++.+++..... +-+...|+.+-..+.+.++.
T Consensus       202 ~~~~~~~~eel~~~~~ai~~~-P~~~saW~y~~~ll~~~~~~  242 (567)
T 1dce_A          202 RLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGRAEPH  242 (567)
T ss_dssp             SSCHHHHHHHHHHHHHHHHHC-SSCSHHHHHHHHHHSCCCCC
T ss_pred             cccHHHHHHHHHHHHHHHhhC-CCCccHHHHHHHHHhcCCCc
Confidence                44677888888877765 55677777777777666653

>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=97.43  E-value=0.0064  Score=65.48  Aligned_cols=175  Identities=9%  Similarity=0.005  Sum_probs=142.3

Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC----------HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHcc
Q 005729          384 GRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGE----------WQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKY  453 (680)
Q Consensus       384 g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~----------~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~  453 (680)
                      ...++|++.++++...++ -+...|+.--.++...|+          ++++++.++.+.+.. +-+..+|..-.-.+.+.
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 ELDESVLELTSQILGANP-DFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRL  120 (567)
T ss_dssp             CCSHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTC
T ss_pred             CCCHHHHHHHHHHHHHCc-hhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHc
Confidence            345688999999988753 466778777777777776          899999999998865 66788888888888888


Q ss_pred             C--CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcC-ChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc-------
Q 005729          454 N--CLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCG-RYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQ-------  523 (680)
Q Consensus       454 g--~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g-~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~-------  523 (680)
                      +  +++++.+.++++.+.. +.+...|+.-...+.+.| .++++++.++++++.. +-|...|+.....+.+.       
T Consensus       121 ~~~~~~~el~~~~k~l~~d-~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~-p~n~saW~~r~~ll~~l~~~~~~~  198 (567)
T 1dce_A          121 PEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSG  198 (567)
T ss_dssp             SSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCSS
T ss_pred             ccccHHHHHHHHHHHHhhc-cccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHC-CCCccHHHHHHHHHHhhccccccc
Confidence            8  7899999999999876 458889999888888889 8999999999999886 66888999888777663       


Q ss_pred             -------CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHH
Q 005729          524 -------ERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDD  563 (680)
Q Consensus       524 -------g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~  563 (680)
                             +.++++.+.+.+++.... -+...|..+...+.+.++.++
T Consensus       199 ~~~~~~~~~~~eel~~~~~ai~~~P-~~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          199 PQGRLPENVLLKELELVQNAFFTDP-NDQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             SCCSSCHHHHHHHHHHHHHHHHHCS-SCSHHHHHHHHHHSCCCCCSC
T ss_pred             ccccccHHHHHHHHHHHHHHHhhCC-CCccHHHHHHHHHhcCCCccc
Confidence                   567999999999988642 267888888888888777444

>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=97.40  E-value=0.0053  Score=52.25  Aligned_cols=111  Identities=12%  Similarity=-0.057  Sum_probs=63.0

Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH----cCCHHHH
Q 005729          279 GDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVK----MGYLKDA  354 (680)
Q Consensus       279 g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~A  354 (680)
                      +++++|++.|++..+.| .++..    +...|...+.+++|++.|++..+.|   +...+..|...|..    .+++++|
T Consensus         9 ~d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A   80 (138)
T 1klx_A            9 KDLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKA   80 (138)
T ss_dssp             HHHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             cCHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHH
Confidence            34566666666666555 22222    4445555555666666666666543   44555556666655    5566666


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHHHCC
Q 005729          355 EFVVSEMERSGVLPDEHTYSLLIDAYAN----AGRWESARIVLKEMEVSH  400 (680)
Q Consensus       355 ~~~~~~m~~~g~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~  400 (680)
                      ..+|++..+.|   +...+..|...|..    .++.++|.+.|++..+.|
T Consensus        81 ~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           81 AQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             HHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            66666666553   45555556666655    556666666666555543

>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=97.40  E-value=0.0065  Score=51.71  Aligned_cols=110  Identities=6%  Similarity=-0.102  Sum_probs=67.8

Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH----cCChhHHH
Q 005729          420 EWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFK----CGRYDRAE  495 (680)
Q Consensus       420 ~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~----~g~~~~A~  495 (680)
                      ++++|++.|++..+.| .+...    |...|...+.+++|.+.|++..+.|   +...+..|...|..    .+++++|+
T Consensus        10 d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~   81 (138)
T 1klx_A           10 DLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAA   81 (138)
T ss_dssp             HHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHH
T ss_pred             CHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHHH
Confidence            4556666666666555 33332    5555555556666666666666643   55566666666666    56677777


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCC
Q 005729          496 ELFEEMQERGYFPCTTTYNIMINLLGE----QERWEDVKRLLGNMRAQG  540 (680)
Q Consensus       496 ~~~~~m~~~~~~p~~~t~~~li~~~~~----~g~~~~A~~~~~~m~~~~  540 (680)
                      ++|++..+.|   +...+..|...|..    .++.++|...+++..+.|
T Consensus        82 ~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           82 QYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             HHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            7777766655   45556666666666    667777777777766654

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.37  E-value=0.00046  Score=69.41  Aligned_cols=147  Identities=13%  Similarity=0.024  Sum_probs=64.9

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Q 005729          267 LLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYV  346 (680)
Q Consensus       267 ~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~  346 (680)
                      .+..+...|.+.|++++|+..|++....  .|+...       +...++..++...+   .       ...|..+..+|.
T Consensus       181 ~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~-------~~~~~~~~~~~~~l---~-------~~~~~nla~~~~  241 (338)
T 2if4_A          181 RRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFM-------FQLYGKYQDMALAV---K-------NPCHLNIAACLI  241 (338)
T ss_dssp             HHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHH-------HTCCHHHHHHHHHH---H-------THHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchh-------hhhcccHHHHHHHH---H-------HHHHHHHHHHHH
Confidence            3556667778889999999999887763  344331       11122222222211   0       125555666666


Q ss_pred             HcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH-HHhcCCHHHHH
Q 005729          347 KMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAG-YRDRGEWQRTF  425 (680)
Q Consensus       347 ~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~-~~~~g~~~~A~  425 (680)
                      +.|++++|...+++..+.. +.+...|..+..+|...|++++|+..|++..+... .+...+..+... ....+..+++.
T Consensus       242 ~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p-~~~~a~~~L~~l~~~~~~~~~~a~  319 (338)
T 2if4_A          242 KLKRYDEAIGHCNIVLTEE-EKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAP-DDKAIRRELRALAEQEKALYQKQK  319 (338)
T ss_dssp             TTTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC----------------------------
T ss_pred             HcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHHHHHHHHHH
Confidence            6666666666666666543 22456666666666666666666666666544321 123333333333 22334555566


Q ss_pred             HHHHHHHHC
Q 005729          426 QVLKEMKSS  434 (680)
Q Consensus       426 ~l~~~m~~~  434 (680)
                      .+|..|...
T Consensus       320 ~~~~~~l~~  328 (338)
T 2if4_A          320 EMYKGIFKG  328 (338)
T ss_dssp             ---------
T ss_pred             HHHHHhhCC
Confidence            666665543

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=97.28  E-value=0.00054  Score=68.86  Aligned_cols=150  Identities=13%  Similarity=0.086  Sum_probs=75.7

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 005729          369 DEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMID  448 (680)
Q Consensus       369 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~  448 (680)
                      ....+..+...|.+.|++++|+..|++.....  |+...       +...++.+++...+.          ...|..+..
T Consensus       178 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~--p~~~~-------~~~~~~~~~~~~~l~----------~~~~~nla~  238 (338)
T 2if4_A          178 AADRRKMDGNSLFKEEKLEEAMQQYEMAIAYM--GDDFM-------FQLYGKYQDMALAVK----------NPCHLNIAA  238 (338)
T ss_dssp             HHHHHHHHHHHTCSSSCCHHHHHHHHHHHHHS--CHHHH-------HTCCHHHHHHHHHHH----------THHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHh--ccchh-------hhhcccHHHHHHHHH----------HHHHHHHHH
Confidence            35677778888888999999999998877642  33221       122233333322211          125666777


Q ss_pred             HHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHH-HHhcCCHH
Q 005729          449 TFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINL-LGEQERWE  527 (680)
Q Consensus       449 ~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~-~~~~g~~~  527 (680)
                      +|.+.|++++|...+++.++.. +.+...|..+..+|...|++++|...|++..+.. +-+...+..+... ....+..+
T Consensus       239 ~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~-p~~~~a~~~L~~l~~~~~~~~~  316 (338)
T 2if4_A          239 CLIKLKRYDEAIGHCNIVLTEE-EKNPKALFRRGKAKAELGQMDSARDDFRKAQKYA-PDDKAIRRELRALAEQEKALYQ  316 (338)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC-------------------------
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHH
Confidence            7777777777777777777654 3356677777777777788888887777776543 2233344444333 22345556


Q ss_pred             HHHHHHHHHHHC
Q 005729          528 DVKRLLGNMRAQ  539 (680)
Q Consensus       528 ~A~~~~~~m~~~  539 (680)
                      ++..++.+|...
T Consensus       317 ~a~~~~~~~l~~  328 (338)
T 2if4_A          317 KQKEMYKGIFKG  328 (338)
T ss_dssp             ------------
T ss_pred             HHHHHHHHhhCC
Confidence            666667666553

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.25  E-value=0.00056  Score=55.43  Aligned_cols=91  Identities=11%  Similarity=0.007  Sum_probs=62.4

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC-------HH
Q 005729          474 DTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPN-------VV  546 (680)
Q Consensus       474 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~-------~~  546 (680)
                      +...|..+...+.+.|++++|.+.|++..+.. +.+...|..+..++.+.|++++|...+++.++.  .|+       ..
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~   79 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRY--TSTAEHVAIRSK   79 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS--CSSTTSHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCccHHHHHHH
Confidence            34566677777777888888888888777664 456777777777888888888888888887764  333       44


Q ss_pred             HHHHHHHHHHhcCChHHHHHH
Q 005729          547 TYTTLVDIYGQSGRFDDAIEC  567 (680)
Q Consensus       547 ~~~~li~~~~~~g~~~~A~~~  567 (680)
                      .+..+..++...|+.+.|.+.
T Consensus        80 ~~~~~~~~~~~~~~~~~a~~~  100 (111)
T 2l6j_A           80 LQYRLELAQGAVGSVQIPVVE  100 (111)
T ss_dssp             HHHHHHHHHHHHHCCCCCSSS
T ss_pred             HHHHHHHHHHHHHhHhhhHhH
Confidence            555566666666665555443

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.11  E-value=0.0046  Score=50.49  Aligned_cols=100  Identities=16%  Similarity=0.135  Sum_probs=74.5

Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCcCcHHHHHHHHHH
Q 005729          575 AVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMIL  654 (680)
Q Consensus       575 a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  654 (680)
                      ++..|++..+.. +.+...|..+..+|...|++++|+..+++..+.. +.+...|..+..+|.+.|++++|...|++.++
T Consensus         4 a~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~   81 (115)
T 2kat_A            4 ITERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESGLA   81 (115)
T ss_dssp             HHHHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            344455555532 2345689999999999999999999999999842 33577899999999999999999999999987


Q ss_pred             cCC-CCCHHHHHHHHHHHHHHHh
Q 005729          655 SGC-TPDRKARAMLRSALRYMKQ  676 (680)
Q Consensus       655 ~g~-~pd~~~~~~l~~a~~~~k~  676 (680)
                      ..- ..+......+...++...+
T Consensus        82 ~~~~~~~~~~~~~l~~~l~~l~~  104 (115)
T 2kat_A           82 AAQSRGDQQVVKELQVFLRRLAR  104 (115)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHH
T ss_pred             hccccccHHHHHHHHHHHHHhcc
Confidence            422 2345556666666655443

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.05  E-value=0.0068  Score=46.65  Aligned_cols=81  Identities=16%  Similarity=0.180  Sum_probs=48.0

Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 005729          475 TITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDI  554 (680)
Q Consensus       475 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~  554 (680)
                      ...+..+...+.+.|++++|...|++..+.. +.+...+..+...+.+.|++++|...+++..+.. +.+...+..+..+
T Consensus         9 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~   86 (91)
T 1na3_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAKQNLGNA   86 (91)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCHHHHHHHHHH
Confidence            3455556666666666666666666666553 3455566666666666677777777666666542 1244555555554


Q ss_pred             HHh
Q 005729          555 YGQ  557 (680)
Q Consensus       555 ~~~  557 (680)
                      +.+
T Consensus        87 ~~~   89 (91)
T 1na3_A           87 KQK   89 (91)
T ss_dssp             HHH
T ss_pred             HHh
Confidence            443

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.01  E-value=0.0054  Score=50.02  Aligned_cols=78  Identities=13%  Similarity=0.096  Sum_probs=46.0

Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 005729          459 AMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRA  538 (680)
Q Consensus       459 A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~  538 (680)
                      |...|++..+.. +.+...|..+...|...|++++|...|++..+.. +.+...|..+...+...|++++|...+++..+
T Consensus         4 a~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~   81 (115)
T 2kat_A            4 ITERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESGLA   81 (115)
T ss_dssp             HHHHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            444555554433 2345566666666666666666666666666554 34455666666666666666666666666654

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=96.94  E-value=0.0087  Score=45.99  Aligned_cols=79  Identities=16%  Similarity=0.208  Sum_probs=44.9

Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 005729          441 HFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLL  520 (680)
Q Consensus       441 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~  520 (680)
                      ..+..+...+...|++++|...|++..+.. +.+...+..+...|.+.|++++|...|++..+.. +.+...+..+...+
T Consensus        10 ~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~l~~~~   87 (91)
T 1na3_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAKQNLGNAK   87 (91)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCHHHHHHHHHHH
Confidence            344555555566666666666666655443 2345556666666666666666666666666553 33445555444444


Q ss_pred             H
Q 005729          521 G  521 (680)
Q Consensus       521 ~  521 (680)
                      .
T Consensus        88 ~   88 (91)
T 1na3_A           88 Q   88 (91)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=96.88  E-value=0.003  Score=54.48  Aligned_cols=93  Identities=9%  Similarity=0.007  Sum_probs=57.2

Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC----------hhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 005729          454 NCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGR----------YDRAEELFEEMQERGYFPCTTTYNIMINLLGEQ  523 (680)
Q Consensus       454 g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~----------~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~  523 (680)
                      +.+++|.+.++...+.. +.+...|+.+..++...++          +++|+..|++.++.+ +-+..+|..+..+|...
T Consensus        16 ~~feeA~~~~~~Ai~l~-P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ld-P~~~~A~~~LG~ay~~l   93 (158)
T 1zu2_A           16 LLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNAYTSF   93 (158)
T ss_dssp             HHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHh
Confidence            34555555555555443 2355555555555555544          347777777777665 44566777777777665


Q ss_pred             -----------CCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 005729          524 -----------ERWEDVKRLLGNMRAQGLLPNVVTYTT  550 (680)
Q Consensus       524 -----------g~~~~A~~~~~~m~~~~~~p~~~~~~~  550 (680)
                                 |++++|.+.|++.++.  .|+...|..
T Consensus        94 g~l~P~~~~a~g~~~eA~~~~~kAl~l--~P~~~~y~~  129 (158)
T 1zu2_A           94 AFLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHYLK  129 (158)
T ss_dssp             HHHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHH
T ss_pred             cccCcchhhhhccHHHHHHHHHHHHHh--CCCCHHHHH
Confidence                       3788888888888873  565544433

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=96.87  E-value=0.0037  Score=50.39  Aligned_cols=63  Identities=11%  Similarity=0.176  Sum_probs=33.4

Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHC
Q 005729          441 HFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQER  504 (680)
Q Consensus       441 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  504 (680)
                      ..+..+...+...|++++|...|++..+.. +.+...|..+..+|.+.|++++|++.|++..+.
T Consensus         5 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~   67 (111)
T 2l6j_A            5 EKQKEQGNSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRY   67 (111)
T ss_dssp             HHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            344444555555555555555555555432 224455555555555556666666665555544

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=96.82  E-value=0.0054  Score=48.71  Aligned_cols=64  Identities=27%  Similarity=0.250  Sum_probs=39.2

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 005729          474 DTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRA  538 (680)
Q Consensus       474 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~  538 (680)
                      +...|..+...|.+.|++++|+..|++..+.. +.+...|..+..+|...|++++|...+++.++
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETD-PDYVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            45556666666666666666666666666554 33455566666666666666666666666554

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=96.73  E-value=0.0063  Score=48.29  Aligned_cols=82  Identities=21%  Similarity=0.190  Sum_probs=66.7

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCcCcHHHHHHHHHHcC-CCCCHHHHHHH
Q 005729          590 SNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKP-DVVTYTTLMKALIRVDKFHKVPAVYEEMILSG-CTPDRKARAML  667 (680)
Q Consensus       590 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g-~~pd~~~~~~l  667 (680)
                      +...|..+..+|.+.|++++|+..|++..+.  .| +...|..+..+|.+.|++++|.+.+++.++.. -.++......+
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~l   83 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVET--DPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIEVAREEGTQKDLSEL   83 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhhhcCCchhHHHHH
Confidence            4568899999999999999999999999984  44 56789999999999999999999999998652 24555666666


Q ss_pred             HHHHHH
Q 005729          668 RSALRY  673 (680)
Q Consensus       668 ~~a~~~  673 (680)
                      ...+..
T Consensus        84 ~~~l~~   89 (100)
T 3ma5_A           84 QDAKLK   89 (100)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            665553

>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=96.70  E-value=0.11  Score=51.58  Aligned_cols=170  Identities=15%  Similarity=0.037  Sum_probs=84.2

Q ss_pred             HHHHHHhcccCCHHHHHHhhCCCCCCHHHHHHHHHHHH--HcC---CHHHHHHHHHHHHHcCCCCCh-hhHHHHHHHHHh
Q 005729          167 SILIHALGRSEKLYEAFLLSQRQRLTPLTYNALISACA--RND---DLEKALNLMSKMRQDGYHCDF-INYSLVIQSLTR  240 (680)
Q Consensus       167 ~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~li~~~~--~~g---~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~  240 (680)
                      ..++.++.-.-...++.......+.++.+|...+++..  ..+   ...+|+.+|++..+..  |+. ..|..+.-++..
T Consensus       168 ~~I~~aL~~~l~~~e~~r~~~~~p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~lD--P~~a~A~A~la~a~~~  245 (372)
T 3ly7_A          168 ESLSKALNQPWPQRMQETLQKILPHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQSS--PEFTYARAEKALVDIV  245 (372)
T ss_dssp             HHHHHHTTCCCCHHHHHHHHHHSCSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhCchhhHHHHHHHhccCCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHH
Confidence            33444444333333443444456677888888876654  333   3589999999999874  653 233322222210


Q ss_pred             ---cCCCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChH
Q 005729          241 ---TNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTI  317 (680)
Q Consensus       241 ---~g~~~~~~~~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~  317 (680)
                         .+.........                             ...+.+....+ .. .+.+..+|..+...+...|+++
T Consensus       246 ~~~~~~~~~~~~~~-----------------------------l~~a~~a~~a~-~~-~~~~a~~~~alal~~l~~gd~d  294 (372)
T 3ly7_A          246 RHSQHPLDEKQLAA-----------------------------LNTEIDNIVTL-PE-LNNLSIIYQIKAVSALVKGKTD  294 (372)
T ss_dssp             HHHHSCCCHHHHHH-----------------------------HHHHHHHHHTC-GG-GTTCHHHHHHHHHHHHHHTCHH
T ss_pred             HhccCCCchhhHHH-----------------------------HHHHHHHHHhc-cc-CCcCHHHHHHHHHHHHhCCCHH
Confidence               01001000000                             01111111000 11 1334555555555555556666


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHH
Q 005729          318 EAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTY  373 (680)
Q Consensus       318 ~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~  373 (680)
                      +|...+++....+  |+...|..+...+.-.|+.++|.+.+++....  .|...+|
T Consensus       295 ~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL--~P~~~t~  346 (372)
T 3ly7_A          295 ESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNL--RPGANTL  346 (372)
T ss_dssp             HHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCSHHHH
T ss_pred             HHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCcChH
Confidence            6666666666653  45555555556666666666666666666554  3444443

>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=96.65  E-value=0.009  Score=61.69  Aligned_cols=93  Identities=4%  Similarity=-0.057  Sum_probs=69.4

Q ss_pred             hcCCHHHHHHHHHHHHHC---CCCCC----HHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCH-HH
Q 005729          522 EQERWEDVKRLLGNMRAQ---GLLPN----VVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSN-LA  593 (680)
Q Consensus       522 ~~g~~~~A~~~~~~m~~~---~~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~-~~  593 (680)
                      ..|++++|..++++.++.   -+.|+    ..+++.|..+|...|++++|..+++    ++++++++..-. -.|+. .+
T Consensus       310 ~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~----~aL~i~~~~lG~-~Hp~~a~~  384 (433)
T 3qww_A          310 HYKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQ----KIIKPYSKHYPV-YSLNVASM  384 (433)
T ss_dssp             TTSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHH----HHHHHHHHHSCS-SCHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHH----HHHHHHHHHcCC-CChHHHHH
Confidence            346788888888776642   12222    4678889999999999999998766    566666655432 23444 38


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHH
Q 005729          594 LNSLINAFGEDQRDAEAFAVLQYMKE  619 (680)
Q Consensus       594 ~~~li~~~~~~g~~~~A~~~~~~m~~  619 (680)
                      |+.|...|...|++++|+.++++..+
T Consensus       385 l~nLa~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          385 WLKLGRLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccCHHHHHHHHHHHHH
Confidence            99999999999999999999998874

>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=96.55  E-value=0.021  Score=58.99  Aligned_cols=98  Identities=13%  Similarity=0.148  Sum_probs=73.0

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHC---CCCCC----HHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCC
Q 005729          517 INLLGEQERWEDVKRLLGNMRAQ---GLLPN----VVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKP  589 (680)
Q Consensus       517 i~~~~~~g~~~~A~~~~~~m~~~---~~~p~----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p  589 (680)
                      +..+.+.|++++|..++++.++.   -+.|+    ..+++.|..+|...|++++|..+++    ++++++++..-. ..|
T Consensus       294 ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~----~~L~i~~~~lg~-~Hp  368 (429)
T 3qwp_A          294 IEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGT----RTMEPYRIFFPG-SHP  368 (429)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHH----HHHHHHHHHSCS-SCH
T ss_pred             HHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHH----HHHHhHHHHcCC-CCh
Confidence            33455678888888888888753   12222    4578889999999999999998765    566666655432 234


Q ss_pred             CH-HHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 005729          590 SN-LALNSLINAFGEDQRDAEAFAVLQYMKE  619 (680)
Q Consensus       590 ~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~  619 (680)
                      +. .+|+.|...|...|++++|+.++++..+
T Consensus       369 ~~a~~l~nLa~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          369 VRGVQVMKVGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            43 3899999999999999999999998874

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.47  E-value=0.026  Score=48.07  Aligned_cols=97  Identities=10%  Similarity=0.087  Sum_probs=75.3

Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHhcCCcCcHHHH
Q 005729          574 QAVNAFRVMRTDGLKPSNLALNSLINAFGEDQ---RDAEAFAVLQYMKENGLKP--DVVTYTTLMKALIRVDKFHKVPAV  648 (680)
Q Consensus       574 ~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g---~~~~A~~~~~~m~~~g~~p--~~~~~~~l~~~~~~~g~~~~A~~~  648 (680)
                      .+.+.|.+....|. ++..+...+.+++++.+   +.++++.+++...+.. .|  +...+..|.-++.+.|++++|.++
T Consensus        16 ~~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A~~y   93 (152)
T 1pc2_A           16 KFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKALKY   93 (152)
T ss_dssp             HHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHHHHH
T ss_pred             HHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHHHHH
Confidence            34444555555554 78888888999999988   6779999999998853 35  356677788889999999999999


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHHH
Q 005729          649 YEEMILSGCTPDRKARAMLRSALRYM  674 (680)
Q Consensus       649 ~~~m~~~g~~pd~~~~~~l~~a~~~~  674 (680)
                      ++.+++  +.|+..--..+.+.+.+.
T Consensus        94 ~~~lL~--ieP~n~QA~~Lk~~ie~~  117 (152)
T 1pc2_A           94 VRGLLQ--TEPQNNQAKELERLIDKA  117 (152)
T ss_dssp             HHHHHH--HCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHh--cCCCCHHHHHHHHHHHHH
Confidence            999998  589887777776666643

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.40  E-value=0.2  Score=56.51  Aligned_cols=98  Identities=17%  Similarity=0.208  Sum_probs=55.9

Q ss_pred             HHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 005729          450 FGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDV  529 (680)
Q Consensus       450 ~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A  529 (680)
                      ....|+++.|.++.+.+      .+...|..+...+.+.|+++.|.+.|.++.+         |..+...+...|+.+..
T Consensus       662 ~l~~~~~~~A~~~~~~~------~~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~  726 (814)
T 3mkq_A          662 ALKVGQLTLARDLLTDE------SAEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGL  726 (814)
T ss_dssp             HHHHTCHHHHHHHHTTC------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHH
T ss_pred             hhhcCCHHHHHHHHHhh------CcHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHH
Confidence            34556666666664332      3556777777777777777777777776543         23344444556666655


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHH
Q 005729          530 KRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECL  568 (680)
Q Consensus       530 ~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~  568 (680)
                      .++.+.....|.      ++....+|.+.|++++|++++
T Consensus       727 ~~~~~~a~~~~~------~~~A~~~~~~~g~~~~a~~~~  759 (814)
T 3mkq_A          727 VTLAKDAETTGK------FNLAFNAYWIAGDIQGAKDLL  759 (814)
T ss_dssp             HHHHHHHHHTTC------HHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHcCc------hHHHHHHHHHcCCHHHHHHHH
Confidence            555554444331      233344455566666665543

>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=96.40  E-value=0.0065  Score=62.74  Aligned_cols=93  Identities=10%  Similarity=-0.027  Sum_probs=68.3

Q ss_pred             hcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHH-----CC-CCCCH-HH
Q 005729          557 QSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSN-LALNSLINAFGEDQRDAEAFAVLQYMKE-----NG-LKPDV-VT  628 (680)
Q Consensus       557 ~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~-----~g-~~p~~-~~  628 (680)
                      ..|++++|..+++    +++++..+.... -.|+. .+++.|..+|...|++++|+.++++..+     .| -.|+. .+
T Consensus       310 ~~g~~~eA~~~~~----~~L~i~~~~lg~-~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~  384 (433)
T 3qww_A          310 HYKSPSELLEICE----LSQEKMSSVFED-SNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASM  384 (433)
T ss_dssp             TTSCHHHHHHHHH----HHHHHHTTTBCT-TSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHH
T ss_pred             hccCHHHHHHHHH----HHHHHhhCccCh-hchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHH
Confidence            4578899887765    333333322211 12333 4899999999999999999999999874     33 22333 57


Q ss_pred             HHHHHHHHHhcCCcCcHHHHHHHHHH
Q 005729          629 YTTLMKALIRVDKFHKVPAVYEEMIL  654 (680)
Q Consensus       629 ~~~l~~~~~~~g~~~~A~~~~~~m~~  654 (680)
                      ++.|...|..+|++++|..++++.++
T Consensus       385 l~nLa~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          385 WLKLGRLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccCHHHHHHHHHHHHH
Confidence            88999999999999999999999874

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=96.18  E-value=0.025  Score=44.06  Aligned_cols=83  Identities=11%  Similarity=0.110  Sum_probs=63.1

Q ss_pred             CCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCcCcHHHHHHHHHHcCCCCCHHHH
Q 005729          589 PSNLALNSLINAFGEDQR---DAEAFAVLQYMKENGLKP-DVVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPDRKAR  664 (680)
Q Consensus       589 p~~~~~~~li~~~~~~g~---~~~A~~~~~~m~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd~~~~  664 (680)
                      .+...+..+..++...++   .++|..++++..+  +.| +......+...+.+.|++++|+..|+++++..  |+...+
T Consensus         4 ~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~--~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~--p~~~~~   79 (93)
T 3bee_A            4 VTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQ--LEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSN--DPNLDR   79 (93)
T ss_dssp             CCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCC--CTTCCH
T ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHH--HCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCCccH
Confidence            456678888888865555   7999999999998  455 56788888999999999999999999999864  333334


Q ss_pred             HHHHHHHHHHH
Q 005729          665 AMLRSALRYMK  675 (680)
Q Consensus       665 ~~l~~a~~~~k  675 (680)
                      ..+.+.+..-+
T Consensus        80 ~~i~~~I~~A~   90 (93)
T 3bee_A           80 VTIIESINKAK   90 (93)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            45555555433

>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=96.13  E-value=0.12  Score=51.32  Aligned_cols=76  Identities=8%  Similarity=0.006  Sum_probs=65.4

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCcCcHHHHHHHHHHcCCCCCHHHHHHH
Q 005729          588 KPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPDRKARAML  667 (680)
Q Consensus       588 ~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd~~~~~~l  667 (680)
                      ..+..+|..+...+...|++++|+..++++.+.  .|+...|..+...+.-.|+.++|.+.|++.++.  .|...++...
T Consensus       274 ~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~L--n~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL--~P~~~t~~~~  349 (372)
T 3ly7_A          274 NNLSIIYQIKAVSALVKGKTDESYQAINTGIDL--EMSWLNYVLLGKVYEMKGMNREAADAYLTAFNL--RPGANTLYWI  349 (372)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCSHHHHHHH
T ss_pred             CcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCcChHHHH
Confidence            456678888888888889999999999999995  488888888899999999999999999999985  7777776544

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.13  E-value=0.31  Score=55.01  Aligned_cols=97  Identities=15%  Similarity=0.110  Sum_probs=56.5

Q ss_pred             HHcCCHHHHHH-HHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHH
Q 005729          276 AKAGDASKAMR-FLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDA  354 (680)
Q Consensus       276 ~~~g~~~~A~~-~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A  354 (680)
                      ...+++++|.+ ++..+      ++......++..+.+.|..++|+++.+.-.            .-.......|++++|
T Consensus       610 ~~~~~~~~a~~~~l~~i------~~~~~~~~~~~~l~~~~~~~~a~~~~~~~~------------~~f~~~l~~~~~~~A  671 (814)
T 3mkq_A          610 TLRGEIEEAIENVLPNV------EGKDSLTKIARFLEGQEYYEEALNISPDQD------------QKFELALKVGQLTLA  671 (814)
T ss_dssp             HHTTCHHHHHHHTGGGC------CCHHHHHHHHHHHHHTTCHHHHHHHCCCHH------------HHHHHHHHHTCHHHH
T ss_pred             HHhCCHHHHHHHHHhcC------CchHHHHHHHHHHHhCCChHHheecCCCcc------------hheehhhhcCCHHHH
Confidence            45677777766 44211      112223566666777777777766553211            112334566777777


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 005729          355 EFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEM  396 (680)
Q Consensus       355 ~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  396 (680)
                      .++.+.+      .+...|..|...+.+.++++.|.+.|.++
T Consensus       672 ~~~~~~~------~~~~~W~~la~~al~~~~~~~A~~~y~~~  707 (814)
T 3mkq_A          672 RDLLTDE------SAEMKWRALGDASLQRFNFKLAIEAFTNA  707 (814)
T ss_dssp             HHHHTTC------CCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHhh------CcHhHHHHHHHHHHHcCCHHHHHHHHHHc
Confidence            7765433      25667777777777777777777776655

>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=96.06  E-value=0.033  Score=57.50  Aligned_cols=98  Identities=11%  Similarity=0.051  Sum_probs=70.3

Q ss_pred             HHHHHHcCChhHHHHHHHHHHHCC---CCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHC-----CC-CC-CHHH
Q 005729          482 IDCHFKCGRYDRAEELFEEMQERG---YFPC----TTTYNIMINLLGEQERWEDVKRLLGNMRAQ-----GL-LP-NVVT  547 (680)
Q Consensus       482 i~~~~~~g~~~~A~~~~~~m~~~~---~~p~----~~t~~~li~~~~~~g~~~~A~~~~~~m~~~-----~~-~p-~~~~  547 (680)
                      +..+.+.|++++|+.++++.++..   +.|+    ..+++.+..+|...|++++|+.++.+++..     |. .| ...+
T Consensus       294 ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~  373 (429)
T 3qwp_A          294 IEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQ  373 (429)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHH
T ss_pred             HHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHH
Confidence            444557788888888888887531   2222    356788888888899999999888877642     21 22 2457


Q ss_pred             HHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHH
Q 005729          548 YTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMR  583 (680)
Q Consensus       548 ~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~  583 (680)
                      ++.|...|...|++++|..+++    +|++++....
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~----~Al~i~~~~l  405 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLR----LAFDIMRVTH  405 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHH----HHHHHHHHHT
T ss_pred             HHHHHHHHHhcCCHHHHHHHHH----HHHHHHHHhc
Confidence            8889999999999999997765    6666666553

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=95.91  E-value=0.061  Score=51.10  Aligned_cols=91  Identities=16%  Similarity=0.122  Sum_probs=72.8

Q ss_pred             HHHHHHHHHHHHCCCCCC---HHHHHHHHHHHHhc-----CCHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHhc-CC
Q 005729          573 DQAVNAFRVMRTDGLKPS---NLALNSLINAFGED-----QRDAEAFAVLQYMKENGLKP--DVVTYTTLMKALIRV-DK  641 (680)
Q Consensus       573 ~~a~~~~~~m~~~g~~p~---~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~g~~p--~~~~~~~l~~~~~~~-g~  641 (680)
                      .++...+++..+  +.|+   ...|..|...|.+.     |+.++|.+.|++.++  +.|  +..++....+.+++. |+
T Consensus       180 ~~A~a~lerAle--LDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~--LnP~~~id~~v~YA~~l~~~~gd  255 (301)
T 3u64_A          180 HAAVMMLERACD--LWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTR--YCSAHDPDHHITYADALCIPLNN  255 (301)
T ss_dssp             HHHHHHHHHHHH--HCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHH--HCCTTCSHHHHHHHHHTTTTTTC
T ss_pred             HHHHHHHHHHHH--hCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHH--hCCCCCchHHHHHHHHHHHhcCC
Confidence            345555555555  5677   45899999999984     999999999999999  667  377888889988885 99


Q ss_pred             cCcHHHHHHHHHHcCCC--CCHHHHHHH
Q 005729          642 FHKVPAVYEEMILSGCT--PDRKARAML  667 (680)
Q Consensus       642 ~~~A~~~~~~m~~~g~~--pd~~~~~~l  667 (680)
                      .+++.+++++.++....  |+......+
T Consensus       256 ~~~a~~~L~kAL~a~p~~~P~~~lan~~  283 (301)
T 3u64_A          256 RAGFDEALDRALAIDPESVPHNKLLVIL  283 (301)
T ss_dssp             HHHHHHHHHHHHHCCGGGCSSCHHHHHH
T ss_pred             HHHHHHHHHHHHcCCCCCCCChhHHHHH
Confidence            99999999999998877  777655443

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=95.79  E-value=0.041  Score=43.01  Aligned_cols=77  Identities=17%  Similarity=0.267  Sum_probs=57.9

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHH-HHHHHHHHHHhcCCcCcHHHHHHHHHHcCCCCCH-HHH--HHHHHHH
Q 005729          597 LINAFGEDQRDAEAFAVLQYMKENGLKP-DVV-TYTTLMKALIRVDKFHKVPAVYEEMILSGCTPDR-KAR--AMLRSAL  671 (680)
Q Consensus       597 li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~-~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd~-~~~--~~l~~a~  671 (680)
                      ....+.+.|++++|+..++++.+.  .| +.. .|..+..+|.+.|++++|.+.+++.++..  |+. ..+  ..+.+++
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~a~   81 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQT--EPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELN--PDSPALQARKMVMDIL   81 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHH--CSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTSTHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCcHHHHHHHHHHHHH
Confidence            455677889999999999998874  44 556 88888889999999999999999998763  333 333  6667777


Q ss_pred             HHHHhh
Q 005729          672 RYMKQT  677 (680)
Q Consensus       672 ~~~k~~  677 (680)
                      ...++.
T Consensus        82 ~~~~~~   87 (99)
T 2kc7_A           82 NFYNKD   87 (99)
T ss_dssp             HHHCCT
T ss_pred             HHHHHH
Confidence            666554

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=95.51  E-value=0.078  Score=41.35  Aligned_cols=57  Identities=16%  Similarity=0.158  Sum_probs=37.8

Q ss_pred             HHHHHHcCChhHHHHHHHHHHHCCCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 005729          482 IDCHFKCGRYDRAEELFEEMQERGYFPCTT-TYNIMINLLGEQERWEDVKRLLGNMRAQ  539 (680)
Q Consensus       482 i~~~~~~g~~~~A~~~~~~m~~~~~~p~~~-t~~~li~~~~~~g~~~~A~~~~~~m~~~  539 (680)
                      ...+.+.|++++|...|++..+.. +.+.. .|..+..++...|++++|...+++.++.
T Consensus         7 a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~   64 (99)
T 2kc7_A            7 IKELINQGDIENALQALEEFLQTE-PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIEL   64 (99)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC-SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            445566677777777777776654 34455 6666667777777777777777777664

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=95.32  E-value=0.12  Score=41.07  Aligned_cols=73  Identities=8%  Similarity=-0.006  Sum_probs=58.3

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC------CCCCCHHHHHHHHHHHHhcCCcCcHHHHHHHHHHcCCCCCHHH
Q 005729          590 SNLALNSLINAFGEDQRDAEAFAVLQYMKEN------GLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPDRKA  663 (680)
Q Consensus       590 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~------g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd~~~  663 (680)
                      +..-.-.|+..+.+.|+++.|..+++.+.+.      +-.+...++..|..++.+.|++++|..+++++++  +.|+...
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~--l~P~~~~   81 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE--LDPEHQR   81 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHH
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHh--cCCCCHH
Confidence            3344557888899999999999999998862      1123567889999999999999999999999998  4777654


Q ss_pred             H
Q 005729          664 R  664 (680)
Q Consensus       664 ~  664 (680)
                      .
T Consensus        82 ~   82 (104)
T 2v5f_A           82 A   82 (104)
T ss_dssp             H
T ss_pred             H
Confidence            3

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=95.09  E-value=1.4  Score=38.46  Aligned_cols=101  Identities=11%  Similarity=0.112  Sum_probs=66.1

Q ss_pred             HHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHH
Q 005729          275 FAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDA  354 (680)
Q Consensus       275 ~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A  354 (680)
                      ..+.|+++.|.++.+.+      .+...|..|.......|+++-|.+.|.+..+         +..+.-.|.-.|+.+..
T Consensus        15 AL~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~L   79 (177)
T 3mkq_B           15 ALEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNKL   79 (177)
T ss_dssp             HHHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHHH
T ss_pred             HHhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHHH
Confidence            45678888888877665      2566788888888888888888888877653         33455556667777666


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 005729          355 EFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEM  396 (680)
Q Consensus       355 ~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m  396 (680)
                      ..+-+.....|      -++.....+...|+++++.++|.+.
T Consensus        80 ~kla~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~~~  115 (177)
T 3mkq_B           80 SKMQNIAQTRE------DFGSMLLNTFYNNSTKERSSIFAEG  115 (177)
T ss_dssp             HHHHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHHT
T ss_pred             HHHHHHHHHCc------cHHHHHHHHHHcCCHHHHHHHHHHC
Confidence            65555554443      1344445566677777777777543

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=95.07  E-value=1.2  Score=36.61  Aligned_cols=140  Identities=14%  Similarity=0.124  Sum_probs=97.5

Q ss_pred             HHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHH
Q 005729          486 FKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAI  565 (680)
Q Consensus       486 ~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~  565 (680)
                      .-.|..++..++..+.....   +..-||.+|--....-+-+-..++++.+-+. +.            ...+|++....
T Consensus        18 ildG~v~qGveii~k~~~ss---ni~E~NW~ICNiiD~a~C~y~v~vLd~IGki-FD------------is~C~NlKrVi   81 (172)
T 1wy6_A           18 LLDGYIDEGVKIVLEITKSS---TKSEYNWFICNLLESIDCRYMFQVLDKIGSY-FD------------LDKCQNLKSVV   81 (172)
T ss_dssp             HHTTCHHHHHHHHHHHHHHS---CHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG-SC------------GGGCSCTHHHH
T ss_pred             HHhhhHHHHHHHHHHHcCCC---CccccceeeeecchhhchhHHHHHHHHHhhh-cC------------cHhhhcHHHHH
Confidence            34677788888888777643   5666777776666666666666666655432 21            12345555444


Q ss_pred             HHHhhhHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCcCcH
Q 005729          566 ECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALIRVDKFHKV  645 (680)
Q Consensus       566 ~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A  645 (680)
                      ..+-             .   ...+....+..++.+..+|+.+.-.+++..+.. +.+|++.....+..||.+.|+..+|
T Consensus        82 ~C~~-------------~---~n~~se~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a  144 (172)
T 1wy6_A           82 ECGV-------------I---NNTLNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDA  144 (172)
T ss_dssp             HHHH-------------H---TTCCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHH-------------H---hcchHHHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhH
Confidence            4431             0   123445667778888899999999999988644 3578899999999999999999999


Q ss_pred             HHHHHHHHHcCCC
Q 005729          646 PAVYEEMILSGCT  658 (680)
Q Consensus       646 ~~~~~~m~~~g~~  658 (680)
                      .+++++.-++|+.
T Consensus       145 ~eLl~~AC~kG~k  157 (172)
T 1wy6_A          145 TTLLIEACKKGEK  157 (172)
T ss_dssp             HHHHHHHHHTTCH
T ss_pred             HHHHHHHHHhhhH
Confidence            9999999998853

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=94.50  E-value=1.6  Score=35.88  Aligned_cols=68  Identities=19%  Similarity=0.111  Sum_probs=41.9

Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 005729          474 DTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLL  542 (680)
Q Consensus       474 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~  542 (680)
                      +....+..++.+...|+-++-.+++.++.... +|++.....+..+|.+.|+..++.+++.++-+.|++
T Consensus        90 ~se~vd~ALd~lv~~~KkDqLdki~~~~l~n~-~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~k  157 (172)
T 1wy6_A           90 LNEHVNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKKGEK  157 (172)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             hHHHHHHHHHHHHHhccHhHHHHHHHHHhccC-CCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhhH
Confidence            34445555666666666666666666654332 566666666666777777777777777666666643

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=94.43  E-value=1.5  Score=38.15  Aligned_cols=101  Identities=12%  Similarity=0.097  Sum_probs=53.3

Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHH
Q 005729          309 ALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWES  388 (680)
Q Consensus       309 ~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~  388 (680)
                      ...+.|+++.|.++.+.+      .+...|..|.......|+++-|++.|.+...         +..+.-.|.-.|+.+.
T Consensus        14 LAL~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~   78 (177)
T 3mkq_B           14 LALEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNK   78 (177)
T ss_dssp             HHHHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHH
T ss_pred             HHHhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHH
Confidence            344566666666665554      2456666666666666666666666665542         2233444455555555


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 005729          389 ARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKE  430 (680)
Q Consensus       389 A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~  430 (680)
                      ..++-+.....|-      ++.....+.-.|+++++.++|.+
T Consensus        79 L~kla~iA~~~g~------~n~af~~~l~lGdv~~~i~lL~~  114 (177)
T 3mkq_B           79 LSKMQNIAQTRED------FGSMLLNTFYNNSTKERSSIFAE  114 (177)
T ss_dssp             HHHHHHHHHHTTC------HHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHCcc------HHHHHHHHHHcCCHHHHHHHHHH
Confidence            5444443333321      33334444455555555555533

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=94.22  E-value=0.77  Score=35.41  Aligned_cols=66  Identities=8%  Similarity=-0.046  Sum_probs=41.8

Q ss_pred             CCHHHHHHHHHHHHHcCC---hhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 005729          473 PDTITWNTLIDCHFKCGR---YDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQ  539 (680)
Q Consensus       473 ~~~~~~~~li~~~~~~g~---~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~  539 (680)
                      .+...+..+..++...++   .++|..+|++.++.+ +-+......+...+.+.|++++|...|+++.+.
T Consensus         4 ~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~d-p~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~   72 (93)
T 3bee_A            4 VTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLE-PYNEAALSLIANDHFISFRFQEAIDTWVLLLDS   72 (93)
T ss_dssp             CCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTC
T ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            445555555555544433   567777777766665 555666666666667777777777777777665

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=93.74  E-value=0.34  Score=39.59  Aligned_cols=91  Identities=11%  Similarity=0.131  Sum_probs=68.0

Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHH---HHHHHHHHHHCCCCC--CHHHHHHHHHHHHhcCCcCcHHHHHHHH
Q 005729          578 AFRVMRTDGLKPSNLALNSLINAFGEDQRDAE---AFAVLQYMKENGLKP--DVVTYTTLMKALIRVDKFHKVPAVYEEM  652 (680)
Q Consensus       578 ~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~---A~~~~~~m~~~g~~p--~~~~~~~l~~~~~~~g~~~~A~~~~~~m  652 (680)
                      -|......|. ++..+--.+.+++.+.....+   ++.+++...+.+ .|  .......|.-++.+.|++++|.++++.+
T Consensus        23 ~y~~e~~~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~-~p~~~Rd~lY~LAvg~yklg~Y~~A~~~~~~l  100 (126)
T 1nzn_A           23 KFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKALKYVRGL  100 (126)
T ss_dssp             HHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHhccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence            3444444343 777887789999999887766   888888887753 23  3345556778899999999999999999


Q ss_pred             HHcCCCCCHHHHHHHHHHHH
Q 005729          653 ILSGCTPDRKARAMLRSALR  672 (680)
Q Consensus       653 ~~~g~~pd~~~~~~l~~a~~  672 (680)
                      ++  +.|+..-...|...+.
T Consensus       101 L~--~eP~n~QA~~Lk~~i~  118 (126)
T 1nzn_A          101 LQ--TEPQNNQAKELERLID  118 (126)
T ss_dssp             HH--HCTTCHHHHHHHHHHH
T ss_pred             HH--hCCCCHHHHHHHHHHH
Confidence            98  5898876666666655

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=93.72  E-value=0.41  Score=40.69  Aligned_cols=80  Identities=9%  Similarity=0.049  Sum_probs=37.4

Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHHCCCCC--CHHHHHHHHHHHHhcCCHHHHHHH
Q 005729          353 DAEFVVSEMERSGVLPDEHTYSLLIDAYANAG---RWESARIVLKEMEVSHAKP--NSFIYSRILAGYRDRGEWQRTFQV  427 (680)
Q Consensus       353 ~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g---~~~~A~~~~~~m~~~~~~~--~~~~~~~ll~~~~~~g~~~~A~~l  427 (680)
                      .+.+-|.+..+.|. ++..+...+..++++.+   +.++++.+|++..+.. .|  ....+-.+.-+|.+.|++++|.+.
T Consensus        16 ~~~~~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A~~y   93 (152)
T 1pc2_A           16 KFEKKFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKALKY   93 (152)
T ss_dssp             HHHHHHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHHHHH
T ss_pred             HHHHHHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHHHHH
Confidence            33444444433332 34445445555555544   3445555555554432 11  233344444455555555555555


Q ss_pred             HHHHHHC
Q 005729          428 LKEMKSS  434 (680)
Q Consensus       428 ~~~m~~~  434 (680)
                      ++.+.+.
T Consensus        94 ~~~lL~i  100 (152)
T 1pc2_A           94 VRGLLQT  100 (152)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHhc
Confidence            5555543

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=93.63  E-value=1.3  Score=44.69  Aligned_cols=79  Identities=20%  Similarity=0.154  Sum_probs=64.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCcCcHHHHHHHHHH-----cCCCCCHHHHHHH
Q 005729          593 ALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMIL-----SGCTPDRKARAML  667 (680)
Q Consensus       593 ~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~-----~g~~pd~~~~~~l  667 (680)
                      +...++..+...|++++|+..++.+.... +-+...|..+|.+|.+.|+..+|.+.|+++.+     .|+.|...+....
T Consensus       173 a~~~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~l~  251 (388)
T 2ff4_A          173 AHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRALN  251 (388)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHH
Confidence            34557778888999999999999888732 33788999999999999999999999998764     5999999988766


Q ss_pred             HHHHH
Q 005729          668 RSALR  672 (680)
Q Consensus       668 ~~a~~  672 (680)
                      ...++
T Consensus       252 ~~il~  256 (388)
T 2ff4_A          252 ERILR  256 (388)
T ss_dssp             HHHHT
T ss_pred             HHHHc
Confidence            55443

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=93.33  E-value=0.85  Score=35.95  Aligned_cols=21  Identities=14%  Similarity=-0.039  Sum_probs=8.8

Q ss_pred             HHHHHHHHcCCHHHHHHHHHH
Q 005729          340 ALLKGYVKMGYLKDAEFVVSE  360 (680)
Q Consensus       340 ~li~~~~~~g~~~~A~~~~~~  360 (680)
                      .+...+.+.|+++.|...|+.
T Consensus        10 ~lG~~~~~~~~y~~A~~W~~~   30 (104)
T 2v5f_A           10 ELGKVAYTEADYYHTELWMEQ   30 (104)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHccchHHHHHHHHH
Confidence            334444444444444444443

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=91.34  E-value=1.7  Score=41.25  Aligned_cols=84  Identities=17%  Similarity=0.112  Sum_probs=42.6

Q ss_pred             HHHHHHHHHHHHcCCCCC---HHHHHHHHHHHHHc-----CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc-CCHH
Q 005729          317 IEAEAVFEELKESGLKPR---TKAYNALLKGYVKM-----GYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANA-GRWE  387 (680)
Q Consensus       317 ~~A~~l~~~m~~~g~~p~---~~~~~~li~~~~~~-----g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~-g~~~  387 (680)
                      ..|..++++.++.  .|+   -..|..|...|.+.     |+.++|.+.|++..+.+..-+..++....+.++.. |+.+
T Consensus       180 ~~A~a~lerAleL--DP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~  257 (301)
T 3u64_A          180 HAAVMMLERACDL--WPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRA  257 (301)
T ss_dssp             HHHHHHHHHHHHH--CTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHH
T ss_pred             HHHHHHHHHHHHh--CCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHH
Confidence            3444445554443  233   33455555555552     55666666666555543222344555555555553 5556


Q ss_pred             HHHHHHHHHHHCCCC
Q 005729          388 SARIVLKEMEVSHAK  402 (680)
Q Consensus       388 ~A~~~~~~m~~~~~~  402 (680)
                      ++.+.+++.......
T Consensus       258 ~a~~~L~kAL~a~p~  272 (301)
T 3u64_A          258 GFDEALDRALAIDPE  272 (301)
T ss_dssp             HHHHHHHHHHHCCGG
T ss_pred             HHHHHHHHHHcCCCC
Confidence            666666555554443

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=90.85  E-value=12  Score=36.05  Aligned_cols=124  Identities=16%  Similarity=0.179  Sum_probs=61.5

Q ss_pred             ccCCHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCCCh--HHHHHH
Q 005729          175 RSEKLYEAFLLSQRQRLTPLTYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDS--SLLQKL  252 (680)
Q Consensus       175 ~~g~~~~A~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~--~~~~~l  252 (680)
                      ..|++.||..          .|.++..-|.+.+++++|++++..-..               .+.+.|+...  .++..+
T Consensus        25 ~~G~yYEAhQ----------~~Rtl~~Ry~~~~~~~eAidlL~~ga~---------------~ll~~~Q~~sa~DLa~ll   79 (312)
T 2wpv_A           25 KAGDYYEAHQ----------TLRTIANRYVRSKSYEHAIELISQGAL---------------SFLKAKQGGSGTDLIFYL   79 (312)
T ss_dssp             HHTCHHHHHH----------HHHHHHHHHHHTTCHHHHHHHHHHHHH---------------HHHHTTCHHHHHHHHHHH
T ss_pred             hccChHHHHH----------HHHHHHHHHHHhcCHHHHHHHHHHHHH---------------HHHHCCCcchHHHHHHHH
Confidence            4466666655          677777888888888888887655322               1122222211  222334


Q ss_pred             HHHHHhCCCCcCHHHHHHHHHHHHHcCCHH-HHHHHHHHHHh----CCC--CCCHHHHHHHHHHHHhcCChHHHHHHH
Q 005729          253 YKEIECDKIELDGQLLNDVIVGFAKAGDAS-KAMRFLGMAQG----VGL--SPKTATYAAVITALSNSGRTIEAEAVF  323 (680)
Q Consensus       253 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~-~A~~~~~~~~~----~g~--~p~~~~~~~li~~~~~~g~~~~A~~l~  323 (680)
                      .+-..+.+++++......++..+.....-+ +=.++.+.+.+    .|-  .-+......+...|.+.|++.+|..-|
T Consensus        80 vev~~~~~~~~~~~~~~rl~~l~~~~p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~H~  157 (312)
T 2wpv_A           80 LEVYDLAEVKVDDISVARLVRLIAELDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERYF  157 (312)
T ss_dssp             HHHHHHTTCCCSHHHHHHHHHHHTTCCTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHcCCCCCHHHHHHHHHHHHHCCCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHHHH
Confidence            444455566666666666665554432111 01122222221    111  123444555556666666666655544

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=90.61  E-value=6.1  Score=32.83  Aligned_cols=84  Identities=6%  Similarity=-0.011  Sum_probs=64.4

Q ss_pred             CCCCHHHHHHHHHHHHhcCCH---HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCcCcHHHHHHHHHHcCCCCCHHH
Q 005729          587 LKPSNLALNSLINAFGEDQRD---AEAFAVLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPDRKA  663 (680)
Q Consensus       587 ~~p~~~~~~~li~~~~~~g~~---~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd~~~  663 (680)
                      -.|+..+--.+.+++.+..+.   .+++.+++.....+-.-.......|.-++.+.|++++|.++.+.+++  +.|+..-
T Consensus        35 ~~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~--~eP~n~Q  112 (144)
T 1y8m_A           35 PTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE--HERNNKQ  112 (144)
T ss_dssp             TTSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHH--TCCCCHH
T ss_pred             CCCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHh--cCCCcHH
Confidence            357777777788899887754   56888888888743222344555677889999999999999999998  6998877


Q ss_pred             HHHHHHHHH
Q 005729          664 RAMLRSALR  672 (680)
Q Consensus       664 ~~~l~~a~~  672 (680)
                      ...|...++
T Consensus       113 A~~Lk~~Ie  121 (144)
T 1y8m_A          113 VGALKSMVE  121 (144)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            777776665

>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=90.43  E-value=2.3  Score=34.93  Aligned_cols=85  Identities=7%  Similarity=0.015  Sum_probs=65.7

Q ss_pred             CCCCCHHHHHHHHHHHHhcCCH---HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCcCcHHHHHHHHHHcCCCCCHH
Q 005729          586 GLKPSNLALNSLINAFGEDQRD---AEAFAVLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPDRK  662 (680)
Q Consensus       586 g~~p~~~~~~~li~~~~~~g~~---~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd~~  662 (680)
                      +-.|+..+--.+.+++.+..+.   .+++.+++...+.+-.-....+..|.-++.+.|++++|.++.+.+++  +.|+..
T Consensus        35 ~~~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~--~eP~N~  112 (134)
T 3o48_A           35 GPTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE--HERNNK  112 (134)
T ss_dssp             GGGSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHT--TCTTCH
T ss_pred             CCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHh--hCCCCH
Confidence            4457777777788888887654   56888988888754111355677788899999999999999999998  689888


Q ss_pred             HHHHHHHHHH
Q 005729          663 ARAMLRSALR  672 (680)
Q Consensus       663 ~~~~l~~a~~  672 (680)
                      -...|...+.
T Consensus       113 QA~~Lk~~Ie  122 (134)
T 3o48_A          113 QVGALKSMVE  122 (134)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            7777777665

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=89.73  E-value=1.2  Score=36.34  Aligned_cols=67  Identities=9%  Similarity=0.062  Sum_probs=30.3

Q ss_pred             CCHHHHHHHHHHHHHcCCHHH---HHHHHHHHHHCCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 005729          368 PDEHTYSLLIDAYANAGRWES---ARIVLKEMEVSHAK-PNSFIYSRILAGYRDRGEWQRTFQVLKEMKSS  434 (680)
Q Consensus       368 ~~~~~~~~li~~~~~~g~~~~---A~~~~~~m~~~~~~-~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~  434 (680)
                      ++..+-..+..++++......   ++.+++.+...+.+ -.....-.+.-++.+.|++++|.+.++.+.+.
T Consensus        33 ~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A~~~~~~lL~~  103 (126)
T 1nzn_A           33 VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQT  103 (126)
T ss_dssp             CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHh
Confidence            344444444455555444333   44555544433210 12223333444555555555555555555543

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=89.73  E-value=4.5  Score=44.36  Aligned_cols=54  Identities=17%  Similarity=0.148  Sum_probs=47.4

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCcCcHHHHHHHHH
Q 005729          598 INAFGEDQRDAEAFAVLQYMKENGLKP-DVVTYTTLMKALIRVDKFHKVPAVYEEMI  653 (680)
Q Consensus       598 i~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  653 (680)
                      ..-|...|+++-|+++.++...  +.| +..+|..|..+|.+.|+++.|+-.++.+.
T Consensus       344 a~FLl~K~~~elAL~~Ak~AV~--~aPseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          344 TNFLLNRGDYELALGVSNTSTE--LALDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH--HCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             HHHHhccCcHHHHHHHHHHHHh--cCchhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence            4456678999999999999998  556 57899999999999999999999999884

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=89.52  E-value=7.5  Score=45.51  Aligned_cols=165  Identities=11%  Similarity=0.098  Sum_probs=98.7

Q ss_pred             HHHhcccCCHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCCChHHH
Q 005729          170 IHALGRSEKLYEAFLLSQRQRLTPLTYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRTNKIDSSLL  249 (680)
Q Consensus       170 i~~~~~~g~~~~A~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~~~~~~  249 (680)
                      +..+.+.+..+-++.+..-.+.++..--.+..+|...|++++|.+.|++... |+..+......+               
T Consensus       819 ~~~l~~~~~~~~~~~l~~~~~~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~-~~~~~~~l~~~~---------------  882 (1139)
T 4fhn_B          819 VEKLFLFKQYNACMQLIGWLNSDPIAVYLKALIYLKSKEAVKAVRCFKTTSL-VLYSHTSQFAVL---------------  882 (1139)
T ss_dssp             HHHHHHHSCTTHHHHHHHHSCCCHHHHHHHHHHHHHTTCHHHHHHHHHTCCC-SCTTCCCSCSSH---------------
T ss_pred             HHHHHHhhhHHHHHHHhhhccCCcHHHHHHHHHHHhcCCHHHHHHHHHHHhh-hhcccchhhhhh---------------
Confidence            3444455555556555334455666666677888888999999998877532 222221111000               


Q ss_pred             HHHHHHHHhC--CCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCC----HHHHHHHHHHHHhcCChHHHHHHH
Q 005729          250 QKLYKEIECD--KIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPK----TATYAAVITALSNSGRTIEAEAVF  323 (680)
Q Consensus       250 ~~l~~~~~~~--~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~----~~~~~~li~~~~~~g~~~~A~~l~  323 (680)
                      .. ...+...  ....-..-|..++..+-+.|.++.++++-....+...+.+    ...|..+.+.+...|++++|...+
T Consensus       883 ~~-~~~~~~~~~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL  961 (1139)
T 4fhn_B          883 RE-FQEIAEKYHHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVAL  961 (1139)
T ss_dssp             HH-HHHHHHTTTSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHH
T ss_pred             cc-cccccccccccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHH
Confidence            00 1111111  1122345677788888888888888888776654321111    124777888888888988888888


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHHHHcCCHHH
Q 005729          324 EELKESGLKPRTKAYNALLKGYVKMGYLKD  353 (680)
Q Consensus       324 ~~m~~~g~~p~~~~~~~li~~~~~~g~~~~  353 (680)
                      -.+.....  -......|+..+|..|..+.
T Consensus       962 ~~~pd~~~--r~~cLr~LV~~lce~~~~~~  989 (1139)
T 4fhn_B          962 MVLSTTPL--KKSCLLDFVNQLTKQGKINQ  989 (1139)
T ss_dssp             HHHHHSSS--CHHHHHHHHHHHHHHCCHHH
T ss_pred             HhCCCHHH--HHHHHHHHHHHHHhCCChhh
Confidence            88776543  45566777777777666443

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=89.28  E-value=0.012  Score=59.65  Aligned_cols=210  Identities=15%  Similarity=0.099  Sum_probs=105.4

Q ss_pred             HHHHHHHHhcccCCHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCChhhHHHHHHHHHhcCCC
Q 005729          165 LYSILIHALGRSEKLYEAFLLSQRQRLTPLTYNALISACARNDDLEKALNLMSKMRQDGYHCDFINYSLVIQSLTRTNKI  244 (680)
Q Consensus       165 ~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~g~~  244 (680)
                      +|+.|..+..+.+++.+|+.. -....|+..|..+|.+..+.|.+++-+..+...++..  -++..=+.++-+|++.++.
T Consensus        56 VWs~LgkAqL~~~~v~eAIds-yIkA~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~--ke~~IDteLi~ayAk~~rL  132 (624)
T 3lvg_A           56 VWSQLAKAQLQKGMVKEAIDS-YIKADDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRL  132 (624)
T ss_dssp             CSSSHHHHTTTSSSCTTTTTS-SCCCSCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTC--CSTTTTHHHHHHHHTSCSS
T ss_pred             HHHHHHHHHHccCchHHHHHH-HHhCCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh--cccccHHHHHHHHHhhCcH
Confidence            455555555555555555543 0111233355566666666666666666555544432  2233334555566666555


Q ss_pred             ChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC--------------------CCCCHHHHH
Q 005729          245 DSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVG--------------------LSPKTATYA  304 (680)
Q Consensus       245 ~~~~~~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g--------------------~~p~~~~~~  304 (680)
                      .+         |.+-=-.||..-...+.+-|...|.++.|.-+|..+....                    -..++.||-
T Consensus       133 ~e---------lEefl~~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~ktWK  203 (624)
T 3lvg_A          133 AE---------LEEFINGPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRTWK  203 (624)
T ss_dssp             ST---------TTSTTSCCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCSHH
T ss_pred             HH---------HHHHHcCCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhHHH
Confidence            32         0000001222223333333334444443333332221100                    023566788


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcC
Q 005729          305 AVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAG  384 (680)
Q Consensus       305 ~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g  384 (680)
                      .+-.+|...+.+.-|.-+--.++-.   +|  -...++..|-..|.+++-+.+++.-.... ......++-|.-.|++- 
T Consensus       204 eV~~ACvd~~EfrLAqicGLniIvh---ad--eL~elv~~YE~~G~f~ELIsLlEaglglE-rAHmGmFTELaILYsKY-  276 (624)
T 3lvg_A          204 EVCFACVDGKEFRLAQMCGLHIVVH---AD--ELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKF-  276 (624)
T ss_dssp             HHTHHHHHSCTTTTTTHHHHHHHCC---SS--CCSGGGSSSSTTCCCTTSTTTHHHHTTST-TCCHHHHHHHHHHHHSS-
T ss_pred             HHHHHHhCchHHHHHHHhcchhccc---HH--HHHHHHHHHHhCCCHHHHHHHHHHHhCCC-chhHHHHHHHHHHHHhc-
Confidence            8888888888777665544443321   11  12235666777788888777777765321 33566777777777654 


Q ss_pred             CHHHHHHHH
Q 005729          385 RWESARIVL  393 (680)
Q Consensus       385 ~~~~A~~~~  393 (680)
                      +.++..+.+
T Consensus       277 ~PeKlmEHl  285 (624)
T 3lvg_A          277 KPQKMREHL  285 (624)
T ss_dssp             CTTHHHHHH
T ss_pred             CHHHHHHHH
Confidence            444444433

>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=89.18  E-value=3.1  Score=34.95  Aligned_cols=64  Identities=14%  Similarity=0.055  Sum_probs=44.6

Q ss_pred             HcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 005729          487 KCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLV  552 (680)
Q Consensus       487 ~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li  552 (680)
                      ..++.++|.++|+.++...-.- ...|.....--.+.|++..|.+++.+.+..+.+|. ..+...+
T Consensus        72 ei~D~d~aR~vy~~a~~~hKkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~~-~~le~a~  135 (161)
T 4h7y_A           72 AIQEPDDARDYFQMARANCKKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAVPL-EMLEIAL  135 (161)
T ss_dssp             HHHCGGGCHHHHHHHHHHCTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBCH-HHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHHhHHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCcH-HHHHHHH
Confidence            3478888999998886553222 56666666666788999999999999998776643 3344333

>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=88.56  E-value=3.3  Score=34.80  Aligned_cols=102  Identities=9%  Similarity=0.044  Sum_probs=52.9

Q ss_pred             CHHHHHHHHHHHHhcCCh------HHHHHHHHHHHHcCCCCCHH----HHHHHHH---HHHHcCCHHHHHHHHHHHHHCC
Q 005729          299 KTATYAAVITALSNSGRT------IEAEAVFEELKESGLKPRTK----AYNALLK---GYVKMGYLKDAEFVVSEMERSG  365 (680)
Q Consensus       299 ~~~~~~~li~~~~~~g~~------~~A~~l~~~m~~~g~~p~~~----~~~~li~---~~~~~g~~~~A~~~~~~m~~~g  365 (680)
                      |..+|-..+...-+.|+.      ++..++|++.... ++|+..    .|-.+--   .+...+++++|.++|+.+...+
T Consensus        12 ~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~-~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~~h   90 (161)
T 4h7y_A           12 NPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEA-LPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARANC   90 (161)
T ss_dssp             SHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHH-SCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHc-CCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHh
Confidence            445555555555555555      5556666665543 344311    1111100   1122356666777776665432


Q ss_pred             CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCC
Q 005729          366 VLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAK  402 (680)
Q Consensus       366 ~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~  402 (680)
                      -.. ...|......-.++|++..|.+++......+.+
T Consensus        91 KkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k  126 (161)
T 4h7y_A           91 KKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAV  126 (161)
T ss_dssp             TTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCB
T ss_pred             HHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCC
Confidence            222 555655555566666777777766666665543

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=86.86  E-value=45  Score=37.47  Aligned_cols=270  Identities=8%  Similarity=-0.029  Sum_probs=130.0

Q ss_pred             HHHcCCHHHHHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCC-------CCCHHHHHHHHHHH
Q 005729          275 FAKAGDASKAMRFLGMAQGVG--LSPKTATYAAVITALSNSGRTIEAEAVFEELKESGL-------KPRTKAYNALLKGY  345 (680)
Q Consensus       275 ~~~~g~~~~A~~~~~~~~~~g--~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~-------~p~~~~~~~li~~~  345 (680)
                      ....|+.++++.++......+  -.+.+..-..+.-+....|..+++..++.......-       .+....-..+.-++
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            445566666666665544311  011222333444555666666667776666554311       01112222232333


Q ss_pred             HHcCC-HHHHHHHHHHHHHCCCCCCHHH--HH--HHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH--HHHHhc
Q 005729          346 VKMGY-LKDAEFVVSEMERSGVLPDEHT--YS--LLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRIL--AGYRDR  418 (680)
Q Consensus       346 ~~~g~-~~~A~~~~~~m~~~g~~~~~~~--~~--~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll--~~~~~~  418 (680)
                      +-.|. -+++.+.+..+....   +...  ..  .|...++-.|+-+....++..+.+..   +..+...+.  -++...
T Consensus       464 a~~GS~~eev~e~L~~~L~dd---~~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~---~e~vrR~aalgLGll~~  537 (963)
T 4ady_A          464 AAMGSANIEVYEALKEVLYND---SATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQ---HGNITRGLAVGLALINY  537 (963)
T ss_dssp             HSTTCCCHHHHHHHHHHHHTC---CHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCS---CHHHHHHHHHHHHHHTT
T ss_pred             HhcCCCCHHHHHHHHHHHhcC---CHHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccC---cHHHHHHHHHHHHhhhC
Confidence            33332 245555555555431   2211  12  22233445566666666766655431   223333333  334466


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHH--HHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHH
Q 005729          419 GEWQRTFQVLKEMKSSGVEPDTHFY--NVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEE  496 (680)
Q Consensus       419 g~~~~A~~l~~~m~~~~~~p~~~~~--~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~  496 (680)
                      |+.+.+..+.+.+.... .|....-  .++.-+|+..|+.....+++..+.+.. ..++.....+.-++...|+.+.+.+
T Consensus       538 g~~e~~~~li~~L~~~~-dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d~-~d~VRraAViaLGlI~~g~~e~v~r  615 (963)
T 4ady_A          538 GRQELADDLITKMLASD-ESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSDS-NDDVRRAAVIALGFVLLRDYTTVPR  615 (963)
T ss_dssp             TCGGGGHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTSSSCSSHHH
T ss_pred             CChHHHHHHHHHHHhCC-CHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccCC-cHHHHHHHHHHHHhhccCCHHHHHH
Confidence            77777777777776532 2222211  123445677788777777887777642 1222222233334444666666777


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHhcCCH-HHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 005729          497 LFEEMQERGYFPCTTTYNIMINLLGEQERW-EDVKRLLGNMRAQGLLPNVVTYTTLVDIYG  556 (680)
Q Consensus       497 ~~~~m~~~~~~p~~~t~~~li~~~~~~g~~-~~A~~~~~~m~~~~~~p~~~~~~~li~~~~  556 (680)
                      +++.+.+.+ .|.+.--..+.-+....|.. .++..++..+..   .+|..+-..-+.++.
T Consensus       616 lv~~L~~~~-d~~VR~gAalALGli~aGn~~~~aid~L~~L~~---D~d~~Vrq~Ai~ALG  672 (963)
T 4ady_A          616 IVQLLSKSH-NAHVRCGTAFALGIACAGKGLQSAIDVLDPLTK---DPVDFVRQAAMIALS  672 (963)
T ss_dssp             HTTTGGGCS-CHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHT---CSSHHHHHHHHHHHH
T ss_pred             HHHHHHhcC-CHHHHHHHHHHHHHhccCCCcHHHHHHHHHHcc---CCCHHHHHHHHHHHH
Confidence            776666554 33333333333333333332 566777777764   345444433333333

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=85.42  E-value=35  Score=34.88  Aligned_cols=93  Identities=15%  Similarity=0.169  Sum_probs=61.7

Q ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHHHC--CCCCC---HHHHHHHHHHHHhcCCHHHHHHHHHHHHH----CCCCCC--H
Q 005729          477 TWNTLIDCHFKCGRYDRAEELFEEMQER--GYFPC---TTTYNIMINLLGEQERWEDVKRLLGNMRA----QGLLPN--V  545 (680)
Q Consensus       477 ~~~~li~~~~~~g~~~~A~~~~~~m~~~--~~~p~---~~t~~~li~~~~~~g~~~~A~~~~~~m~~----~~~~p~--~  545 (680)
                      ....|...|...|++.+|.+++.++...  |....   ...+...++.|...+++.+|..++.++..    ....|+  .
T Consensus       139 l~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~  218 (445)
T 4b4t_P          139 VTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSILKGDYSQATVLSRKILKKTFKNPKYESLKL  218 (445)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSSCCHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhcccCCcHHHHH
Confidence            3456777788888888888888887532  21111   34566677788888888888888887642    112222  2


Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHh
Q 005729          546 VTYTTLVDIYGQSGRFDDAIECLE  569 (680)
Q Consensus       546 ~~~~~li~~~~~~g~~~~A~~~~~  569 (680)
                      ..+...+..+...+++.+|.+.|.
T Consensus       219 ~~~~~~~~~~~~e~~y~~a~~~y~  242 (445)
T 4b4t_P          219 EYYNLLVKISLHKREYLEVAQYLQ  242 (445)
T ss_dssp             HHHHHHHHHHHHHCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHH
Confidence            355666777778888888877664

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=85.39  E-value=3.7  Score=41.45  Aligned_cols=71  Identities=13%  Similarity=0.139  Sum_probs=53.0

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-----CCCCCCHHHHH
Q 005729          478 WNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRA-----QGLLPNVVTYT  549 (680)
Q Consensus       478 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~-----~~~~p~~~~~~  549 (680)
                      ...++..+...|++++|...+..+.... +-+...|..+|.++.+.|+..+|.+.|+.+.+     .|+.|...+-.
T Consensus       174 ~~~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~  249 (388)
T 2ff4_A          174 HTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRA  249 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            4456677777888888888888877665 66777888888888888888888888877643     37888766543

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=85.28  E-value=14  Score=43.27  Aligned_cols=149  Identities=9%  Similarity=0.017  Sum_probs=86.0

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHC----C----------------
Q 005729          411 ILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSE----G----------------  470 (680)
Q Consensus       411 ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----~----------------  470 (680)
                      ++..+...+..+.+.++...+     +.+....-.+..+|...|++++|...|.+....    .                
T Consensus       818 l~~~l~~~~~~~~~~~l~~~~-----~~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~~~~~~~~l~~~~~~~~~~~~~~  892 (1139)
T 4fhn_B          818 LVEKLFLFKQYNACMQLIGWL-----NSDPIAVYLKALIYLKSKEAVKAVRCFKTTSLVLYSHTSQFAVLREFQEIAEKY  892 (1139)
T ss_dssp             HHHHHHHHSCTTHHHHHHHHS-----CCCHHHHHHHHHHHHHTTCHHHHHHHHHTCCCSCTTCCCSCSSHHHHHHHHHTT
T ss_pred             HHHHHHHhhhHHHHHHHhhhc-----cCCcHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccchhhhhhcccccccccc
Confidence            344455555555554433321     233333344555666677777777776543210    0                


Q ss_pred             --CCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCH----HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC
Q 005729          471 --IEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCT----TTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPN  544 (680)
Q Consensus       471 --~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~----~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~  544 (680)
                        ...-..-|..++..+-+.|.++.+.++-+..++..-.-+.    ..|..+.+.+...|++++|...+-.+.....  -
T Consensus       893 ~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~--r  970 (1139)
T 4fhn_B          893 HHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPL--K  970 (1139)
T ss_dssp             TSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSS--C
T ss_pred             cccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHH--H
Confidence              0111234566777777778888777777666544212121    2467777888888888888888877766433  3


Q ss_pred             HHHHHHHHHHHHhcCChHHHHH
Q 005729          545 VVTYTTLVDIYGQSGRFDDAIE  566 (680)
Q Consensus       545 ~~~~~~li~~~~~~g~~~~A~~  566 (680)
                      ...+..|+...|..|..+.-..
T Consensus       971 ~~cLr~LV~~lce~~~~~~L~~  992 (1139)
T 4fhn_B          971 KSCLLDFVNQLTKQGKINQLLN  992 (1139)
T ss_dssp             HHHHHHHHHHHHHHCCHHHHHH
T ss_pred             HHHHHHHHHHHHhCCChhhhhC
Confidence            5667777777777776665443

>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=85.10  E-value=8.9  Score=29.59  Aligned_cols=68  Identities=15%  Similarity=0.150  Sum_probs=47.2

Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCcCcHHHHHHHHHHcCCCCCHHHHHHHHHHHHHH
Q 005729          606 RDAEAFAVLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPDRKARAMLRSALRYM  674 (680)
Q Consensus       606 ~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd~~~~~~l~~a~~~~  674 (680)
                      +.=+..+-++.+....+.|++.+..+.+++|.|.+++.-|.++++-+..+ +.....+|..+++-++-.
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K-~~~~~~iY~~~lqElkPt   92 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQELRPT   92 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCchhhHHHHHHHHhhH
Confidence            34455566666666677888888888888888888888888888877655 344455677766666533

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=84.66  E-value=3.2  Score=45.54  Aligned_cols=52  Identities=21%  Similarity=0.078  Sum_probs=42.1

Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcC
Q 005729          587 LKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALIRVD  640 (680)
Q Consensus       587 ~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g  640 (680)
                      .+-+..=|..|+....+.+.+++|.+.|+....  ..-++..+..|+..|.+.+
T Consensus       609 ~kks~lEWEiLGlla~RL~h~~EA~~a~~~~l~--~RFs~ka~~kLLeiY~~~~  660 (754)
T 4gns_B          609 EKHSGLEWELLGLIMLRTWHWEDAVACLRTSIV--ARFDPVSCQQLLKIYLQPP  660 (754)
T ss_dssp             CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHS--SSCCHHHHHHHHHHHHSCC
T ss_pred             cccCHHHHHHHHHHHHHhCCHHHHHHHHHHHHH--hccCHHHHHHHHHHHHhcC
Confidence            344556688898888889999999999998887  3567888889999988766

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=83.19  E-value=9.4  Score=32.69  Aligned_cols=53  Identities=9%  Similarity=0.051  Sum_probs=31.3

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHC-CCCCC-------HHHHHHHHHHHHhcCChHHHHHHHh
Q 005729          517 INLLGEQERWEDVKRLLGNMRAQ-GLLPN-------VVTYTTLVDIYGQSGRFDDAIECLE  569 (680)
Q Consensus       517 i~~~~~~g~~~~A~~~~~~m~~~-~~~p~-------~~~~~~li~~~~~~g~~~~A~~~~~  569 (680)
                      ++.+...|.++.|+-+.+.+... +..|+       ..++..+.+++...|++.+|...|+
T Consensus        27 ik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~   87 (167)
T 3ffl_A           27 VRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYT   87 (167)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHH
Confidence            44555666666666666554432 11222       2355667777777777777777765

>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=80.44  E-value=14  Score=30.19  Aligned_cols=67  Identities=15%  Similarity=0.153  Sum_probs=46.4

Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCcCcHHHHHHHHHHcCCCCCHHHHHHHHHHHHHH
Q 005729          607 DAEAFAVLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPDRKARAMLRSALRYM  674 (680)
Q Consensus       607 ~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd~~~~~~l~~a~~~~  674 (680)
                      .=+..+-++.+....+.|++.+....+++|.|.+++.-|.++++-+..+ +.+...+|..+++-++-.
T Consensus        69 ~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K-~~~~~~iY~y~lqElkPt  135 (152)
T 2y69_E           69 AWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQELRPT  135 (152)
T ss_dssp             HHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHh-cCCchhhHHHHHHHHhhH
Confidence            3344555555556677888888888888888888888888888877655 445555677776666543

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	680
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	1e-05
d1zbpa1	264	e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {V	0.001

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]} Length = 388

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 45.4 bits (106), Expect = 1e-05
 Identities = 55/382 (14%), Positives = 113/382 (29%), Gaps = 31/382 (8%)

Query: 277 KAGDASKAMRFLGMAQGVGLSPKTA-TYAAVITALSNSGRTIEAEAVFEELKESGLKPR- 334
           +AGD   A R     Q     P        + +      R   +        +    P  
Sbjct: 11  QAGDFEAAERHC--MQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIK--QNPLL 66

Query: 335 TKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLK 394
            +AY+ L   Y + G L++A        R      +   +L     A      + +  + 
Sbjct: 67  AEAYSNLGNVYKERGQLQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVS 126

Query: 395 EMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYN 454
            ++ +            L     R E  +   +               ++ +   F    
Sbjct: 127 ALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPN---FAVAWSNLGCVFNAQG 183

Query: 455 CLHHAMAAFDRMLSEGIEPDTI-TWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTY 513
            +  A+  F++ ++  ++P+ +  +  L +   +   +DRA   +              +
Sbjct: 184 EIWLAIHHFEKAVT--LDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPN-HAVVH 240

Query: 514 NIMINLLGEQERWEDVKRLLGNMRAQGLLPNVV-TYTTLVDIYGQSGRFDDAIECLEGLS 572
             +  +  EQ   +         RA  L P+    Y  L +   + G   +A +C     
Sbjct: 241 GNLACVYYEQGLIDLAIDTY--RRAIELQPHFPDAYCNLANALKEKGSVAEAEDCYNTAL 298

Query: 573 DQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPD-VVTYTT 631
                    +            N+L N   E     EA  + +   E  + P+    ++ 
Sbjct: 299 RLCPTHADSL------------NNLANIKREQGNIEEAVRLYRKALE--VFPEFAAAHSN 344

Query: 632 LMKALIRVDKFHKVPAVYEEMI 653
           L   L +  K  +    Y+E I
Sbjct: 345 LASVLQQQGKLQEALMHYKEAI 366

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]} Length = 264

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

 Score = 39.3 bits (91), Expect = 0.001
 Identities = 13/118 (11%), Positives = 37/118 (31%), Gaps = 4/118 (3%)

Query: 459 AMAAFDRMLSEGIEP-DTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMI 517
           A+      +     P D    ++ I+     G ++RA+E   +  +           +  
Sbjct: 15  ALELLIEAIK--ASPKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLR- 71

Query: 518 NLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQA 575
           +L+   +  +D  +     +  G    +       ++   S  ++   E    + +  
Sbjct: 72  HLVKAAQARKDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELR 129

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	680
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.9
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.89
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.52
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.49
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.16
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.12
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.08
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.07
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.03
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.0
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.89
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.82
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.82
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	98.81
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.33
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.32
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.29
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.26
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.22
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.21
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.14
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.11
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.1
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.09
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.09
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.0
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	97.95
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.82
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.81
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	97.78
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	97.74
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.7
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	97.68
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.66
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.64
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	97.63
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.6
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	97.59
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.55
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.46
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.45
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.4
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	97.4
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.38
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	97.33
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.28
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	97.22
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.12
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	96.94
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	96.88
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	96.65
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	96.39
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	96.17
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	95.93
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	95.6
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	95.04
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	95.03
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	94.67
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	92.94
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	92.58
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	86.81
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	84.56

>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=99.90  E-value=2.3e-19  Score=183.84  Aligned_cols=375  Identities=15%  Similarity=0.051  Sum_probs=199.6

Q ss_pred             HHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHH
Q 005729          274 GFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKD  353 (680)
Q Consensus       274 ~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~  353 (680)
                      .+.+.|++++|++.++++.+.. +-+...+..+...+.+.|++++|+..|++..+.. +-+..+|..+...|.+.|++++
T Consensus         8 ~~~~~G~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~~~~~~g~~~~   85 (388)
T d1w3ba_           8 REYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQLQE   85 (388)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHhhhhccccc
Confidence            3445555666665555555431 1234455555555555666666666665555542 2244555555566666666666


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 005729          354 AEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKS  433 (680)
Q Consensus       354 A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~  433 (680)
                      |...+....+... .+...+..........+....+............ ................+....+...+.....
T Consensus        86 A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  163 (388)
T d1w3ba_          86 AIEHYRHALRLKP-DFIDGYINLAAALVAAGDMEGAVQAYVSALQYNP-DLYCVRSDLGNLLKALGRLEEAKACYLKAIE  163 (388)
T ss_dssp             HHHHHHHHHHHCT-TCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCT-TCTHHHHHHHHHHHTTSCHHHHHHHHHHHHH
T ss_pred             ccccccccccccc-cccccccccccccccccccccccccccccccccc-ccccccccccccccccchhhhhHHHHHHhhc
Confidence            6666655554432 2333344444444444444444444444333322 2333333344444555555555555555444


Q ss_pred             CCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHH
Q 005729          434 SGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTY  513 (680)
Q Consensus       434 ~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~  513 (680)
                      .. +.+...+..+...+...|+.+.|...++...+.. +-+...|..+...+...|++++|...+++....+ +.+...+
T Consensus       164 ~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~  240 (388)
T d1w3ba_         164 TQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVH  240 (388)
T ss_dssp             HC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHH
T ss_pred             cC-cchhHHHHhhcccccccCcHHHHHHHHHHHHHhC-cccHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-hhHHHHH
Confidence            32 3344555555566666666666666666555443 2244555666666666666666666666665544 3445555


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHHH
Q 005729          514 NIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLA  593 (680)
Q Consensus       514 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~~  593 (680)
                      ..+...+.+.|++++|...++++.+.. +-+..++..+...|.+.|++++|.+.++....          .  .+.+...
T Consensus       241 ~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~----------~--~~~~~~~  307 (388)
T d1w3ba_         241 GNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALR----------L--CPTHADS  307 (388)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH----------H--CTTCHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhc----------c--CCccchh
Confidence            556666666666666666666666542 12455566666666666666666666542111          0  2234445


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCcCcHHHHHHHHHHcCCCCC-HHHHHHHHHHH
Q 005729          594 LNSLINAFGEDQRDAEAFAVLQYMKENGLKP-DVVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPD-RKARAMLRSAL  671 (680)
Q Consensus       594 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd-~~~~~~l~~a~  671 (680)
                      +..+..++.+.|++++|++.+++..+  +.| +..++..+..+|.+.|++++|.+.|++.++  +.|+ ...+..+..++
T Consensus       308 ~~~l~~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~--l~P~~~~a~~~lg~~~  383 (388)
T d1w3ba_         308 LNNLANIKREQGNIEEAVRLYRKALE--VFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIR--ISPTFADAYSNMGNTL  383 (388)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHTT--SCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT--TCTTCHHHHHHHHHHH
T ss_pred             hhHHHHHHHHCCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHH
Confidence            56666666666666666666666655  333 345566666666666666666666666655  3443 33444554444


Q ss_pred             H
Q 005729          672 R  672 (680)
Q Consensus       672 ~  672 (680)
                      +
T Consensus       384 ~  384 (388)
T d1w3ba_         384 K  384 (388)
T ss_dssp             H
T ss_pred             H
Confidence            4

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.89  E-value=8.8e-19  Score=179.41  Aligned_cols=381  Identities=13%  Similarity=0.101  Sum_probs=314.2

Q ss_pred             HHHHHhcCCCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 005729          235 IQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSG  314 (680)
Q Consensus       235 l~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g  314 (680)
                      -..+.+.|+++.  |.+.++++.+.. +-+...+..+...|.+.|++++|++.|+++.+.. +-+..+|..+...+.+.|
T Consensus         6 a~~~~~~G~~~~--A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~~~~~~g   81 (388)
T d1w3ba_           6 AHREYQAGDFEA--AERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERG   81 (388)
T ss_dssp             HHHHHHHTCHHH--HHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHcCCHHH--HHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHhhhhc
Confidence            345677888855  568888887653 4468899999999999999999999999988753 235678999999999999


Q ss_pred             ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Q 005729          315 RTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLK  394 (680)
Q Consensus       315 ~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~  394 (680)
                      ++++|+..+....+.. +.+..............+....+............ ................+....+...+.
T Consensus        82 ~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~  159 (388)
T d1w3ba_          82 QLQEAIEHYRHALRLK-PDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNP-DLYCVRSDLGNLLKALGRLEEAKACYL  159 (388)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCT-TCTHHHHHHHHHHHTTSCHHHHHHHHH
T ss_pred             cccccccccccccccc-ccccccccccccccccccccccccccccccccccc-ccccccccccccccccchhhhhHHHHH
Confidence            9999999999998875 34556666666666777777777766666655433 345556666777788889999999888


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCC
Q 005729          395 EMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPD  474 (680)
Q Consensus       395 ~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~  474 (680)
                      ...... +.+...+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|...+....... ..+
T Consensus       160 ~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~  236 (388)
T d1w3ba_         160 KAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNH  236 (388)
T ss_dssp             HHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTC
T ss_pred             HhhccC-cchhHHHHhhcccccccCcHHHHHHHHHHHHHhC-cccHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-hhH
Confidence            887654 3467788888999999999999999999988764 5567889999999999999999999999988765 457


Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 005729          475 TITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDI  554 (680)
Q Consensus       475 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~  554 (680)
                      ...+..+...+.+.|++++|...|++..+.. +-+..+|..+...+...|++++|...+...... .+.+...+..+...
T Consensus       237 ~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~  314 (388)
T d1w3ba_         237 AVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRL-CPTHADSLNNLANI  314 (388)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH-CTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhcc-CCccchhhhHHHHH
Confidence            7888899999999999999999999999875 566889999999999999999999999999886 34578899999999


Q ss_pred             HHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHH
Q 005729          555 YGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPS-NLALNSLINAFGEDQRDAEAFAVLQYMKENGLKP-DVVTYTTL  632 (680)
Q Consensus       555 ~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~l  632 (680)
                      +.+.|++++|++.++           +..+  +.|+ ..+|..+..+|.+.|++++|+..|+++.+  +.| +...|..+
T Consensus       315 ~~~~~~~~~A~~~~~-----------~al~--~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~--l~P~~~~a~~~l  379 (388)
T d1w3ba_         315 KREQGNIEEAVRLYR-----------KALE--VFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIR--ISPTFADAYSNM  379 (388)
T ss_dssp             HHTTTCHHHHHHHHH-----------HHTT--SCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT--TCTTCHHHHHHH
T ss_pred             HHHCCCHHHHHHHHH-----------HHHH--hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHH
Confidence            999999999887765           3333  3455 45899999999999999999999999998  567 57789999


Q ss_pred             HHHHHhcCC
Q 005729          633 MKALIRVDK  641 (680)
Q Consensus       633 ~~~~~~~g~  641 (680)
                      ..+|.+.|+
T Consensus       380 g~~~~~~~D  388 (388)
T d1w3ba_         380 GNTLKEMQD  388 (388)
T ss_dssp             HHHHHHTCC
T ss_pred             HHHHHHcCC
Confidence            999988875

>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=1.4e-11  Score=122.06  Aligned_cols=272  Identities=12%  Similarity=0.005  Sum_probs=173.0

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCC
Q 005729          271 VIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGY  350 (680)
Q Consensus       271 li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~  350 (680)
                      ....+.+.|++++|+..|+++.+.. +-+..+|..+..++...|++++|...|.+..+.. +-+...|..+...|...|+
T Consensus        25 ~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~  102 (323)
T d1fcha_          25 EGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESL  102 (323)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-ccccccccccccccccccc
Confidence            4555677788888888888777653 2246677777778888888888888887777653 3356677777777777888


Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 005729          351 LKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKE  430 (680)
Q Consensus       351 ~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~  430 (680)
                      +++|.+.++.+....  |+.............                   ..+.......+..+...+.+.++.+.+.+
T Consensus       103 ~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~-------------------~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  161 (323)
T d1fcha_         103 QRQACEILRDWLRYT--PAYAHLVTPAEEGAG-------------------GAGLGPSKRILGSLLSDSLFLEVKELFLA  161 (323)
T ss_dssp             HHHHHHHHHHHHHTS--TTTGGGCC----------------------------------CTTHHHHHHHHHHHHHHHHHH
T ss_pred             ccccccchhhHHHhc--cchHHHHHhhhhhhh-------------------hcccccchhhHHHHHHhhHHHHHHHHHHH
Confidence            888877777776642  211100000000000                   00000111112223344556667777766


Q ss_pred             HHHCC-CCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCC
Q 005729          431 MKSSG-VEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPC  509 (680)
Q Consensus       431 m~~~~-~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~  509 (680)
                      ..+.. -..+..++..+...+...|++++|...|+...... +-+...|..+...|.+.|++++|.+.|++..+.. +-+
T Consensus       162 al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~  239 (323)
T d1fcha_         162 AVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGY  239 (323)
T ss_dssp             HHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTC
T ss_pred             HHHHhhcccccccchhhHHHHHHHHHHhhhhcccccccccc-cccccchhhhhhcccccccchhHHHHHHHHHHHh-hcc
Confidence            55432 23456677777788888888888888888877654 3357778888888888888888888888887764 445


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC----------CCCCHHHHHHHHHHHHhcCChHHHHHH
Q 005729          510 TTTYNIMINLLGEQERWEDVKRLLGNMRAQG----------LLPNVVTYTTLVDIYGQSGRFDDAIEC  567 (680)
Q Consensus       510 ~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~----------~~p~~~~~~~li~~~~~~g~~~~A~~~  567 (680)
                      ...|..+..+|.+.|++++|...|.+.++..          .......|..+-.++...|+.+.+...
T Consensus       240 ~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~l~~al~~~~~~d~~~~~  307 (323)
T d1fcha_         240 IRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAA  307 (323)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcChhhhhhhHHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            7778888888888888888888888876521          111234556666677777776655443

>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=99.49  E-value=1.6e-11  Score=121.62  Aligned_cols=242  Identities=11%  Similarity=0.023  Sum_probs=166.7

Q ss_pred             HHHHHhcCCCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 005729          235 IQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSG  314 (680)
Q Consensus       235 l~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g  314 (680)
                      -..+.+.|+++.  |...|+.+.+.. +-+...|..+...|...|++++|+..|.+..+.. +-+...|..+...|...|
T Consensus        26 g~~~~~~g~~~~--A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~  101 (323)
T d1fcha_          26 GLRRLQEGDLPN--AVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNES  101 (323)
T ss_dssp             HHHHHHTTCHHH--HHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHcCCHHH--HHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-cccccccccccccccccc
Confidence            345778888855  569999988764 4468899999999999999999999999988753 235778889999999999


Q ss_pred             ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Q 005729          315 RTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLK  394 (680)
Q Consensus       315 ~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~  394 (680)
                      ++++|.+.+++.....  |+.............                   ..+.......+..+...+.+.+|...|.
T Consensus       102 ~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~-------------------~~~~~~~~~~~~~~~~~~~~~~a~~~~~  160 (323)
T d1fcha_         102 LQRQACEILRDWLRYT--PAYAHLVTPAEEGAG-------------------GAGLGPSKRILGSLLSDSLFLEVKELFL  160 (323)
T ss_dssp             CHHHHHHHHHHHHHTS--TTTGGGCC----------------------------------CTTHHHHHHHHHHHHHHHHH
T ss_pred             cccccccchhhHHHhc--cchHHHHHhhhhhhh-------------------hcccccchhhHHHHHHhhHHHHHHHHHH
Confidence            9999999999988753  321111000000000                   0001111112223344455666777776


Q ss_pred             HHHHCCC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCC
Q 005729          395 EMEVSHA-KPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEP  473 (680)
Q Consensus       395 ~m~~~~~-~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~  473 (680)
                      +...... ..+...+..+...+...|++++|...|++..... +-+...|..+...|.+.|++++|.+.|++..+.. +-
T Consensus       161 ~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~  238 (323)
T d1fcha_         161 AAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PG  238 (323)
T ss_dssp             HHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TT
T ss_pred             HHHHHhhcccccccchhhHHHHHHHHHHhhhhcccccccccc-cccccchhhhhhcccccccchhHHHHHHHHHHHh-hc
Confidence            6655432 3456667777777778888888888888776553 4457777788888888888888888888877653 33


Q ss_pred             CHHHHHHHHHHHHHcCChhHHHHHHHHHHH
Q 005729          474 DTITWNTLIDCHFKCGRYDRAEELFEEMQE  503 (680)
Q Consensus       474 ~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  503 (680)
                      +...|..+..+|.+.|++++|++.|++.++
T Consensus       239 ~~~a~~~lg~~~~~~g~~~~A~~~~~~al~  268 (323)
T d1fcha_         239 YIRSRYNLGISCINLGAHREAVEHFLEALN  268 (323)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            566788888888888888888888888765

>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=99.16  E-value=6.7e-08  Score=95.65  Aligned_cols=268  Identities=13%  Similarity=0.094  Sum_probs=156.0

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHH----CCCCC---CH
Q 005729          373 YSLLIDAYANAGRWESARIVLKEMEVSHA-KPN----SFIYSRILAGYRDRGEWQRTFQVLKEMKS----SGVEP---DT  440 (680)
Q Consensus       373 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~-~~~----~~~~~~ll~~~~~~g~~~~A~~l~~~m~~----~~~~p---~~  440 (680)
                      +..+...|...|++++|+..|++...... .++    ...+..+...+...|++..+...+.....    .+...   ..
T Consensus        54 ~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~  133 (366)
T d1hz4a_          54 TSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHE  133 (366)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHH
Confidence            33344444445555555555444432110 001    12333444455555565555555554332    11111   12


Q ss_pred             HHHHHHHHHHHccCCHHHHHHHHHHHHHCC----CCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHC--CCCCC----H
Q 005729          441 HFYNVMIDTFGKYNCLHHAMAAFDRMLSEG----IEPDTITWNTLIDCHFKCGRYDRAEELFEEMQER--GYFPC----T  510 (680)
Q Consensus       441 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~~----~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--~~~p~----~  510 (680)
                      ..+..+...+...|+++.+...+.......    .......+..+...+...++..++...+.+....  .....    .
T Consensus       134 ~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~  213 (366)
T d1hz4a_         134 FLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWIS  213 (366)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHH
T ss_pred             HHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHH
Confidence            344555666777778888877777666432    2223445566667777888888888887765432  11111    2


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC---CHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCC
Q 005729          511 TTYNIMINLLGEQERWEDVKRLLGNMRAQGLLP---NVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGL  587 (680)
Q Consensus       511 ~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p---~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~  587 (680)
                      ..+..+...+...|++++|...+.+..+.....   ....+..+..++...|++++|...++..    +..   ....+.
T Consensus       214 ~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a----l~~---~~~~~~  286 (366)
T d1hz4a_         214 NANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEEL----NEN---ARSLRL  286 (366)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHH----HHH---HHHTTC
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHH----HHH---Hhhccc
Confidence            345556667788899999999988876543222   2456667888999999999999887633    222   223344


Q ss_pred             CCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHH----CCCCC----CHHHHHHHHHHHHhcCCcCcHHH
Q 005729          588 KPSN-LALNSLINAFGEDQRDAEAFAVLQYMKE----NGLKP----DVVTYTTLMKALIRVDKFHKVPA  647 (680)
Q Consensus       588 ~p~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~----~g~~p----~~~~~~~l~~~~~~~g~~~~A~~  647 (680)
                      .|+. .++..+..+|.+.|++++|.+.+++..+    .|...    ....+..++..+.+.++.+++..
T Consensus       287 ~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~l~e~e~  355 (366)
T d1hz4a_         287 MSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLANRTGFISHFVIEGEAMAQQLRQLIQLNTLPELEQ  355 (366)
T ss_dssp             HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCCCHHHHTTHHHHHHHHHHHHHTTCSCHHHH
T ss_pred             ChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhhcCcHHHHHHHHHHHHHHHHHHHhcCCChHHHH
Confidence            4544 3788899999999999999999998865    23211    12233445555555666655543

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.12  E-value=1.6e-08  Score=98.91  Aligned_cols=216  Identities=11%  Similarity=0.057  Sum_probs=117.1

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcC-CHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 005729          301 ATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMG-YLKDAEFVVSEMERSGVLPDEHTYSLLIDA  379 (680)
Q Consensus       301 ~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g-~~~~A~~~~~~m~~~g~~~~~~~~~~li~~  379 (680)
                      ..|+.+...+.+.+++++|+++++++++.+ +-+...|+....++...| ++++|...++...+... -+..+|..+...
T Consensus        44 ~a~~~~~~~~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p-~~~~a~~~~~~~  121 (315)
T d2h6fa1          44 DVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQP-KNYQVWHHRRVL  121 (315)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHH-hhhhHHHHHhHH
Confidence            355555566666666666666666666653 234555666666655554 36666666666655432 245666666666


Q ss_pred             HHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHH
Q 005729          380 YANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHA  459 (680)
Q Consensus       380 ~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A  459 (680)
                      +.+.|++++|+..++++.+.. +.+...|..+...+.+.|++++|++.++++.+.. +.+...                 
T Consensus       122 ~~~l~~~~eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~-p~n~~a-----------------  182 (315)
T d2h6fa1         122 VEWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSV-----------------  182 (315)
T ss_dssp             HHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHH-----------------
T ss_pred             HHhhccHHHHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHC-CccHHH-----------------
Confidence            666666666666666665543 2345555555555555555555555555555443 233334                 


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHHcCC------hhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 005729          460 MAAFDRMLSEGIEPDTITWNTLIDCHFKCGR------YDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLL  533 (680)
Q Consensus       460 ~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~------~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~  533 (680)
                                        |+.+...+.+.+.      +++|++.+.+.++.. +.+...|+.+...+... ..+++.+.+
T Consensus       183 ------------------~~~r~~~l~~~~~~~~~~~~~~ai~~~~~al~~~-P~~~~~~~~l~~ll~~~-~~~~~~~~~  242 (315)
T d2h6fa1         183 ------------------WNQRYFVISNTTGYNDRAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQDR-GLSKYPNLL  242 (315)
T ss_dssp             ------------------HHHHHHHHHHTTCSCSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTTT-CGGGCHHHH
T ss_pred             ------------------HHHHHHHHHHccccchhhhhHHhHHHHHHHHHhC-CCchHHHHHHHHHHHhc-ChHHHHHHH
Confidence                              4443333333332      456666666666654 44566666555544333 345566666


Q ss_pred             HHHHHCCCCC-CHHHHHHHHHHHHh
Q 005729          534 GNMRAQGLLP-NVVTYTTLVDIYGQ  557 (680)
Q Consensus       534 ~~m~~~~~~p-~~~~~~~li~~~~~  557 (680)
                      ....+....+ +...+..++..|..
T Consensus       243 ~~~~~l~~~~~~~~~~~~l~~~y~~  267 (315)
T d2h6fa1         243 NQLLDLQPSHSSPYLIAFLVDIYED  267 (315)
T ss_dssp             HHHHHHTTTCCCHHHHHHHHHHHHH
T ss_pred             HHHHHhCCCcCCHHHHHHHHHHHHH
Confidence            6665532222 34555556665543

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.08  E-value=1.4e-08  Score=99.22  Aligned_cols=234  Identities=9%  Similarity=0.109  Sum_probs=155.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccC-CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 005729          407 IYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYN-CLHHAMAAFDRMLSEGIEPDTITWNTLIDCH  485 (680)
Q Consensus       407 ~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g-~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~  485 (680)
                      .++.+...+.+.+.+++|+++++++.+.. +-+...|+....++...| ++++|...++...+.. +-+..+|+.+...+
T Consensus        45 a~~~~~~~~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~~~~  122 (315)
T d2h6fa1          45 VYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVLV  122 (315)
T ss_dssp             HHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHhHHH
Confidence            44455555666667777777777776654 455666777777766655 4778888887777654 34677788888888


Q ss_pred             HHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHH
Q 005729          486 FKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAI  565 (680)
Q Consensus       486 ~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~  565 (680)
                      .+.|++++|++.++++.+.. +-+...|..+...+.+.|++++|...++++++.+.. +...|+.+...+.+.+....+ 
T Consensus       123 ~~l~~~~eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p~-n~~a~~~r~~~l~~~~~~~~~-  199 (315)
T d2h6fa1         123 EWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDVR-NNSVWNQRYFVISNTTGYNDR-  199 (315)
T ss_dssp             HHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCSCSH-
T ss_pred             HhhccHHHHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCCc-cHHHHHHHHHHHHHccccchh-
Confidence            88888888888888888775 566788888888888888888888888888875422 566777777777776665433 


Q ss_pred             HHHhhhHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHHhc--CC
Q 005729          566 ECLEGLSDQAVNAFRVMRTDGLKP-SNLALNSLINAFGEDQRDAEAFAVLQYMKENGLK-PDVVTYTTLMKALIRV--DK  641 (680)
Q Consensus       566 ~~~~~~~~~a~~~~~~m~~~g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~-p~~~~~~~l~~~~~~~--g~  641 (680)
                          +..++|++.+.+..+.  .| +...|..+...+.. ...+++.+.++...+.... .+...+..++..|...  +.
T Consensus       200 ----~~~~~ai~~~~~al~~--~P~~~~~~~~l~~ll~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~~~~~~  272 (315)
T d2h6fa1         200 ----AVLEREVQYTLEMIKL--VPHNESAWNYLKGILQD-RGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQ  272 (315)
T ss_dssp             ----HHHHHHHHHHHHHHHH--STTCHHHHHHHHHHHTT-TCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTT
T ss_pred             ----hhhHHhHHHHHHHHHh--CCCchHHHHHHHHHHHh-cChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHHHHhcC
Confidence                2233455555555553  34 45577777666554 4457788888877763222 2455666777776443  45


Q ss_pred             cCcHHHHHHHH
Q 005729          642 FHKVPAVYEEM  652 (680)
Q Consensus       642 ~~~A~~~~~~m  652 (680)
                      .+.+...+++.
T Consensus       273 ~~~~~~~~~ka  283 (315)
T d2h6fa1         273 CDNKEDILNKA  283 (315)
T ss_dssp             CSSHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            55555554443

>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=99.07  E-value=1.1e-07  Score=93.98  Aligned_cols=197  Identities=11%  Similarity=0.015  Sum_probs=108.2

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHC----CCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHC--CCCC----CHHHH
Q 005729          409 SRILAGYRDRGEWQRTFQVLKEMKSS----GVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSE--GIEP----DTITW  478 (680)
Q Consensus       409 ~~ll~~~~~~g~~~~A~~l~~~m~~~----~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~--~~~~----~~~~~  478 (680)
                      ..+...+...|+++.+...+......    +.......+..+...+...+....+...+......  ....    ....+
T Consensus       137 ~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~  216 (366)
T d1hz4a_         137 RIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNAN  216 (366)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHH
T ss_pred             HHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHH
Confidence            33444455555555555555554332    11222334444455555666666666665544321  1011    12234


Q ss_pred             HHHHHHHHHcCChhHHHHHHHHHHHCCCC---CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC----CCCCC-HHHHHH
Q 005729          479 NTLIDCHFKCGRYDRAEELFEEMQERGYF---PCTTTYNIMINLLGEQERWEDVKRLLGNMRAQ----GLLPN-VVTYTT  550 (680)
Q Consensus       479 ~~li~~~~~~g~~~~A~~~~~~m~~~~~~---p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~----~~~p~-~~~~~~  550 (680)
                      ..+...+...|++++|...+++..+....   .....+..+...+...|++++|...++++...    +..|+ ...+..
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            55566677778888888887776544211   22345556677778888888888888776532    33332 456777


Q ss_pred             HHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCC----CHHHHHHHHHHHHhcCCHHHHHH
Q 005729          551 LVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKP----SNLALNSLINAFGEDQRDAEAFA  612 (680)
Q Consensus       551 li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p----~~~~~~~li~~~~~~g~~~~A~~  612 (680)
                      +...|.+.|++++|.+.++    +|+++...+   |...    ....+..++..+...++.+++.+
T Consensus       297 la~~~~~~g~~~~A~~~l~----~Al~l~~~~---~~~~~~~~~~~~~~~~~~~l~~~~~l~e~e~  355 (366)
T d1hz4a_         297 LNQLYWQAGRKSDAQRVLL----DALKLANRT---GFISHFVIEGEAMAQQLRQLIQLNTLPELEQ  355 (366)
T ss_dssp             HHHHHHHHTCHHHHHHHHH----HHHHHHHHH---CCCHHHHTTHHHHHHHHHHHHHTTCSCHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHH----HHHHHhhhc---CcHHHHHHHHHHHHHHHHHHHhcCCChHHHH
Confidence            7888888888888887765    343333322   2111    11234445555556666655543

>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=99.03  E-value=5.8e-08  Score=94.56  Aligned_cols=186  Identities=10%  Similarity=0.061  Sum_probs=106.0

Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 005729          351 LKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKE  430 (680)
Q Consensus       351 ~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~  430 (680)
                      .++|..+|++..+...+.+...|...+..+.+.|+++.|..+|+++.+.........|...+..+.+.|+.++|.++|+.
T Consensus        80 ~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~  159 (308)
T d2onda1          80 SDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKK  159 (308)
T ss_dssp             HHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHH
Confidence            45555566665544333445555555666666666666666666665543333344556666666666666666666666


Q ss_pred             HHHCCCCCCHHHHHHHHHH-HHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCC-CCC
Q 005729          431 MKSSGVEPDTHFYNVMIDT-FGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERG-YFP  508 (680)
Q Consensus       431 m~~~~~~p~~~~~~~li~~-~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~-~~p  508 (680)
                      +.+.+ +.+...|...... +...|+.+.|..+|+.+.+.. +.+...|...+..+.+.|+++.|..+|++..... ..|
T Consensus       160 al~~~-~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~-p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~  237 (308)
T d2onda1         160 AREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPP  237 (308)
T ss_dssp             HHTST-TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCG
T ss_pred             HHHhC-CCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhh-hhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCCh
Confidence            65543 2233333333322 233466666666666666542 3345666666666667777777777777766542 222


Q ss_pred             --CHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 005729          509 --CTTTYNIMINLLGEQERWEDVKRLLGNMRA  538 (680)
Q Consensus       509 --~~~t~~~li~~~~~~g~~~~A~~~~~~m~~  538 (680)
                        ....|...+.--...|+.+.+..+++++.+
T Consensus       238 ~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~  269 (308)
T d2onda1         238 EKSGEIWARFLAFESNIGDLASILKVEKRRFT  269 (308)
T ss_dssp             GGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence              234566666655666777777777766655

>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=99.00  E-value=1.2e-07  Score=92.27  Aligned_cols=183  Identities=10%  Similarity=0.076  Sum_probs=109.7

Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHH
Q 005729          385 RWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFD  464 (680)
Q Consensus       385 ~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~  464 (680)
                      ..++|..+|++..+...+.+...|...+..+.+.|++++|..+|+++.+........+|...+..+.+.|+.+.|.++|.
T Consensus        79 ~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~  158 (308)
T d2onda1          79 FSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFK  158 (308)
T ss_dssp             HHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHH
Confidence            34566666666665444445556666666666777777777777776654322234456666666667777777777777


Q ss_pred             HHHHCCCCCCHHHHHHHHHH-HHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCC-CC
Q 005729          465 RMLSEGIEPDTITWNTLIDC-HFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQG-LL  542 (680)
Q Consensus       465 ~m~~~~~~~~~~~~~~li~~-~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~-~~  542 (680)
                      ++.+.+. .+...|...... +...|+.+.|..+|+.+.+.. +.+...|...+..+.+.|+++.|..+|++.++.. ..
T Consensus       159 ~al~~~~-~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~-p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~  236 (308)
T d2onda1         159 KAREDAR-TRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLP  236 (308)
T ss_dssp             HHHTSTT-CCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSC
T ss_pred             HHHHhCC-CcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhh-hhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCC
Confidence            7665542 233333333322 223466677777777766652 4456666677777777777777777777766642 22


Q ss_pred             C--CHHHHHHHHHHHHhcCChHHHHHHHh
Q 005729          543 P--NVVTYTTLVDIYGQSGRFDDAIECLE  569 (680)
Q Consensus       543 p--~~~~~~~li~~~~~~g~~~~A~~~~~  569 (680)
                      |  ....|...+..-...|+.+.+.++++
T Consensus       237 ~~~~~~iw~~~~~fE~~~G~~~~~~~~~~  265 (308)
T d2onda1         237 PEKSGEIWARFLAFESNIGDLASILKVEK  265 (308)
T ss_dssp             GGGCHHHHHHHHHHHHHHSCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            2  23456666666666677777666554

>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=98.89  E-value=1.4e-07  Score=89.01  Aligned_cols=222  Identities=10%  Similarity=-0.053  Sum_probs=131.1

Q ss_pred             HHHHHHHHHHHHCCCCC---CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHH
Q 005729          387 ESARIVLKEMEVSHAKP---NSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAF  463 (680)
Q Consensus       387 ~~A~~~~~~m~~~~~~~---~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~  463 (680)
                      +.++.-+++........   ...+|..+..+|.+.|++++|...|++..+.. +-+..+|..+..+|.+.|++++|...|
T Consensus        16 e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~~~~   94 (259)
T d1xnfa_          16 EVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAF   94 (259)
T ss_dssp             HHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhhhhh
Confidence            44444455554432111   12355666777777888888888888777654 556777888888888888888888888


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC
Q 005729          464 DRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLP  543 (680)
Q Consensus       464 ~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p  543 (680)
                      +++.+.. +-+...|..+..+|...|++++|.+.|++..+.. +.+......+...+.+.+..+.+..+..........+
T Consensus        95 ~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  172 (259)
T d1xnfa_          95 DSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDKEQ  172 (259)
T ss_dssp             HHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSCCCS
T ss_pred             hHHHHHH-hhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhc-cccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccchhh
Confidence            8887754 2356677788888888888888888888887765 4455554445555556666555555555555532221


Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 005729          544 NVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSN-LALNSLINAFGEDQRDAEAFAVLQYMKENGL  622 (680)
Q Consensus       544 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~-~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  622 (680)
                        ..+. ++..+...........       .+...+.....  ..|+. .+|..+...|...|++++|++.|++.+.  .
T Consensus       173 --~~~~-~~~~~~~~~~~~~~~~-------~~~~~~~~~~~--~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~--~  238 (259)
T d1xnfa_         173 --WGWN-IVEFYLGNISEQTLME-------RLKADATDNTS--LAEHLSETNFYLGKYYLSLGDLDSATALFKLAVA--N  238 (259)
T ss_dssp             --THHH-HHHHHTTSSCHHHHHH-------HHHHHCCSHHH--HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--T
T ss_pred             --hhhh-HHHHHHHHHHHHHHHH-------HHHHHHHHhhh--cCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--c
Confidence              1111 2222221111111111       11111110000  01221 3566778888888888888888888887  3


Q ss_pred             CCC
Q 005729          623 KPD  625 (680)
Q Consensus       623 ~p~  625 (680)
                      .|+
T Consensus       239 ~p~  241 (259)
T d1xnfa_         239 NVH  241 (259)
T ss_dssp             CCT
T ss_pred             CCC
Confidence            454

>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=98.82  E-value=1.3e-08  Score=100.64  Aligned_cols=270  Identities=8%  Similarity=-0.035  Sum_probs=157.4

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCChhh-HHHHHHHHHhcCCCChHHHHHHHHHHHhCCCCcCHHHHHHHHHH
Q 005729          196 YNALISACARNDDLEKALNLMSKMRQDGYHCDFIN-YSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVG  274 (680)
Q Consensus       196 ~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~-~~~ll~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~~~li~~  274 (680)
                      +..++...-+.+..++|++++++..+..  |+..+ |+..-               .++..+...            ...
T Consensus        32 ~~~~~~~~~~~~~~~~al~~~~~~l~~~--P~~~~a~~~r~---------------~~l~~l~~~------------~~~   82 (334)
T d1dcea1          32 TQAVFQKRQAGELDESVLELTSQILGAN--PDFATLWNCRR---------------EVLQHLETE------------KSP   82 (334)
T ss_dssp             HHHHHHHHHTTCCSHHHHHHHHHHHHHC--TTCHHHHHHHH---------------HHHHHHHTT------------SCH
T ss_pred             HHHHHHHHhcccccHHHHHHHHHHHHHC--CCcHHHHHHHH---------------HHHHHHhhh------------cch
Confidence            3334443344445689999999988763  66543 22111               111111111            112


Q ss_pred             HHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC--hHHHHHHHHHHHHcCCCCCHHHHH-HHHHHHHHcCCH
Q 005729          275 FAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGR--TIEAEAVFEELKESGLKPRTKAYN-ALLKGYVKMGYL  351 (680)
Q Consensus       275 ~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~--~~~A~~l~~~m~~~g~~p~~~~~~-~li~~~~~~g~~  351 (680)
                      +...|++++|+.+++...+.. +.+...|..+..++...++  +++|...++++.+.. +.+...+. .....+...+..
T Consensus        83 ~~~~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~  160 (334)
T d1dcea1          83 EESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAP  160 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCH
T ss_pred             HHHHHHHHHHHHHHHHHHHhC-CCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhcccc
Confidence            345677888889888887653 3356677777777777654  788999999888764 34555554 344666678889


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 005729          352 KDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEM  431 (680)
Q Consensus       352 ~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m  431 (680)
                      ++|...++.+.+.+. -+...|+.+...+.+.|++++|...+.......  |.   .......+...+..+++...+...
T Consensus       161 ~~Al~~~~~~i~~~p-~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~---~~~~~~~~~~l~~~~~a~~~~~~~  234 (334)
T d1dcea1         161 AEELAFTDSLITRNF-SNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVL--LK---ELELVQNAFFTDPNDQSAWFYHRW  234 (334)
T ss_dssp             HHHHHHHHTTTTTTC-CCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHHH--HH---HHHHHHHHHHHCSSCSHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhH--HH---HHHHHHHHHHhcchhHHHHHHHHH
Confidence            999999988887764 378888888888888888887755444332210  00   111222333444455555555554


Q ss_pred             HHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHC
Q 005729          432 KSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQER  504 (680)
Q Consensus       432 ~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  504 (680)
                      .... +++...+..+...+...++.++|...+.+..+.. +.+...|..+...|...|++++|.+.|++..+.
T Consensus       235 l~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~l  305 (334)
T d1dcea1         235 LLGR-AEPLFRCELSVEKSTVLQSELESCKELQELEPEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKAV  305 (334)
T ss_dssp             HHSC-CCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTC-HHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHH
T ss_pred             HHhC-cchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            4433 2333344444445555555666666555555432 123344555555555666666666666666554

>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=98.82  E-value=1.8e-08  Score=99.70  Aligned_cols=212  Identities=6%  Similarity=-0.075  Sum_probs=128.3

Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcC--CHHHHHHHHHHHHHCCCCCCHHHH-HHHHHHHHhcCCHHHH
Q 005729          348 MGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAG--RWESARIVLKEMEVSHAKPNSFIY-SRILAGYRDRGEWQRT  424 (680)
Q Consensus       348 ~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g--~~~~A~~~~~~m~~~~~~~~~~~~-~~ll~~~~~~g~~~~A  424 (680)
                      .|++++|..+++...+.+ +-+...|..+..++...+  ++++|+..+.++.+... .+...+ ......+...+.+++|
T Consensus        86 ~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~-~~~~~~~~~~~~~~~~~~~~~~A  163 (334)
T d1dcea1          86 AALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADE-RNFHCWDYRRFVAAQAAVAPAEE  163 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTCCCHHHH
T ss_pred             HHHHHHHHHHHHHHHHhC-CCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhCc-hhhhhhhhHHHHHHHhccccHHH
Confidence            344566667777666543 225556666655555544  36677777777666532 234443 3344555666777777


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHC
Q 005729          425 FQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQER  504 (680)
Q Consensus       425 ~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  504 (680)
                      +..++.+.+.. +-+...|+.+...+.+.|++++|...+....+.  .|+   ...+...+...+..+++...+......
T Consensus       164 l~~~~~~i~~~-p~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~---~~~~~~~~~~l~~~~~a~~~~~~~l~~  237 (334)
T d1dcea1         164 LAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENV--LLK---ELELVQNAFFTDPNDQSAWFYHRWLLG  237 (334)
T ss_dssp             HHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHH--HHH---HHHHHHHHHHHCSSCSHHHHHHHHHHS
T ss_pred             HHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHhHHh--HHH---HHHHHHHHHHhcchhHHHHHHHHHHHh
Confidence            77777766654 456667777777777777666655444333321  011   112233445566677777777777665


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHh
Q 005729          505 GYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLE  569 (680)
Q Consensus       505 ~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~  569 (680)
                      . +++...+..+...+...|+.++|...+.+..+.+. -+...+..+..+|...|++++|++.++
T Consensus       238 ~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p-~~~~~~~~l~~~~~~~~~~~eA~~~~~  300 (334)
T d1dcea1         238 R-AEPLFRCELSVEKSTVLQSELESCKELQELEPENK-WCLLTIILLMRALDPLLYEKETLQYFS  300 (334)
T ss_dssp             C-CCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTCH-HHHHHHHHHHHHHCTGGGHHHHHHHHH
T ss_pred             C-cchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhCc-hHHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            4 44555566666677777788888887777765431 145666777778888888877777655

>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=9.4e-08  Score=90.27  Aligned_cols=129  Identities=12%  Similarity=-0.068  Sum_probs=77.1

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q 005729          302 TYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYA  381 (680)
Q Consensus       302 ~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~  381 (680)
                      +|..+...|.+.|++++|++.|++.++.. +-+..+|+.+..+|.+.|++++|...|+++.+... -+..++..+...|.
T Consensus        39 ~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~  116 (259)
T d1xnfa_          39 LLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDP-TYNYAHLNRGIALY  116 (259)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhhhhhhHHHHHHh-hhhhhHHHHHHHHH
Confidence            45556666677777777777777766653 33566667777777777777777777777766532 24556666666777


Q ss_pred             HcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 005729          382 NAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKS  433 (680)
Q Consensus       382 ~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~  433 (680)
                      ..|++++|+..|+...+..+ .+......+..++.+.+..+.+..+......
T Consensus       117 ~~g~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  167 (259)
T d1xnfa_         117 YGGRDKLAQDDLLAFYQDDP-NDPFRSLWLYLAEQKLDEKQAKEVLKQHFEK  167 (259)
T ss_dssp             HTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHCHHHHHHHHHHHHHH
T ss_pred             HHhhHHHHHHHHHHHHhhcc-ccHHHHHHHHHHHHHhhhHHHHHHHHHHhhc
Confidence            77777777777776665432 2333333344444444544444444444443

>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=98.33  E-value=1.7e-05  Score=70.43  Aligned_cols=125  Identities=17%  Similarity=0.000  Sum_probs=94.7

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCH
Q 005729          272 IVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYL  351 (680)
Q Consensus       272 i~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~  351 (680)
                      ...+...|++++|++.|+.+.    +|+..+|..+..++...|++++|++.|++.++.+ +.+...|..+..+|.+.|++
T Consensus        12 g~~~~~~~d~~~Al~~~~~i~----~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~~~~g~~   86 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKY   86 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHCCCHHHHHHHHHhcC----CCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHHHhhccH
Confidence            445678899999999888653    4677788888999999999999999999988875 45778888888899999999


Q ss_pred             HHHHHHHHHHHHCCCC--------------C-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCC
Q 005729          352 KDAEFVVSEMERSGVL--------------P-DEHTYSLLIDAYANAGRWESARIVLKEMEVSHA  401 (680)
Q Consensus       352 ~~A~~~~~~m~~~g~~--------------~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~  401 (680)
                      ++|...|++.......              . ...++..+..+|.+.|++++|.+.+........
T Consensus        87 ~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~  151 (192)
T d1hh8a_          87 DLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKS  151 (192)
T ss_dssp             HHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC
Confidence            9999888887653110              0 124555667777788888888888777765543

>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=98.32  E-value=1.6e-05  Score=75.99  Aligned_cols=132  Identities=11%  Similarity=0.014  Sum_probs=70.9

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhC----CCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCC-----CCHH
Q 005729          267 LLNDVIVGFAKAGDASKAMRFLGMAQGV----GLSPK-TATYAAVITALSNSGRTIEAEAVFEELKESGLK-----PRTK  336 (680)
Q Consensus       267 ~~~~li~~~~~~g~~~~A~~~~~~~~~~----g~~p~-~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~-----p~~~  336 (680)
                      .|......|...|++++|.+.|.+..+.    +-.++ ..+|..+..+|.+.|++++|.+.+++..+....     ....
T Consensus        39 ~y~~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~  118 (290)
T d1qqea_          39 LCVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGAN  118 (290)
T ss_dssp             HHHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHH
Confidence            3555667777888888888887766532    11111 345666777777777777777777665432100     0123


Q ss_pred             HHHHHHHHHHH-cCCHHHHHHHHHHHHH----CCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Q 005729          337 AYNALLKGYVK-MGYLKDAEFVVSEMER----SGVLP-DEHTYSLLIDAYANAGRWESARIVLKEMEV  398 (680)
Q Consensus       337 ~~~~li~~~~~-~g~~~~A~~~~~~m~~----~g~~~-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~  398 (680)
                      ++..+...|.. .|++++|.+.+++..+    .+..+ -..++..+...|...|++++|+..|++...
T Consensus       119 ~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~  186 (290)
T d1qqea_         119 FKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIK  186 (290)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHH
Confidence            34444444433 3666666666655432    11000 122344455555555666666665555544

>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=98.29  E-value=0.0014  Score=60.88  Aligned_cols=227  Identities=7%  Similarity=-0.025  Sum_probs=125.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHc----cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 005729          408 YSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGK----YNCLHHAMAAFDRMLSEGIEPDTITWNTLID  483 (680)
Q Consensus       408 ~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~  483 (680)
                      +..+...+.+.+++++|++.|++..+.|   +...+..|...|..    ..+...|...+....+.+   +......+..
T Consensus         5 ~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~---~~~a~~~l~~   78 (265)
T d1ouva_           5 LVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLLGN   78 (265)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc---ccchhhcccc
Confidence            3334444444555555555555554443   23333334444433    345556666666555543   2333333333


Q ss_pred             HHHH----cCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHH----hcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 005729          484 CHFK----CGRYDRAEELFEEMQERGYFPCTTTYNIMINLLG----EQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIY  555 (680)
Q Consensus       484 ~~~~----~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~----~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~  555 (680)
                      .+..    .++.+.|...++...+.|.   ......+...+.    .......+...+......   .+...+..|...|
T Consensus        79 ~~~~~~~~~~~~~~a~~~~~~a~~~g~---~~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~L~~~~  152 (265)
T d1ouva_          79 LYYSGQGVSQNTNKALQYYSKACDLKY---AEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDL---NDGDGCTILGSLY  152 (265)
T ss_dssp             HHHHTSSSCCCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT---TCHHHHHHHHHHH
T ss_pred             ccccccccchhhHHHHHHHhhhhhhhh---hhHHHhhcccccCCCcccchhHHHHHHhhhhhcc---cccchhhhhhhhh
Confidence            3332    3456667777776666552   222222222222    234456666666666553   2455666666666


Q ss_pred             HhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHHCCCCCCHHHHHH
Q 005729          556 GQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGE----DQRDAEAFAVLQYMKENGLKPDVVTYTT  631 (680)
Q Consensus       556 ~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~g~~p~~~~~~~  631 (680)
                      .......       .....+...++...+.|   +......+...|..    ..++++|+.+|++..+.|   ++..+..
T Consensus       153 ~~~~~~~-------~~~~~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~  219 (265)
T d1ouva_         153 DAGRGTP-------KDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFN  219 (265)
T ss_dssp             HHTSSSC-------CCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHH
T ss_pred             ccCCCcc-------cccccchhhhhcccccc---ccccccchhhhcccCcccccchhhhhhhHhhhhccc---CHHHHHH
Confidence            6522221       11122333344444432   45555556666654    568999999999999876   5667777


Q ss_pred             HHHHHHh----cCCcCcHHHHHHHHHHcCCCC
Q 005729          632 LMKALIR----VDKFHKVPAVYEEMILSGCTP  659 (680)
Q Consensus       632 l~~~~~~----~g~~~~A~~~~~~m~~~g~~p  659 (680)
                      |...|.+    ..++++|.++|++..+.|..+
T Consensus       220 LG~~y~~G~g~~~n~~~A~~~~~kAa~~g~~~  251 (265)
T d1ouva_         220 LGAMQYNGEGVTRNEKQAIENFKKGCKLGAKG  251 (265)
T ss_dssp             HHHHHHTTSSSSCCSTTHHHHHHHHHHHTCHH
T ss_pred             HHHHHHcCCCCccCHHHHHHHHHHHHHCcCHH
Confidence            8887765    447899999999999988544

>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=98.26  E-value=2.2e-05  Score=69.56  Aligned_cols=123  Identities=11%  Similarity=0.171  Sum_probs=72.4

Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhH
Q 005729          414 GYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDR  493 (680)
Q Consensus       414 ~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~  493 (680)
                      .+...|++++|++.|+++.    +++..+|..+...|...|++++|...|++.++.. +.+...|..+..+|.+.|++++
T Consensus        14 ~~~~~~d~~~Al~~~~~i~----~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~~~~g~~~~   88 (192)
T d1hh8a_          14 LAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKYDL   88 (192)
T ss_dssp             HHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHCCCHHHHHHHHHhcC----CCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHHHhhccHHH
Confidence            3455566666666655431    4555556666666666666666666666666544 2345566666666666666666


Q ss_pred             HHHHHHHHHHCC------------C--CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 005729          494 AEELFEEMQERG------------Y--FP-CTTTYNIMINLLGEQERWEDVKRLLGNMRAQGL  541 (680)
Q Consensus       494 A~~~~~~m~~~~------------~--~p-~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~  541 (680)
                      |++.|++.....            .  .. ...++..+..++.+.|++++|.+.+.+..+...
T Consensus        89 A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~  151 (192)
T d1hh8a_          89 AIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKS  151 (192)
T ss_dssp             HHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC
Confidence            666666654321            0  00 023455566677777888888877777776433

>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=98.22  E-value=1.9e-05  Score=75.29  Aligned_cols=91  Identities=13%  Similarity=-0.012  Sum_probs=51.4

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC----CC-CCCHHHHHH
Q 005729          306 VITALSNSGRTIEAEAVFEELKES----GLKP-RTKAYNALLKGYVKMGYLKDAEFVVSEMERS----GV-LPDEHTYSL  375 (680)
Q Consensus       306 li~~~~~~g~~~~A~~l~~~m~~~----g~~p-~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~----g~-~~~~~~~~~  375 (680)
                      ....|...|++++|.+.|.+..+.    +-++ -..+|+.+..+|.+.|++++|...+++..+.    |- .....++..
T Consensus        43 aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~  122 (290)
T d1qqea_          43 AATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFE  122 (290)
T ss_dssp             HHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHH
Confidence            355677888888888888877542    1111 1346677777777777777777777665431    10 001223334


Q ss_pred             HHHHHHH-cCCHHHHHHHHHHH
Q 005729          376 LIDAYAN-AGRWESARIVLKEM  396 (680)
Q Consensus       376 li~~~~~-~g~~~~A~~~~~~m  396 (680)
                      +...|.. .|++++|++.+++.
T Consensus       123 l~~~~~~~~~~~~~A~~~~~~A  144 (290)
T d1qqea_         123 LGEILENDLHDYAKAIDCYELA  144 (290)
T ss_dssp             HHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHhHhhHHHHHHHHHHHHHHH
Confidence            4444433 35556655555544

>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=98.21  E-value=0.0022  Score=59.34  Aligned_cols=61  Identities=10%  Similarity=0.035  Sum_probs=29.3

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCChHHHHHHHHHHHHc
Q 005729          266 QLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSN----SGRTIEAEAVFEELKES  329 (680)
Q Consensus       266 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~----~g~~~~A~~l~~~m~~~  329 (680)
                      ..+..|...+.+.+++++|+++|++..+.|   +...+..|...|..    ..+...|...++...+.
T Consensus         3 ~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~   67 (265)
T d1ouva_           3 KELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDL   67 (265)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhcccccc
Confidence            344445555555555555555555555443   33333334444433    33444555555444443

>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=98.14  E-value=4.2e-05  Score=61.42  Aligned_cols=87  Identities=11%  Similarity=0.053  Sum_probs=37.1

Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHH
Q 005729          415 YRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRA  494 (680)
Q Consensus       415 ~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A  494 (680)
                      +.+.|++++|+..|++..+.. +.+...|..+..+|.+.|++++|...+....+.. +.+...|..+..++...|++++|
T Consensus        13 ~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~~~~A   90 (117)
T d1elwa_          13 ALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNRFEEA   90 (117)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccCHHHH
Confidence            344444444444444443332 3333444444444444444444444444444332 22334444444444444444444


Q ss_pred             HHHHHHHHH
Q 005729          495 EELFEEMQE  503 (680)
Q Consensus       495 ~~~~~~m~~  503 (680)
                      +..|++..+
T Consensus        91 ~~~~~~a~~   99 (117)
T d1elwa_          91 KRTYEEGLK   99 (117)
T ss_dssp             HHHHHHHHT
T ss_pred             HHHHHHHHH
Confidence            444444443

>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=98.11  E-value=5.7e-05  Score=64.51  Aligned_cols=93  Identities=16%  Similarity=0.070  Sum_probs=63.5

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCC
Q 005729          271 VIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGY  350 (680)
Q Consensus       271 li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~  350 (680)
                      ....|.+.|++++|+..|++..+.. +-+...|..+..+|...|++++|++.|++.++.. +-+..+|..+..++...|+
T Consensus        16 ~gn~~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~g~   93 (159)
T d1a17a_          16 QANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGK   93 (159)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHcCC
Confidence            3445667777777777777776653 2345667777777777777777777777776653 3455677777777777777


Q ss_pred             HHHHHHHHHHHHHCC
Q 005729          351 LKDAEFVVSEMERSG  365 (680)
Q Consensus       351 ~~~A~~~~~~m~~~g  365 (680)
                      +++|...+++..+..
T Consensus        94 ~~eA~~~~~~a~~~~  108 (159)
T d1a17a_          94 FRAALRDYETVVKVK  108 (159)
T ss_dssp             HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHcC
Confidence            777777777776653

>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=98.10  E-value=6.1e-05  Score=64.34  Aligned_cols=90  Identities=9%  Similarity=0.175  Sum_probs=45.9

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChh
Q 005729          413 AGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYD  492 (680)
Q Consensus       413 ~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~  492 (680)
                      ..|.+.|++++|+..|.+..+.. +.+...|..+..+|...|++++|...|+..++.. +-+...|..+..+|...|+++
T Consensus        18 n~~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~g~~~   95 (159)
T d1a17a_          18 NDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKFR   95 (159)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHcCCHH
Confidence            34455555555555555554443 3344455555555555555555555555554433 223445555555555555555


Q ss_pred             HHHHHHHHHHHC
Q 005729          493 RAEELFEEMQER  504 (680)
Q Consensus       493 ~A~~~~~~m~~~  504 (680)
                      +|...|++....
T Consensus        96 eA~~~~~~a~~~  107 (159)
T d1a17a_          96 AALRDYETVVKV  107 (159)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHc
Confidence            555555555544

>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=98.09  E-value=8.2e-05  Score=59.66  Aligned_cols=102  Identities=14%  Similarity=0.056  Sum_probs=85.0

Q ss_pred             HHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 005729          446 MIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQER  525 (680)
Q Consensus       446 li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~  525 (680)
                      -...+.+.|++++|...|+..++.. +.+...|..+..+|.+.|++++|+..+++.++.+ +.+...|..+..++...|+
T Consensus         9 ~g~~~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~   86 (117)
T d1elwa_           9 KGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNR   86 (117)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccC
Confidence            3566788899999999999998765 4578889999999999999999999999999886 6788899999999999999


Q ss_pred             HHHHHHHHHHHHHCCCCC-CHHHHHHH
Q 005729          526 WEDVKRLLGNMRAQGLLP-NVVTYTTL  551 (680)
Q Consensus       526 ~~~A~~~~~~m~~~~~~p-~~~~~~~l  551 (680)
                      +++|...+++.++.  .| +...+..+
T Consensus        87 ~~~A~~~~~~a~~~--~p~~~~~~~~l  111 (117)
T d1elwa_          87 FEEAKRTYEEGLKH--EANNPQLKEGL  111 (117)
T ss_dssp             HHHHHHHHHHHHTT--CTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHh--CCCCHHHHHHH
Confidence            99999999999975  44 34444333

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.09  E-value=0.0018  Score=61.68  Aligned_cols=285  Identities=12%  Similarity=0.070  Sum_probs=122.6

Q ss_pred             cCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 005729          263 LDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALL  342 (680)
Q Consensus       263 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li  342 (680)
                      +|..-...+...|.+.|.++.|..+|..+..         |..++..+.+.+++..|.+++.+.-      +..+|..+.
T Consensus        12 ~n~~d~~~i~~~c~~~~lye~A~~lY~~~~d---------~~rl~~~~v~l~~~~~avd~~~k~~------~~~~~k~~~   76 (336)
T d1b89a_          12 PNNAHIQQVGDRCYDEKMYDAAKLLYNNVSN---------FGRLASTLVHLGEYQAAVDGARKAN------STRTWKEVC   76 (336)
T ss_dssp             C----------------CTTTHHHHHHHTTC---------HHHHHHHHHTTTCHHHHHHHHHHHT------CHHHHHHHH
T ss_pred             CCcCCHHHHHHHHHHCCCHHHHHHHHHhCCC---------HHHHHHHHHhhccHHHHHHHHHHcC------CHHHHHHHH
Confidence            3333444445555566666666666654432         5555555666666666555554331      345555555


Q ss_pred             HHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHH
Q 005729          343 KGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQ  422 (680)
Q Consensus       343 ~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~  422 (680)
                      ..+.+......+     .+.......+......++..|-..|.+++...+++..... -..+...++.++..|++.+. +
T Consensus        77 ~~l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~-~~~~~~~~~~L~~lyak~~~-~  149 (336)
T d1b89a_          77 FACVDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKFKP-Q  149 (336)
T ss_dssp             HHHHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS-TTCCHHHHHHHHHHHHTTCH-H
T ss_pred             HHHHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcC-CccchHHHHHHHHHHHHhCh-H
Confidence            555555444332     1112222234444445555566666666665555554322 13344455555555555432 1


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHH
Q 005729          423 RTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQ  502 (680)
Q Consensus       423 ~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~  502 (680)
                      +   +.+.++..+..-+.   ..++..|-+.+.                      |..++..|.+.|++++|..+.-   
T Consensus       150 k---l~e~l~~~s~~y~~---~k~~~~c~~~~l----------------------~~elv~Ly~~~~~~~~A~~~~i---  198 (336)
T d1b89a_         150 K---MREHLELFWSRVNI---PKVLRAAEQAHL----------------------WAELVFLYDKYEEYDNAIITMM---  198 (336)
T ss_dssp             H---HHHHHHHHSTTSCH---HHHHHHHHTTTC----------------------HHHHHHHHHHTTCHHHHHHHHH---
T ss_pred             H---HHHHHHhccccCCH---HHHHHHHHHcCC----------------------hHHHHHHHHhcCCHHHHHHHHH---
Confidence            1   22222211001110   011111111111                      3445555555666665554432   


Q ss_pred             HCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHh--hhHHHHHHHHH
Q 005729          503 ERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLE--GLSDQAVNAFR  580 (680)
Q Consensus       503 ~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~--~~~~~a~~~~~  580 (680)
                      ++  .++..-...++..+.+..+.+...+++...++.  .|  ...+.++......-+..+..+.++  +.+.-....+.
T Consensus       199 ~~--~~~~~~~~~f~e~~~k~~N~e~~~~~i~~yL~~--~p--~~i~~lL~~v~~~~d~~r~V~~~~k~~~l~li~p~Le  272 (336)
T d1b89a_         199 NH--PTDAWKEGQFKDIITKVANVELYYRAIQFYLEF--KP--LLLNDLLMVLSPRLDHTRAVNYFSKVKQLPLVKPYLR  272 (336)
T ss_dssp             HS--TTTTCCHHHHHHHHHHCSSTHHHHHHHHHHHHH--CG--GGHHHHHHHHGGGCCHHHHHHHHHHTTCTTTTHHHHH
T ss_pred             Hc--chhhhhHHHHHHHHHccCChHHHHHHHHHHHHc--CH--HHHHHHHHHhccCCCHHHHHHHHHhcCCcHHHHHHHH
Confidence            22  222223344455566666666655555555542  22  334555555555555555555443  11112222333


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHHhcCCHHH
Q 005729          581 VMRTDGLKPSNLALNSLINAFGEDQRDAE  609 (680)
Q Consensus       581 ~m~~~g~~p~~~~~~~li~~~~~~g~~~~  609 (680)
                      .....|   +..+.++|...|...++++.
T Consensus       273 ~v~~~n---~~~vn~al~~lyie~~d~~~  298 (336)
T d1b89a_         273 SVQNHN---NKSVNESLNNLFITEEDYQA  298 (336)
T ss_dssp             HHHTTC---CHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcC---hHHHHHHHHHHHhCcchhHH
Confidence            333322   33566677777777766544

>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=98.00  E-value=5.1e-05  Score=67.56  Aligned_cols=98  Identities=13%  Similarity=0.006  Sum_probs=52.2

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 005729          298 PKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLI  377 (680)
Q Consensus       298 p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li  377 (680)
                      |+...+......+.+.|++++|+..|++.++.. +.+...|+.+..+|.+.|++++|...|++..+... -+..+|..+.
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p-~~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDG-QSVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCT-TCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCC-CcHHHHHHHH
Confidence            344444445555555555555555555555443 33455555555555555555555555555554321 1345555555


Q ss_pred             HHHHHcCCHHHHHHHHHHHH
Q 005729          378 DAYANAGRWESARIVLKEME  397 (680)
Q Consensus       378 ~~~~~~g~~~~A~~~~~~m~  397 (680)
                      .+|.+.|++++|+..|++..
T Consensus        80 ~~~~~l~~~~~A~~~~~~al   99 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAY   99 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHH
Confidence            55555555555555555543

>d2c2la1 a.118.8.1 (A:24-224) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.95  E-value=6e-05  Score=67.11  Aligned_cols=97  Identities=11%  Similarity=0.040  Sum_probs=43.8

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 005729          404 NSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLID  483 (680)
Q Consensus       404 ~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~  483 (680)
                      +...+......+.+.|++++|+..|.+..... +.+...|..+..+|.+.|+++.|...|+...+.. +-+...|..+..
T Consensus         3 ~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~-p~~~~a~~~lg~   80 (201)
T d2c2la1           3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQ   80 (201)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhC-CCcHHHHHHHHH
Confidence            33444444444555555555555554444332 3344444444444444444444444444444332 113334444444


Q ss_pred             HHHHcCChhHHHHHHHHHH
Q 005729          484 CHFKCGRYDRAEELFEEMQ  502 (680)
Q Consensus       484 ~~~~~g~~~~A~~~~~~m~  502 (680)
                      +|.+.|++++|+..|++..
T Consensus        81 ~~~~l~~~~~A~~~~~~al   99 (201)
T d2c2la1          81 CQLEMESYDEAIANLQRAY   99 (201)
T ss_dssp             HHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHH
Confidence            4444444444444444443

>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=97.82  E-value=7.2e-05  Score=61.13  Aligned_cols=112  Identities=10%  Similarity=0.076  Sum_probs=85.6

Q ss_pred             HHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCC--
Q 005729          548 YTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPD--  625 (680)
Q Consensus       548 ~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~--  625 (680)
                      +..+...|.+.|++++|++.|+..+           +. -+.+...|..+..+|.+.|++++|+..++++++.  .|+  
T Consensus         7 ~k~~G~~~~~~~~y~~Ai~~y~~al-----------~~-~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l--~~~~~   72 (128)
T d1elra_           7 EKELGNDAYKKKDFDTALKHYDKAK-----------EL-DPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEV--GRENR   72 (128)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHH-----------HH-CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--HHHST
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHH-----------Hh-CcccHHHHHhHHHHHHHcCchHHHHHHHHHHHHh--CcccH
Confidence            4567788999999999998876322           21 1234668999999999999999999999999862  221  


Q ss_pred             ------HHHHHHHHHHHHhcCCcCcHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHH
Q 005729          626 ------VVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPDRKARAMLRSALRYMK  675 (680)
Q Consensus       626 ------~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd~~~~~~l~~a~~~~k  675 (680)
                            ..+|..+...+...+++++|++++++.+..  .++......+..+-+.+|
T Consensus        73 ~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~kal~~--~~~~~~~~~l~~~~k~lk  126 (128)
T d1elra_          73 EDYRQIAKAYARIGNSYFKEEKYKDAIHFYNKSLAE--HRTPDVLKKCQQAEKILK  126 (128)
T ss_dssp             TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc--CCCHHHHHHHHHHHHHHh
Confidence                  247778888999999999999999998874  567777666666554444

>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=97.81  E-value=0.00011  Score=58.21  Aligned_cols=85  Identities=15%  Similarity=0.046  Sum_probs=38.4

Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHH
Q 005729          309 ALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWES  388 (680)
Q Consensus       309 ~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~  388 (680)
                      .+.+.|++++|+..|++..+.. +-+...|..+..++.+.|++++|+..+++..+.. +.+...|..+...|...|++++
T Consensus        25 ~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~g~~~~  102 (112)
T d1hxia_          25 SMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHNANA  102 (112)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhhhHHHHHHHhhhcccc-cccchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHCCCHHH
Confidence            3444444444444444444432 1234444444444444444444444444444432 1134444444444444455555


Q ss_pred             HHHHHHH
Q 005729          389 ARIVLKE  395 (680)
Q Consensus       389 A~~~~~~  395 (680)
                      |++.+++
T Consensus       103 A~~~l~~  109 (112)
T d1hxia_         103 ALASLRA  109 (112)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            5444444

>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=97.78  E-value=0.00011  Score=58.25  Aligned_cols=83  Identities=8%  Similarity=-0.050  Sum_probs=32.1

Q ss_pred             HhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHH
Q 005729          416 RDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAE  495 (680)
Q Consensus       416 ~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~  495 (680)
                      .+.|++++|...|++..+.. +-+...|..+..++.+.|++++|...|++..+.. +.+...|..+...|...|++++|.
T Consensus        27 ~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~la~~y~~~g~~~~A~  104 (112)
T d1hxia_          27 LKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHNANAAL  104 (112)
T ss_dssp             HHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhhhHHHHHHHhhhcccc-cccchhhhhhhhhhhhhhhHHHhhcccccccccc-cccccchHHHHHHHHHCCCHHHHH
Confidence            33344444444444433322 2233333444444444444444444444433332 123333444444444444444444


Q ss_pred             HHHHH
Q 005729          496 ELFEE  500 (680)
Q Consensus       496 ~~~~~  500 (680)
                      +.|++
T Consensus       105 ~~l~~  109 (112)
T d1hxia_         105 ASLRA  109 (112)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            44433

>d1nzna_ a.118.8.1 (A:) Mitochondria fission protein Fis1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.74  E-value=0.00013  Score=58.87  Aligned_cols=95  Identities=13%  Similarity=0.020  Sum_probs=40.5

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCH-HHH
Q 005729          516 MINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSN-LAL  594 (680)
Q Consensus       516 li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~-~~~  594 (680)
                      +++.+...+++++|++.|++.+..+ +.+..++..+..++.+.++.++.        ++|+.+++++......|+. .+|
T Consensus         5 l~n~~~~~~~l~~Ae~~Y~~aL~~~-p~~~~~~~n~a~~L~~s~~~~d~--------~~Ai~~l~~~l~~~~~~~~~~~~   75 (122)
T d1nzna_           5 VLNELVSVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDI--------RKGIVLLEELLPKGSKEEQRDYV   75 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHH--------HHHHHHHHHHTTTSCHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhcchHHH--------HHHHHHHHHHHhccCCchHHHHH
Confidence            3444445555555555555555432 12444444555555444333221        1222223333332211211 134


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHH
Q 005729          595 NSLINAFGEDQRDAEAFAVLQYMKE  619 (680)
Q Consensus       595 ~~li~~~~~~g~~~~A~~~~~~m~~  619 (680)
                      ..+..+|.+.|++++|+++|+++.+
T Consensus        76 ~~Lg~~y~~~g~~~~A~~~~~~aL~  100 (122)
T d1nzna_          76 FYLAVGNYRLKEYEKALKYVRGLLQ  100 (122)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            4445555555555555555555554

>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=97.70  E-value=0.0029  Score=60.21  Aligned_cols=288  Identities=11%  Similarity=0.123  Sum_probs=148.1

Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 005729          298 PKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEMERSGVLPDEHTYSLLI  377 (680)
Q Consensus       298 p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~~~~~~~~~li  377 (680)
                      ||..-...+.+-|.+.|.++.|..+|..+..         |..++..+.+.++++.|.+++.+..      +..+|..+.
T Consensus        12 ~n~~d~~~i~~~c~~~~lye~A~~lY~~~~d---------~~rl~~~~v~l~~~~~avd~~~k~~------~~~~~k~~~   76 (336)
T d1b89a_          12 PNNAHIQQVGDRCYDEKMYDAAKLLYNNVSN---------FGRLASTLVHLGEYQAAVDGARKAN------STRTWKEVC   76 (336)
T ss_dssp             C----------------CTTTHHHHHHHTTC---------HHHHHHHHHTTTCHHHHHHHHHHHT------CHHHHHHHH
T ss_pred             CCcCCHHHHHHHHHHCCCHHHHHHHHHhCCC---------HHHHHHHHHhhccHHHHHHHHHHcC------CHHHHHHHH
Confidence            5555556677778888888888888876542         4567777788888888877776442      667888888


Q ss_pred             HHHHHcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHH
Q 005729          378 DAYANAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLH  457 (680)
Q Consensus       378 ~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~  457 (680)
                      ..+.+.....-+     .+.......+......++..|-..|.+++...+++...... ..+...++-++..|++.+. +
T Consensus        77 ~~l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~-~~~~~~~~~L~~lyak~~~-~  149 (336)
T d1b89a_          77 FACVDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFKP-Q  149 (336)
T ss_dssp             HHHHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTCH-H
T ss_pred             HHHHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCC-ccchHHHHHHHHHHHHhCh-H
Confidence            888777665443     22233344566666778888888888888888888765432 5667777788888877542 2


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 005729          458 HAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMR  537 (680)
Q Consensus       458 ~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~  537 (680)
                      +   +.+.+...+-..|   ...++..|-+.+.++++.-++.++.+.     ......++.-....-+   ...+.+-..
T Consensus       150 k---l~e~l~~~s~~y~---~~k~~~~c~~~~l~~elv~Ly~~~~~~-----~~A~~~~i~~~~~~~~---~~~f~e~~~  215 (336)
T d1b89a_         150 K---MREHLELFWSRVN---IPKVLRAAEQAHLWAELVFLYDKYEEY-----DNAIITMMNHPTDAWK---EGQFKDIIT  215 (336)
T ss_dssp             H---HHHHHHHHSTTSC---HHHHHHHHHTTTCHHHHHHHHHHTTCH-----HHHHHHHHHSTTTTCC---HHHHHHHHH
T ss_pred             H---HHHHHHhccccCC---HHHHHHHHHHcCChHHHHHHHHhcCCH-----HHHHHHHHHcchhhhh---HHHHHHHHH
Confidence            2   3333332111112   223445555555555555554444221     1111112111111111   111222222


Q ss_pred             HCCCCCCHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 005729          538 AQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYM  617 (680)
Q Consensus       538 ~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m  617 (680)
                      +.   .|+..+-..+..|..+. ++-...+           +..+..   .-|   -..++..+.+.+++.....+++..
T Consensus       216 k~---~N~e~~~~~i~~yL~~~-p~~i~~l-----------L~~v~~---~~d---~~r~V~~~~k~~~l~li~p~Le~v  274 (336)
T d1b89a_         216 KV---ANVELYYRAIQFYLEFK-PLLLNDL-----------LMVLSP---RLD---HTRAVNYFSKVKQLPLVKPYLRSV  274 (336)
T ss_dssp             HC---SSTHHHHHHHHHHHHHC-GGGHHHH-----------HHHHGG---GCC---HHHHHHHHHHTTCTTTTHHHHHHH
T ss_pred             cc---CChHHHHHHHHHHHHcC-HHHHHHH-----------HHHhcc---CCC---HHHHHHHHHhcCCcHHHHHHHHHH
Confidence            21   13333444444443321 1111111           111111   111   134566667777777777777776


Q ss_pred             HHCCCCCCHHHHHHHHHHHHhcCCcCcH
Q 005729          618 KENGLKPDVVTYTTLMKALIRVDKFHKV  645 (680)
Q Consensus       618 ~~~g~~p~~~~~~~l~~~~~~~g~~~~A  645 (680)
                      .+.|   +..+.+++...|...++++.-
T Consensus       275 ~~~n---~~~vn~al~~lyie~~d~~~l  299 (336)
T d1b89a_         275 QNHN---NKSVNESLNNLFITEEDYQAL  299 (336)
T ss_dssp             HTTC---CHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHcC---hHHHHHHHHHHHhCcchhHHH
Confidence            5544   457889999999999886543

>d1nzna_ a.118.8.1 (A:) Mitochondria fission protein Fis1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.68  E-value=0.00022  Score=57.39  Aligned_cols=93  Identities=9%  Similarity=0.111  Sum_probs=44.6

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCC---HHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHH
Q 005729          411 ILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNC---LHHAMAAFDRMLSEGIEPD-TITWNTLIDCHF  486 (680)
Q Consensus       411 ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~---~~~A~~~~~~m~~~~~~~~-~~~~~~li~~~~  486 (680)
                      ++..+...+++++|.+.|++....+ +.+..++..+..++.+.++   +++|+.+|+++.+....|+ ..+|..+..+|.
T Consensus         5 l~n~~~~~~~l~~Ae~~Y~~aL~~~-p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y~   83 (122)
T d1nzna_           5 VLNELVSVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNY   83 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHhcCHHHHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHHH
Confidence            3444444555555555555554443 3444555555555544332   2345555555544321121 124445555555


Q ss_pred             HcCChhHHHHHHHHHHHC
Q 005729          487 KCGRYDRAEELFEEMQER  504 (680)
Q Consensus       487 ~~g~~~~A~~~~~~m~~~  504 (680)
                      +.|++++|.+.|+++++.
T Consensus        84 ~~g~~~~A~~~~~~aL~~  101 (122)
T d1nzna_          84 RLKEYEKALKYVRGLLQT  101 (122)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HHhhhHHHHHHHHHHHHh
Confidence            555555555555555554

>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=97.66  E-value=0.00068  Score=57.00  Aligned_cols=119  Identities=10%  Similarity=0.040  Sum_probs=86.5

Q ss_pred             HHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCC-----------CHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 005729          548 YTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKP-----------SNLALNSLINAFGEDQRDAEAFAVLQY  616 (680)
Q Consensus       548 ~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p-----------~~~~~~~li~~~~~~g~~~~A~~~~~~  616 (680)
                      +..-+..+.+.|++.+|+..|..    |+.++...   ...+           ...+|..+..+|.+.|++++|++.+++
T Consensus        20 ~~~~G~~~f~~~~y~~A~~~Y~~----al~~~~~~---~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Al~~~~~   92 (153)
T d2fbna1          20 IKEEGNEFFKKNEINEAIVKYKE----ALDFFIHT---EEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASK   92 (153)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHH----HHHTTTTC---TTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHH----HHhhCcch---hhhhhHHHHHhhhhHHHHHHhhHHHHHHHhcccchhhhhhhc
Confidence            44455667788888888877652    22221110   0111           124678899999999999999999999


Q ss_pred             HHHCCCCC-CHHHHHHHHHHHHhcCCcCcHHHHHHHHHHcCCCCCH-HHHHHHHHHHHHHHhh
Q 005729          617 MKENGLKP-DVVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPDR-KARAMLRSALRYMKQT  677 (680)
Q Consensus       617 m~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd~-~~~~~l~~a~~~~k~~  677 (680)
                      .++.  .| +..+|..++.++...|++++|...|++.++.  .|+. .+...+..+...+++.
T Consensus        93 al~~--~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l--~P~n~~~~~~l~~~~~kl~~~  151 (153)
T d2fbna1          93 VLKI--DKNNVKALYKLGVANMYFGFLEEAKENLYKAASL--NPNNLDIRNSYELCVNKLKEA  151 (153)
T ss_dssp             HHHH--STTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHH
T ss_pred             cccc--cchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHH
Confidence            9984  45 7789999999999999999999999999985  5654 4555555555556554

>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=97.64  E-value=0.00087  Score=57.91  Aligned_cols=130  Identities=19%  Similarity=0.129  Sum_probs=90.0

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHHHH
Q 005729          515 IMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLAL  594 (680)
Q Consensus       515 ~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~  594 (680)
                      .........|++++|.+.|.+.+..-  +....     ..+ ..+.+-...         ... +..       -....+
T Consensus        16 ~~g~~~~~~g~~e~A~~~~~~AL~l~--rG~~l-----~~~-~~~~w~~~~---------r~~-l~~-------~~~~a~   70 (179)
T d2ff4a2          16 TAGVHAAAAGRFEQASRHLSAALREW--RGPVL-----DDL-RDFQFVEPF---------ATA-LVE-------DKVLAH   70 (179)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTC--CSSTT-----GGG-TTSTTHHHH---------HHH-HHH-------HHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhhC--ccccc-----ccC-cchHHHHHH---------HHH-HHH-------HHHHHH
Confidence            34456788899999999999988741  11100     000 011111100         000 000       012467


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCcCcHHHHHHHHH-----HcCCCCCHHHHHHHH
Q 005729          595 NSLINAFGEDQRDAEAFAVLQYMKENGLKP-DVVTYTTLMKALIRVDKFHKVPAVYEEMI-----LSGCTPDRKARAMLR  668 (680)
Q Consensus       595 ~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~-----~~g~~pd~~~~~~l~  668 (680)
                      ..++.++.+.|++++|+..++++.+  +.| +...|..++.+|.+.|+..+|.+.|+++.     +.|+.|...+.....
T Consensus        71 ~~la~~~~~~g~~~~Al~~~~~al~--~~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l~~l~~  148 (179)
T d2ff4a2          71 TAKAEAEIACGRASAVIAELEALTF--EHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRALNE  148 (179)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH--HSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHHHHH
T ss_pred             HHHHHHHHHCCCchHHHHHHHHHHH--hCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHHHHHHH
Confidence            7889999999999999999999998  445 78899999999999999999999999985     469999998876555


Q ss_pred             HHH
Q 005729          669 SAL  671 (680)
Q Consensus       669 ~a~  671 (680)
                      ..+
T Consensus       149 ~il  151 (179)
T d2ff4a2         149 RIL  151 (179)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            443

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.63  E-value=0.0011  Score=56.91  Aligned_cols=110  Identities=14%  Similarity=-0.017  Sum_probs=57.5

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Q 005729          268 LNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVK  347 (680)
Q Consensus       268 ~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~  347 (680)
                      +......|.+.|++++|++.|...+........              ....-......+       ...+|+.+..+|.+
T Consensus        16 l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~--------------~~~~~~~~~~~~-------~~~~~~nla~~y~k   74 (170)
T d1p5qa1          16 VKERGTVYFKEGKYKQALLQYKKIVSWLEYESS--------------FSNEEAQKAQAL-------RLASHLNLAMCHLK   74 (170)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCC--------------CCSHHHHHHHHH-------HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccc--------------cchHHHhhhchh-------HHHHHHHHHHHHHh
Confidence            444566788889999999998877642100000              000000000000       01244555555666


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 005729          348 MGYLKDAEFVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVS  399 (680)
Q Consensus       348 ~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  399 (680)
                      .|++++|+..++..++.+ +.++.+|..+..+|...|++++|+..|++..+.
T Consensus        75 ~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  125 (170)
T d1p5qa1          75 LQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQL  125 (170)
T ss_dssp             TTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hhhcccccchhhhhhhcc-ccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHh
Confidence            666666666666655543 225555555666666666666666666665554

>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=97.60  E-value=0.00012  Score=61.12  Aligned_cols=126  Identities=15%  Similarity=0.141  Sum_probs=89.7

Q ss_pred             HHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCH-HHHHHHH
Q 005729          520 LGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSN-LALNSLI  598 (680)
Q Consensus       520 ~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~-~~~~~li  598 (680)
                      |-+.+.+++|...++..++.. +.+...+..+..+|...+++..+.+.. +..++|+..|++..+  +.|+. .+|..+.
T Consensus         7 ~~r~~~fe~A~~~~e~al~~~-P~~~~~~~~~g~~l~~~~~~~~~~e~~-~~~~~Ai~~~~kAl~--l~P~~~~a~~~lG   82 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAK-QMIQEAITKFEEALL--IDPKKDEAVWCIG   82 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHH-HHHHHHHHHHHHHHH--HCTTCHHHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHhhC-CcchHHHHHHHHHHHHhhhhhhhhHHH-HHHHHHHHHHHHHHH--hcchhhHHHhhHH
Confidence            345566888888888888753 236778888888887776666555443 345677888888877  45554 5888899


Q ss_pred             HHHHhcCC-----------HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCcCcHHHHHHHHHHcCC
Q 005729          599 NAFGEDQR-----------DAEAFAVLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMILSGC  657 (680)
Q Consensus       599 ~~~~~~g~-----------~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~  657 (680)
                      .+|...|+           +++|.+.|++..+  +.|+...|..-+..+      .+|.+++.+..++|+
T Consensus        83 ~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~--l~P~~~~~~~~L~~~------~ka~~~~~e~~k~~~  144 (145)
T d1zu2a1          83 NAYTSFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHYLKSLEMT------AKAPQLHAEAYKQGL  144 (145)
T ss_dssp             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHH------HTHHHHHHHHHHSSS
T ss_pred             HHHHHcccchhhHHHHHHhHHHhhhhhhcccc--cCCCHHHHHHHHHHH------HHHHHHHHHHHHHhc
Confidence            98876653           6889999999988  678766665544433      477888888887764

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.59  E-value=0.0012  Score=56.57  Aligned_cols=58  Identities=10%  Similarity=0.154  Sum_probs=24.5

Q ss_pred             HHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHC
Q 005729          446 MIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQER  504 (680)
Q Consensus       446 li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  504 (680)
                      +..+|.+.|++++|+..++..++.. +.+...|..+..+|...|++++|...|++..+.
T Consensus        68 la~~y~k~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  125 (170)
T d1p5qa1          68 LAMCHLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQL  125 (170)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhhhcccccchhhhhhhcc-ccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHh
Confidence            3344444444444444444444332 123444444444444444444444444444443

>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=97.55  E-value=0.00067  Score=58.20  Aligned_cols=79  Identities=9%  Similarity=-0.027  Sum_probs=64.5

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHHhcCCcCcHHHHHHHHHHcCCCCCH-HHHHHHHH
Q 005729          592 LALNSLINAFGEDQRDAEAFAVLQYMKENGLKP-DVVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPDR-KARAMLRS  669 (680)
Q Consensus       592 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd~-~~~~~l~~  669 (680)
                      ..|..+..++.+.|++++|+..++++++.  .| +...|..+..+|.+.|++++|.+.|++.++.  .|+. .....+..
T Consensus        78 ~~~~nla~~~~~~~~~~~Ai~~~~~al~~--~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l--~p~n~~~~~~l~~  153 (169)
T d1ihga1          78 SCVLNIGACKLKMSDWQGAVDSCLEALEI--DPSNTKALYRRAQGWQGLKEYDQALADLKKAQEI--APEDKAIQAELLK  153 (169)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhcccchhhhhhhhhhhh--hhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHH
Confidence            36788899999999999999999999984  45 6789999999999999999999999999985  5544 44555554


Q ss_pred             HHHHH
Q 005729          670 ALRYM  674 (680)
Q Consensus       670 a~~~~  674 (680)
                      +...+
T Consensus       154 ~~~~l  158 (169)
T d1ihga1         154 VKQKI  158 (169)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            44433

>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=97.46  E-value=0.00011  Score=75.92  Aligned_cols=134  Identities=11%  Similarity=-0.060  Sum_probs=69.2

Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHH
Q 005729          384 GRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAF  463 (680)
Q Consensus       384 g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~  463 (680)
                      +.++.|+..+....+.. .++...+..+...+.+.|+.++|...+....+..   ...++..+...+...|++++|...|
T Consensus       100 ~~Y~~ai~~l~~~~~l~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~---~~~~~~~LG~l~~~~~~~~~A~~~y  175 (497)
T d1ya0a1         100 GFYTQLLQELCTVFNVD-LPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSYI---CQHCLVHLGDIARYRNQTSQAESYY  175 (497)
T ss_dssp             HHHHHHHHHHTC--------------------------------CCHHHHHH---HHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCC-hhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCC---HHHHHHHHHHHHHHcccHHHHHHHH
Confidence            44444444443332221 2334455666666677777777776665544321   1245666777777888888888888


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhc
Q 005729          464 DRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQ  523 (680)
Q Consensus       464 ~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~  523 (680)
                      .+..+.. +-+...|+.+...|...|+..+|...|.+.+... +|-..++..|...+.+.
T Consensus       176 ~~A~~l~-P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~~~~~  233 (497)
T d1ya0a1         176 RHAAQLV-PSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVK-FPFPAASTNLQKALSKA  233 (497)
T ss_dssp             HHHHHHC-TTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHC-CCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHHHHHh
Confidence            8877664 3355678888888888888888888888887765 66777777777666543

>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=97.45  E-value=0.00032  Score=58.49  Aligned_cols=127  Identities=10%  Similarity=-0.039  Sum_probs=80.5

Q ss_pred             HHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----------cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 005729          486 FKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGE----------QERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIY  555 (680)
Q Consensus       486 ~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~----------~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~  555 (680)
                      -+.+.+++|...|+...+.. +.+...+..+..+|..          .+.+++|...+++.++.+. -+...|..+..+|
T Consensus         8 ~r~~~fe~A~~~~e~al~~~-P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~P-~~~~a~~~lG~~y   85 (145)
T d1zu2a1           8 DRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDP-KKDEAVWCIGNAY   85 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHH
T ss_pred             HHHccHHHHHHHHHHHHhhC-CcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhcc-hhhHHHhhHHHHH
Confidence            34455666666666666654 5555566655555543          2445778888888887532 2677888888888


Q ss_pred             HhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 005729          556 GQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGL  622 (680)
Q Consensus       556 ~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~  622 (680)
                      ...|++........+..++|.+.|++..+  +.|+...|...+..+      ..|.+++.+..+.|+
T Consensus        86 ~~~g~~~~~~~~~~~~~~~A~~~~~kal~--l~P~~~~~~~~L~~~------~ka~~~~~e~~k~~~  144 (145)
T d1zu2a1          86 TSFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHYLKSLEMT------AKAPQLHAEAYKQGL  144 (145)
T ss_dssp             HHHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHH------HTHHHHHHHHHHSSS
T ss_pred             HHcccchhhHHHHHHhHHHhhhhhhcccc--cCCCHHHHHHHHHHH------HHHHHHHHHHHHHhc
Confidence            77665432222223445677888888887  678877766555444      466777777776654

>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=97.40  E-value=0.0034  Score=53.48  Aligned_cols=70  Identities=13%  Similarity=0.106  Sum_probs=59.2

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCcCcHHHHHHHHHHcCCCCCHHHH
Q 005729          592 LALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPDRKAR  664 (680)
Q Consensus       592 ~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd~~~~  664 (680)
                      ..|..+..+|.+.|++++|+..+++.++.. +.+...|..+..++...|++++|...|+++++.  .|+....
T Consensus        65 ~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l--~P~n~~~  134 (168)
T d1kt1a1          65 AAFLNLAMCYLKLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEV--NPQNKAA  134 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--CTTCHHH
T ss_pred             HHHHhHHHHHHHhhhcccchhhhhhhhhcc-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHH
Confidence            357778889999999999999999999842 347789999999999999999999999999984  6665543

>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=97.40  E-value=0.0028  Score=53.02  Aligned_cols=118  Identities=13%  Similarity=-0.026  Sum_probs=81.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHCCC----CCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 005729          407 IYSRILAGYRDRGEWQRTFQVLKEMKSSGV----EPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLI  482 (680)
Q Consensus       407 ~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~----~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li  482 (680)
                      .+......+.+.|++.+|+..|.+....-.    .++....                    ....    .....+|+.+.
T Consensus        19 ~~~~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~--------------------~~~~----~~~~~~~~Nla   74 (153)
T d2fbna1          19 DIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILL--------------------DKKK----NIEISCNLNLA   74 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHH--------------------HHHH----HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHH--------------------Hhhh----hHHHHHHhhHH
Confidence            455566677788888888888887665310    0111000                    0000    01234677788


Q ss_pred             HHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCC-CHHHHHHH
Q 005729          483 DCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLP-NVVTYTTL  551 (680)
Q Consensus       483 ~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p-~~~~~~~l  551 (680)
                      .+|.+.|++++|++.+++.++.+ +.+..+|..+..++...|++++|...|.+..+.  .| +..+...+
T Consensus        75 ~~~~~l~~~~~Al~~~~~al~~~-p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l--~P~n~~~~~~l  141 (153)
T d2fbna1          75 TCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASL--NPNNLDIRNSY  141 (153)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--STTCHHHHHHH
T ss_pred             HHHHHhcccchhhhhhhcccccc-chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHH
Confidence            88999999999999999988876 667889999999999999999999999998885  34 34444333

>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=97.38  E-value=0.0012  Score=53.52  Aligned_cols=58  Identities=9%  Similarity=-0.015  Sum_probs=29.1

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 005729          304 AAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAEFVVSEME  362 (680)
Q Consensus       304 ~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~  362 (680)
                      ..+...+.+.|++++|+..|.+.++.+ +.+...|..+..+|.+.|++++|...+++++
T Consensus         8 k~~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al   65 (128)
T d1elra_           8 KELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAI   65 (128)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHH
Confidence            344445555555555555555555442 2244455555555555555555555555544

>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=97.33  E-value=0.0017  Score=55.45  Aligned_cols=82  Identities=10%  Similarity=0.009  Sum_probs=48.8

Q ss_pred             HHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 005729          475 TITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDI  554 (680)
Q Consensus       475 ~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~  554 (680)
                      ...|..+..+|.+.|++++|+..+++.++.. +.+...|..+..++...|++++|...|.+.++... .+......+..+
T Consensus        77 ~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~-p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p-~n~~~~~~l~~~  154 (169)
T d1ihga1          77 LSCVLNIGACKLKMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAP-EDKAIQAELLKV  154 (169)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhcccchhhhhhhhhhhhh-hhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCC-CCHHHHHHHHHH
Confidence            3445556666666666666666666666654 45566666666666666666666666666666421 144445555444


Q ss_pred             HHhc
Q 005729          555 YGQS  558 (680)
Q Consensus       555 ~~~~  558 (680)
                      ..+.
T Consensus       155 ~~~l  158 (169)
T d1ihga1         155 KQKI  158 (169)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            4433

>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=97.28  E-value=0.00012  Score=75.40  Aligned_cols=136  Identities=13%  Similarity=-0.051  Sum_probs=81.4

Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHH
Q 005729          419 GEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELF  498 (680)
Q Consensus       419 g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~  498 (680)
                      +.++.++..+....+.. .++...+..+...+.+.|+.+.|...+.......   ...++..+...+...|++++|...|
T Consensus       100 ~~Y~~ai~~l~~~~~l~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~---~~~~~~~LG~l~~~~~~~~~A~~~y  175 (497)
T d1ya0a1         100 GFYTQLLQELCTVFNVD-LPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSYI---CQHCLVHLGDIARYRNQTSQAESYY  175 (497)
T ss_dssp             HHHHHHHHHHTC--------------------------------CCHHHHHH---HHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCC-hhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCC---HHHHHHHHHHHHHHcccHHHHHHHH
Confidence            33444444444333222 3455667777888888999999988877765421   2356778889999999999999999


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCC
Q 005729          499 EEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGR  560 (680)
Q Consensus       499 ~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~  560 (680)
                      ++..+.. +-+...|+.+...+...|+..+|...|.+.+... .|-...+..|...+.+..+
T Consensus       176 ~~A~~l~-P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~~~~~~~  235 (497)
T d1ya0a1         176 RHAAQLV-PSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVK-FPFPAASTNLQKALSKALE  235 (497)
T ss_dssp             HHHHHHC-TTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHC-CCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHHHHHhhh
Confidence            9999875 6667899999999999999999999999998764 4577888888888776543

>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=97.22  E-value=0.0032  Score=53.61  Aligned_cols=60  Identities=13%  Similarity=0.046  Sum_probs=29.9

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 005729          478 WNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRA  538 (680)
Q Consensus       478 ~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~  538 (680)
                      |+.+..+|.+.|++++|+..++..++.. +.+...|..+..++...|++++|...|.++++
T Consensus        67 ~~Nla~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~  126 (168)
T d1kt1a1          67 FLNLAMCYLKLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLE  126 (168)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHhHHHHHHHhhhcccchhhhhhhhhcc-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3344444555555555555555554443 34444555555555555555555555555544

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.12  E-value=0.0045  Score=53.17  Aligned_cols=126  Identities=9%  Similarity=0.078  Sum_probs=87.3

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHc
Q 005729          409 SRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFKC  488 (680)
Q Consensus       409 ~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~~  488 (680)
                      ..........|++++|.+.|.+....-  +...        +......+.+...-..+..    .....+..+...+.+.
T Consensus        15 ~~~g~~~~~~g~~e~A~~~~~~AL~l~--rG~~--------l~~~~~~~w~~~~r~~l~~----~~~~a~~~la~~~~~~   80 (179)
T d2ff4a2          15 KTAGVHAAAAGRFEQASRHLSAALREW--RGPV--------LDDLRDFQFVEPFATALVE----DKVLAHTAKAEAEIAC   80 (179)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHTTC--CSST--------TGGGTTSTTHHHHHHHHHH----HHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhhC--cccc--------cccCcchHHHHHHHHHHHH----HHHHHHHHHHHHHHHC
Confidence            334456788899999999999887641  1100        0000000011111111211    1235678889999999


Q ss_pred             CChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-----CCCCCCHHHHH
Q 005729          489 GRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRA-----QGLLPNVVTYT  549 (680)
Q Consensus       489 g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~-----~~~~p~~~~~~  549 (680)
                      |++++|+..++++++.. +-+...|..++.+|.+.|+..+|.+.|+++.+     .|+.|...+-.
T Consensus        81 g~~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l~~  145 (179)
T d2ff4a2          81 GRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRA  145 (179)
T ss_dssp             TCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHH
T ss_pred             CCchHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHHHH
Confidence            99999999999999886 77899999999999999999999999998743     58999876533

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=96.94  E-value=0.007  Score=50.63  Aligned_cols=95  Identities=16%  Similarity=0.140  Sum_probs=64.5

Q ss_pred             HHHhcCCHHHHHHHHHHHHHCCC-CC----------CHHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCC
Q 005729          519 LLGEQERWEDVKRLLGNMRAQGL-LP----------NVVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGL  587 (680)
Q Consensus       519 ~~~~~g~~~~A~~~~~~m~~~~~-~p----------~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~  587 (680)
                      .+.+.|++++|...|.+.++... .|          ....|+.+..+|.+.|++++|.+.++    +++.++.+....  
T Consensus        18 ~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~----~al~~~~~~~~~--   91 (156)
T d2hr2a1          18 RQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSAD----KALHYFNRRGEL--   91 (156)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHH----HHHHHHHHHCCT--
T ss_pred             HHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhh----hhhhcccccccc--
Confidence            34455667777777766664210 01          13567888999999999999987665    555555554332  


Q ss_pred             CCCH-----HHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 005729          588 KPSN-----LALNSLINAFGEDQRDAEAFAVLQYMKE  619 (680)
Q Consensus       588 ~p~~-----~~~~~li~~~~~~g~~~~A~~~~~~m~~  619 (680)
                      .++.     ..|..+..+|...|++++|+..|++..+
T Consensus        92 ~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          92 NQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             TSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence            2221     2567788999999999999999998775

>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=96.88  E-value=0.0011  Score=61.18  Aligned_cols=122  Identities=11%  Similarity=-0.010  Sum_probs=69.8

Q ss_pred             HHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHH
Q 005729          276 AKAGDASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVKMGYLKDAE  355 (680)
Q Consensus       276 ~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~  355 (680)
                      .+.|++++|++.+++.++.. +.|...+..+...++..|++++|.+.|+...+.. +-+...+..+...+...+..+++.
T Consensus         7 L~~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~-P~~~~~~~~l~~ll~a~~~~~~a~   84 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKLF-PEYLPGASQLRHLVKAAQARKDFA   84 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHhccccHHHH
Confidence            45688888888888777753 3456778888888888888888888888877653 123444444444433333322222


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC
Q 005729          356 FVVSEMERSGVLPDEHTYSLLIDAYANAGRWESARIVLKEMEVS  399 (680)
Q Consensus       356 ~~~~~m~~~g~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  399 (680)
                      .-.......+-+++...+......+...|+.++|.+.+++..+.
T Consensus        85 ~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1          85 QGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             TSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence            11111111111122233344455666777777777777776554

>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=96.65  E-value=0.0016  Score=60.09  Aligned_cols=52  Identities=13%  Similarity=0.181  Sum_probs=27.4

Q ss_pred             hcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHHC
Q 005729          417 DRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAAFDRMLSE  469 (680)
Q Consensus       417 ~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~  469 (680)
                      +.|++++|+..+++..+.. +.+...+..+...|+..|++++|...++...+.
T Consensus         8 ~~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l   59 (264)
T d1zbpa1           8 SEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKL   59 (264)
T ss_dssp             TTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            3455555555555554443 444555555555555555555555555555543

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=96.39  E-value=0.029  Score=46.58  Aligned_cols=89  Identities=16%  Similarity=0.020  Sum_probs=44.8

Q ss_pred             HHHhcCChHHHHHHHHHHHHcCC-CC----------CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHC-----CCCCC---
Q 005729          309 ALSNSGRTIEAEAVFEELKESGL-KP----------RTKAYNALLKGYVKMGYLKDAEFVVSEMERS-----GVLPD---  369 (680)
Q Consensus       309 ~~~~~g~~~~A~~l~~~m~~~g~-~p----------~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~-----g~~~~---  369 (680)
                      .+.+.|++++|+..|++.++... .|          ....|+.+..+|.+.|++++|...+++..+.     ...++   
T Consensus        18 ~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~   97 (156)
T d2hr2a1          18 RQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGK   97 (156)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccc
Confidence            34445555555555555543210 01          1245566666666666666666666655431     11111   


Q ss_pred             --HHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 005729          370 --EHTYSLLIDAYANAGRWESARIVLKEME  397 (680)
Q Consensus       370 --~~~~~~li~~~~~~g~~~~A~~~~~~m~  397 (680)
                        ...++.+..+|...|++++|+..|++..
T Consensus        98 ~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al  127 (156)
T d2hr2a1          98 LWISAVYSRALALDGLGRGAEAMPEFKKVV  127 (156)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             hhHHHHhhhHHHHHHHHHHHHHHHHHHHHH
Confidence              1234445556666666666666655543

>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=96.17  E-value=0.011  Score=44.56  Aligned_cols=67  Identities=10%  Similarity=-0.003  Sum_probs=54.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHC-----CCCCC-HHHHHHHHHHHHhcCCcCcHHHHHHHHHHcCCCCCHH
Q 005729          594 LNSLINAFGEDQRDAEAFAVLQYMKEN-----GLKPD-VVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPDRK  662 (680)
Q Consensus       594 ~~~li~~~~~~g~~~~A~~~~~~m~~~-----g~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd~~  662 (680)
                      +-.++..+.+.|++++|+.+|++..+.     ...++ ..++..|..++.+.|++++|.+.++++++.  .|+..
T Consensus         8 c~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l--~P~~~   80 (95)
T d1tjca_           8 SFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL--DPEHQ   80 (95)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHh--CcCCH
Confidence            346788899999999999999998752     11223 468889999999999999999999999984  67764

>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=95.93  E-value=0.036  Score=41.46  Aligned_cols=80  Identities=15%  Similarity=0.052  Sum_probs=56.7

Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHhhhHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCC
Q 005729          545 VVTYTTLVDIYGQSGRFDDAIECLEGLSDQAVNAFRVMRTDGLKPS-NLALNSLINAFGEDQRDAEAFAVLQYMKENGLK  623 (680)
Q Consensus       545 ~~~~~~li~~~~~~g~~~~A~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~  623 (680)
                      ...+-.+...+.+.|++++|+..|+    +|+++...-  ....++ ..++..|..+|.+.|++++|+..++++.+  +.
T Consensus         5 addc~~lG~~~~~~g~y~~A~~~~~----~Al~~~~~~--~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~--l~   76 (95)
T d1tjca_           5 AEDSFELGKVAYTEADYYHTELWME----QALRQLDEG--EISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE--LD   76 (95)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHH----HHHHHHHTT--CCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HC
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHH----HHHHHHhhh--hccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHH--hC
Confidence            3344567888889999999998775    444333221  122334 35899999999999999999999999998  56


Q ss_pred             CC-HHHHHHH
Q 005729          624 PD-VVTYTTL  632 (680)
Q Consensus       624 p~-~~~~~~l  632 (680)
                      |+ ..++..+
T Consensus        77 P~~~~a~~Nl   86 (95)
T d1tjca_          77 PEHQRANGNL   86 (95)
T ss_dssp             TTCHHHHHHH
T ss_pred             cCCHHHHHHH
Confidence            75 4444443

>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=95.60  E-value=0.25  Score=37.89  Aligned_cols=139  Identities=14%  Similarity=0.141  Sum_probs=95.7

Q ss_pred             HHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCChHHHH
Q 005729          486 FKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGLLPNVVTYTTLVDIYGQSGRFDDAI  565 (680)
Q Consensus       486 ~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~  565 (680)
                      .-.|..++..++..+.....   +..-||.+|--....-+-+...+.++.+-+. +.            ..+++++....
T Consensus        13 ildG~ve~Gveii~k~~~ss---~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~-FD------------ls~C~Nlk~vv   76 (161)
T d1wy6a1          13 LLDGYIDEGVKIVLEITKSS---TKSEYNWFICNLLESIDCRYMFQVLDKIGSY-FD------------LDKCQNLKSVV   76 (161)
T ss_dssp             HHTTCHHHHHHHHHHHHHHS---CHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG-SC------------GGGCSCTHHHH
T ss_pred             HHhhhHHhHHHHHHHHcccC---CccccceeeeecccccchHHHHHHHHHHhhh-cC------------chhhhcHHHHH
Confidence            34677788888888777643   5666777776666666666666666655432 21            12344444333


Q ss_pred             HHHhhhHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCcCcH
Q 005729          566 ECLEGLSDQAVNAFRVMRTDGLKPSNLALNSLINAFGEDQRDAEAFAVLQYMKENGLKPDVVTYTTLMKALIRVDKFHKV  645 (680)
Q Consensus       566 ~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A  645 (680)
                      ..+-             .   ...+...++..++.+..+|+-+.-.++++.+.+.+ +|++.....+..+|.+.|...++
T Consensus        77 ~C~~-------------~---~n~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~  139 (161)
T d1wy6a1          77 ECGV-------------I---NNTLNEHVNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDA  139 (161)
T ss_dssp             HHHH-------------H---TTCCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHH-------------H---hcchHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhH
Confidence            3221             1   12344556677788889999999999999877754 78899999999999999999999


Q ss_pred             HHHHHHHHHcCC
Q 005729          646 PAVYEEMILSGC  657 (680)
Q Consensus       646 ~~~~~~m~~~g~  657 (680)
                      -+++.+.-+.|+
T Consensus       140 nell~~ACe~G~  151 (161)
T d1wy6a1         140 TTLLIEACKKGE  151 (161)
T ss_dssp             HHHHHHHHHTTC
T ss_pred             HHHHHHHHHHhH
Confidence            999999998885

>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=95.04  E-value=0.49  Score=36.23  Aligned_cols=139  Identities=18%  Similarity=0.123  Sum_probs=76.3

Q ss_pred             HcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHH
Q 005729          382 NAGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMA  461 (680)
Q Consensus       382 ~~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~  461 (680)
                      -.|..++..+++.+....   .+..-||.++--....-+-+-.++.++.+-+.   .|          ...++++.....
T Consensus        14 ldG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~---FD----------ls~C~Nlk~vv~   77 (161)
T d1wy6a1          14 LDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSY---FD----------LDKCQNLKSVVE   77 (161)
T ss_dssp             HTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG---SC----------GGGCSCTHHHHH
T ss_pred             HhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhhh---cC----------chhhhcHHHHHH
Confidence            345666666666665543   24444555554444444444444444443221   11          122333333333


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCC
Q 005729          462 AFDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGEQERWEDVKRLLGNMRAQGL  541 (680)
Q Consensus       462 ~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~~g~~~~A~~~~~~m~~~~~  541 (680)
                      .+-.+-     .+....+..++.+.+.|+-++-.++++++.+.+ .+++.....+..+|.+.|...++.+++.++-+.|+
T Consensus        78 C~~~~n-----~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe~G~  151 (161)
T d1wy6a1          78 CGVINN-----TLNEHVNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKKGE  151 (161)
T ss_dssp             HHHHTT-----CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHhc-----chHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhH
Confidence            332221     234445566666777777777777777766655 66677777777777777777777777777777665


Q ss_pred             C
Q 005729          542 L  542 (680)
Q Consensus       542 ~  542 (680)
                      +
T Consensus       152 K  152 (161)
T d1wy6a1         152 K  152 (161)
T ss_dssp             H
T ss_pred             H
Confidence            3

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=95.03  E-value=0.37  Score=38.16  Aligned_cols=108  Identities=12%  Similarity=-0.030  Sum_probs=48.0

Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH----cCCHHHHH
Q 005729          280 DASKAMRFLGMAQGVGLSPKTATYAAVITALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVK----MGYLKDAE  355 (680)
Q Consensus       280 ~~~~A~~~~~~~~~~g~~p~~~~~~~li~~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~----~g~~~~A~  355 (680)
                      ++++|+++|++..+.|.   ......+.  .....+.++|++.+++..+.|   +......|...|..    ..+.++|.
T Consensus         8 d~~~A~~~~~kaa~~g~---~~a~~~l~--~~~~~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A~   79 (133)
T d1klxa_           8 DLKKAIQYYVKACELNE---MFGCLSLV--SNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAA   79 (133)
T ss_dssp             HHHHHHHHHHHHHHTTC---TTHHHHHH--TCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHH
T ss_pred             CHHHHHHHHHHHHHCCC---hhhhhhhc--cccccCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHHH
Confidence            45666666666655542   11122221  122334555555555555543   33333334444433    23345555


Q ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHHHH----cCCHHHHHHHHHHHHH
Q 005729          356 FVVSEMERSGVLPDEHTYSLLIDAYAN----AGRWESARIVLKEMEV  398 (680)
Q Consensus       356 ~~~~~m~~~g~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~  398 (680)
                      ++|++..+.|   ++.....|...|..    ..+.++|.++|++..+
T Consensus        80 ~~~~~aa~~g---~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~  123 (133)
T d1klxa_          80 QYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACR  123 (133)
T ss_dssp             HHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHH
T ss_pred             HHHhhhhccC---cchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHH
Confidence            5555555443   33334444444433    2344444444444443

>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=94.67  E-value=0.6  Score=36.82  Aligned_cols=81  Identities=6%  Similarity=-0.103  Sum_probs=44.2

Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH----cCChhHHHHHHHHHHHCCCCCCHHHHHHHHHHHHh----cCC
Q 005729          454 NCLHHAMAAFDRMLSEGIEPDTITWNTLIDCHFK----CGRYDRAEELFEEMQERGYFPCTTTYNIMINLLGE----QER  525 (680)
Q Consensus       454 g~~~~A~~~~~~m~~~~~~~~~~~~~~li~~~~~----~g~~~~A~~~~~~m~~~~~~p~~~t~~~li~~~~~----~g~  525 (680)
                      .+.++|.+.+.+..+.|   +...+..|...|..    ..+.++|.++|++..+.|   +......|...|..    ..+
T Consensus        37 ~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~Lg~~y~~G~gv~~d  110 (133)
T d1klxa_          37 INKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKN  110 (133)
T ss_dssp             SCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCC
T ss_pred             cCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHHHHHHhhhhccC---cchHHHHHHHHHHcCCccCCC
Confidence            45566666666665543   34444444444443    334666777777766665   23344444444443    345


Q ss_pred             HHHHHHHHHHHHHCC
Q 005729          526 WEDVKRLLGNMRAQG  540 (680)
Q Consensus       526 ~~~A~~~~~~m~~~~  540 (680)
                      .++|.+++++..+.|
T Consensus       111 ~~~A~~~~~~Aa~~G  125 (133)
T d1klxa_         111 EKQAVKTFEKACRLG  125 (133)
T ss_dssp             HHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHCC
Confidence            666666666666654

>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=92.94  E-value=0.44  Score=36.82  Aligned_cols=83  Identities=6%  Similarity=0.030  Sum_probs=64.2

Q ss_pred             CCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHhcCCcCcHHHHHHHHHHcCCCCCHHH
Q 005729          588 KPSNLALNSLINAFGEDQ---RDAEAFAVLQYMKENGLKPDV-VTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPDRKA  663 (680)
Q Consensus       588 ~p~~~~~~~li~~~~~~g---~~~~A~~~~~~m~~~g~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd~~~  663 (680)
                      .|+..+--.+.+++.+..   +.++++.++++..+.+ +.+. ..+..|.-+|.+.|++++|.++++++++  +.|+..-
T Consensus        32 ~~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~-p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~--ieP~n~q  108 (124)
T d2pqrb1          32 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA-ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE--HERNNKQ  108 (124)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HCTTCHH
T ss_pred             CCCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcC-chhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHc--cCCCcHH
Confidence            466667667788888664   5678999999988742 2243 5777888899999999999999999998  5888887


Q ss_pred             HHHHHHHHHH
Q 005729          664 RAMLRSALRY  673 (680)
Q Consensus       664 ~~~l~~a~~~  673 (680)
                      ...+.+.++.
T Consensus       109 A~~L~~~Ie~  118 (124)
T d2pqrb1         109 VGALKSMVED  118 (124)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            7777766653

>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=92.58  E-value=5  Score=38.89  Aligned_cols=370  Identities=10%  Similarity=0.028  Sum_probs=211.1

Q ss_pred             HHHHHHHCCCCCchHHHHHHHHHHhcccCCHHHHHHhhCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCh
Q 005729          149 VVSWLQKHNLCYSYELLYSILIHALGRSEKLYEAFLLSQRQRLTPLTYNALISACARNDDLEKALNLMSKMRQDGYHCDF  228 (680)
Q Consensus       149 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~g~~p~~  228 (680)
                      +...+.+....|....+-..-+..+++.+++.+.+......+.+...-.....+....|+..+|...+..+-..|. ..+
T Consensus        58 i~~Fl~~~p~~P~~~~lr~~~l~~L~~~~~w~~~~~~~~~~p~~~~~~c~~~~A~~~~g~~~~a~~~~~~lW~~~~-~~p  136 (450)
T d1qsaa1          58 VTNFVRANPTLPPARTLQSRFVNELARREDWRGLLAFSPEKPGTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGK-SQP  136 (450)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHHHHTTCHHHHHHHCCSCCSSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSS-CCC
T ss_pred             HHHHHHHCCCChhHHHHHHHHHHHHHhccCHHHHHHhccCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCC-CCc
Confidence            4444445443333334445556778888888877766555566777777888999999999999998887766552 233


Q ss_pred             hhHHHHHHHHHhcCCCChHHHHHHHHHHHhCCCCcCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 005729          229 INYSLVIQSLTRTNKIDSSLLQKLYKEIECDKIELDGQLLNDVIVGFAKAGDASKAMRFLGMAQGVGLSPKTATYAAVIT  308 (680)
Q Consensus       229 ~~~~~ll~~~~~~g~~~~~~~~~l~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~g~~p~~~~~~~li~  308 (680)
                      ..+..++..+.+.|.+.                   ...+-.-+......|++..|..+...+..    ........++.
T Consensus       137 ~~c~~l~~~~~~~~~lt-------------------~~~~~~R~~~~l~~~~~~~a~~l~~~l~~----~~~~~~~a~~~  193 (450)
T d1qsaa1         137 NACDKLFSVWRASGKQD-------------------PLAYLERIRLAMKAGNTGLVTVLAGQMPA----DYQTIASAIIS  193 (450)
T ss_dssp             THHHHHHHHHHHTTCSC-------------------HHHHHHHHHHHHHTTCHHHHHHHHHTCCG----GGHHHHHHHHH
T ss_pred             hHHHHHHHHHHhcCCCC-------------------HHHHHHHHHHHHHcCChhhHHHHHhhCCh----hHHHHHHHHHH
Confidence            33444444444444333                   33333344455667888888887765422    12233444444


Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH--cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHH----HHH
Q 005729          309 ALSNSGRTIEAEAVFEELKESGLKPRTKAYNALLKGYVK--MGYLKDAEFVVSEMERSGVLPDEHTYSLLIDA----YAN  382 (680)
Q Consensus       309 ~~~~~g~~~~A~~l~~~m~~~g~~p~~~~~~~li~~~~~--~g~~~~A~~~~~~m~~~g~~~~~~~~~~li~~----~~~  382 (680)
                      .......+..   .   ....  ..+......+..++.+  ..+.+.+..++........ .+..-+..+-..    +..
T Consensus       194 l~~~p~~~~~---~---~~~~--~~~~~~~~~~~~~l~rla~~d~~~a~~~l~~~~~~~~-~~~~~~~~~~~~~a~~~~~  264 (450)
T d1qsaa1         194 LANNPNTVLT---F---ARTT--GATDFTRQMAAVAFASVARQDAENARLMIPSLAQAQQ-LNEDQIQELRDIVAWRLMG  264 (450)
T ss_dssp             HHHCGGGHHH---H---HHHS--CCCHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHTT-CCHHHHHHHHHHHHHTSCS
T ss_pred             HHhChHhHHH---H---HhcC--CCChhhhHHHHHHHHHHhccChhHHHHHHHhhhhccc-ccHHHHHHHHHHHHHHHHH
Confidence            4433222221   1   1111  2333333333344333  2567788888887765432 233333333222    234


Q ss_pred             cCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHccCCHHHHHHH
Q 005729          383 AGRWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSSGVEPDTHFYNVMIDTFGKYNCLHHAMAA  462 (680)
Q Consensus       383 ~g~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~A~~~  462 (680)
                      .+..+.+...+......+  .+.......+......+++..+...+..|.... .......--+..++...|+.+.|...
T Consensus       265 ~~~~~~a~~~~~~~~~~~--~~~~~~~w~~~~al~~~~~~~~~~~~~~l~~~~-~~~~r~~YW~gRa~~~~G~~~~A~~~  341 (450)
T d1qsaa1         265 NDVTDEQAKWRDDAIMRS--QSTSLIERRVRMALGTGDRRGLNTWLARLPMEA-KEKDEWRYWQADLLLERGREAEAKEI  341 (450)
T ss_dssp             TTCCHHHHHHHHHHHHTC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHSCTTG-GGSHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             cCchHHHHHHHHhhcccc--cchHHHHHHHHHHHHcCChHHHHHHHHhcCccc-ccHHHHHHHHHHHHHHcCChhhHHHH
Confidence            566777888877776554  344444445555667789999998888875432 23345556677888899999999999


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCC-HHH---HHHHHHHHHhcCCHHHHHHHHHHHHH
Q 005729          463 FDRMLSEGIEPDTITWNTLIDCHFKCGRYDRAEELFEEMQERGYFPC-TTT---YNIMINLLGEQERWEDVKRLLGNMRA  538 (680)
Q Consensus       463 ~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~m~~~~~~p~-~~t---~~~li~~~~~~g~~~~A~~~~~~m~~  538 (680)
                      |......   ++  -|..|..  .+.|..-.   +-..  .....+. ...   -..-+..+...|+...|...+..+..
T Consensus       342 ~~~~a~~---~~--fYG~LAa--~~Lg~~~~---~~~~--~~~~~~~~~~~~~~~~~ra~~L~~~g~~~~A~~e~~~l~~  409 (450)
T d1qsaa1         342 LHQLMQQ---RG--FYPMVAA--QRIGEEYE---LKID--KAPQNVDSALTQGPEMARVRELMYWNLDNTARSEWANLVK  409 (450)
T ss_dssp             HHHHHTS---CS--HHHHHHH--HHTTCCCC---CCCC--CCCSCCCCHHHHSHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHhcC---CC--hHHHHHH--HHcCCCCC---CCcC--CCCccHHHhhhcChHHHHHHHHHHcCCchHHHHHHHHHHh
Confidence            9988742   33  2332222  12222100   0000  0000000 000   11234556788999999999988875


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCChHHHHHHHh
Q 005729          539 QGLLPNVVTYTTLVDIYGQSGRFDDAIECLE  569 (680)
Q Consensus       539 ~~~~p~~~~~~~li~~~~~~g~~~~A~~~~~  569 (680)
                      .   .+......+.....+.|.++.|+....
T Consensus       410 ~---~~~~~~~~la~lA~~~g~~~~aI~a~~  437 (450)
T d1qsaa1         410 S---KSKTEQAQLARYAFNNQWWDLSVQATI  437 (450)
T ss_dssp             T---CCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             C---CCHHHHHHHHHHHHHCCChhHHHHHHH
Confidence            4   255667777888889999999887654

>d1v54e_ a.118.11.1 (E:) Cytochrome c oxidase subunit E {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Cytochrome c oxidase subunit E
family: Cytochrome c oxidase subunit E
domain: Cytochrome c oxidase subunit E
species: Cow (Bos taurus) [TaxId: 9913]

Probab=86.81  E-value=3.2  Score=29.96  Aligned_cols=68  Identities=15%  Similarity=0.150  Sum_probs=47.8

Q ss_pred             CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCcCcHHHHHHHHHHcCCCCCHHHHHHHHHHHHHH
Q 005729          606 RDAEAFAVLQYMKENGLKPDVVTYTTLMKALIRVDKFHKVPAVYEEMILSGCTPDRKARAMLRSALRYM  674 (680)
Q Consensus       606 ~~~~A~~~~~~m~~~g~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~g~~pd~~~~~~l~~a~~~~  674 (680)
                      +.=++.+-++.+....+.|++.+..+.++||.|.+++.-|.++++-...+ +.++...|..+.+-++-.
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K-~~~~k~~y~yilqelkpt   88 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQELRPT   88 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCcHHHHHHHHHHHhhH
Confidence            34455555666666677888888888888888888888888888877654 444556777776666533

>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=84.56  E-value=5.6  Score=30.30  Aligned_cols=66  Identities=6%  Similarity=-0.045  Sum_probs=30.3

Q ss_pred             CHHHHHHHHHHHHHcC---CHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHC
Q 005729          369 DEHTYSLLIDAYANAG---RWESARIVLKEMEVSHAKPNSFIYSRILAGYRDRGEWQRTFQVLKEMKSS  434 (680)
Q Consensus       369 ~~~~~~~li~~~~~~g---~~~~A~~~~~~m~~~~~~~~~~~~~~ll~~~~~~g~~~~A~~l~~~m~~~  434 (680)
                      .+.+.-...-++++..   +.++++.+|+++...+..-....+-.+.-+|.+.|++++|.+.++.+.+.
T Consensus        34 s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~i  102 (124)
T d2pqrb1          34 TIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  102 (124)
T ss_dssp             CHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             CcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHcc
Confidence            3444444444444432   23455555555544321111234444455555555555555555555543