Citrus Sinensis ID: 005487

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------590-------600-------610-------620-------630-------640-------650-------660-------670-------680-------690----
Protein Sequence
MNITRILTLLRTCTGSKSLKEGKIIHQKVVTLGLQNNIALCKSLINLYFSCQNYDYAMLVFKTIDNPLDLSLWNGLMASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLGSVGIGKMIHTHLIKTGFLLDVVIASSTAGMYAKCNSFECAVKMFDEMSERDVASWNTVISCYYQDGQAEKALELFKKMRGSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVSDSYISSALVDMYGKCGCLEMAREVFEQTVLKSVVAWNALIAGYSSRGDSKSCVKLFWRMNEEGIKPTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAENVFEKMSKTDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPERDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELGLRKNPGCSWIEIGDRIQPFFAEDKFYPQADMVYECLAILAGHMEKDELLPS
Secondary Structure (PSIPRED)
cccccHHHHHHHHccccccHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccHHHHHHHHccccccccccHHHHHHHHHHcccccHHHHHHHHHHHHccccccccccHHHHHHHHHcccccHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccHHHHHHHHcccccccccHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccEEHHHHHHHHHccccHHHHHHHHHHHHHHcccccccHHHHHHHHHHccccHHHHHHHHcccccccEEcHHHHHHHHHHcccccHHHHHHHHHHHccccccHHHHHHHHHHHccccccHHHHHHHHHHHHHccccccHHHHHHHHHHHccccHHHHHHHHccccccccccHHHHHHHHHHccccHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHccccHHHHHHHHcccccccccHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHccccHHHHHHHHHHHcHHcccccccccHHHHHHHHHHccccHHHHHHHHHHcccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHccccccccHHHHHHHHHHcccccHHHHHHHHHHHHccccccccccEEEEccEEEEEEccccccccHHHHHHHHHHHHHHHHHcccccc
Secondary Structure Prediction (SSPRO)
ccccHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccEEHHHHHHHHHHHcccHHHHHHHHHHHHHHccccccccHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccccHHHHHHHHHHcccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHcHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHcHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccEEEEEEccEEEEEEEcccccccHHHHHHHHHHHHHHHHHcccccc
Coil and Loop (DISEMBL)
MNITRILTLLRTctgskslkegkiIHQKVVTLGLQNNIALCKSLINLYFSCQNYDYAMLVFKTIDNPLDLSLWNGLMASYTKNYMYITALELFDMLlqnpylkpdsytypsvlkacgglgsvgiGKMIHTHLIKTGFLLDVVIASSTAGMYAKCNSFECAVKMFDEMSERDVASWNTVISCYYQDGQAEKALELFKKmrgsgfqpnsvTLTTVISSCARLMDLDRGKEIHKEFIkdgfvsdsYISSALVDMYGKCGCLEMAREVFEQTVLKSVVAWNALIAGyssrgdsksCVKLFWRMneegikptLTTISSVLMscsrsgqlkhgkvMHGYIIRNkiqgdvfinSSLIDLYFKCGRVSSAENVFEKMSKTDVVYWNVMISGYVTVGDYFKALAIYSDmkevgakpdavtfTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFnelperdlvSWTSMIAAYGSHGRALEALKLFGemqqsnarpdSITFLALLSACshagwvdeggYYFNLMISEyniqprneHYSCLIDLLGRAGRLQEAYgilqstpeireDAGLLSTLFSACRLHRDIEMGEKIAKLLIekdpddsstYIVLSNMYASVKKWDEVRKIRLKMKElglrknpgcswieigdriqpffaedkfypqadMVYECLAILAGhmekdellps
Flexible Loop (DISEMBL)
mnitriltllrtctgskslkegkIIHQKVVTLGLQNNIALCKSLINLYFSCQNYDYAMLVFKTIDNPLDLSLWNGLMASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLGSVGIGKMIHTHLIKTGFLLDVVIASSTAGMYAKCNSFECAVKMFDEMSERDVASWNTVISCYYQDGQAEKALELFKKMRgsgfqpnsvtLTTVISSCARLMDLDRGKEIHKEfikdgfvsdSYISSALVDMYGKCGCLEMAREVFEQTVLKSVVAWNALIagyssrgdskSCVKLFWRMNEEGIKPTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAENVFEKMSKTDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPERDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRDIEMGEKIAKLLiekdpddsstYIVLSnmyasvkkwdeVRKIRLKmkelglrknpgcswIEIGDRIQPFFAEDKFYPQADMVYECLAILAGHMEKDELLPS
Low Complexity Region (SEG)
MNitriltllrtCTGSKSLKEGKIIHQKVVTLGLQNNIALCKSLINLYFSCQNYDYAMLVFKTIDNPLDLSLWNGLMASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLGSVGIGKMIHTHLIKTGFLLDVVIASSTAGMYAKCNSFECAVKMFDEMSERDVASWNTVISCYYQDGQAEKALELFKKMRGSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVSDSYISSALVDMYGKCGCLEMAREVFEQTVLKSVVAWNALIAGYSSRGDSKSCVKLFWRMNEEGIKPTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAENVFEKMSKTDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPERDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELGLRKNPGCSWIEIGDRIQPFFAEDKFYPQADMVYECLAILAGHMEKDELLPS
Disordered region (IsUnstruct)
***TRILTLLRTCTGSKSLKEGKIIHQKVVTLGLQNNIALCKSLINLYFSCQNYDYAMLVFKTIDNPLDLSLWNGLMASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLGSVGIGKMIHTHLIKTGFLLDVVIASSTAGMYAKCNSFECAVKMFDEMSERDVASWNTVISCYYQDGQAEKALELFKKMRGSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFI**************VDMYGKCGCLEMAREVFEQTVLKSVVAWNALIAGYSSRGDSKSCVKLFWRMNEEGIKPTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAENVFEKMSKTDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPERDLVSWTSMIAAYGSHGRALEALKLFGEMQ****RPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELGLRKNPGCSWIEIGDRIQPFFAEDKFYPQADMVYECLAILAGH*********
Disordered Region (DISOPRED)
MNITRILTLLRTCTGSKSLKEGKIIHQKVVTLGLQNNIALCKSLINLYFSCQNYDYAMLVFKTIDNPLDLSLWNGLMASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLGSVGIGKMIHTHLIKTGFLLDVVIASSTAGMYAKCNSFECAVKMFDEMSERDVASWNTVISCYYQDGQAEKALELFKKMRGSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVSDSYISSALVDMYGKCGCLEMAREVFEQTVLKSVVAWNALIAGYSSRGDSKSCVKLFWRMNEEGIKPTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAENVFEKMSKTDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPERDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELGLRKNPGCSWIEIGDRIQPFFAEDKFYPQADMVYECLAILAGHMEKDELLPS
Disordered Region (DISEMBL)
MNITRILTLLRTCTGSKSLKEGKIIHQKVVTLGLQNNIALCKSLINLYFSCQNYDYAMLVFKTIDNPLDLSLWNGLMASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLGSVGIGKMIHTHLIKTGFLLDVVIASSTAGMYAKCNSFECAVKMFDEMSERDVASWNTVISCYYQDGQAEKALELFKKMRGSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVSDSYISSALVDMYGKCGCLEMAREVFEQTVLKSVVAWNALIAGYSSRGDSKSCVKLFWRMNEEGIKPTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAENVFEKMSKTDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPERDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELGLRKNPGCSWIEIGDRIQPFFAEDKFYPQADMVYECLAILAGHMEKDELLPS
Disordered Region (DISPRO)
MNITRILTLLRTCTGSKSLKEGKIIHQKVVTLGLQNNIALCKSLINLYFSCQNYDYAMLVFKTIDNPLDLSLWNGLMASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLGSVGIGKMIHTHLIKTGFLLDVVIASSTAGMYAKCNSFECAVKMFDEMSERDVASWNTVISCYYQDGQAEKALELFKKMRGSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVSDSYISSALVDMYGKCGCLEMAREVFEQTVLKSVVAWNALIAGYSSRGDSKSCVKLFWRMNEEGIKPTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAENVFEKMSKTDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPERDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELGLRKNPGCSWIEIGDRIQPFFAEDKFYPQADMVYECLAILAGHMEKDE****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MNITRILTLLRTCTGSKSLKEGKIIHQKVVTLGLQNNIALCKSLINLYFSCQNYDYAMLVFKTIDNPLDLSLWNGLMASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLGSVGIGKMIHTHLIKTGFLLDVVIASSTAGMYAKCNSFECAVKMFDEMSERDVASWNTVISCYYQDGQAEKALELFKKMRGSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVSDSYISSALVDMYGKCGCLEMAREVFEQTVLKSVVAWNALIAGYSSRGDSKSCVKLFWRMNEEGIKPTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAENVFEKMSKTDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPERDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELGLRKNPGCSWIEIGDRIQPFFAEDKFYPQADMVYECLAILAGHMEKDELLPS
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	694	2.2.26 [Sep-21-2011]
O04659	691	Pentatricopeptide repeat-	yes	no	0.994	0.998	0.581	0.0
Q9SN39	871	Pentatricopeptide repeat-	no	no	0.984	0.784	0.376	1e-138
Q7Y211	890	Pentatricopeptide repeat-	no	no	0.984	0.767	0.355	1e-133
Q3E6Q1	809	Pentatricopeptide repeat-	no	no	0.978	0.839	0.359	1e-131
Q9LFL5	850	Pentatricopeptide repeat-	no	no	0.958	0.782	0.362	1e-130
Q5G1T1	850	Pentatricopeptide repeat-	no	no	0.992	0.810	0.344	1e-125
Q9SS60	882	Pentatricopeptide repeat-	no	no	0.976	0.768	0.355	1e-124
Q9STE1	857	Pentatricopeptide repeat-	no	no	0.992	0.803	0.343	1e-122
Q9SS83	1028	Pentatricopeptide repeat-	no	no	0.966	0.652	0.353	1e-122
Q9SVP7	1064	Pentatricopeptide repeat-	no	no	0.961	0.626	0.346	1e-121

>sp|O04659|PP398_ARATH Pentatricopeptide repeat-containing protein At5g27110 OS=Arabidopsis thaliana GN=PCMP-E14 PE=2 SV=2

 Score =  864 bits (2233), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 402/691 (58%), Positives = 539/691 (78%), Gaps = 1/691 (0%)

Query: 1   MNITRILTLLRTCTGS-KSLKEGKIIHQKVVTLGLQNNIALCKSLINLYFSCQNYDYAML 59
           M  +++L+LLR CT S KSL+  K++HQ+++TLGL+ ++ LCKSLIN+YF+C+++  A  
Sbjct: 1   MESSKLLSLLRECTNSTKSLRRIKLVHQRILTLGLRRDVVLCKSLINVYFTCKDHCSARH 60

Query: 60  VFKTIDNPLDLSLWNGLMASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGL 119
           VF+  D   D+ +WN LM+ Y+KN M+   LE+F  LL      PDS+T+P+V+KA G L
Sbjct: 61  VFENFDIRSDVYIWNSLMSGYSKNSMFHDTLEVFKRLLNCSICVPDSFTFPNVIKAYGAL 120

Query: 120 GSVGIGKMIHTHLIKTGFLLDVVIASSTAGMYAKCNSFECAVKMFDEMSERDVASWNTVI 179
           G   +G+MIHT ++K+G++ DVV+ASS  GMYAK N FE ++++FDEM ERDVASWNTVI
Sbjct: 121 GREFLGRMIHTLVVKSGYVCDVVVASSLVGMYAKFNLFENSLQVFDEMPERDVASWNTVI 180

Query: 180 SCYYQDGQAEKALELFKKMRGSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFV 239
           SC+YQ G+AEKALELF +M  SGF+PNSV+LT  IS+C+RL+ L+RGKEIH++ +K GF 
Sbjct: 181 SCFYQSGEAEKALELFGRMESSGFEPNSVSLTVAISACSRLLWLERGKEIHRKCVKKGFE 240

Query: 240 SDSYISSALVDMYGKCGCLEMAREVFEQTVLKSVVAWNALIAGYSSRGDSKSCVKLFWRM 299
            D Y++SALVDMYGKC CLE+AREVF++   KS+VAWN++I GY ++GDSKSCV++  RM
Sbjct: 241 LDEYVNSALVDMYGKCDCLEVAREVFQKMPRKSLVAWNSMIKGYVAKGDSKSCVEILNRM 300

Query: 300 NEEGIKPTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRV 359
             EG +P+ TT++S+LM+CSRS  L HGK +HGY+IR+ +  D+++N SLIDLYFKCG  
Sbjct: 301 IIEGTRPSQTTLTSILMACSRSRNLLHGKFIHGYVIRSVVNADIYVNCSLIDLYFKCGEA 360

Query: 360 SSAENVFEKMSKTDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPAC 419
           + AE VF K  K     WNVMIS Y++VG++FKA+ +Y  M  VG KPD VTFTSVLPAC
Sbjct: 361 NLAETVFSKTQKDVAESWNVMISSYISVGNWFKAVEVYDQMVSVGVKPDVVTFTSVLPAC 420

Query: 420 SQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPERDLVSWT 479
           SQLAALEKGK+IH  I ES+LET+E+++ ALLDMY+KCG   EAF++FN +P++D+VSWT
Sbjct: 421 SQLAALEKGKQIHLSISESRLETDELLLSALLDMYSKCGNEKEAFRIFNSIPKKDVVSWT 480

Query: 480 SMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISE 539
            MI+AYGSHG+  EAL  F EMQ+   +PD +T LA+LSAC HAG +DEG  +F+ M S+
Sbjct: 481 VMISAYGSHGQPREALYQFDEMQKFGLKPDGVTLLAVLSACGHAGLIDEGLKFFSQMRSK 540

Query: 540 YNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRDIEMGE 599
           Y I+P  EHYSC+ID+LGRAGRL EAY I+Q TPE  ++A LLSTLFSAC LH +  +G+
Sbjct: 541 YGIEPIIEHYSCMIDILGRAGRLLEAYEIIQQTPETSDNAELLSTLFSACCLHLEHSLGD 600

Query: 600 KIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELGLRKNPGCSWIEIGDRI 659
           +IA+LL+E  PDD+STY+VL N+YAS + WD  R++RLKMKE+GLRK PGCSWIE+ D++
Sbjct: 601 RIARLLVENYPDDASTYMVLFNLYASGESWDAARRVRLKMKEMGLRKKPGCSWIEMSDKV 660

Query: 660 QPFFAEDKFYPQADMVYECLAILAGHMEKDE 690
             FFAED+ + +A+ VYECLA+L+GHME  +
Sbjct: 661 CHFFAEDRSHLRAENVYECLALLSGHMESGQ 691

Arabidopsis thaliana (taxid: 3702)

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

 Score =  491 bits (1264), Expect = e-138,   Method: Compositional matrix adjust.
 Identities = 260/691 (37%), Positives = 417/691 (60%), Gaps = 8/691 (1%)

Query: 6   ILTLLRTCTGSKSLKEGKIIHQKVVTLGLQNNIALCKSLINLYFSCQNYDYAMLVFKTID 65
           + ++L+ C  SKSLK+GK +   +   G   +  L   L  +Y +C +   A  VF  + 
Sbjct: 97  LCSVLQLCADSKSLKDGKEVDNFIRGNGFVIDSNLGSKLSLMYTNCGDLKEASRVFDEVK 156

Query: 66  NPLDLSLWNGLMASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLGSVGIG 125
               L  WN LM    K+  +  ++ LF  ++ +  ++ DSYT+  V K+   L SV  G
Sbjct: 157 IEKAL-FWNILMNELAKSGDFSGSIGLFKKMMSSG-VEMDSYTFSCVSKSFSSLRSVHGG 214

Query: 126 KMIHTHLIKTGFLLDVVIASSTAGMYAKCNSFECAVKMFDEMSERDVASWNTVISCYYQD 185
           + +H  ++K+GF     + +S    Y K    + A K+FDEM+ERDV SWN++I+ Y  +
Sbjct: 215 EQLHGFILKSGFGERNSVGNSLVAFYLKNQRVDSARKVFDEMTERDVISWNSIINGYVSN 274

Query: 186 GQAEKALELFKKMRGSGFQPNSVTLTTVISSCA--RLMDLDRGKEIHKEFIKDGFVSDSY 243
           G AEK L +F +M  SG + +  T+ +V + CA  RL+ L  G+ +H   +K  F  +  
Sbjct: 275 GLAEKGLSVFVQMLVSGIEIDLATIVSVFAGCADSRLISL--GRAVHSIGVKACFSREDR 332

Query: 244 ISSALVDMYGKCGCLEMAREVFEQTVLKSVVAWNALIAGYSSRGDSKSCVKLFWRMNEEG 303
             + L+DMY KCG L+ A+ VF +   +SVV++ ++IAGY+  G +   VKLF  M EEG
Sbjct: 333 FCNTLLDMYSKCGDLDSAKAVFREMSDRSVVSYTSMIAGYAREGLAGEAVKLFEEMEEEG 392

Query: 304 IKPTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAE 363
           I P + T+++VL  C+R   L  GK +H +I  N +  D+F++++L+D+Y KCG +  AE
Sbjct: 393 ISPDVYTVTAVLNCCARYRLLDEGKRVHEWIKENDLGFDIFVSNALMDMYAKCGSMQEAE 452

Query: 364 NVFEKMSKTDVVYWNVMISGYVTVGDYFKALAIYSDM-KEVGAKPDAVTFTSVLPACSQL 422
            VF +M   D++ WN +I GY       +AL++++ + +E    PD  T   VLPAC+ L
Sbjct: 453 LVFSEMRVKDIISWNTIIGGYSKNCYANEALSLFNLLLEEKRFSPDERTVACVLPACASL 512

Query: 423 AALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPERDLVSWTSMI 482
           +A +KG+EIH +I+ +   ++  V  +L+DMYAKCGA+  A  +F+++  +DLVSWT MI
Sbjct: 513 SAFDKGREIHGYIMRNGYFSDRHVANSLVDMYAKCGALLLAHMLFDDIASKDLVSWTVMI 572

Query: 483 AAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNI 542
           A YG HG   EA+ LF +M+Q+    D I+F++LL ACSH+G VDEG  +FN+M  E  I
Sbjct: 573 AGYGMHGFGKEAIALFNQMRQAGIEADEISFVSLLYACSHSGLVDEGWRFFNIMRHECKI 632

Query: 543 QPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRDIEMGEKIA 602
           +P  EHY+C++D+L R G L +AY  +++ P I  DA +   L   CR+H D+++ EK+A
Sbjct: 633 EPTVEHYACIVDMLARTGDLIKAYRFIENMP-IPPDATIWGALLCGCRIHHDVKLAEKVA 691

Query: 603 KLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELGLRKNPGCSWIEIGDRIQPF 662
           + + E +P+++  Y++++N+YA  +KW++V+++R ++ + GLRKNPGCSWIEI  R+  F
Sbjct: 692 EKVFELEPENTGYYVLMANIYAEAEKWEQVKRLRKRIGQRGLRKNPGCSWIEIKGRVNIF 751

Query: 663 FAEDKFYPQADMVYECLAILAGHMEKDELLP 693
            A D   P+ + +   L  +   M ++   P
Sbjct: 752 VAGDSSNPETENIEAFLRKVRARMIEEGYSP 782

Arabidopsis thaliana (taxid: 3702)

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

 Score =  476 bits (1224), Expect = e-133,   Method: Compositional matrix adjust.
 Identities = 250/703 (35%), Positives = 409/703 (58%), Gaps = 20/703 (2%)

Query: 8   TLLRTCTGSKSLKEGKIIHQKVVTLGLQ-NNIALCKSLINLYFSCQNYDYAMLVFKTIDN 66
            LL+     + ++ GK IH  V   G   +++ +  +L+NLY  C ++     VF  I  
Sbjct: 102 ALLKAVADLQDMELGKQIHAHVYKFGYGVDSVTVANTLVNLYRKCGDFGAVYKVFDRISE 161

Query: 67  PLDLSLWNGLMASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLG---SVG 123
              +S WN L++S      +  ALE F  +L +  ++P S+T  SV+ AC  L     + 
Sbjct: 162 RNQVS-WNSLISSLCSFEKWEMALEAFRCML-DENVEPSSFTLVSVVTACSNLPMPEGLM 219

Query: 124 IGKMIHTHLIKTGFLLDVVIASSTAGMYAKCNSFECAVKMFDEMSERDVASWNTVISCYY 183
           +GK +H + ++ G L   +I +  A MY K      +  +      RD+ +WNTV+S   
Sbjct: 220 MGKQVHAYGLRKGELNSFIINTLVA-MYGKLGKLASSKVLLGSFGGRDLVTWNTVLSSLC 278

Query: 184 QDGQAEKALELFKKMRGSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVSD-S 242
           Q+ Q  +ALE  ++M   G +P+  T+++V+ +C+ L  L  GKE+H   +K+G + + S
Sbjct: 279 QNEQLLEALEYLREMVLEGVEPDEFTISSVLPACSHLEMLRTGKELHAYALKNGSLDENS 338

Query: 243 YISSALVDMYGKCGCLEMAREVFEQTVLKSVVAWNALIAGYSSRGDSKSCVKLFWRMNEE 302
           ++ SALVDMY  C  +   R VF+    + +  WNA+IAGYS     K  + LF  M E 
Sbjct: 339 FVGSALVDMYCNCKQVLSGRRVFDGMFDRKIGLWNAMIAGYSQNEHDKEALLLFIGMEES 398

Query: 303 -GIKPTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSS 361
            G+    TT++ V+ +C RSG     + +HG++++  +  D F+ ++L+D+Y + G++  
Sbjct: 399 AGLLANSTTMAGVVPACVRSGAFSRKEAIHGFVVKRGLDRDRFVQNTLMDMYSRLGKIDI 458

Query: 362 AENVFEKMSKTDVVYWNVMISGYVTVGDYFKALAIYSDMK-----------EVGAKPDAV 410
           A  +F KM   D+V WN MI+GYV    +  AL +   M+            V  KP+++
Sbjct: 459 AMRIFGKMEDRDLVTWNTMITGYVFSEHHEDALLLLHKMQNLERKVSKGASRVSLKPNSI 518

Query: 411 TFTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNEL 470
           T  ++LP+C+ L+AL KGKEIH + I++ L T+  V  AL+DMYAKCG +  + KVF+++
Sbjct: 519 TLMTILPSCAALSALAKGKEIHAYAIKNNLATDVAVGSALVDMYAKCGCLQMSRKVFDQI 578

Query: 471 PERDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGG 530
           P++++++W  +I AYG HG   EA+ L   M     +P+ +TF+++ +ACSH+G VDEG 
Sbjct: 579 PQKNVITWNVIIMAYGMHGNGQEAIDLLRMMMVQGVKPNEVTFISVFAACSHSGMVDEGL 638

Query: 531 YYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACR 590
             F +M  +Y ++P ++HY+C++DLLGRAGR++EAY ++   P     AG  S+L  A R
Sbjct: 639 RIFYVMKPDYGVEPSSDHYACVVDLLGRAGRIKEAYQLMNMMPRDFNKAGAWSSLLGASR 698

Query: 591 LHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELGLRKNPGC 650
           +H ++E+GE  A+ LI+ +P+ +S Y++L+N+Y+S   WD+  ++R  MKE G+RK PGC
Sbjct: 699 IHNNLEIGEIAAQNLIQLEPNVASHYVLLANIYSSAGLWDKATEVRRNMKEQGVRKEPGC 758

Query: 651 SWIEIGDRIQPFFAEDKFYPQADMVYECLAILAGHMEKDELLP 693
           SWIE GD +  F A D  +PQ++ +   L  L   M K+  +P
Sbjct: 759 SWIEHGDEVHKFVAGDSSHPQSEKLSGYLETLWERMRKEGYVP 801

Arabidopsis thaliana (taxid: 3702)

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

 Score =  470 bits (1209), Expect = e-131,   Method: Compositional matrix adjust.
 Identities = 246/685 (35%), Positives = 398/685 (58%), Gaps = 6/685 (0%)

Query: 9   LLRTCTGSKSLKEGKIIHQKVVTLGLQNNIALCKSLINLYFSCQNYDYAMLVFKTIDNPL 68
           LL  C+   SLKE + I   V   GL         L++L+    + D A  VF+ ID+ L
Sbjct: 43  LLERCS---SLKELRQILPLVFKNGLYQEHFFQTKLVSLFCRYGSVDEAARVFEPIDSKL 99

Query: 69  DLSLWNGLMASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLGSVGIGKMI 128
           ++ L++ ++  + K      AL+ F + ++   ++P  Y +  +LK CG    + +GK I
Sbjct: 100 NV-LYHTMLKGFAKVSDLDKALQFF-VRMRYDDVEPVVYNFTYLLKVCGDEAELRVGKEI 157

Query: 129 HTHLIKTGFLLDVVIASSTAGMYAKCNSFECAVKMFDEMSERDVASWNTVISCYYQDGQA 188
           H  L+K+GF LD+   +    MYAKC     A K+FD M ERD+ SWNT+++ Y Q+G A
Sbjct: 158 HGLLVKSGFSLDLFAMTGLENMYAKCRQVNEARKVFDRMPERDLVSWNTIVAGYSQNGMA 217

Query: 189 EKALELFKKMRGSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVSDSYISSAL 248
             ALE+ K M     +P+ +T+ +V+ + + L  +  GKEIH   ++ GF S   IS+AL
Sbjct: 218 RMALEMVKSMCEENLKPSFITIVSVLPAVSALRLISVGKEIHGYAMRSGFDSLVNISTAL 277

Query: 249 VDMYGKCGCLEMAREVFEQTVLKSVVAWNALIAGYSSRGDSKSCVKLFWRMNEEGIKPTL 308
           VDMY KCG LE AR++F+  + ++VV+WN++I  Y    + K  + +F +M +EG+KPT 
Sbjct: 278 VDMYAKCGSLETARQLFDGMLERNVVSWNSMIDAYVQNENPKEAMLIFQKMLDEGVKPTD 337

Query: 309 TTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAENVFEK 368
            ++   L +C+  G L+ G+ +H   +   +  +V + +SLI +Y KC  V +A ++F K
Sbjct: 338 VSVMGALHACADLGDLERGRFIHKLSVELGLDRNVSVVNSLISMYCKCKEVDTAASMFGK 397

Query: 369 MSKTDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKG 428
           +    +V WN MI G+   G    AL  +S M+    KPD  T+ SV+ A ++L+     
Sbjct: 398 LQSRTLVSWNAMILGFAQNGRPIDALNYFSQMRSRTVKPDTFTYVSVITAIAELSITHHA 457

Query: 429 KEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPERDLVSWTSMIAAYGSH 488
           K IH  ++ S L+ N  V  AL+DMYAKCGA+  A  +F+ + ER + +W +MI  YG+H
Sbjct: 458 KWIHGVVMRSCLDKNVFVTTALVDMYAKCGAIMIARLIFDMMSERHVTTWNAMIDGYGTH 517

Query: 489 GRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEH 548
           G    AL+LF EMQ+   +P+ +TFL+++SACSH+G V+ G   F +M   Y+I+   +H
Sbjct: 518 GFGKAALELFEEMQKGTIKPNGVTFLSVISACSHSGLVEAGLKCFYMMKENYSIELSMDH 577

Query: 549 YSCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRDIEMGEKIAKLLIEK 608
           Y  ++DLLGRAGRL EA+  +   P ++    +   +  AC++H+++   EK A+ L E 
Sbjct: 578 YGAMVDLLGRAGRLNEAWDFIMQMP-VKPAVNVYGAMLGACQIHKNVNFAEKAAERLFEL 636

Query: 609 DPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELGLRKNPGCSWIEIGDRIQPFFAEDKF 668
           +PDD   +++L+N+Y +   W++V ++R+ M   GLRK PGCS +EI + +  FF+    
Sbjct: 637 NPDDGGYHVLLANIYRAASMWEKVGQVRVSMLRQGLRKTPGCSMVEIKNEVHSFFSGSTA 696

Query: 669 YPQADMVYECLAILAGHMEKDELLP 693
           +P +  +Y  L  L  H+++   +P
Sbjct: 697 HPDSKKIYAFLEKLICHIKEAGYVP 721

Arabidopsis thaliana (taxid: 3702)

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

 Score =  464 bits (1195), Expect = e-130,   Method: Compositional matrix adjust.
 Identities = 262/722 (36%), Positives = 402/722 (55%), Gaps = 57/722 (7%)

Query: 17  KSLKEGKIIHQKVVTLGLQNNIALCKSLINLYFSCQNYDYAMLVFKTIDNPLDLSL--WN 74
           K++ + K+IHQK+++ G+   + L   LI+ Y S     +A+ + +    P D  +  WN
Sbjct: 39  KTISQVKLIHQKLLSFGILT-LNLTSHLISTYISVGCLSHAVSLLRRFP-PSDAGVYHWN 96

Query: 75  GLMASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLGSVGIGKMIHTHLIK 134
            L+ SY  N      L LF  L+ +    PD+YT+P V KACG + SV  G+  H   + 
Sbjct: 97  SLIRSYGDNGCANKCLYLFG-LMHSLSWTPDNYTFPFVFKACGEISSVRCGESAHALSLV 155

Query: 135 TGFLLDVVIASSTAGMYAKCNSFECAVKMFDEMSERDVASWNTVISCYYQDGQAEKALEL 194
           TGF+ +V + ++   MY++C S   A K+FDEMS  DV SWN++I  Y + G+ + ALE+
Sbjct: 156 TGFISNVFVGNALVAMYSRCRSLSDARKVFDEMSVWDVVSWNSIIESYAKLGKPKVALEM 215

Query: 195 FKKMRGS-GFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVSDSYISSALVDMYG 253
           F +M    G +P+++TL  V+  CA L     GK++H   +    + + ++ + LVDMY 
Sbjct: 216 FSRMTNEFGCRPDNITLVNVLPPCASLGTHSLGKQLHCFAVTSEMIQNMFVGNCLVDMYA 275

Query: 254 KCGCLEMAREVFEQTVLKSVVAWNALIAGYSSRGDSKSCVKLFWRMNEE----------- 302
           KCG ++ A  VF    +K VV+WNA++AGYS  G  +  V+LF +M EE           
Sbjct: 276 KCGMMDEANTVFSNMSVKDVVSWNAMVAGYSQIGRFEDAVRLFEKMQEEKIKMDVVTWSA 335

Query: 303 ------------------------GIKPTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNK 338
                                   GIKP   T+ SVL  C+  G L HGK +H Y I+  
Sbjct: 336 AISGYAQRGLGYEALGVCRQMLSSGIKPNEVTLISVLSGCASVGALMHGKEIHCYAIKYP 395

Query: 339 I------QGDV-FINSSLIDLYFKCGRVSSAENVFEKMS--KTDVVYWNVMISGYVTVGD 389
           I       GD   + + LID+Y KC +V +A  +F+ +S  + DVV W VMI GY   GD
Sbjct: 396 IDLRKNGHGDENMVINQLIDMYAKCKKVDTARAMFDSLSPKERDVVTWTVMIGGYSQHGD 455

Query: 390 YFKALAIYSDM--KEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIESKLETNEI-V 446
             KAL + S+M  ++   +P+A T +  L AC+ LAAL  GK+IH + + ++     + V
Sbjct: 456 ANKALELLSEMFEEDCQTRPNAFTISCALVACASLAALRIGKQIHAYALRNQQNAVPLFV 515

Query: 447 MGALLDMYAKCGAVDEAFKVFNELPERDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNA 506
              L+DMYAKCG++ +A  VF+ +  ++ V+WTS++  YG HG   EAL +F EM++   
Sbjct: 516 SNCLIDMYAKCGSISDARLVFDNMMAKNEVTWTSLMTGYGMHGYGEEALGIFDEMRRIGF 575

Query: 507 RPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAY 566
           + D +T L +L ACSH+G +D+G  YFN M + + + P  EHY+CL+DLLGRAGRL  A 
Sbjct: 576 KLDGVTLLVVLYACSHSGMIDQGMEYFNRMKTVFGVSPGPEHYACLVDLLGRAGRLNAAL 635

Query: 567 GILQSTPEIREDAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASV 626
            +++  P +     +     S CR+H  +E+GE  A+ + E   +   +Y +LSN+YA+ 
Sbjct: 636 RLIEEMP-MEPPPVVWVAFLSCCRIHGKVELGEYAAEKITELASNHDGSYTLLSNLYANA 694

Query: 627 KKWDEVRKIRLKMKELGLRKNPGCSWIEIGDRIQPFFAEDKFYPQADMVYECLAILAGHM 686
            +W +V +IR  M+  G++K PGCSW+E       FF  DK +P A  +Y+   +L  HM
Sbjct: 695 GRWKDVTRIRSLMRHKGVKKRPGCSWVEGIKGTTTFFVGDKTHPHAKEIYQ---VLLDHM 751

Query: 687 EK 688
           ++
Sbjct: 752 QR 753

Arabidopsis thaliana (taxid: 3702)

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

 Score =  449 bits (1156), Expect = e-125,   Method: Compositional matrix adjust.
 Identities = 242/702 (34%), Positives = 406/702 (57%), Gaps = 13/702 (1%)

Query: 1   MNITRILTLLRTCTGSKSLKEGKIIHQKVVTLGLQNNIALCKSLINLYFSCQNYDYAMLV 60
           M+     +LL++C  ++  + GK++H +++   ++ +  L  SLI+LY    +   A  V
Sbjct: 60  MDSVTFSSLLKSCIRARDFRLGKLVHARLIEFDIEPDSVLYNSLISLYSKSGDSAKAEDV 119

Query: 61  FKTIDN--PLDLSLWNGLMASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGG 118
           F+T+      D+  W+ +MA Y  N   + A+++F   L+   L P+ Y Y +V++AC  
Sbjct: 120 FETMRRFGKRDVVSWSAMMACYGNNGRELDAIKVFVEFLELG-LVPNDYCYTAVIRACSN 178

Query: 119 LGSVGIGKMIHTHLIKTG-FLLDVVIASSTAGMYAKC-NSFECAVKMFDEMSERDVASWN 176
              VG+G++    L+KTG F  DV +  S   M+ K  NSFE A K+FD+MSE +V +W 
Sbjct: 179 SDFVGVGRVTLGFLMKTGHFESDVCVGCSLIDMFVKGENSFENAYKVFDKMSELNVVTWT 238

Query: 177 TVISCYYQDGQAEKALELFKKMRGSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKD 236
            +I+   Q G   +A+  F  M  SGF+ +  TL++V S+CA L +L  GK++H   I+ 
Sbjct: 239 LMITRCMQMGFPREAIRFFLDMVLSGFESDKFTLSSVFSACAELENLSLGKQLHSWAIRS 298

Query: 237 GFVSDSYISSALVDMYGKC---GCLEMAREVFEQTVLKSVVAWNALIAGYSSRGD-SKSC 292
           G V D  +  +LVDMY KC   G ++  R+VF++    SV++W ALI GY    + +   
Sbjct: 299 GLVDD--VECSLVDMYAKCSADGSVDDCRKVFDRMEDHSVMSWTALITGYMKNCNLATEA 356

Query: 293 VKLFWRMNEEG-IKPTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLID 351
           + LF  M  +G ++P   T SS   +C      + GK + G   +  +  +  + +S+I 
Sbjct: 357 INLFSEMITQGHVEPNHFTFSSAFKACGNLSDPRVGKQVLGQAFKRGLASNSSVANSVIS 416

Query: 352 LYFKCGRVSSAENVFEKMSKTDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVT 411
           ++ K  R+  A+  FE +S+ ++V +N  + G     ++ +A  + S++ E      A T
Sbjct: 417 MFVKSDRMEDAQRAFESLSEKNLVSYNTFLDGTCRNLNFEQAFKLLSEITERELGVSAFT 476

Query: 412 FTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELP 471
           F S+L   + + ++ KG++IH+ +++  L  N+ V  AL+ MY+KCG++D A +VFN + 
Sbjct: 477 FASLLSGVANVGSIRKGEQIHSQVVKLGLSCNQPVCNALISMYSKCGSIDTASRVFNFME 536

Query: 472 ERDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGY 531
            R+++SWTSMI  +  HG A+  L+ F +M +   +P+ +T++A+LSACSH G V EG  
Sbjct: 537 NRNVISWTSMITGFAKHGFAIRVLETFNQMIEEGVKPNEVTYVAILSACSHVGLVSEGWR 596

Query: 532 YFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRL 591
           +FN M  ++ I+P+ EHY+C++DLL RAG L +A+  + + P  + D  +  T   ACR+
Sbjct: 597 HFNSMYEDHKIKPKMEHYACMVDLLCRAGLLTDAFEFINTMP-FQADVLVWRTFLGACRV 655

Query: 592 HRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELGLRKNPGCS 651
           H + E+G+  A+ ++E DP++ + YI LSN+YA   KW+E  ++R KMKE  L K  GCS
Sbjct: 656 HSNTELGKLAARKILELDPNEPAAYIQLSNIYACAGKWEESTEMRRKMKERNLVKEGGCS 715

Query: 652 WIEIGDRIQPFFAEDKFYPQADMVYECLAILAGHMEKDELLP 693
           WIE+GD+I  F+  D  +P A  +Y+ L  L   +++   +P
Sbjct: 716 WIEVGDKIHKFYVGDTAHPNAHQIYDELDRLITEIKRCGYVP 757

May play a role in embryogenesis.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SS60|PP210_ARATH Pentatricopeptide repeat-containing protein At3g03580 OS=Arabidopsis thaliana GN=PCMP-H23 PE=2 SV=1

 Score =  445 bits (1144), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 245/690 (35%), Positives = 402/690 (58%), Gaps = 12/690 (1%)

Query: 8   TLLRTCTGSKSLKEGKIIHQKVVTLGLQNNIALCKSLINLYFSCQNYDYAMLVFKTIDNP 67
           ++++ C G    + G +++++++ +G ++++ +  +L+++Y        A  VF  +  P
Sbjct: 111 SVIKACAGLFDAEMGDLVYEQILDMGFESDLFVGNALVDMYSRMGLLTRARQVFDEM--P 168

Query: 68  L-DLSLWNGLMASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLGSVGIGK 126
           + DL  WN L++ Y+ +  Y  ALE++  L +N ++ PDS+T  SVL A G L  V  G+
Sbjct: 169 VRDLVSWNSLISGYSSHGYYEEALEIYHEL-KNSWIVPDSFTVSSVLPAFGNLLVVKQGQ 227

Query: 127 MIHTHLIKTGFLLDVVIASSTAGMYAKCNSFECAVKMFDEMSERDVASWNTVISCYYQDG 186
            +H   +K+G    VV+ +    MY K      A ++FDEM  RD  S+NT+I  Y +  
Sbjct: 228 GLHGFALKSGVNSVVVVNNGLVAMYLKFRRPTDARRVFDEMDVRDSVSYNTMICGYLKLE 287

Query: 187 QAEKALELFKKMRGSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVSDSYISS 246
             E+++ +F +     F+P+ +T+++V+ +C  L DL   K I+   +K GFV +S + +
Sbjct: 288 MVEESVRMFLE-NLDQFKPDLLTVSSVLRACGHLRDLSLAKYIYNYMLKAGFVLESTVRN 346

Query: 247 ALVDMYGKCGCLEMAREVFEQTVLKSVVAWNALIAGYSSRGDSKSCVKLF---WRMNEEG 303
            L+D+Y KCG +  AR+VF     K  V+WN++I+GY   GD    +KLF     M E+ 
Sbjct: 347 ILIDVYAKCGDMITARDVFNSMECKDTVSWNSIISGYIQSGDLMEAMKLFKMMMIMEEQA 406

Query: 304 IKPTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAE 363
              T   + SV    +R   LK GK +H   I++ I  D+ ++++LID+Y KCG V  + 
Sbjct: 407 DHITYLMLISV---STRLADLKFGKGLHSNGIKSGICIDLSVSNALIDMYAKCGEVGDSL 463

Query: 364 NVFEKMSKTDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLA 423
            +F  M   D V WN +IS  V  GD+   L + + M++    PD  TF   LP C+ LA
Sbjct: 464 KIFSSMGTGDTVTWNTVISACVRFGDFATGLQVTTQMRKSEVVPDMATFLVTLPMCASLA 523

Query: 424 ALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPERDLVSWTSMIA 483
           A   GKEIH  ++    E+   +  AL++MY+KCG ++ + +VF  +  RD+V+WT MI 
Sbjct: 524 AKRLGKEIHCCLLRFGYESELQIGNALIEMYSKCGCLENSSRVFERMSRRDVVTWTGMIY 583

Query: 484 AYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQ 543
           AYG +G   +AL+ F +M++S   PDS+ F+A++ ACSH+G VDEG   F  M + Y I 
Sbjct: 584 AYGMYGEGEKALETFADMEKSGIVPDSVVFIAIIYACSHSGLVDEGLACFEKMKTHYKID 643

Query: 544 PRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRDIEMGEKIAK 603
           P  EHY+C++DLL R+ ++ +A   +Q+ P I+ DA + +++  ACR   D+E  E++++
Sbjct: 644 PMIEHYACVVDLLSRSQKISKAEEFIQAMP-IKPDASIWASVLRACRTSGDMETAERVSR 702

Query: 604 LLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELGLRKNPGCSWIEIGDRIQPFF 663
            +IE +PDD    I+ SN YA+++KWD+V  IR  +K+  + KNPG SWIE+G  +  F 
Sbjct: 703 RIIELNPDDPGYSILASNAYAALRKWDKVSLIRKSLKDKHITKNPGYSWIEVGKNVHVFS 762

Query: 664 AEDKFYPQADMVYECLAILAGHMEKDELLP 693
           + D   PQ++ +Y+ L IL   M K+  +P
Sbjct: 763 SGDDSAPQSEAIYKSLEILYSLMAKEGYIP 792

Arabidopsis thaliana (taxid: 3702)

>sp|Q9STE1|PP333_ARATH Pentatricopeptide repeat-containing protein At4g21300 OS=Arabidopsis thaliana GN=PCMP-E36 PE=3 SV=1

 Score =  440 bits (1132), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 238/693 (34%), Positives = 388/693 (55%), Gaps = 4/693 (0%)

Query: 2   NITRILTLLRTCTGSKSLKEGKIIHQKVVTLGLQNNIALCKSLINLYFSCQNYDYAMLVF 61
           +++    L++ C   K+ K    +   V +LG+  N  +  SLI  Y      D    +F
Sbjct: 137 DVSTFPCLVKACVALKNFKGIDFLSDTVSSLGMDCNEFVASSLIKAYLEYGKIDVPSKLF 196

Query: 62  KTIDNPLDLSLWNGLMASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLGS 121
             +    D  +WN ++  Y K     + ++ F ++  +  + P++ T+  VL  C     
Sbjct: 197 DRVLQK-DCVIWNVMLNGYAKCGALDSVIKGFSVMRMDQ-ISPNAVTFDCVLSVCASKLL 254

Query: 122 VGIGKMIHTHLIKTGFLLDVVIASSTAGMYAKCNSFECAVKMFDEMSERDVASWNTVISC 181
           + +G  +H  ++ +G   +  I +S   MY+KC  F+ A K+F  MS  D  +WN +IS 
Sbjct: 255 IDLGVQLHGLVVVSGVDFEGSIKNSLLSMYSKCGRFDDASKLFRMMSRADTVTWNCMISG 314

Query: 182 YYQDGQAEKALELFKKMRGSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVSD 241
           Y Q G  E++L  F +M  SG  P+++T ++++ S ++  +L+  K+IH   ++     D
Sbjct: 315 YVQSGLMEESLTFFYEMISSGVLPDAITFSSLLPSVSKFENLEYCKQIHCYIMRHSISLD 374

Query: 242 SYISSALVDMYGKCGCLEMAREVFEQTVLKSVVAWNALIAGYSSRGDSKSCVKLFWRMNE 301
            +++SAL+D Y KC  + MA+ +F Q     VV + A+I+GY   G     +++F  + +
Sbjct: 375 IFLTSALIDAYFKCRGVSMAQNIFSQCNSVDVVVFTAMISGYLHNGLYIDSLEMFRWLVK 434

Query: 302 EGIKPTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSS 361
             I P   T+ S+L        LK G+ +HG+II+        I  ++ID+Y KCGR++ 
Sbjct: 435 VKISPNEITLVSILPVIGILLALKLGRELHGFIIKKGFDNRCNIGCAVIDMYAKCGRMNL 494

Query: 362 AENVFEKMSKTDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQ 421
           A  +FE++SK D+V WN MI+      +   A+ I+  M   G   D V+ ++ L AC+ 
Sbjct: 495 AYEIFERLSKRDIVSWNSMITRCAQSDNPSAAIDIFRQMGVSGICYDCVSISAALSACAN 554

Query: 422 LAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPERDLVSWTSM 481
           L +   GK IH  +I+  L ++      L+DMYAKCG +  A  VF  + E+++VSW S+
Sbjct: 555 LPSESFGKAIHGFMIKHSLASDVYSESTLIDMYAKCGNLKAAMNVFKTMKEKNIVSWNSI 614

Query: 482 IAAYGSHGRALEALKLFGEM-QQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEY 540
           IAA G+HG+  ++L LF EM ++S  RPD ITFL ++S+C H G VDEG  +F  M  +Y
Sbjct: 615 IAACGNHGKLKDSLCLFHEMVEKSGIRPDQITFLEIISSCCHVGDVDEGVRFFRSMTEDY 674

Query: 541 NIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRDIEMGEK 600
            IQP+ EHY+C++DL GRAGRL EAY  ++S P    DAG+  TL  ACRLH+++E+ E 
Sbjct: 675 GIQPQQEHYACVVDLFGRAGRLTEAYETVKSMP-FPPDAGVWGTLLGACRLHKNVELAEV 733

Query: 601 IAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELGLRKNPGCSWIEIGDRIQ 660
            +  L++ DP +S  Y+++SN +A+ ++W+ V K+R  MKE  ++K PG SWIEI  R  
Sbjct: 734 ASSKLMDLDPSNSGYYVLISNAHANAREWESVTKVRSLMKEREVQKIPGYSWIEINKRTH 793

Query: 661 PFFAEDKFYPQADMVYECLAILAGHMEKDELLP 693
            F + D  +P++  +Y  L  L G +  +  +P
Sbjct: 794 LFVSGDVNHPESSHIYSLLNSLLGELRLEGYIP 826

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SS83|PP220_ARATH Pentatricopeptide repeat-containing protein At3g09040, mitochondrial OS=Arabidopsis thaliana GN=PCMP-E88 PE=2 SV=1

 Score =  439 bits (1128), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 240/678 (35%), Positives = 389/678 (57%), Gaps = 7/678 (1%)

Query: 18   SLKEGKIIHQKVVTLGLQNNIALCKSLINLYFSCQNYDYAMLVFKTIDNPLDLSLWNGLM 77
            +L  G ++H + + LGL +NI +  SL+++Y  C+  + A  VF+ ++   D+  WN ++
Sbjct: 342  NLDLGLVVHAEAIKLGLASNIYVGSSLVSMYSKCEKMEAAAKVFEALEEKNDV-FWNAMI 400

Query: 78   ASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLGSVGIGKMIHTHLIKTGF 137
              Y  N      +ELF M +++     D +T+ S+L  C     + +G   H+ +IK   
Sbjct: 401  RGYAHNGESHKVMELF-MDMKSSGYNIDDFTFTSLLSTCAASHDLEMGSQFHSIIIKKKL 459

Query: 138  LLDVVIASSTAGMYAKCNSFECAVKMFDEMSERDVASWNTVISCYYQDGQAEKALELFKK 197
              ++ + ++   MYAKC + E A ++F+ M +RD  +WNT+I  Y QD    +A +LFK+
Sbjct: 460  AKNLFVGNALVDMYAKCGALEDARQIFERMCDRDNVTWNTIIGSYVQDENESEAFDLFKR 519

Query: 198  MRGSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVSDSYISSALVDMYGKCGC 257
            M   G   +   L + + +C  +  L +GK++H   +K G   D +  S+L+DMY KCG 
Sbjct: 520  MNLCGIVSDGACLASTLKACTHVHGLYQGKQVHCLSVKCGLDRDLHTGSSLIDMYSKCGI 579

Query: 258  LEMAREVFEQTVLKSVVAWNALIAGYSSRGDSKSCVKLFWRMNEEGIKPTLTTISSVLMS 317
            ++ AR+VF      SVV+ NALIAGYS + + +  V LF  M   G+ P+  T ++++ +
Sbjct: 580  IKDARKVFSSLPEWSVVSMNALIAGYS-QNNLEEAVVLFQEMLTRGVNPSEITFATIVEA 638

Query: 318  CSRSGQLKHGKVMHGYIIRNKIQGD-VFINSSLIDLYFKCGRVSSAENVFEKMSK-TDVV 375
            C +   L  G   HG I +     +  ++  SL+ +Y     ++ A  +F ++S    +V
Sbjct: 639  CHKPESLTLGTQFHGQITKRGFSSEGEYLGISLLGMYMNSRGMTEACALFSELSSPKSIV 698

Query: 376  YWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHI 435
             W  M+SG+   G Y +AL  Y +M+  G  PD  TF +VL  CS L++L +G+ IH+ I
Sbjct: 699  LWTGMMSGHSQNGFYEEALKFYKEMRHDGVLPDQATFVTVLRVCSVLSSLREGRAIHSLI 758

Query: 436  IESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPER-DLVSWTSMIAAYGSHGRALEA 494
                 + +E+    L+DMYAKCG +  + +VF+E+  R ++VSW S+I  Y  +G A +A
Sbjct: 759  FHLAHDLDELTSNTLIDMYAKCGDMKGSSQVFDEMRRRSNVVSWNSLINGYAKNGYAEDA 818

Query: 495  LKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLID 554
            LK+F  M+QS+  PD ITFL +L+ACSHAG V +G   F +MI +Y I+ R +H +C++D
Sbjct: 819  LKIFDSMRQSHIMPDEITFLGVLTACSHAGKVSDGRKIFEMMIGQYGIEARVDHVACMVD 878

Query: 555  LLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSS 614
            LLGR G LQEA   +++   ++ DA L S+L  ACR+H D   GE  A+ LIE +P +SS
Sbjct: 879  LLGRWGYLQEADDFIEAQ-NLKPDARLWSSLLGACRIHGDDIRGEISAEKLIELEPQNSS 937

Query: 615  TYIVLSNMYASVKKWDEVRKIRLKMKELGLRKNPGCSWIEIGDRIQPFFAEDKFYPQADM 674
             Y++LSN+YAS   W++   +R  M++ G++K PG SWI++  R   F A DK + +   
Sbjct: 938  AYVLLSNIYASQGCWEKANALRKVMRDRGVKKVPGYSWIDVEQRTHIFAAGDKSHSEIGK 997

Query: 675  VYECLAILAGHMEKDELL 692
            +   L  L   M+ D ++
Sbjct: 998  IEMFLEDLYDLMKDDAVV 1015

Arabidopsis thaliana (taxid: 3702)

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

 Score =  437 bits (1125), Expect = e-121,   Method: Compositional matrix adjust.
 Identities = 232/670 (34%), Positives = 379/670 (56%), Gaps = 3/670 (0%)

Query: 8   TLLRTCTGSKSLKEGKIIHQKVVTLGLQNNIALCKSLINLYFSCQNYDYAMLVFKTIDNP 67
           ++L  C   +SL+ G+ +H  V+ LG  ++  +C +L++LYF   N   A  +F  +   
Sbjct: 293 SVLSACKKIESLEIGEQLHGLVLKLGFSSDTYVCNALVSLYFHLGNLISAEHIFSNMSQR 352

Query: 68  LDLSLWNGLMASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLGSVGIGKM 127
            D   +N L+   ++      A+ELF  +  +  L+PDS T  S++ AC   G++  G+ 
Sbjct: 353 -DAVTYNTLINGLSQCGYGEKAMELFKRMHLDG-LEPDSNTLASLVVACSADGTLFRGQQ 410

Query: 128 IHTHLIKTGFLLDVVIASSTAGMYAKCNSFECAVKMFDEMSERDVASWNTVISCYYQDGQ 187
           +H +  K GF  +  I  +   +YAKC   E A+  F E    +V  WN ++  Y     
Sbjct: 411 LHAYTTKLGFASNNKIEGALLNLYAKCADIETALDYFLETEVENVVLWNVMLVAYGLLDD 470

Query: 188 AEKALELFKKMRGSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVSDSYISSA 247
              +  +F++M+     PN  T  +++ +C RL DL+ G++IH + IK  F  ++Y+ S 
Sbjct: 471 LRNSFRIFRQMQIEEIVPNQYTYPSILKTCIRLGDLELGEQIHSQIIKTNFQLNAYVCSV 530

Query: 248 LVDMYGKCGCLEMAREVFEQTVLKSVVAWNALIAGYSSRGDSKSCVKLFWRMNEEGIKPT 307
           L+DMY K G L+ A ++  +   K VV+W  +IAGY+        +  F +M + GI+  
Sbjct: 531 LIDMYAKLGKLDTAWDILIRFAGKDVVSWTTMIAGYTQYNFDDKALTTFRQMLDRGIRSD 590

Query: 308 LTTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAENVFE 367
              +++ + +C+    LK G+ +H     +    D+   ++L+ LY +CG++  +   FE
Sbjct: 591 EVGLTNAVSACAGLQALKEGQQIHAQACVSGFSSDLPFQNALVTLYSRCGKIEESYLAFE 650

Query: 368 KMSKTDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEK 427
           +    D + WN ++SG+   G+  +AL ++  M   G   +  TF S + A S+ A +++
Sbjct: 651 QTEAGDNIAWNALVSGFQQSGNNEEALRVFVRMNREGIDNNNFTFGSAVKAASETANMKQ 710

Query: 428 GKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPERDLVSWTSMIAAYGS 487
           GK++H  I ++  ++   V  AL+ MYAKCG++ +A K F E+  ++ VSW ++I AY  
Sbjct: 711 GKQVHAVITKTGYDSETEVCNALISMYAKCGSISDAEKQFLEVSTKNEVSWNAIINAYSK 770

Query: 488 HGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNE 547
           HG   EAL  F +M  SN RP+ +T + +LSACSH G VD+G  YF  M SEY + P+ E
Sbjct: 771 HGFGSEALDSFDQMIHSNVRPNHVTLVGVLSACSHIGLVDKGIAYFESMNSEYGLSPKPE 830

Query: 548 HYSCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRDIEMGEKIAKLLIE 607
           HY C++D+L RAG L  A   +Q  P I+ DA +  TL SAC +H+++E+GE  A  L+E
Sbjct: 831 HYVCVVDMLTRAGLLSRAKEFIQEMP-IKPDALVWRTLLSACVVHKNMEIGEFAAHHLLE 889

Query: 608 KDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELGLRKNPGCSWIEIGDRIQPFFAEDK 667
            +P+DS+TY++LSN+YA  KKWD     R KMKE G++K PG SWIE+ + I  F+  D+
Sbjct: 890 LEPEDSATYVLLSNLYAVSKKWDARDLTRQKMKEKGVKKEPGQSWIEVKNSIHSFYVGDQ 949

Query: 668 FYPQADMVYE 677
            +P AD ++E
Sbjct: 950 NHPLADEIHE 959

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	694
225436612	694	PREDICTED: pentatricopeptide repeat-cont	0.997	0.997	0.729	0.0
147854092	886	hypothetical protein VITISV_041405 [Viti	0.992	0.777	0.723	0.0
356524187	705	PREDICTED: pentatricopeptide repeat-cont	0.997	0.981	0.685	0.0
356554981	705	PREDICTED: pentatricopeptide repeat-cont	0.992	0.977	0.676	0.0
449445041	693	PREDICTED: pentatricopeptide repeat-cont	0.995	0.997	0.642	0.0
357437223	697	Pentatricopeptide repeat-containing prot	0.997	0.992	0.659	0.0
297808809	690	pentatricopeptide repeat-containing prot	0.989	0.995	0.593	0.0
15240444	691	pentatricopeptide repeat-containing prot	0.994	0.998	0.581	0.0
255572205	520	pentatricopeptide repeat-containing prot	0.711	0.95	0.690	0.0
2191182	597	similar to N. tabacum membrane-associate	0.805	0.936	0.536	0.0

>gi|225436612|ref|XP_002275537.1| PREDICTED: pentatricopeptide repeat-containing protein At5g27110-like [Vitis vinifera]

 Score = 1107 bits (2862), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 505/692 (72%), Positives = 604/692 (87%)

Query: 1   MNITRILTLLRTCTGSKSLKEGKIIHQKVVTLGLQNNIALCKSLINLYFSCQNYDYAMLV 60
           M+ T++L+LL+TC  SK LK+GK+IHQK+V+LGLQNNI LCKSLINLYFSC  +  A LV
Sbjct: 1   MDTTKLLSLLKTCIDSKYLKQGKLIHQKIVSLGLQNNITLCKSLINLYFSCHLFQSAKLV 60

Query: 61  FKTIDNPLDLSLWNGLMASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLG 120
           F+TI+NPLD++LWNGLMA+ TKN+++I  LE+F  LL  PYLKPD++TYPSVLKAC GLG
Sbjct: 61  FQTIENPLDITLWNGLMAACTKNFIFIEGLEVFHRLLHFPYLKPDAFTYPSVLKACSGLG 120

Query: 121 SVGIGKMIHTHLIKTGFLLDVVIASSTAGMYAKCNSFECAVKMFDEMSERDVASWNTVIS 180
            VG GKM+HTH+IK+GF +DVV+ SS  GMYAKCN FE A+K+FDEM ERDVASWN VIS
Sbjct: 121 RVGYGKMVHTHVIKSGFAMDVVVMSSAVGMYAKCNVFEDAIKLFDEMPERDVASWNNVIS 180

Query: 181 CYYQDGQAEKALELFKKMRGSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVS 240
           CYYQDGQ EKALELF++M+ SGF+P+SVTLTTVISSCARL+DL+RGKEIH E ++ GF  
Sbjct: 181 CYYQDGQPEKALELFEEMKVSGFKPDSVTLTTVISSCARLLDLERGKEIHMELVRSGFAL 240

Query: 241 DSYISSALVDMYGKCGCLEMAREVFEQTVLKSVVAWNALIAGYSSRGDSKSCVKLFWRMN 300
           D ++SSALVDMYGKCGCLEMA+EVFEQ   K+VV+WN++IAGYS +GDSKSC++LF RM+
Sbjct: 241 DGFVSSALVDMYGKCGCLEMAKEVFEQIQRKNVVSWNSMIAGYSLKGDSKSCIELFRRMD 300

Query: 301 EEGIKPTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVS 360
           EEGI+PTLTT+SS+LM+CSRS  L+ GK +HGYIIRN+++ D+F+NSSLIDLYFKCG + 
Sbjct: 301 EEGIRPTLTTLSSILMACSRSVNLQLGKFIHGYIIRNRVEADIFVNSSLIDLYFKCGNIG 360

Query: 361 SAENVFEKMSKTDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACS 420
           SAENVF+ M KT+VV WNVMISGYV VG Y +AL I++DM++ G KPDA+TFTSVLPACS
Sbjct: 361 SAENVFQNMPKTNVVSWNVMISGYVKVGSYLEALVIFTDMRKAGVKPDAITFTSVLPACS 420

Query: 421 QLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPERDLVSWTS 480
           QLA LEKGKEIHN IIESKLE NE+VMGALLDMYAKCGAVDEA  +FN+LPERD VSWTS
Sbjct: 421 QLAVLEKGKEIHNFIIESKLEINEVVMGALLDMYAKCGAVDEALHIFNQLPERDFVSWTS 480

Query: 481 MIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEY 540
           MIAAYGSHG+A EALKLF +MQQS+A+PD +TFLA+LSACSHAG VDEG YYFN MI+EY
Sbjct: 481 MIAAYGSHGQAFEALKLFEKMQQSDAKPDKVTFLAILSACSHAGLVDEGCYYFNQMIAEY 540

Query: 541 NIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRDIEMGEK 600
             +P  EHYSCLIDLLGR GRL+EAY ILQ TP+IRED GLLSTLFSAC LH+ +++GE+
Sbjct: 541 GFKPAVEHYSCLIDLLGRVGRLREAYEILQRTPDIREDVGLLSTLFSACHLHKKLDLGEQ 600

Query: 601 IAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELGLRKNPGCSWIEIGDRIQ 660
           I +LLIEKDPDD STYI+LSNMYASVKKWDEVRK+RLK+KELGL+KNPGCSWIE+G RI 
Sbjct: 601 IGRLLIEKDPDDPSTYIILSNMYASVKKWDEVRKVRLKIKELGLKKNPGCSWIEVGKRIH 660

Query: 661 PFFAEDKFYPQADMVYECLAILAGHMEKDELL 692
           PF  EDK +PQADM+YEC++ILA H+EK ++L
Sbjct: 661 PFVVEDKSHPQADMIYECMSILASHVEKYQVL 692

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147854092|emb|CAN83391.1| hypothetical protein VITISV_041405 [Vitis vinifera]

 Score = 1087 bits (2812), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 501/692 (72%), Positives = 597/692 (86%), Gaps = 3/692 (0%)

Query: 3   ITRILTLLRTCTGSKSLKE--GKIIHQKVVTLGLQNNIALCKSLINLYFSCQNYDYAMLV 60
           + R   L R   GS +L+E  GK+IHQK+V+LGLQNNI LCKSLINLYFSC  +  A LV
Sbjct: 194 LARNRCLARVTAGS-ALEELLGKLIHQKIVSLGLQNNITLCKSLINLYFSCHLFQSAKLV 252

Query: 61  FKTIDNPLDLSLWNGLMASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLG 120
           F+TI+NPLD++LWNGLMA+ TKN+++I  LE+F  LL  PYLKPD++TYPSVLKAC GLG
Sbjct: 253 FQTIENPLDITLWNGLMAACTKNFIFIEGLEVFHRLLHFPYLKPDAFTYPSVLKACSGLG 312

Query: 121 SVGIGKMIHTHLIKTGFLLDVVIASSTAGMYAKCNSFECAVKMFDEMSERDVASWNTVIS 180
            VG GKM+HTH+IK+GF +DVV+ SS  GMYAKCN FE A+K+FDEM ERDVASWN VIS
Sbjct: 313 RVGYGKMVHTHVIKSGFAMDVVVMSSAVGMYAKCNVFEDAIKLFDEMPERDVASWNNVIS 372

Query: 181 CYYQDGQAEKALELFKKMRGSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVS 240
           CYYQDGQ EKALELF++M+ SGF+P+SVTLTTVISSCARL+DL+RGKEIH E ++ GF  
Sbjct: 373 CYYQDGQPEKALELFEEMKVSGFKPDSVTLTTVISSCARLLDLERGKEIHMELVRSGFAL 432

Query: 241 DSYISSALVDMYGKCGCLEMAREVFEQTVLKSVVAWNALIAGYSSRGDSKSCVKLFWRMN 300
           D ++SSALVDMYGKCGCLEMA+EVFEQ   K+VV+WN++IAGYS +GDSKSC++LF RM+
Sbjct: 433 DGFVSSALVDMYGKCGCLEMAKEVFEQIQRKNVVSWNSMIAGYSLKGDSKSCIELFRRMD 492

Query: 301 EEGIKPTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVS 360
           EEGI+PTLTT+SS+LM+CSRS  L+ GK +HGYIIRN+++ D+F+NSSLIDLYFKCG + 
Sbjct: 493 EEGIRPTLTTLSSILMACSRSVNLQLGKFIHGYIIRNRVEADIFVNSSLIDLYFKCGNIG 552

Query: 361 SAENVFEKMSKTDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACS 420
           SAENVF+ M KT+VV WNVMISGYV VG Y +AL I++DM++ G KPDA+TFTSVLPACS
Sbjct: 553 SAENVFQNMPKTNVVSWNVMISGYVKVGSYLEALVIFTDMRKAGVKPDAITFTSVLPACS 612

Query: 421 QLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPERDLVSWTS 480
           QLA LEKGKEIHN IIESKLE NE+VMGALLDMYAKCGAVDEA  +FN+LPERD VSWTS
Sbjct: 613 QLAVLEKGKEIHNFIIESKLEINEVVMGALLDMYAKCGAVDEALHIFNQLPERDFVSWTS 672

Query: 481 MIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEY 540
           MIAAYGSHG+A EALKLF +MQQS+A+PD +TFLA+LSACSHAG VDEG YYFN MI+EY
Sbjct: 673 MIAAYGSHGQAFEALKLFEKMQQSDAKPDKVTFLAILSACSHAGLVDEGCYYFNQMIAEY 732

Query: 541 NIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRDIEMGEK 600
             +P  EHYSCLIDLLGR GRL+EAY ILQ TP+IRED GLLSTLFSAC LH+ +++GE+
Sbjct: 733 GFKPAVEHYSCLIDLLGRVGRLREAYEILQRTPDIREDVGLLSTLFSACHLHKKLDLGEQ 792

Query: 601 IAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELGLRKNPGCSWIEIGDRIQ 660
           I +LLIEKDPDD STYI+LSNMYASVKKWDEVRK+RLK+KELGL+KNPGCSWIE+G RI 
Sbjct: 793 IGRLLIEKDPDDPSTYIILSNMYASVKKWDEVRKVRLKIKELGLKKNPGCSWIEVGKRIH 852

Query: 661 PFFAEDKFYPQADMVYECLAILAGHMEKDELL 692
           PF  EDK +PQADM+YEC++ILA H+EK ++L
Sbjct: 853 PFVVEDKSHPQADMIYECMSILASHVEKYQVL 884

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356524187|ref|XP_003530713.1| PREDICTED: pentatricopeptide repeat-containing protein At5g27110-like [Glycine max]

 Score =  997 bits (2578), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 475/693 (68%), Positives = 566/693 (81%), Gaps = 1/693 (0%)

Query: 1   MNITRILTLLRTCTGSKSLKEGKIIHQKVVTLGLQNNIALCKSLINLYFSCQNYDYAMLV 60
           M+  ++L LLR C  SKSLK+GK+IHQKVVTLGLQN+I LCK+LINLY SC  YD+A  V
Sbjct: 1   MDTRKLLPLLRACMNSKSLKQGKLIHQKVVTLGLQNDIFLCKNLINLYLSCHLYDHAKCV 60

Query: 61  FKTIDNPLDLSLWNGLMASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLG 120
           F  ++NP ++SLWNGLMA YTKNYMY+ ALELF+ LL  PYLKPDSYTYPSVLKACGGL 
Sbjct: 61  FDNMENPCEISLWNGLMAGYTKNYMYVEALELFEKLLHYPYLKPDSYTYPSVLKACGGLY 120

Query: 121 SVGIGKMIHTHLIKTGFLLDVVIASSTAGMYAKCNSFECAVKMFDEMSERDVASWNTVIS 180
              +GKMIHT L+KTG ++D+V+ SS  GMYAKCN+FE A+ +F+EM E+DVA WNTVIS
Sbjct: 121 KYVLGKMIHTCLVKTGLMMDIVVGSSLVGMYAKCNAFEKAIWLFNEMPEKDVACWNTVIS 180

Query: 181 CYYQDGQAEKALELFKKMRGSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVS 240
           CYYQ G  ++ALE F  MR  GF+PNSVT+TT ISSCARL+DL+RG EIH+E I  GF+ 
Sbjct: 181 CYYQSGNFKEALEYFGLMRRFGFEPNSVTITTAISSCARLLDLNRGMEIHEELINSGFLL 240

Query: 241 DSYISSALVDMYGKCGCLEMAREVFEQTVLKSVVAWNALIAGYSSRGDSKSCVKLFWRMN 300
           DS+ISSALVDMYGKCG LEMA EVFEQ   K+VVAWN++I+GY  +GDS SC++LF RM 
Sbjct: 241 DSFISSALVDMYGKCGHLEMAIEVFEQMPKKTVVAWNSMISGYGLKGDSISCIQLFKRMY 300

Query: 301 EEGIKPTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVS 360
            EG+KPTLTT+SS++M CSRS +L  GK +HGY IRN+IQ DVFINSSL+DLYFKCG+V 
Sbjct: 301 NEGVKPTLTTLSSLIMVCSRSARLLEGKFVHGYTIRNRIQSDVFINSSLMDLYFKCGKVE 360

Query: 361 SAENVFEKMSKTDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACS 420
            AEN+F+ + K+ VV WNVMISGYV  G  F+AL ++S+M++   +PDA+TFTSVL ACS
Sbjct: 361 LAENIFKLIPKSKVVSWNVMISGYVAEGKLFEALGLFSEMRKSYVEPDAITFTSVLTACS 420

Query: 421 QLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPERDLVSWTS 480
           QLAALEKG+EIHN IIE KL+ NE+VMGALLDMYAKCGAVDEAF VF  LP+RDLVSWTS
Sbjct: 421 QLAALEKGEEIHNLIIEKKLDNNEVVMGALLDMYAKCGAVDEAFSVFKCLPKRDLVSWTS 480

Query: 481 MIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEY 540
           MI AYGSHG+A  AL+LF EM QSN +PD +TFLA+LSAC HAG VDEG YYFN M++ Y
Sbjct: 481 MITAYGSHGQAYVALELFAEMLQSNMKPDRVTFLAILSACGHAGLVDEGCYYFNQMVNVY 540

Query: 541 NIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRDIEMGEK 600
            I PR EHYSCLIDLLGRAGRL EAY ILQ  PEIR+D  LLSTLFSACRLHR+I++G +
Sbjct: 541 GIIPRVEHYSCLIDLLGRAGRLHEAYEILQQNPEIRDDVELLSTLFSACRLHRNIDLGAE 600

Query: 601 IAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELGLRKNPGCSWIEIGDRIQ 660
           IA+ LI+KDPDDSSTYI+LSNMYAS  KWDEVR +R KMKELGL+KNPGCSWIEI  +I 
Sbjct: 601 IARTLIDKDPDDSSTYILLSNMYASAHKWDEVRVVRSKMKELGLKKNPGCSWIEINQKIL 660

Query: 661 PFFAEDKFYPQADMVYECLAILAGHMEKDELLP 693
           PFF ED  +   ++V++CL+ L+ HME DE  P
Sbjct: 661 PFFVEDNSHLHLELVFKCLSYLSDHME-DESKP 692

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356554981|ref|XP_003545819.1| PREDICTED: pentatricopeptide repeat-containing protein At5g27110-like [Glycine max]

 Score =  982 bits (2538), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 466/689 (67%), Positives = 555/689 (80%)

Query: 1   MNITRILTLLRTCTGSKSLKEGKIIHQKVVTLGLQNNIALCKSLINLYFSCQNYDYAMLV 60
           M+  ++L LLR C  SKSLK+GK+IHQKVVTLGLQN+I LCK+LIN Y SC  YD+A  V
Sbjct: 1   MDTRKLLPLLRACMNSKSLKQGKLIHQKVVTLGLQNDIFLCKTLINQYLSCHLYDHAKCV 60

Query: 61  FKTIDNPLDLSLWNGLMASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLG 120
           F  ++NP ++SLWNGLMA YTKNYMY+ ALELF+ LL  PYLKPDSYTYPSV KACGGL 
Sbjct: 61  FDNMENPCEISLWNGLMAGYTKNYMYVEALELFEKLLHYPYLKPDSYTYPSVFKACGGLH 120

Query: 121 SVGIGKMIHTHLIKTGFLLDVVIASSTAGMYAKCNSFECAVKMFDEMSERDVASWNTVIS 180
              +GKMIHT LIKTG ++D+V+ SS  GMY KCN+FE A+ +F+EM E+DVA WNTVIS
Sbjct: 121 RYVLGKMIHTCLIKTGLMMDIVVGSSLVGMYGKCNAFEKAIWLFNEMPEKDVACWNTVIS 180

Query: 181 CYYQDGQAEKALELFKKMRGSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVS 240
           CYYQ G  + ALE F  MR  GF+PNSVT+TT ISSCARL+DL+RG EIH+E I  GF+ 
Sbjct: 181 CYYQSGNFKDALEYFGLMRRFGFEPNSVTITTAISSCARLLDLNRGMEIHEELINSGFLL 240

Query: 241 DSYISSALVDMYGKCGCLEMAREVFEQTVLKSVVAWNALIAGYSSRGDSKSCVKLFWRMN 300
           DS+ISSALVDMYGKCG LEMA E+FEQ   K+VVAWN++I+GY  +GD  SC++LF RM 
Sbjct: 241 DSFISSALVDMYGKCGHLEMAIEIFEQMPKKTVVAWNSMISGYGLKGDIISCIQLFKRMY 300

Query: 301 EEGIKPTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVS 360
            EG+KPTLTT+SS++M CSRS +L  GK +HGY IRN+IQ DVF+NSSL+DLYFKCG+V 
Sbjct: 301 NEGVKPTLTTLSSLIMVCSRSARLLEGKFVHGYTIRNRIQPDVFVNSSLMDLYFKCGKVE 360

Query: 361 SAENVFEKMSKTDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACS 420
            AE +F+ + K+ VV WNVMISGYV  G  F+AL ++S+M++   + DA+TFTSVL ACS
Sbjct: 361 LAEKIFKLIPKSKVVSWNVMISGYVAEGKLFEALGLFSEMRKSYVESDAITFTSVLTACS 420

Query: 421 QLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPERDLVSWTS 480
           QLAALEKGKEIHN IIE KL+ NE+VMGALLDMYAKCGAVDEAF VF  LP+RDLVSWTS
Sbjct: 421 QLAALEKGKEIHNLIIEKKLDNNEVVMGALLDMYAKCGAVDEAFSVFKCLPKRDLVSWTS 480

Query: 481 MIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEY 540
           MI AYGSHG A  AL+LF EM QSN +PD + FLA+LSAC HAG VDEG YYFN MI+ Y
Sbjct: 481 MITAYGSHGHAYGALELFAEMLQSNVKPDRVAFLAILSACGHAGLVDEGCYYFNQMINVY 540

Query: 541 NIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRDIEMGEK 600
            I PR EHYSCLIDLLGRAGRL EAY ILQ  PEIR+D  LLSTLFSACRLHR+I++G +
Sbjct: 541 GIIPRVEHYSCLIDLLGRAGRLHEAYEILQQNPEIRDDVELLSTLFSACRLHRNIDLGAE 600

Query: 601 IAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELGLRKNPGCSWIEIGDRIQ 660
           IA+ LI+KDPDDSSTYI+LSNMYAS  KWDEVR +R KMKELGL+KNPGCSWIEI  +I 
Sbjct: 601 IARTLIDKDPDDSSTYILLSNMYASAHKWDEVRVVRSKMKELGLKKNPGCSWIEINQKIL 660

Query: 661 PFFAEDKFYPQADMVYECLAILAGHMEKD 689
           PFF ED  +   ++V++CL+ L+ HME +
Sbjct: 661 PFFVEDNSHLHLELVFKCLSYLSDHMEDE 689

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449445041|ref|XP_004140282.1| PREDICTED: pentatricopeptide repeat-containing protein At5g27110-like [Cucumis sativus] gi|449481162|ref|XP_004156100.1| PREDICTED: pentatricopeptide repeat-containing protein At5g27110-like [Cucumis sativus]

 Score =  944 bits (2439), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 444/691 (64%), Positives = 547/691 (79%)

Query: 1   MNITRILTLLRTCTGSKSLKEGKIIHQKVVTLGLQNNIALCKSLINLYFSCQNYDYAMLV 60
           M+   +L+ LRTCT SK LK+GK+IHQ++ + G Q+NI L KSLI  YFSC +Y  A LV
Sbjct: 1   MDYVTLLSALRTCTSSKLLKQGKLIHQRIFSCGFQSNIVLSKSLIGFYFSCHDYASAELV 60

Query: 61  FKTIDNPLDLSLWNGLMASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLG 120
           F+T D PLD+SLWN L+++YT N+ ++ AL+LFD L  N Y++PD YTYP VLKACGGLG
Sbjct: 61  FQTNDCPLDVSLWNALLSAYTNNFRFVEALQLFDQLNCNSYVRPDFYTYPVVLKACGGLG 120

Query: 121 SVGIGKMIHTHLIKTGFLLDVVIASSTAGMYAKCNSFECAVKMFDEMSERDVASWNTVIS 180
            V  G+ IH HL+KTG + DV + SS   MYAKC+ F  A+K+FDE  +RDV  WN VIS
Sbjct: 121 RVIYGRRIHNHLLKTGLIWDVFVGSSLMNMYAKCDQFVDAIKLFDEFPQRDVGCWNAVIS 180

Query: 181 CYYQDGQAEKALELFKKMRGSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVS 240
           CY++DG+AE AL+ F KM+  GF+PNSVT T V+SSC RL++L+RGKE+H+E I+   + 
Sbjct: 181 CYFKDGKAEMALKTFDKMKELGFEPNSVTFTVVVSSCTRLLNLERGKEVHRELIERRILL 240

Query: 241 DSYISSALVDMYGKCGCLEMAREVFEQTVLKSVVAWNALIAGYSSRGDSKSCVKLFWRMN 300
           D+++ SALVDMYGKCGCLEMA+EVFE+   K+ + WNA+I GYS +GDS+SC++L  RMN
Sbjct: 241 DAFVLSALVDMYGKCGCLEMAKEVFEKIPRKNAITWNAMITGYSLKGDSRSCIELLMRMN 300

Query: 301 EEGIKPTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVS 360
           +EG KPTL T++S++ + SRS QL+HGK +HGYI+RN+I  D+FI+ SLID YFKCG VS
Sbjct: 301 DEGTKPTLMTLTSIIYASSRSVQLRHGKFIHGYILRNRIDVDIFIDVSLIDFYFKCGYVS 360

Query: 361 SAENVFEKMSKTDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACS 420
           SAE +F  +SK +VV WNVMISG+V VG++ +AL IY +MKE   KPDA+TF+S L ACS
Sbjct: 361 SAETIFRTISKNEVVSWNVMISGHVMVGNHIQALHIYDNMKEHHVKPDALTFSSTLSACS 420

Query: 421 QLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPERDLVSWTS 480
           QLAAL+KG+E+H  II  KLE NEIVMGALLDMYAKCG VDEA K+F++LP+RDLVSWTS
Sbjct: 421 QLAALDKGRELHYCIINHKLEANEIVMGALLDMYAKCGDVDEARKLFHQLPKRDLVSWTS 480

Query: 481 MIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEY 540
           MI AYGSHG+A EAL+LF EMQ+ N R DS+TFLA+LSACSHAG VDEG  YFN M+ +Y
Sbjct: 481 MIFAYGSHGQASEALRLFDEMQKLNVRADSVTFLAVLSACSHAGLVDEGYMYFNEMVVQY 540

Query: 541 NIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRDIEMGEK 600
           +I+P  EHYSCLIDLLGRAGRL EAY ILQ + E R D GLLSTLFSAC LH +  +G +
Sbjct: 541 DIKPGIEHYSCLIDLLGRAGRLHEAYEILQRSKETRSDIGLLSTLFSACLLHNNFVLGIQ 600

Query: 601 IAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELGLRKNPGCSWIEIGDRIQ 660
           I K+LIE DPDD STYI+LSNMYASV KWDEVRK+R KMKELGL+K+PGCSWIEI  RI 
Sbjct: 601 IGKMLIEVDPDDPSTYILLSNMYASVNKWDEVRKVRRKMKELGLKKSPGCSWIEINQRIH 660

Query: 661 PFFAEDKFYPQADMVYECLAILAGHMEKDEL 691
           PFFAEDK  P AD VYECL IL  HMEK+EL
Sbjct: 661 PFFAEDKSNPLADGVYECLNILGCHMEKNEL 691

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357437223|ref|XP_003588887.1| Pentatricopeptide repeat-containing protein [Medicago truncatula] gi|355477935|gb|AES59138.1| Pentatricopeptide repeat-containing protein [Medicago truncatula]

 Score =  939 bits (2427), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 457/693 (65%), Positives = 551/693 (79%), Gaps = 1/693 (0%)

Query: 1   MNITRILTLLRTCTGSKSLKEGKIIHQKVVTLGLQNNIALCKSLINLYFSCQNYDYAMLV 60
           M+  +++ LLR    SKSLK+GK++HQKVVTLGLQN++ +CK+LI+LY SC  +DYA  V
Sbjct: 1   MDARKLIPLLRASVNSKSLKQGKVLHQKVVTLGLQNDVYVCKNLISLYVSCNLFDYAKNV 60

Query: 61  FKTIDNPLDLSLWNGLMASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLG 120
           F  I+NP ++SL NGLMA YT+N MY  AL LFD L+  P LKPDSYTYPSVLKACGGL 
Sbjct: 61  FDVIENPFEISLCNGLMAGYTRNCMYDEALGLFDKLMCYPCLKPDSYTYPSVLKACGGLR 120

Query: 121 SVGIGKMIHTHLIKTGFLLDVVIASSTAGMYAKCNSFECAVKMFDEMSERDVASWNTVIS 180
            V +G+MIHT L+K G ++D+V+ SS  GMYAKCN FECAVK+FDEM ++DVA WNTVIS
Sbjct: 121 RVVLGQMIHTCLVKEGLMVDIVVGSSLVGMYAKCNEFECAVKLFDEMPDKDVACWNTVIS 180

Query: 181 CYYQDGQAEKALELFKKMRGSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVS 240
           CYYQ G+ E+AL  F  MR  GF+P+SVT+TT ISSCARL+DLDRG+EIHKE +  GF  
Sbjct: 181 CYYQSGKFEEALRYFGMMRRFGFEPDSVTITTAISSCARLLDLDRGREIHKELVNSGFRM 240

Query: 241 DSYISSALVDMYGKCGCLEMAREVFEQTVLKSVVAWNALIAGYSSRGDSKSCVKLFWRMN 300
           DS++S+ALVDMYGKCG LEMA EVFEQ   K+VVAWN++I GY  +GD  SC++LF RM 
Sbjct: 241 DSFVSAALVDMYGKCGQLEMAIEVFEQMPNKTVVAWNSMINGYGFKGDGISCIQLFKRMY 300

Query: 301 EEGIKPTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVS 360
            EG+KPTLTT++S LM+CS+S QL  GK +HGYIIRN+IQ D+F+NSSL+DLYFKCG+V 
Sbjct: 301 SEGVKPTLTTLTSTLMACSQSAQLLEGKFVHGYIIRNRIQPDIFLNSSLMDLYFKCGKVE 360

Query: 361 SAENVFEKMSKTDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACS 420
           SAE +F+ M KT  V WNVMISGYVT G  F AL ++ +M +   +PDA+TFTSVL ACS
Sbjct: 361 SAETIFKLMPKTTTVSWNVMISGYVTEGKLFDALRLFGEMSKSFVEPDAITFTSVLAACS 420

Query: 421 QLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPERDLVSWTS 480
           QLAALEKG+EIHN I+E  L  NE+VMGALLDMYAKCGAV+EAF VF  LPERDLVSWTS
Sbjct: 421 QLAALEKGREIHNLIVERNLGNNEVVMGALLDMYAKCGAVEEAFGVFKCLPERDLVSWTS 480

Query: 481 MIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEY 540
           MI AYGSHGR  EAL+LF EM QSN +PD +TFLA+LSACSHAG VD+G Y+FN MI+ Y
Sbjct: 481 MITAYGSHGRVYEALELFAEMLQSNVKPDRVTFLAILSACSHAGLVDDGLYHFNQMINVY 540

Query: 541 NIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRDIEMGEK 600
            I PR EHYSCLI LLGRAGRL EAY ILQS PEI +D  LLSTLFSACRLH+++++G +
Sbjct: 541 GIIPRIEHYSCLITLLGRAGRLHEAYEILQSNPEISDDFQLLSTLFSACRLHKNLDLGVE 600

Query: 601 IAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELGLRKNPGCSWIEIGDRIQ 660
           IA+ LI+KDPDDSSTYI+LSNMYAS  KWDEVR +R KMK+LGL+KNPGCSWIEI ++I 
Sbjct: 601 IAENLIDKDPDDSSTYIILSNMYASFGKWDEVRMVRSKMKDLGLKKNPGCSWIEINEKIV 660

Query: 661 PFFAEDKFYPQADMVYECLAILAGHMEKDELLP 693
           PFF ED  +   + +   L+ L  HME DE  P
Sbjct: 661 PFFVEDNSHYHLEGIGNILSYLTSHME-DECKP 692

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297808809|ref|XP_002872288.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata] gi|297318125|gb|EFH48547.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata]

 Score =  869 bits (2245), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 408/687 (59%), Positives = 537/687 (78%)

Query: 1   MNITRILTLLRTCTGSKSLKEGKIIHQKVVTLGLQNNIALCKSLINLYFSCQNYDYAMLV 60
           M  +++L+LLR CT +KSL++ K++HQ+++T+GL++++ LCKSLIN+YF+C+++  A LV
Sbjct: 1   MESSKLLSLLRECTNTKSLRQAKLVHQRILTVGLRSDVVLCKSLINVYFACKDHCSARLV 60

Query: 61  FKTIDNPLDLSLWNGLMASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLG 120
           F+ ID   D+ +WN L++ Y+KN M+   L++F  LL  P   PDS+TYP+V+KA G LG
Sbjct: 61  FENIDIRSDVYIWNSLVSGYSKNSMFHDTLKVFKRLLNCPICVPDSFTYPNVIKAYGALG 120

Query: 121 SVGIGKMIHTHLIKTGFLLDVVIASSTAGMYAKCNSFECAVKMFDEMSERDVASWNTVIS 180
              +G+MIHT ++K+G + DVV+ASS  GMYAK N FE +V++FDEM ERDVASWNTVIS
Sbjct: 121 REFLGRMIHTVVVKSGHVCDVVVASSLVGMYAKFNLFEDSVQVFDEMPERDVASWNTVIS 180

Query: 181 CYYQDGQAEKALELFKKMRGSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVS 240
            +YQ G AEKALELF +M  S F+PNSV++T  IS+C+RL+ L+RGKEIH++++K  F  
Sbjct: 181 SFYQRGDAEKALELFGRMERSDFEPNSVSITVAISACSRLLCLERGKEIHRKYLKKEFEL 240

Query: 241 DSYISSALVDMYGKCGCLEMAREVFEQTVLKSVVAWNALIAGYSSRGDSKSCVKLFWRMN 300
           D Y++SALVDMYG+C  LEMAREVF+Q   KS+VAWN++I GY +RGDSKSCV+L  RM 
Sbjct: 241 DEYVNSALVDMYGRCDFLEMAREVFQQMRRKSLVAWNSMIRGYVARGDSKSCVELLNRMI 300

Query: 301 EEGIKPTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVS 360
            EG +P+ TT++S+LM+CSRS  L HGK +HGY+IR+ +  D++IN SLIDLYFKCG V 
Sbjct: 301 IEGTRPSQTTLTSILMACSRSRNLLHGKFVHGYVIRSVVDADIYINCSLIDLYFKCGEVK 360

Query: 361 SAENVFEKMSKTDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACS 420
            AE VF K  K  V  WNVMISGYV+VG++FKA+ +Y  M  VG +PD VTFTSVL  CS
Sbjct: 361 LAETVFLKTQKDVVESWNVMISGYVSVGNWFKAVDVYDQMVSVGVQPDIVTFTSVLSTCS 420

Query: 421 QLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPERDLVSWTS 480
           QLAALEKGK+IH  I ES+LET+E+++ ALLDMY+KCG V EA ++FN +P++D+VSWT 
Sbjct: 421 QLAALEKGKQIHLSISESRLETDELLLSALLDMYSKCGNVKEASRIFNSIPKKDVVSWTV 480

Query: 481 MIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEY 540
           MI+AYGSHG+  EAL  F EMQ+   +PD +TFLA+LSAC HAG +DEG  YF+ M S+Y
Sbjct: 481 MISAYGSHGQPREALYHFDEMQKFGVKPDGVTFLAVLSACGHAGLIDEGVKYFSQMRSKY 540

Query: 541 NIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRDIEMGEK 600
            I+   E YSCLID+LGRAGRL EAYGILQ  PE R++A LLSTLF AC LHRD  +G  
Sbjct: 541 GIEASIEQYSCLIDILGRAGRLLEAYGILQQKPETRDNAELLSTLFCACCLHRDHLLGYT 600

Query: 601 IAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELGLRKNPGCSWIEIGDRIQ 660
           IAKLL+EK PDD+STY VL N+YAS + WD  +++RLKMKE+G+RK PGCSWIE+ +++ 
Sbjct: 601 IAKLLVEKYPDDASTYTVLFNLYASGESWDAAKRVRLKMKEVGMRKKPGCSWIEMNEKVC 660

Query: 661 PFFAEDKFYPQADMVYECLAILAGHME 687
            FFAED+ +PQA+ VYECLA+L+GHME
Sbjct: 661 HFFAEDRSHPQAENVYECLALLSGHME 687

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15240444|ref|NP_198063.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|223635756|sp|O04659.2|PP398_ARATH RecName: Full=Pentatricopeptide repeat-containing protein At5g27110 gi|332006268|gb|AED93651.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana]

 Score =  864 bits (2233), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 402/691 (58%), Positives = 539/691 (78%), Gaps = 1/691 (0%)

Query: 1   MNITRILTLLRTCTGS-KSLKEGKIIHQKVVTLGLQNNIALCKSLINLYFSCQNYDYAML 59
           M  +++L+LLR CT S KSL+  K++HQ+++TLGL+ ++ LCKSLIN+YF+C+++  A  
Sbjct: 1   MESSKLLSLLRECTNSTKSLRRIKLVHQRILTLGLRRDVVLCKSLINVYFTCKDHCSARH 60

Query: 60  VFKTIDNPLDLSLWNGLMASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGL 119
           VF+  D   D+ +WN LM+ Y+KN M+   LE+F  LL      PDS+T+P+V+KA G L
Sbjct: 61  VFENFDIRSDVYIWNSLMSGYSKNSMFHDTLEVFKRLLNCSICVPDSFTFPNVIKAYGAL 120

Query: 120 GSVGIGKMIHTHLIKTGFLLDVVIASSTAGMYAKCNSFECAVKMFDEMSERDVASWNTVI 179
           G   +G+MIHT ++K+G++ DVV+ASS  GMYAK N FE ++++FDEM ERDVASWNTVI
Sbjct: 121 GREFLGRMIHTLVVKSGYVCDVVVASSLVGMYAKFNLFENSLQVFDEMPERDVASWNTVI 180

Query: 180 SCYYQDGQAEKALELFKKMRGSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFV 239
           SC+YQ G+AEKALELF +M  SGF+PNSV+LT  IS+C+RL+ L+RGKEIH++ +K GF 
Sbjct: 181 SCFYQSGEAEKALELFGRMESSGFEPNSVSLTVAISACSRLLWLERGKEIHRKCVKKGFE 240

Query: 240 SDSYISSALVDMYGKCGCLEMAREVFEQTVLKSVVAWNALIAGYSSRGDSKSCVKLFWRM 299
            D Y++SALVDMYGKC CLE+AREVF++   KS+VAWN++I GY ++GDSKSCV++  RM
Sbjct: 241 LDEYVNSALVDMYGKCDCLEVAREVFQKMPRKSLVAWNSMIKGYVAKGDSKSCVEILNRM 300

Query: 300 NEEGIKPTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRV 359
             EG +P+ TT++S+LM+CSRS  L HGK +HGY+IR+ +  D+++N SLIDLYFKCG  
Sbjct: 301 IIEGTRPSQTTLTSILMACSRSRNLLHGKFIHGYVIRSVVNADIYVNCSLIDLYFKCGEA 360

Query: 360 SSAENVFEKMSKTDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPAC 419
           + AE VF K  K     WNVMIS Y++VG++FKA+ +Y  M  VG KPD VTFTSVLPAC
Sbjct: 361 NLAETVFSKTQKDVAESWNVMISSYISVGNWFKAVEVYDQMVSVGVKPDVVTFTSVLPAC 420

Query: 420 SQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPERDLVSWT 479
           SQLAALEKGK+IH  I ES+LET+E+++ ALLDMY+KCG   EAF++FN +P++D+VSWT
Sbjct: 421 SQLAALEKGKQIHLSISESRLETDELLLSALLDMYSKCGNEKEAFRIFNSIPKKDVVSWT 480

Query: 480 SMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISE 539
            MI+AYGSHG+  EAL  F EMQ+   +PD +T LA+LSAC HAG +DEG  +F+ M S+
Sbjct: 481 VMISAYGSHGQPREALYQFDEMQKFGLKPDGVTLLAVLSACGHAGLIDEGLKFFSQMRSK 540

Query: 540 YNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRDIEMGE 599
           Y I+P  EHYSC+ID+LGRAGRL EAY I+Q TPE  ++A LLSTLFSAC LH +  +G+
Sbjct: 541 YGIEPIIEHYSCMIDILGRAGRLLEAYEIIQQTPETSDNAELLSTLFSACCLHLEHSLGD 600

Query: 600 KIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELGLRKNPGCSWIEIGDRI 659
           +IA+LL+E  PDD+STY+VL N+YAS + WD  R++RLKMKE+GLRK PGCSWIE+ D++
Sbjct: 601 RIARLLVENYPDDASTYMVLFNLYASGESWDAARRVRLKMKEMGLRKKPGCSWIEMSDKV 660

Query: 660 QPFFAEDKFYPQADMVYECLAILAGHMEKDE 690
             FFAED+ + +A+ VYECLA+L+GHME  +
Sbjct: 661 CHFFAEDRSHLRAENVYECLALLSGHMESGQ 691

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255572205|ref|XP_002527042.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223533604|gb|EEF35342.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  739 bits (1909), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 343/497 (69%), Positives = 418/497 (84%), Gaps = 3/497 (0%)

Query: 77  MASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLGSVGIGKMIHTHLIKTG 136
           MA+YTKN MY  ALELFD LLQ PYL+PDS+TYPSVLKACGGLG    G+MIHTHLIK+G
Sbjct: 1   MAAYTKNCMYTEALELFDRLLQYPYLQPDSFTYPSVLKACGGLGRYDYGRMIHTHLIKSG 60

Query: 137 FLLDVVIASSTAGMYAKCNSFECAVKMFDEMSERDVASWNTVISCYYQDGQAEKALELFK 196
           F+ D+V+ASS   ++AKCN F  A+++FDEM ERDVA WNTVISCYYQDG+AEKALE+F 
Sbjct: 61  FVFDIVVASSLVSLHAKCNLFGYAIQLFDEMPERDVACWNTVISCYYQDGKAEKALEMFG 120

Query: 197 KMRGSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVSDSYISSALVDMYGKCG 256
           KMR SGF+PNSVTLTTVISSCARL+DL+RGKEIH+E +++G V D ++ SALVDMYGK G
Sbjct: 121 KMRDSGFEPNSVTLTTVISSCARLLDLERGKEIHREVMQNGMVLDGFVGSALVDMYGKFG 180

Query: 257 CLEMAREVFEQTVLKSVVAWNALIAGYSSRGDSKSCVKLFWRMNEEGIKPTLTTISSVLM 316
           CL++A+++FEQ   K++VAWN+LIAGYSS  DSK C++LFWRMN EG KPT+TT+SS+L+
Sbjct: 181 CLDLAKDIFEQMPKKTLVAWNSLIAGYSSAADSKECIELFWRMNMEGTKPTVTTLSSILL 240

Query: 317 SCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAENVFEKMSKTDVVY 376
           +CSR+  L+HG+ +HGY +RN++Q D+F++S LI+LYFKCG+V SAEN+F  + K +VV 
Sbjct: 241 ACSRAAHLQHGRFIHGYAVRNRVQLDIFVSSGLIELYFKCGKVQSAENIFYMLPKANVVL 300

Query: 377 WNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHII 436
           WNVMISGYVT+GDY KAL +Y +MK    KPDAVTF+S+L ACSQLAALEKGKEIHN I 
Sbjct: 301 WNVMISGYVTIGDYVKALDMYDEMKIASVKPDAVTFSSILSACSQLAALEKGKEIHNCIT 360

Query: 437 ESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPERDLVSWTSMIAAYGSHGRALEALK 496
           ++ LETNEIVMGALLDMYAKCGAVDEA  VFN+LPERDL+SWTS+I+AYGSHG+ALEAL+
Sbjct: 361 KNDLETNEIVMGALLDMYAKCGAVDEALSVFNKLPERDLLSWTSIISAYGSHGQALEALR 420

Query: 497 LFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLL 556
           LF E+QQS A PD++TFLA+LSACSHAG VD+G YYFN MI+ Y I+P  EHYSCLIDLL
Sbjct: 421 LFEELQQSKASPDAVTFLAVLSACSHAGLVDKGYYYFNQMITNYGIKPGLEHYSCLIDLL 480

Query: 557 GRAGRLQEAYGILQSTP 573
              GR+QE    L   P
Sbjct: 481 ---GRIQEQSQELNEIP 494

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|2191182|gb|AAB61067.1| similar to N. tabacum membrane-associated salt-inducible protein (PID:g473874) [Arabidopsis thaliana]

 Score =  649 bits (1674), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 320/596 (53%), Positives = 422/596 (70%), Gaps = 37/596 (6%)

Query: 102 LKPDSYTYPSVLKAC-GGLGSVGIGKMIHTHLIKTGFLLDVVIASSTAGMYAKCNSFECA 160
           L+ +S    S+L+ C     S+   K++H  ++  G   DVV+  S   +Y  C     A
Sbjct: 26  LEMESSKLLSLLRECTNSTKSLRRIKLVHQRILTLGLRRDVVLCKSLINVYFTCKDHCSA 85

Query: 161 VKMFDEMSER-DV--------ASWNTVISCYYQDGQAEKALELFKKMRGSGFQPNSVTLT 211
             +F+    R DV        ASWNTVISC+YQ G+AEKALELF +M  SGF+PNSV+LT
Sbjct: 86  RHVFENFDIRSDVYIWNSLMSASWNTVISCFYQSGEAEKALELFGRMESSGFEPNSVSLT 145

Query: 212 TVISSCARLMDLDRGKEIHKEFIKDGFVSDSYISSALVDMYGKCGCLEMAREVFEQTVLK 271
             IS+C+RL+ L+RGKEIH++ +K GF  D Y++SALVDMYGKC CLE+AREVF++   K
Sbjct: 146 VAISACSRLLWLERGKEIHRKCVKKGFELDEYVNSALVDMYGKCDCLEVAREVFQKMPRK 205

Query: 272 SVVAWNALIAGYSSRGDSKSCVKLFWRMNEEGIKPTLTTISSVLMSCSRSGQLKHGKVMH 331
           S+VAWN++I GY ++GDSKSCV++  RM  EG +P+ TT++S+LM+CSRS  L HGK +H
Sbjct: 206 SLVAWNSMIKGYVAKGDSKSCVEILNRMIIEGTRPSQTTLTSILMACSRSRNLLHGKFIH 265

Query: 332 GYIIRNKIQGDVFINSSLIDLYFKCGRVSSAENVFEKMSKTDVVYWNVMISGYVTVGDYF 391
             +                           AE VF K  K     WNVMIS Y++VG++F
Sbjct: 266 ANL---------------------------AETVFSKTQKDVAESWNVMISSYISVGNWF 298

Query: 392 KALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALL 451
           KA+ +Y  M  VG KPD VTFTSVLPACSQLAALEKGK+IH  I ES+LET+E+++ ALL
Sbjct: 299 KAVEVYDQMVSVGVKPDVVTFTSVLPACSQLAALEKGKQIHLSISESRLETDELLLSALL 358

Query: 452 DMYAKCGAVDEAFKVFNELPERDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSI 511
           DMY+KCG   EAF++FN +P++D+VSWT MI+AYGSHG+  EAL  F EMQ+   +PD +
Sbjct: 359 DMYSKCGNEKEAFRIFNSIPKKDVVSWTVMISAYGSHGQPREALYQFDEMQKFGLKPDGV 418

Query: 512 TFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQS 571
           T LA+LSAC HAG +DEG  +F+ M S+Y I+P  EHYSC+ID+LGRAGRL EAY I+Q 
Sbjct: 419 TLLAVLSACGHAGLIDEGLKFFSQMRSKYGIEPIIEHYSCMIDILGRAGRLLEAYEIIQQ 478

Query: 572 TPEIREDAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDE 631
           TPE  ++A LLSTLFSAC LH +  +G++IA+LL+E  PDD+STY+VL N+YAS + WD 
Sbjct: 479 TPETSDNAELLSTLFSACCLHLEHSLGDRIARLLVENYPDDASTYMVLFNLYASGESWDA 538

Query: 632 VRKIRLKMKELGLRKNPGCSWIEIGDRIQPFFAEDKFYPQADMVYECLAILAGHME 687
            R++RLKMKE+GLRK PGCSWIE+ D++  FFAED+ + +A+ VYECLA+L+GHME
Sbjct: 539 ARRVRLKMKEMGLRKKPGCSWIEMSDKVCHFFAEDRSHLRAENVYECLALLSGHME 594

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	694
TAIR|locus:2181201	691	AT5G27110 [Arabidopsis thalian	0.976	0.981	0.584	1.2e-223
TAIR|locus:2124137	871	DOT4 "DEFECTIVELY ORGANIZED TR	0.974	0.776	0.378	2.6e-127
TAIR|locus:2103483	890	OTP84 "ORGANELLE TRANSCRIPT PR	0.971	0.757	0.358	3.5e-123
TAIR|locus:2202074	809	CRR22 "CHLORORESPIRATORY REDUC	0.969	0.831	0.359	2.8e-121
TAIR|locus:2096414	882	AT3G03580 [Arabidopsis thalian	0.972	0.765	0.357	6e-119
TAIR|locus:2095289	1028	AT3G09040 "AT3G09040" [Arabido	0.966	0.652	0.353	1.6e-116
TAIR|locus:2082886	850	EMB2261 "embryo defective 2261	0.992	0.810	0.341	1.6e-116
TAIR|locus:2196583	866	ECB2 "EARLY CHLOROPLAST BIOGEN	0.962	0.771	0.338	3.4e-116
TAIR|locus:2141171	857	AT4G21300 [Arabidopsis thalian	0.975	0.789	0.348	4.5e-114
TAIR|locus:2007116	787	AT1G69350 "AT1G69350" [Arabido	0.971	0.856	0.352	5.2e-113

TAIR|locus:2181201 AT5G27110 [Arabidopsis thaliana (taxid:3702)]

 Score = 2159 (765.1 bits), Expect = 1.2e-223, P = 1.2e-223
 Identities = 397/679 (58%), Positives = 530/679 (78%)

Query:    13 CTGS-KSLKEGKIIHQKVVTLGLQNNIALCKSLINLYFSCQNYDYAMLVFKTIDNPLDLS 71
             CT S KSL+  K++HQ+++TLGL+ ++ LCKSLIN+YF+C+++  A  VF+  D   D+ 
Sbjct:    13 CTNSTKSLRRIKLVHQRILTLGLRRDVVLCKSLINVYFTCKDHCSARHVFENFDIRSDVY 72

Query:    72 LWNGLMASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLGSVGIGKMIHTH 131
             +WN LM+ Y+KN M+   LE+F  LL      PDS+T+P+V+KA G LG   +G+MIHT 
Sbjct:    73 IWNSLMSGYSKNSMFHDTLEVFKRLLNCSICVPDSFTFPNVIKAYGALGREFLGRMIHTL 132

Query:   132 LIKTGFLLDVVIASSTAGMYAKCNSFECAVKMFDEMSERDVASWNTVISCYYQDGQAEKA 191
             ++K+G++ DVV+ASS  GMYAK N FE ++++FDEM ERDVASWNTVISC+YQ G+AEKA
Sbjct:   133 VVKSGYVCDVVVASSLVGMYAKFNLFENSLQVFDEMPERDVASWNTVISCFYQSGEAEKA 192

Query:   192 LELFKKMRGSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVSDSYISSALVDM 251
             LELF +M  SGF+PNSV+LT  IS+C+RL+ L+RGKEIH++ +K GF  D Y++SALVDM
Sbjct:   193 LELFGRMESSGFEPNSVSLTVAISACSRLLWLERGKEIHRKCVKKGFELDEYVNSALVDM 252

Query:   252 YGKCGCLEMAREVFEQTVLKSVVAWNALIAGYSSRGDSKSCVKLFWRMNEEGIKPTLTTI 311
             YGKC CLE+AREVF++   KS+VAWN++I GY ++GDSKSCV++  RM  EG +P+ TT+
Sbjct:   253 YGKCDCLEVAREVFQKMPRKSLVAWNSMIKGYVAKGDSKSCVEILNRMIIEGTRPSQTTL 312

Query:   312 SSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAENVFEKMSK 371
             +S+LM+CSRS  L HGK +HGY+IR+ +  D+++N SLIDLYFKCG  + AE VF K  K
Sbjct:   313 TSILMACSRSRNLLHGKFIHGYVIRSVVNADIYVNCSLIDLYFKCGEANLAETVFSKTQK 372

Query:   372 TDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEI 431
                  WNVMIS Y++VG++FKA+ +Y  M  VG KPD VTFTSVLPACSQLAALEKGK+I
Sbjct:   373 DVAESWNVMISSYISVGNWFKAVEVYDQMVSVGVKPDVVTFTSVLPACSQLAALEKGKQI 432

Query:   432 HNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPERDLVSWTSMIAAYGSHGRA 491
             H  I ES+LET+E+++ ALLDMY+KCG   EAF++FN +P++D+VSWT MI+AYGSHG+ 
Sbjct:   433 HLSISESRLETDELLLSALLDMYSKCGNEKEAFRIFNSIPKKDVVSWTVMISAYGSHGQP 492

Query:   492 LEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSC 551
              EAL  F EMQ+   +PD +T LA+LSAC HAG +DEG  +F+ M S+Y I+P  EHYSC
Sbjct:   493 REALYQFDEMQKFGLKPDGVTLLAVLSACGHAGLIDEGLKFFSQMRSKYGIEPIIEHYSC 552

Query:   552 LIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPD 611
             +ID+LGRAGRL EAY I+Q TPE  ++A LLSTLFSAC LH +  +G++IA+LL+E  PD
Sbjct:   553 MIDILGRAGRLLEAYEIIQQTPETSDNAELLSTLFSACCLHLEHSLGDRIARLLVENYPD 612

Query:   612 DSSTYIVLSNMYASVKKWDEVRKIRLKMKELGLRKNPGCSWIEIGDRIQPFFAEDKFYPQ 671
             D+STY+VL N+YAS + WD  R++RLKMKE+GLRK PGCSWIE+ D++  FFAED+ + +
Sbjct:   613 DASTYMVLFNLYASGESWDAARRVRLKMKEMGLRKKPGCSWIEMSDKVCHFFAEDRSHLR 672

Query:   672 ADMVYECLAILAGHMEKDE 690
             A+ VYECLA+L+GHME  +
Sbjct:   673 AENVYECLALLSGHMESGQ 691

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 1250 (445.1 bits), Expect = 2.6e-127, P = 2.6e-127
 Identities = 259/684 (37%), Positives = 412/684 (60%)

Query:    13 CTGSKSLKEGKIIHQKVVTLGLQNNIALCKSLINLYFSCQNYDYAMLVFKTIDNPLDLSL 72
             C  SKSLK+GK +   +   G   +  L   L  +Y +C +   A  VF  +     L  
Sbjct:   104 CADSKSLKDGKEVDNFIRGNGFVIDSNLGSKLSLMYTNCGDLKEASRVFDEVKIEKAL-F 162

Query:    73 WNGLMASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLGSVGIGKMIHTHL 132
             WN LM    K+  +  ++ LF  ++ +  ++ DSYT+  V K+   L SV  G+ +H  +
Sbjct:   163 WNILMNELAKSGDFSGSIGLFKKMMSSG-VEMDSYTFSCVSKSFSSLRSVHGGEQLHGFI 221

Query:   133 IKTGFLLDVVIASSTAGMYAKCNSFECAVKMFDEMSERDVASWNTVISCYYQDGQAEKAL 192
             +K+GF     + +S    Y K    + A K+FDEM+ERDV SWN++I+ Y  +G AEK L
Sbjct:   222 LKSGFGERNSVGNSLVAFYLKNQRVDSARKVFDEMTERDVISWNSIINGYVSNGLAEKGL 281

Query:   193 ELFKKMRGSGFQPNSVTLTTVISSCA--RLMDLDRGKEIHKEFIKDGFVSDSYISSALVD 250
              +F +M  SG + +  T+ +V + CA  RL+ L  G+ +H   +K  F  +    + L+D
Sbjct:   282 SVFVQMLVSGIEIDLATIVSVFAGCADSRLISL--GRAVHSIGVKACFSREDRFCNTLLD 339

Query:   251 MYGKCGCLEMAREVFEQTVLKSVVAWNALIAGYSSRGDSKSCVKLFWRMNEEGIKPTLTT 310
             MY KCG L+ A+ VF +   +SVV++ ++IAGY+  G +   VKLF  M EEGI P + T
Sbjct:   340 MYSKCGDLDSAKAVFREMSDRSVVSYTSMIAGYAREGLAGEAVKLFEEMEEEGISPDVYT 399

Query:   311 ISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAENVFEKMS 370
             +++VL  C+R   L  GK +H +I  N +  D+F++++L+D+Y KCG +  AE VF +M 
Sbjct:   400 VTAVLNCCARYRLLDEGKRVHEWIKENDLGFDIFVSNALMDMYAKCGSMQEAELVFSEMR 459

Query:   371 KTDVVYWNVMISGYVTVGDYFKALAIYSDM-KEVGAKPDAVTFTSVLPACSQLAALEKGK 429
               D++ WN +I GY       +AL++++ + +E    PD  T   VLPAC+ L+A +KG+
Sbjct:   460 VKDIISWNTIIGGYSKNCYANEALSLFNLLLEEKRFSPDERTVACVLPACASLSAFDKGR 519

Query:   430 EIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPERDLVSWTSMIAAYGSHG 489
             EIH +I+ +   ++  V  +L+DMYAKCGA+  A  +F+++  +DLVSWT MIA YG HG
Sbjct:   520 EIHGYIMRNGYFSDRHVANSLVDMYAKCGALLLAHMLFDDIASKDLVSWTVMIAGYGMHG 579

Query:   490 RALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHY 549
                EA+ LF +M+Q+    D I+F++LL ACSH+G VDEG  +FN+M  E  I+P  EHY
Sbjct:   580 FGKEAIALFNQMRQAGIEADEISFVSLLYACSHSGLVDEGWRFFNIMRHECKIEPTVEHY 639

Query:   550 SCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRDIEMGEKIAKLLIEKD 609
             +C++D+L R G L +AY  +++ P I  DA +   L   CR+H D+++ EK+A+ + E +
Sbjct:   640 ACIVDMLARTGDLIKAYRFIENMP-IPPDATIWGALLCGCRIHHDVKLAEKVAEKVFELE 698

Query:   610 PDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELGLRKNPGCSWIEIGDRIQPFFAEDKFY 669
             P+++  Y++++N+YA  +KW++V+++R ++ + GLRKNPGCSWIEI  R+  F A D   
Sbjct:   699 PENTGYYVLMANIYAEAEKWEQVKRLRKRIGQRGLRKNPGCSWIEIKGRVNIFVAGDSSN 758

Query:   670 PQADMVYECLAILAGHMEKDELLP 693
             P+ + +   L  +   M ++   P
Sbjct:   759 PETENIEAFLRKVRARMIEEGYSP 782

GO:0009507 "chloroplast" evidence=ISM

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

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

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

GO:0048366 "leaf development" evidence=IMP

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

 Score = 1211 (431.4 bits), Expect = 3.5e-123, P = 3.5e-123
 Identities = 249/694 (35%), Positives = 407/694 (58%)

Query:    17 KSLKEGKIIHQKVVTLGLQ-NNIALCKSLINLYFSCQNYDYAMLVFKTIDNPLDLSLWNG 75
             + ++ GK IH  V   G   +++ +  +L+NLY  C ++     VF  I     +S WN 
Sbjct:   111 QDMELGKQIHAHVYKFGYGVDSVTVANTLVNLYRKCGDFGAVYKVFDRISERNQVS-WNS 169

Query:    76 LMASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLG---SVGIGKMIHTHL 132
             L++S      +  ALE F  +L    ++P S+T  SV+ AC  L     + +GK +H + 
Sbjct:   170 LISSLCSFEKWEMALEAFRCMLDEN-VEPSSFTLVSVVTACSNLPMPEGLMMGKQVHAYG 228

Query:   133 IKTGFLLDVVIASSTAGMYAKCNSFECAVKMFDEMSERDVASWNTVISCYYQDGQAEKAL 192
             ++ G L   +I +  A MY K      +  +      RD+ +WNTV+S   Q+ Q  +AL
Sbjct:   229 LRKGELNSFIINTLVA-MYGKLGKLASSKVLLGSFGGRDLVTWNTVLSSLCQNEQLLEAL 287

Query:   193 ELFKKMRGSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVSD-SYISSALVDM 251
             E  ++M   G +P+  T+++V+ +C+ L  L  GKE+H   +K+G + + S++ SALVDM
Sbjct:   288 EYLREMVLEGVEPDEFTISSVLPACSHLEMLRTGKELHAYALKNGSLDENSFVGSALVDM 347

Query:   252 YGKCGCLEMAREVFEQTVLKSVVAWNALIAGYSSRGDSKSCVKLFWRMNEE-GIKPTLTT 310
             Y  C  +   R VF+    + +  WNA+IAGYS     K  + LF  M E  G+    TT
Sbjct:   348 YCNCKQVLSGRRVFDGMFDRKIGLWNAMIAGYSQNEHDKEALLLFIGMEESAGLLANSTT 407

Query:   311 ISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAENVFEKMS 370
             ++ V+ +C RSG     + +HG++++  +  D F+ ++L+D+Y + G++  A  +F KM 
Sbjct:   408 MAGVVPACVRSGAFSRKEAIHGFVVKRGLDRDRFVQNTLMDMYSRLGKIDIAMRIFGKME 467

Query:   371 KTDVVYWNVMISGYVTVGDYFKALAIYSDMKEV------GA-----KPDAVTFTSVLPAC 419
               D+V WN MI+GYV    +  AL +   M+ +      GA     KP+++T  ++LP+C
Sbjct:   468 DRDLVTWNTMITGYVFSEHHEDALLLLHKMQNLERKVSKGASRVSLKPNSITLMTILPSC 527

Query:   420 SQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPERDLVSWT 479
             + L+AL KGKEIH + I++ L T+  V  AL+DMYAKCG +  + KVF+++P++++++W 
Sbjct:   528 AALSALAKGKEIHAYAIKNNLATDVAVGSALVDMYAKCGCLQMSRKVFDQIPQKNVITWN 587

Query:   480 SMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISE 539
              +I AYG HG   EA+ L   M     +P+ +TF+++ +ACSH+G VDEG   F +M  +
Sbjct:   588 VIIMAYGMHGNGQEAIDLLRMMMVQGVKPNEVTFISVFAACSHSGMVDEGLRIFYVMKPD 647

Query:   540 YNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRDIEMGE 599
             Y ++P ++HY+C++DLLGRAGR++EAY ++   P     AG  S+L  A R+H ++E+GE
Sbjct:   648 YGVEPSSDHYACVVDLLGRAGRIKEAYQLMNMMPRDFNKAGAWSSLLGASRIHNNLEIGE 707

Query:   600 KIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELGLRKNPGCSWIEIGDRI 659
               A+ LI+ +P+ +S Y++L+N+Y+S   WD+  ++R  MKE G+RK PGCSWIE GD +
Sbjct:   708 IAAQNLIQLEPNVASHYVLLANIYSSAGLWDKATEVRRNMKEQGVRKEPGCSWIEHGDEV 767

Query:   660 QPFFAEDKFYPQADMVYECLAILAGHMEKDELLP 693
               F A D  +PQ++ +   L  L   M K+  +P
Sbjct:   768 HKFVAGDSSHPQSEKLSGYLETLWERMRKEGYVP 801

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0031425 "chloroplast RNA processing" evidence=IMP

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

 Score = 1193 (425.0 bits), Expect = 2.8e-121, P = 2.8e-121
 Identities = 243/676 (35%), Positives = 394/676 (58%)

Query:    18 SLKEGKIIHQKVVTLGLQNNIALCKSLINLYFSCQNYDYAMLVFKTIDNPLDLSLWNGLM 77
             SLKE + I   V   GL         L++L+    + D A  VF+ ID+ L++ L++ ++
Sbjct:    49 SLKELRQILPLVFKNGLYQEHFFQTKLVSLFCRYGSVDEAARVFEPIDSKLNV-LYHTML 107

Query:    78 ASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLGSVGIGKMIHTHLIKTGF 137
               + K      AL+ F + ++   ++P  Y +  +LK CG    + +GK IH  L+K+GF
Sbjct:   108 KGFAKVSDLDKALQFF-VRMRYDDVEPVVYNFTYLLKVCGDEAELRVGKEIHGLLVKSGF 166

Query:   138 LLDVVIASSTAGMYAKCNSFECAVKMFDEMSERDVASWNTVISCYYQDGQAEKALELFKK 197
              LD+   +    MYAKC     A K+FD M ERD+ SWNT+++ Y Q+G A  ALE+ K 
Sbjct:   167 SLDLFAMTGLENMYAKCRQVNEARKVFDRMPERDLVSWNTIVAGYSQNGMARMALEMVKS 226

Query:   198 MRGSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVSDSYISSALVDMYGKCGC 257
             M     +P+ +T+ +V+ + + L  +  GKEIH   ++ GF S   IS+ALVDMY KCG 
Sbjct:   227 MCEENLKPSFITIVSVLPAVSALRLISVGKEIHGYAMRSGFDSLVNISTALVDMYAKCGS 286

Query:   258 LEMAREVFEQTVLKSVVAWNALIAGYSSRGDSKSCVKLFWRMNEEGIKPTLTTISSVLMS 317
             LE AR++F+  + ++VV+WN++I  Y    + K  + +F +M +EG+KPT  ++   L +
Sbjct:   287 LETARQLFDGMLERNVVSWNSMIDAYVQNENPKEAMLIFQKMLDEGVKPTDVSVMGALHA 346

Query:   318 CSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAENVFEKMSKTDVVYW 377
             C+  G L+ G+ +H   +   +  +V + +SLI +Y KC  V +A ++F K+    +V W
Sbjct:   347 CADLGDLERGRFIHKLSVELGLDRNVSVVNSLISMYCKCKEVDTAASMFGKLQSRTLVSW 406

Query:   378 NVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIE 437
             N MI G+   G    AL  +S M+    KPD  T+ SV+ A ++L+     K IH  ++ 
Sbjct:   407 NAMILGFAQNGRPIDALNYFSQMRSRTVKPDTFTYVSVITAIAELSITHHAKWIHGVVMR 466

Query:   438 SKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPERDLVSWTSMIAAYGSHGRALEALKL 497
             S L+ N  V  AL+DMYAKCGA+  A  +F+ + ER + +W +MI  YG+HG    AL+L
Sbjct:   467 SCLDKNVFVTTALVDMYAKCGAIMIARLIFDMMSERHVTTWNAMIDGYGTHGFGKAALEL 526

Query:   498 FGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLG 557
             F EMQ+   +P+ +TFL+++SACSH+G V+ G   F +M   Y+I+   +HY  ++DLLG
Sbjct:   527 FEEMQKGTIKPNGVTFLSVISACSHSGLVEAGLKCFYMMKENYSIELSMDHYGAMVDLLG 586

Query:   558 RAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYI 617
             RAGRL EA+  +   P ++    +   +  AC++H+++   EK A+ L E +PDD   ++
Sbjct:   587 RAGRLNEAWDFIMQMP-VKPAVNVYGAMLGACQIHKNVNFAEKAAERLFELNPDDGGYHV 645

Query:   618 VLSNMYASVKKWDEVRKIRLKMKELGLRKNPGCSWIEIGDRIQPFFAEDKFYPQADMVYE 677
             +L+N+Y +   W++V ++R+ M   GLRK PGCS +EI + +  FF+    +P +  +Y 
Sbjct:   646 LLANIYRAASMWEKVGQVRVSMLRQGLRKTPGCSMVEIKNEVHSFFSGSTAHPDSKKIYA 705

Query:   678 CLAILAGHMEKDELLP 693
              L  L  H+++   +P
Sbjct:   706 FLEKLICHIKEAGYVP 721

GO:0005739 "mitochondrion" evidence=ISM

GO:0004519 "endonuclease activity" evidence=IDA

GO:0009507 "chloroplast" evidence=IDA

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

TAIR|locus:2096414 AT3G03580 [Arabidopsis thaliana (taxid:3702)]

 Score = 1171 (417.3 bits), Expect = 6.0e-119, P = 6.0e-119
 Identities = 244/683 (35%), Positives = 399/683 (58%)

Query:    13 CTGSKSLKEGKIIHQKVVTLGLQNNIALCKSLINLYFSCQNYDYAMLVFKTIDNPL-DLS 71
             C G    + G +++++++ +G ++++ +  +L+++Y        A  VF  +  P+ DL 
Sbjct:   116 CAGLFDAEMGDLVYEQILDMGFESDLFVGNALVDMYSRMGLLTRARQVFDEM--PVRDLV 173

Query:    72 LWNGLMASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLGSVGIGKMIHTH 131
              WN L++ Y+ +  Y  ALE++  L +N ++ PDS+T  SVL A G L  V  G+ +H  
Sbjct:   174 SWNSLISGYSSHGYYEEALEIYHEL-KNSWIVPDSFTVSSVLPAFGNLLVVKQGQGLHGF 232

Query:   132 LIKTGFLLDVVIASSTAGMYAKCNSFECAVKMFDEMSERDVASWNTVISCYYQDGQAEKA 191
              +K+G    VV+ +    MY K      A ++FDEM  RD  S+NT+I  Y +    E++
Sbjct:   233 ALKSGVNSVVVVNNGLVAMYLKFRRPTDARRVFDEMDVRDSVSYNTMICGYLKLEMVEES 292

Query:   192 LELFKKMRGSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVSDSYISSALVDM 251
             + +F +     F+P+ +T+++V+ +C  L DL   K I+   +K GFV +S + + L+D+
Sbjct:   293 VRMFLENLDQ-FKPDLLTVSSVLRACGHLRDLSLAKYIYNYMLKAGFVLESTVRNILIDV 351

Query:   252 YGKCGCLEMAREVFEQTVLKSVVAWNALIAGYSSRGDSKSCVKLF-WRMNEEGIKPTLTT 310
             Y KCG +  AR+VF     K  V+WN++I+GY   GD    +KLF   M  E     +T 
Sbjct:   352 YAKCGDMITARDVFNSMECKDTVSWNSIISGYIQSGDLMEAMKLFKMMMIMEEQADHITY 411

Query:   311 ISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAENVFEKMS 370
             +  + +S +R   LK GK +H   I++ I  D+ ++++LID+Y KCG V  +  +F  M 
Sbjct:   412 LMLISVS-TRLADLKFGKGLHSNGIKSGICIDLSVSNALIDMYAKCGEVGDSLKIFSSMG 470

Query:   371 KTDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKE 430
               D V WN +IS  V  GD+   L + + M++    PD  TF   LP C+ LAA   GKE
Sbjct:   471 TGDTVTWNTVISACVRFGDFATGLQVTTQMRKSEVVPDMATFLVTLPMCASLAAKRLGKE 530

Query:   431 IHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPERDLVSWTSMIAAYGSHGR 490
             IH  ++    E+   +  AL++MY+KCG ++ + +VF  +  RD+V+WT MI AYG +G 
Sbjct:   531 IHCCLLRFGYESELQIGNALIEMYSKCGCLENSSRVFERMSRRDVVTWTGMIYAYGMYGE 590

Query:   491 ALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYS 550
               +AL+ F +M++S   PDS+ F+A++ ACSH+G VDEG   F  M + Y I P  EHY+
Sbjct:   591 GEKALETFADMEKSGIVPDSVVFIAIIYACSHSGLVDEGLACFEKMKTHYKIDPMIEHYA 650

Query:   551 CLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDP 610
             C++DLL R+ ++ +A   +Q+ P I+ DA + +++  ACR   D+E  E++++ +IE +P
Sbjct:   651 CVVDLLSRSQKISKAEEFIQAMP-IKPDASIWASVLRACRTSGDMETAERVSRRIIELNP 709

Query:   611 DDSSTYIVLSNMYASVKKWDEVRKIRLKMKELGLRKNPGCSWIEIGDRIQPFFAEDKFYP 670
             DD    I+ SN YA+++KWD+V  IR  +K+  + KNPG SWIE+G  +  F + D   P
Sbjct:   710 DDPGYSILASNAYAALRKWDKVSLIRKSLKDKHITKNPGYSWIEVGKNVHVFSSGDDSAP 769

Query:   671 QADMVYECLAILAGHMEKDELLP 693
             Q++ +Y+ L IL   M K+  +P
Sbjct:   770 QSEAIYKSLEILYSLMAKEGYIP 792

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2095289 AT3G09040 "AT3G09040" [Arabidopsis thaliana (taxid:3702)]

 Score = 1148 (409.2 bits), Expect = 1.6e-116, P = 1.6e-116
 Identities = 240/678 (35%), Positives = 388/678 (57%)

Query:    18 SLKEGKIIHQKVVTLGLQNNIALCKSLINLYFSCQNYDYAMLVFKTIDNPLDLSLWNGLM 77
             +L  G ++H + + LGL +NI +  SL+++Y  C+  + A  VF+ ++   D+  WN ++
Sbjct:   342 NLDLGLVVHAEAIKLGLASNIYVGSSLVSMYSKCEKMEAAAKVFEALEEKNDV-FWNAMI 400

Query:    78 ASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLGSVGIGKMIHTHLIKTGF 137
               Y  N      +ELF  +  + Y   D +T+ S+L  C     + +G   H+ +IK   
Sbjct:   401 RGYAHNGESHKVMELFMDMKSSGY-NIDDFTFTSLLSTCAASHDLEMGSQFHSIIIKKKL 459

Query:   138 LLDVVIASSTAGMYAKCNSFECAVKMFDEMSERDVASWNTVISCYYQDGQAEKALELFKK 197
               ++ + ++   MYAKC + E A ++F+ M +RD  +WNT+I  Y QD    +A +LFK+
Sbjct:   460 AKNLFVGNALVDMYAKCGALEDARQIFERMCDRDNVTWNTIIGSYVQDENESEAFDLFKR 519

Query:   198 MRGSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVSDSYISSALVDMYGKCGC 257
             M   G   +   L + + +C  +  L +GK++H   +K G   D +  S+L+DMY KCG 
Sbjct:   520 MNLCGIVSDGACLASTLKACTHVHGLYQGKQVHCLSVKCGLDRDLHTGSSLIDMYSKCGI 579

Query:   258 LEMAREVFEQTVLKSVVAWNALIAGYSSRGDSKSCVKLFWRMNEEGIKPTLTTISSVLMS 317
             ++ AR+VF      SVV+ NALIAGYS + + +  V LF  M   G+ P+  T ++++ +
Sbjct:   580 IKDARKVFSSLPEWSVVSMNALIAGYS-QNNLEEAVVLFQEMLTRGVNPSEITFATIVEA 638

Query:   318 CSRSGQLKHGKVMHGYIIRNKIQGD-VFINSSLIDLYFKCGRVSSAENVFEKMSKT-DVV 375
             C +   L  G   HG I +     +  ++  SL+ +Y     ++ A  +F ++S    +V
Sbjct:   639 CHKPESLTLGTQFHGQITKRGFSSEGEYLGISLLGMYMNSRGMTEACALFSELSSPKSIV 698

Query:   376 YWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHI 435
              W  M+SG+   G Y +AL  Y +M+  G  PD  TF +VL  CS L++L +G+ IH+ I
Sbjct:   699 LWTGMMSGHSQNGFYEEALKFYKEMRHDGVLPDQATFVTVLRVCSVLSSLREGRAIHSLI 758

Query:   436 IESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPER-DLVSWTSMIAAYGSHGRALEA 494
                  + +E+    L+DMYAKCG +  + +VF+E+  R ++VSW S+I  Y  +G A +A
Sbjct:   759 FHLAHDLDELTSNTLIDMYAKCGDMKGSSQVFDEMRRRSNVVSWNSLINGYAKNGYAEDA 818

Query:   495 LKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLID 554
             LK+F  M+QS+  PD ITFL +L+ACSHAG V +G   F +MI +Y I+ R +H +C++D
Sbjct:   819 LKIFDSMRQSHIMPDEITFLGVLTACSHAGKVSDGRKIFEMMIGQYGIEARVDHVACMVD 878

Query:   555 LLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSS 614
             LLGR G LQEA   +++   ++ DA L S+L  ACR+H D   GE  A+ LIE +P +SS
Sbjct:   879 LLGRWGYLQEADDFIEAQ-NLKPDARLWSSLLGACRIHGDDIRGEISAEKLIELEPQNSS 937

Query:   615 TYIVLSNMYASVKKWDEVRKIRLKMKELGLRKNPGCSWIEIGDRIQPFFAEDKFYPQADM 674
              Y++LSN+YAS   W++   +R  M++ G++K PG SWI++  R   F A DK + +   
Sbjct:   938 AYVLLSNIYASQGCWEKANALRKVMRDRGVKKVPGYSWIDVEQRTHIFAAGDKSHSEIGK 997

Query:   675 VYECLAILAGHMEKDELL 692
             +   L  L   M+ D ++
Sbjct:   998 IEMFLEDLYDLMKDDAVV 1015

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 1148 (409.2 bits), Expect = 1.6e-116, P = 1.6e-116
 Identities = 240/702 (34%), Positives = 401/702 (57%)

Query:     1 MNXXXXXXXXXXCTGSKSLKEGKIIHQKVVTLGLQNNIALCKSLINLYFSCQNYDYAMLV 60
             M+          C  ++  + GK++H +++   ++ +  L  SLI+LY    +   A  V
Sbjct:    60 MDSVTFSSLLKSCIRARDFRLGKLVHARLIEFDIEPDSVLYNSLISLYSKSGDSAKAEDV 119

Query:    61 FKTIDN--PLDLSLWNGLMASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGG 118
             F+T+      D+  W+ +MA Y  N   + A+++F   L+   L P+ Y Y +V++AC  
Sbjct:   120 FETMRRFGKRDVVSWSAMMACYGNNGRELDAIKVFVEFLELG-LVPNDYCYTAVIRACSN 178

Query:   119 LGSVGIGKMIHTHLIKTG-FLLDVVIASSTAGMYAKC-NSFECAVKMFDEMSERDVASWN 176
                VG+G++    L+KTG F  DV +  S   M+ K  NSFE A K+FD+MSE +V +W 
Sbjct:   179 SDFVGVGRVTLGFLMKTGHFESDVCVGCSLIDMFVKGENSFENAYKVFDKMSELNVVTWT 238

Query:   177 TVISCYYQDGQAEKALELFKKMRGSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKD 236
              +I+   Q G   +A+  F  M  SGF+ +  TL++V S+CA L +L  GK++H   I+ 
Sbjct:   239 LMITRCMQMGFPREAIRFFLDMVLSGFESDKFTLSSVFSACAELENLSLGKQLHSWAIRS 298

Query:   237 GFVSDSYISSALVDMYGKC---GCLEMAREVFEQTVLKSVVAWNALIAGYSSRGD-SKSC 292
             G V D  +  +LVDMY KC   G ++  R+VF++    SV++W ALI GY    + +   
Sbjct:   299 GLVDD--VECSLVDMYAKCSADGSVDDCRKVFDRMEDHSVMSWTALITGYMKNCNLATEA 356

Query:   293 VKLFWRMNEEG-IKPTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLID 351
             + LF  M  +G ++P   T SS   +C      + GK + G   +  +  +  + +S+I 
Sbjct:   357 INLFSEMITQGHVEPNHFTFSSAFKACGNLSDPRVGKQVLGQAFKRGLASNSSVANSVIS 416

Query:   352 LYFKCGRVSSAENVFEKMSKTDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVT 411
             ++ K  R+  A+  FE +S+ ++V +N  + G     ++ +A  + S++ E      A T
Sbjct:   417 MFVKSDRMEDAQRAFESLSEKNLVSYNTFLDGTCRNLNFEQAFKLLSEITERELGVSAFT 476

Query:   412 FTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELP 471
             F S+L   + + ++ KG++IH+ +++  L  N+ V  AL+ MY+KCG++D A +VFN + 
Sbjct:   477 FASLLSGVANVGSIRKGEQIHSQVVKLGLSCNQPVCNALISMYSKCGSIDTASRVFNFME 536

Query:   472 ERDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGY 531
              R+++SWTSMI  +  HG A+  L+ F +M +   +P+ +T++A+LSACSH G V EG  
Sbjct:   537 NRNVISWTSMITGFAKHGFAIRVLETFNQMIEEGVKPNEVTYVAILSACSHVGLVSEGWR 596

Query:   532 YFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRL 591
             +FN M  ++ I+P+ EHY+C++DLL RAG L +A+  + + P  + D  +  T   ACR+
Sbjct:   597 HFNSMYEDHKIKPKMEHYACMVDLLCRAGLLTDAFEFINTMP-FQADVLVWRTFLGACRV 655

Query:   592 HRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELGLRKNPGCS 651
             H + E+G+  A+ ++E DP++ + YI LSN+YA   KW+E  ++R KMKE  L K  GCS
Sbjct:   656 HSNTELGKLAARKILELDPNEPAAYIQLSNIYACAGKWEESTEMRRKMKERNLVKEGGCS 715

Query:   652 WIEIGDRIQPFFAEDKFYPQADMVYECLAILAGHMEKDELLP 693
             WIE+GD+I  F+  D  +P A  +Y+ L  L   +++   +P
Sbjct:   716 WIEVGDKIHKFYVGDTAHPNAHQIYDELDRLITEIKRCGYVP 757

GO:0009507 "chloroplast" evidence=ISM

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

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

 Score = 1145 (408.1 bits), Expect = 3.4e-116, P = 3.4e-116
 Identities = 229/676 (33%), Positives = 378/676 (55%)

Query:    13 CTGSKSLKEGKIIHQKVVTLGLQNNIALCKSLINLYFSCQNYDYAMLVFKTIDNPLDLSL 72
             C   ++ +EG  ++   ++      + L  + + ++    N   A  VF  +    +L  
Sbjct:   104 CEWKRAQEEGSKVYSIALSSMSSLGVELGNAFLAMFVRFGNLVDAWYVFGKMSER-NLFS 162

Query:    73 WNGLMASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLGSVGIGKMIHTHL 132
             WN L+  Y K   +  A+ L+  +L    +KPD YT+P VL+ CGG+  +  GK +H H+
Sbjct:   163 WNVLVGGYAKQGYFDEAMCLYHRMLWVGGVKPDVYTFPCVLRTCGGIPDLARGKEVHVHV 222

Query:   133 IKTGFLLDVVIASSTAGMYAKCNSFECAVKMFDEMSERDVASWNTVISCYYQDGQAEKAL 192
             ++ G+ LD+ + ++   MY KC   + A  +FD M  RD+ SWN +IS Y+++G   + L
Sbjct:   223 VRYGYELDIDVVNALITMYVKCGDVKSARLLFDRMPRRDIISWNAMISGYFENGMCHEGL 282

Query:   193 ELFKKMRGSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVSDSYISSALVDMY 252
             ELF  MRG    P+ +TLT+VIS+C  L D   G++IH   I  GF  D  + ++L  MY
Sbjct:   283 ELFFAMRGLSVDPDLMTLTSVISACELLGDRRLGRDIHAYVITTGFAVDISVCNSLTQMY 342

Query:   253 GKCGCLEMAREVFEQTVLKSVVAWNALIAGYSSRGDSKSCVKLFWRMNEEGIKPTLTTIS 312
                G    A ++F +   K +V+W  +I+GY         +  +  M+++ +KP   T++
Sbjct:   343 LNAGSWREAEKLFSRMERKDIVSWTTMISGYEYNFLPDKAIDTYRMMDQDSVKPDEITVA 402

Query:   313 SVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAENVFEKMSKT 372
             +VL +C+  G L  G  +H   I+ ++   V + ++LI++Y KC  +  A ++F  + + 
Sbjct:   403 AVLSACATLGDLDTGVELHKLAIKARLISYVIVANNLINMYSKCKCIDKALDIFHNIPRK 462

Query:   373 DVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIH 432
             +V+ W  +I+G       F+AL     MK +  +P+A+T T+ L AC+++ AL  GKEIH
Sbjct:   463 NVISWTSIIAGLRLNNRCFEALIFLRQMK-MTLQPNAITLTAALAACARIGALMCGKEIH 521

Query:   433 NHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPERDLVSWTSMIAAYGSHGRAL 492
              H++ + +  ++ +  ALLDMY +CG ++ A+  FN   ++D+ SW  ++  Y   G+  
Sbjct:   522 AHVLRTGVGLDDFLPNALLDMYVRCGRMNTAWSQFNS-QKKDVTSWNILLTGYSERGQGS 580

Query:   493 EALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCL 552
               ++LF  M +S  RPD ITF++LL  CS +  V +G  YF+ M  +Y + P  +HY+C+
Sbjct:   581 MVVELFDRMVKSRVRPDEITFISLLCGCSKSQMVRQGLMYFSKM-EDYGVTPNLKHYACV 639

Query:   553 IDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDD 612
             +DLLGRAG LQEA+  +Q  P +  D  +   L +ACR+H  I++GE  A+ + E D   
Sbjct:   640 VDLLGRAGELQEAHKFIQKMP-VTPDPAVWGALLNACRIHHKIDLGELSAQHIFELDKKS 698

Query:   613 SSTYIVLSNMYASVKKWDEVRKIRLKMKELGLRKNPGCSWIEIGDRIQPFFAEDKFYPQA 672
                YI+L N+YA   KW EV K+R  MKE GL  + GCSW+E+  ++  F ++DK++PQ 
Sbjct:   699 VGYYILLCNLYADCGKWREVAKVRRMMKENGLTVDAGCSWVEVKGKVHAFLSDDKYHPQT 758

Query:   673 DMVYECLAILAGHMEK 688
                 E   +L G  EK
Sbjct:   759 K---EINTVLEGFYEK 771

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0009451 "RNA modification" evidence=IMP

GO:0009658 "chloroplast organization" evidence=IMP

GO:0040007 "growth" evidence=IMP

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

TAIR|locus:2141171 AT4G21300 [Arabidopsis thaliana (taxid:3702)]

 Score = 1125 (401.1 bits), Expect = 4.5e-114, P = 4.5e-114
 Identities = 238/683 (34%), Positives = 383/683 (56%)

Query:    13 CTGSKSLKEGKIIHQKVVTLGLQNNIALCKSLINLYFSCQNYDYAMLVFKTIDNPLDLSL 72
             C   K+ K    +   V +LG+  N  +  SLI  Y      D    +F  +    D  +
Sbjct:   148 CVALKNFKGIDFLSDTVSSLGMDCNEFVASSLIKAYLEYGKIDVPSKLFDRVLQK-DCVI 206

Query:    73 WNGLMASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLGSVGIGKMIHTHL 132
             WN ++  Y K     + ++ F ++  +  + P++ T+  VL  C     + +G  +H  +
Sbjct:   207 WNVMLNGYAKCGALDSVIKGFSVMRMDQ-ISPNAVTFDCVLSVCASKLLIDLGVQLHGLV 265

Query:   133 IKTGFLLDVVIASSTAGMYAKCNSFECAVKMFDEMSERDVASWNTVISCYYQDGQAEKAL 192
             + +G   +  I +S   MY+KC  F+ A K+F  MS  D  +WN +IS Y Q G  E++L
Sbjct:   266 VVSGVDFEGSIKNSLLSMYSKCGRFDDASKLFRMMSRADTVTWNCMISGYVQSGLMEESL 325

Query:   193 ELFKKMRGSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVSDSYISSALVDMY 252
               F +M  SG  P+++T ++++ S ++  +L+  K+IH   ++     D +++SAL+D Y
Sbjct:   326 TFFYEMISSGVLPDAITFSSLLPSVSKFENLEYCKQIHCYIMRHSISLDIFLTSALIDAY 385

Query:   253 GKCGCLEMAREVFEQTVLKSVVAWNALIAGYSSRGDSKSCVKLF-WRMNEEGIKPTLTTI 311
              KC  + MA+ +F Q     VV + A+I+GY   G     +++F W +  + I P   T+
Sbjct:   386 FKCRGVSMAQNIFSQCNSVDVVVFTAMISGYLHNGLYIDSLEMFRWLVKVK-ISPNEITL 444

Query:   312 SSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAENVFEKMSK 371
              S+L        LK G+ +HG+II+        I  ++ID+Y KCGR++ A  +FE++SK
Sbjct:   445 VSILPVIGILLALKLGRELHGFIIKKGFDNRCNIGCAVIDMYAKCGRMNLAYEIFERLSK 504

Query:   372 TDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEI 431
              D+V WN MI+      +   A+ I+  M   G   D V+ ++ L AC+ L +   GK I
Sbjct:   505 RDIVSWNSMITRCAQSDNPSAAIDIFRQMGVSGICYDCVSISAALSACANLPSESFGKAI 564

Query:   432 HNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPERDLVSWTSMIAAYGSHGRA 491
             H  +I+  L ++      L+DMYAKCG +  A  VF  + E+++VSW S+IAA G+HG+ 
Sbjct:   565 HGFMIKHSLASDVYSESTLIDMYAKCGNLKAAMNVFKTMKEKNIVSWNSIIAACGNHGKL 624

Query:   492 LEALKLFGEM-QQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYS 550
              ++L LF EM ++S  RPD ITFL ++S+C H G VDEG  +F  M  +Y IQP+ EHY+
Sbjct:   625 KDSLCLFHEMVEKSGIRPDQITFLEIISSCCHVGDVDEGVRFFRSMTEDYGIQPQQEHYA 684

Query:   551 CLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDP 610
             C++DL GRAGRL EAY  ++S P    DAG+  TL  ACRLH+++E+ E  +  L++ DP
Sbjct:   685 CVVDLFGRAGRLTEAYETVKSMP-FPPDAGVWGTLLGACRLHKNVELAEVASSKLMDLDP 743

Query:   611 DDSSTYIVLSNMYASVKKWDEVRKIRLKMKELGLRKNPGCSWIEIGDRIQPFFAEDKFYP 670
              +S  Y+++SN +A+ ++W+ V K+R  MKE  ++K PG SWIEI  R   F + D  +P
Sbjct:   744 SNSGYYVLISNAHANAREWESVTKVRSLMKEREVQKIPGYSWIEINKRTHLFVSGDVNHP 803

Query:   671 QADMVYECLAILAGHMEKDELLP 693
             ++  +Y  L  L G +  +  +P
Sbjct:   804 ESSHIYSLLNSLLGELRLEGYIP 826

GO:0005739 "mitochondrion" evidence=ISM

TAIR|locus:2007116 AT1G69350 "AT1G69350" [Arabidopsis thaliana (taxid:3702)]

 Score = 1115 (397.6 bits), Expect = 5.2e-113, P = 5.2e-113
 Identities = 242/686 (35%), Positives = 401/686 (58%)

Query:    13 CTGSKS-LKEGKIIHQKVVTLGLQNNIALCKSLINLYFSCQNYDYAMLVFKTIDNPL-DL 70
             C GS+  L  G  +H +++  G+ ++  +  SL+ +Y    N   A  VF  +  P+ DL
Sbjct:   110 CAGSREHLSVGGKVHGRIIKGGVDDDAVIETSLLCMYGQTGNLSDAEKVFDGM--PVRDL 167

Query:    71 SLWNGLMASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLGSVGIGKMIHT 130
               W+ L++S  +N   + AL +F  ++ +  ++PD+ T  SV++ C  LG + I + +H 
Sbjct:   168 VAWSTLVSSCLENGEVVKALRMFKCMVDDG-VEPDAVTMISVVEGCAELGCLRIARSVHG 226

Query:   131 HLIKTGFLLDVVIASSTAGMYAKCNSFECAVKMFDEMSERDVASWNTVISCYYQDGQAEK 190
              + +  F LD  + +S   MY+KC     + ++F+++++++  SW  +IS Y +   +EK
Sbjct:   227 QITRKMFDLDETLCNSLLTMYSKCGDLLSSERIFEKIAKKNAVSWTAMISSYNRGEFSEK 286

Query:   191 ALELFKKMRGSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVSDSY--ISSAL 248
             AL  F +M  SG +PN VTL +V+SSC  +  +  GK +H   ++   +  +Y  +S AL
Sbjct:   287 ALRSFSEMIKSGIEPNLVTLYSVLSSCGLIGLIREGKSVHGFAVRRE-LDPNYESLSLAL 345

Query:   249 VDMYGKCGCLEMAREVFEQTVLKSVVAWNALIAGYSSRGDSKSCVKLFWRMNEEGIKPTL 308
             V++Y +CG L     V      +++VAWN+LI+ Y+ RG     + LF +M  + IKP  
Sbjct:   346 VELYAECGKLSDCETVLRVVSDRNIVAWNSLISLYAHRGMVIQALGLFRQMVTQRIKPDA 405

Query:   309 TTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAENVFEK 368
              T++S + +C  +G +  GK +HG++IR  +  D F+ +SLID+Y K G V SA  VF +
Sbjct:   406 FTLASSISACENAGLVPLGKQIHGHVIRTDVS-DEFVQNSLIDMYSKSGSVDSASTVFNQ 464

Query:   369 MSKTDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKG 428
             +    VV WN M+ G+   G+  +A++++  M     + + VTF +V+ ACS + +LEKG
Sbjct:   465 IKHRSVVTWNSMLCGFSQNGNSVEAISLFDYMYHSYLEMNEVTFLAVIQACSSIGSLEKG 524

Query:   429 KEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPERDLVSWTSMIAAYGSH 488
             K +H+ +I S L+ +     AL+DMYAKCG ++ A  VF  +  R +VSW+SMI AYG H
Sbjct:   525 KWVHHKLIISGLK-DLFTDTALIDMYAKCGDLNAAETVFRAMSSRSIVSWSSMINAYGMH 583

Query:   489 GRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEH 548
             GR   A+  F +M +S  +P+ + F+ +LSAC H+G V+EG YYFNLM S + + P +EH
Sbjct:   584 GRIGSAISTFNQMVESGTKPNEVVFMNVLSACGHSGSVEEGKYYFNLMKS-FGVSPNSEH 642

Query:   549 YSCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRDIEMGEKIAKLLIEK 608
             ++C IDLL R+G L+EAY  ++  P +  DA +  +L + CR+H+ +++ + I   L + 
Sbjct:   643 FACFIDLLSRSGDLKEAYRTIKEMPFLA-DASVWGSLVNGCRIHQKMDIIKAIKNDLSDI 701

Query:   609 DPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELGLRKNPGCSWIEIGDRIQPFFAEDKF 668
               DD+  Y +LSN+YA   +W+E R++R  MK   L+K PG S IEI  ++  F A ++ 
Sbjct:   702 VTDDTGYYTLLSNIYAEEGEWEEFRRLRSAMKSSNLKKVPGYSAIEIDQKVFRFGAGEEN 761

Query:   669 YPQADMVYECLAILAGHMEKDELLPS 694
               Q D +Y  L  L     ++ ++ S
Sbjct:   762 RIQTDEIYRFLGNLQNLTNEEHVVDS 787

GO:0003674 "molecular_function" evidence=ND

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)
O04659	PP398_ARATH	No assigned EC number	0.5817	0.9942	0.9985	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	694
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-169
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-114
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	3e-93
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	5e-76
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	4e-55
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	2e-52
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	8e-32
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	8e-29
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-19
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	6e-15
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-14
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-11
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	2e-10
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-10
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	4e-10
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-09
pfam13041	50	pfam13041, PPR_2, PPR repeat family	7e-07
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	9e-07
pfam01535	31	pfam01535, PPR, PPR repeat	9e-06
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	1e-05
pfam01535	31	pfam01535, PPR, PPR repeat	2e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	3e-04
pfam13041	50	pfam13041, PPR_2, PPR repeat family	4e-04
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	5e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	5e-04
pfam13041	50	pfam13041, PPR_2, PPR repeat family	0.001
pfam01535	31	pfam01535, PPR, PPR repeat	0.001
COG0457	291	COG0457, NrfG, FOG: TPR repeat [General function p	0.004

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

 Score =  507 bits (1308), Expect = e-169
 Identities = 242/684 (35%), Positives = 389/684 (56%), Gaps = 16/684 (2%)

Query: 9   LLRTCTGSKSLKEGKIIHQKV----VTLGLQNNIALCKSLINLYFSCQNYDYAMLVFKTI 64
           L R C   ++++EG  +  +      +LG++    L  ++++++       +A  VF  +
Sbjct: 92  LFRLCEWKRAVEEGSRVCSRALSSHPSLGVR----LGNAMLSMFVRFGELVHAWYVFGKM 147

Query: 65  DNPLDLSLWNGLMASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLGSVGI 124
               DL  WN L+  Y K   +  AL L+  +L    ++PD YT+P VL+ CGG+  +  
Sbjct: 148 PER-DLFSWNVLVGGYAKAGYFDEALCLYHRMLWAG-VRPDVYTFPCVLRTCGGIPDLAR 205

Query: 125 GKMIHTHLIKTGFLLDVVIASSTAGMYAKCNSFECAVKMFDEMSERDVASWNTVISCYYQ 184
           G+ +H H+++ GF LDV + ++   MY KC     A  +FD M  RD  SWN +IS Y++
Sbjct: 206 GREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFE 265

Query: 185 DGQAEKALELFKKMRGSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVSDSYI 244
           +G+  + LELF  MR     P+ +T+T+VIS+C  L D   G+E+H   +K GF  D  +
Sbjct: 266 NGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSV 325

Query: 245 SSALVDMYGKCGCLEMAREVFEQTVLKSVVAWNALIAGYSSRGDSKSCVKLFWRMNEEGI 304
            ++L+ MY   G    A +VF +   K  V+W A+I+GY   G     ++ +  M ++ +
Sbjct: 326 CNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNV 385

Query: 305 KPTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAEN 364
            P   TI+SVL +C+  G L  G  +H    R  +   V + ++LI++Y KC  +  A  
Sbjct: 386 SPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALE 445

Query: 365 VFEKMSKTDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAA 424
           VF  + + DV+ W  +I+G       F+AL  +  M  +  KP++VT  + L AC+++ A
Sbjct: 446 VFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQML-LTLKPNSVTLIAALSACARIGA 504

Query: 425 LEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPERDLVSWTSMIAA 484
           L  GKEIH H++ + +  +  +  ALLD+Y +CG ++ A+  FN   E+D+VSW  ++  
Sbjct: 505 LMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFN-SHEKDVVSWNILLTG 563

Query: 485 YGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQP 544
           Y +HG+   A++LF  M +S   PD +TF++LL ACS +G V +G  YF+ M  +Y+I P
Sbjct: 564 YVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITP 623

Query: 545 RNEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRDIEMGEKIAKL 604
             +HY+C++DLLGRAG+L EAY  +   P I  D  +   L +ACR+HR +E+GE  A+ 
Sbjct: 624 NLKHYACVVDLLGRAGKLTEAYNFINKMP-ITPDPAVWGALLNACRIHRHVELGELAAQH 682

Query: 605 LIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELGLRKNPGCSWIEIGDRIQPFFA 664
           + E DP+    YI+L N+YA   KWDEV ++R  M+E GL  +PGCSW+E+  ++  F  
Sbjct: 683 IFELDPNSVGYYILLCNLYADAGKWDEVARVRKTMRENGLTVDPGCSWVEVKGKVHAFLT 742

Query: 665 EDKFYPQADMVYECLAILAGHMEK 688
           +D+ +PQ   + E   +L G  EK
Sbjct: 743 DDESHPQ---IKEINTVLEGFYEK 763

Length = 857

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

 Score =  358 bits (920), Expect = e-114
 Identities = 167/516 (32%), Positives = 291/516 (56%), Gaps = 9/516 (1%)

Query: 186 GQAEKALELFKKMR-GSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVSDSYI 244
           G+  +ALELF+ +  G  F   + T   ++ +C  L  +   K ++      GF  D Y+
Sbjct: 101 GRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYM 160

Query: 245 SSALVDMYGKCGCLEMAREVFEQTVLKSVVAWNALIAGYSSRGDSKSCVKLFWRMNEEGI 304
            + ++ M+ KCG L  AR +F++   +++ +W  +I G    G+ +    LF  M E+G 
Sbjct: 161 MNRVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGS 220

Query: 305 KPTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAEN 364
                T   +L + +  G  + G+ +H  +++  + GD F++ +LID+Y KCG +  A  
Sbjct: 221 DAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARC 280

Query: 365 VFEKMSKTDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAA 424
           VF+ M +   V WN M++GY   G   +AL +Y +M++ G   D  TF+ ++   S+LA 
Sbjct: 281 VFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLAL 340

Query: 425 LEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPERDLVSWTSMIAA 484
           LE  K+ H  +I +    + +   AL+D+Y+K G +++A  VF+ +P ++L+SW ++IA 
Sbjct: 341 LEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAG 400

Query: 485 YGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQP 544
           YG+HGR  +A+++F  M      P+ +TFLA+LSAC ++G  ++G   F  M   + I+P
Sbjct: 401 YGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKP 460

Query: 545 RNEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRDIEMGEKIAKL 604
           R  HY+C+I+LLGR G L EAY +++  P  +    + + L +ACR+H+++E+G   A+ 
Sbjct: 461 RAMHYACMIELLGREGLLDEAYAMIRRAP-FKPTVNMWAALLTACRIHKNLELGRLAAEK 519

Query: 605 LIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELGLRKNPGCSWIEIGDRIQPFFA 664
           L    P+  + Y+VL N+Y S  +  E  K+   +K  GL  +P C+WIE+  +   FF+
Sbjct: 520 LYGMGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLSMHPACTWIEVKKQDHSFFS 579

Query: 665 EDKFYPQADMVYECLAIL------AGHMEKD-ELLP 693
            D+ +PQ+  +Y+ L  L       G++ ++ ELLP
Sbjct: 580 GDRLHPQSREIYQKLDELMKEISEYGYVAEENELLP 615

Length = 697

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

 Score =  307 bits (789), Expect = 3e-93
 Identities = 147/428 (34%), Positives = 240/428 (56%), Gaps = 1/428 (0%)

Query: 97  LQNPYLKPDSYTYPSVLKACGGLGSVGIGKMIHTHLIKTGFLLDVVIASSTAGMYAKCNS 156
           +Q   +  D   Y ++ + C    +V  G  + +  + +   L V + ++   M+ +   
Sbjct: 77  MQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLGNAMLSMFVRFGE 136

Query: 157 FECAVKMFDEMSERDVASWNTVISCYYQDGQAEKALELFKKMRGSGFQPNSVTLTTVISS 216
              A  +F +M ERD+ SWN ++  Y + G  ++AL L+ +M  +G +P+  T   V+ +
Sbjct: 137 LVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRT 196

Query: 217 CARLMDLDRGKEIHKEFIKDGFVSDSYISSALVDMYGKCGCLEMAREVFEQTVLKSVVAW 276
           C  + DL RG+E+H   ++ GF  D  + +AL+ MY KCG +  AR VF++   +  ++W
Sbjct: 197 CGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISW 256

Query: 277 NALIAGYSSRGDSKSCVKLFWRMNEEGIKPTLTTISSVLMSCSRSGQLKHGKVMHGYIIR 336
           NA+I+GY   G+    ++LF+ M E  + P L TI+SV+ +C   G  + G+ MHGY+++
Sbjct: 257 NAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVK 316

Query: 337 NKIQGDVFINSSLIDLYFKCGRVSSAENVFEKMSKTDVVYWNVMISGYVTVGDYFKALAI 396
                DV + +SLI +Y   G    AE VF +M   D V W  MISGY   G   KAL  
Sbjct: 317 TGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALET 376

Query: 397 YSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAK 456
           Y+ M++    PD +T  SVL AC+ L  L+ G ++H       L +  +V  AL++MY+K
Sbjct: 377 YALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSK 436

Query: 457 CGAVDEAFKVFNELPERDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLAL 516
           C  +D+A +VF+ +PE+D++SWTS+IA    + R  EAL  F +M  +  +P+S+T +A 
Sbjct: 437 CKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLLT-LKPNSVTLIAA 495

Query: 517 LSACSHAG 524
           LSAC+  G
Sbjct: 496 LSACARIG 503

Length = 857

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

 Score =  257 bits (659), Expect = 5e-76
 Identities = 135/417 (32%), Positives = 225/417 (53%), Gaps = 6/417 (1%)

Query: 89  ALELFDMLLQNPYLKPDSYTYPSVLKACGGLGSVGIGKMIHTHLIKTGFLLDVVIASSTA 148
           ALELF++L         + TY ++++AC  L S+   K ++ H+  +GF  D  + +   
Sbjct: 106 ALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVL 165

Query: 149 GMYAKCNSFECAVKMFDEMSERDVASWNTVISCYYQDGQAEKALELFKKMRGSGFQPNSV 208
            M+ KC     A ++FDEM ER++ASW T+I      G   +A  LF++M   G      
Sbjct: 166 LMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPR 225

Query: 209 TLTTVISSCARLMDLDRGKEIHKEFIKDGFVSDSYISSALVDMYGKCGCLEMAREVFEQT 268
           T   ++ + A L     G+++H   +K G V D+++S AL+DMY KCG +E AR VF+  
Sbjct: 226 TFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGM 285

Query: 269 VLKSVVAWNALIAGYSSRGDSKSCVKLFWRMNEEGIKPTLTTISSVLMSCSRSGQLKHGK 328
             K+ VAWN+++AGY+  G S+  + L++ M + G+     T S ++   SR   L+H K
Sbjct: 286 PEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAK 345

Query: 329 VMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAENVFEKMSKTDVVYWNVMISGYVTVG 388
             H  +IR     D+  N++L+DLY K GR+  A NVF++M + +++ WN +I+GY   G
Sbjct: 346 QAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHG 405

Query: 389 DYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIES-KLETNEIVM 447
              KA+ ++  M   G  P+ VTF +VL AC      E+G EI   + E+ +++   +  
Sbjct: 406 RGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHY 465

Query: 448 GALLDMYAKCGAVDEAFKVFNELPERDLVS-WTSMIAAYGSHGR----ALEALKLFG 499
             ++++  + G +DEA+ +    P +  V+ W +++ A   H       L A KL+G
Sbjct: 466 ACMIELLGREGLLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYG 522

Length = 697

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

 Score =  202 bits (515), Expect = 4e-55
 Identities = 115/393 (29%), Positives = 201/393 (51%), Gaps = 9/393 (2%)

Query: 186 GQAEKALELFKKMRGSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVSDSYIS 245
           GQ E+AL+L + M+      +      +   C     ++ G  +    +         + 
Sbjct: 65  GQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLG 124

Query: 246 SALVDMYGKCGCLEMAREVFEQTVLKSVVAWNALIAGYSSRGDSKSCVKLFWRMNEEGIK 305
           +A++ M+ + G L  A  VF +   + + +WN L+ GY+  G     + L+ RM   G++
Sbjct: 125 NAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVR 184

Query: 306 PTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAENV 365
           P + T   VL +C     L  G+ +H +++R   + DV + ++LI +Y KCG V SA  V
Sbjct: 185 PDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLV 244

Query: 366 FEKMSKTDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAAL 425
           F++M + D + WN MISGY   G+  + L ++  M+E+   PD +T TSV+ AC  L   
Sbjct: 245 FDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDE 304

Query: 426 EKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPERDLVSWTSMIAAY 485
             G+E+H +++++    +  V  +L+ MY   G+  EA KVF+ +  +D VSWT+MI+ Y
Sbjct: 305 RLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGY 364

Query: 486 GSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPR 545
             +G   +AL+ +  M+Q N  PD IT  ++LSAC+  G +D G     + + E   +  
Sbjct: 365 EKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVG-----VKLHELAERKG 419

Query: 546 NEHY----SCLIDLLGRAGRLQEAYGILQSTPE 574
              Y    + LI++  +   + +A  +  + PE
Sbjct: 420 LISYVVVANALIEMYSKCKCIDKALEVFHNIPE 452

Length = 857

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

 Score =  192 bits (490), Expect = 2e-52
 Identities = 128/479 (26%), Positives = 219/479 (45%), Gaps = 46/479 (9%)

Query: 9   LLRTCTGSKSLKEGKIIHQKVVTLGLQNNIALCKSLINLYFSCQNYDYAMLVFKTIDNPL 68
           L+  C   KS++  K ++  V + G + +  +   ++ ++  C     A  +F  +    
Sbjct: 129 LVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPERN 188

Query: 69  DLSLWNGLMASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLGSVGIGKMI 128
             S W  ++        Y  A  LF  + ++     +  T+  +L+A  GLGS   G+ +
Sbjct: 189 LAS-WGTIIGGLVDAGNYREAFALFREMWED-GSDAEPRTFVVMLRASAGLGSARAGQQL 246

Query: 129 HTHLIKTGFLLDVVIASSTAGMYAKCNSFECAVKMFDEMSERDVASWNTVISCYYQDGQA 188
           H  ++KTG + D  ++ +   MY+KC   E A  +FD M E+   +WN++++ Y   G +
Sbjct: 247 HCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYS 306

Query: 189 EKALELFKKMRGSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVSDSYISSAL 248
           E+AL L+ +MR SG   +  T + +I   +RL  L+  K+ H   I+ GF  D   ++AL
Sbjct: 307 EEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTAL 366

Query: 249 VDMYGKCGCLEMAREVFEQTVLKSVVAWNALIAGYSSRGDSKSCVKLFWRMNEEGIKPTL 308
           VD+Y K G +E AR VF++   K++++WNALIAGY + G     V++F RM  EG+ P  
Sbjct: 367 VDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNH 426

Query: 309 TTISSVLMSCSRSGQLKHGKVMHGYIIRN-KIQGDVFINSSLIDLYFKCGRVSSAENVFE 367
            T  +VL +C  SG  + G  +   +  N +I+      + +I+L  + G +  A     
Sbjct: 427 VTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEA----- 481

Query: 368 KMSKTDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEK 427
                                        Y+ ++    KP    + ++L AC     LE 
Sbjct: 482 -----------------------------YAMIRRAPFKPTVNMWAALLTACRIHKNLEL 512

Query: 428 GKEIHNHI--IESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPERDLVSWTSMIAA 484
           G+     +  +  +   N +V   LL++Y   G   EA KV   L  + L    SM  A
Sbjct: 513 GRLAAEKLYGMGPEKLNNYVV---LLNLYNSSGRQAEAAKVVETLKRKGL----SMHPA 564

Length = 697

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

 Score =  132 bits (333), Expect = 8e-32
 Identities = 80/279 (28%), Positives = 132/279 (47%), Gaps = 6/279 (2%)

Query: 6   ILTLLRTCTGSKSLKEGKIIHQKVVTLGLQNNIALCKSLINLYFSCQNYDYAMLVFKTID 65
           I ++L  C     L  G  +H+     GL + + +  +LI +Y  C+  D A+ VF  I 
Sbjct: 392 IASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIP 451

Query: 66  NPLDLSLWNGLMASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLGSVGIG 125
              D+  W  ++A    N     AL  F  +L    LKP+S T  + L AC  +G++  G
Sbjct: 452 EK-DVISWTSIIAGLRLNNRCFEALIFFRQMLLT--LKPNSVTLIAALSACARIGALMCG 508

Query: 126 KMIHTHLIKTGFLLDVVIASSTAGMYAKCNSFECAVKMFDEMSERDVASWNTVISCYYQD 185
           K IH H+++TG   D  + ++   +Y +C     A   F+   E+DV SWN +++ Y   
Sbjct: 509 KEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFN-SHEKDVVSWNILLTGYVAH 567

Query: 186 GQAEKALELFKKMRGSGFQPNSVTLTTVISSCARLMDLDRGKEI-HKEFIKDGFVSDSYI 244
           G+   A+ELF +M  SG  P+ VT  +++ +C+R   + +G E  H    K     +   
Sbjct: 568 GKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKH 627

Query: 245 SSALVDMYGKCGCLEMAREVFEQTVLKSVVA-WNALIAG 282
            + +VD+ G+ G L  A     +  +    A W AL+  
Sbjct: 628 YACVVDLLGRAGKLTEAYNFINKMPITPDPAVWGALLNA 666

Length = 857

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

 Score =  122 bits (307), Expect = 8e-29
 Identities = 75/278 (26%), Positives = 141/278 (50%), Gaps = 6/278 (2%)

Query: 6   ILTLLRTCTGSKSLKEGKIIHQKVVTLGLQNNIALCKSLINLYFSCQNYDYAMLVFKTID 65
            + +LR   G  S + G+ +H  V+  G+  +  +  +LI++Y  C + + A  VF  + 
Sbjct: 227 FVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMP 286

Query: 66  NPLDLSLWNGLMASYTKNYMYITALELF-DMLLQNPYLKPDSYTYPSVLKACGGLGSVGI 124
               ++ WN ++A Y  +     AL L+ +M  ++  +  D +T+  +++    L  +  
Sbjct: 287 EKTTVA-WNSMLAGYALHGYSEEALCLYYEM--RDSGVSIDQFTFSIMIRIFSRLALLEH 343

Query: 125 GKMIHTHLIKTGFLLDVVIASSTAGMYAKCNSFECAVKMFDEMSERDVASWNTVISCYYQ 184
            K  H  LI+TGF LD+V  ++   +Y+K    E A  +FD M  +++ SWN +I+ Y  
Sbjct: 344 AKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGN 403

Query: 185 DGQAEKALELFKKMRGSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVSDSYI 244
            G+  KA+E+F++M   G  PN VT   V+S+C      ++G EI +   ++  +    +
Sbjct: 404 HGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAM 463

Query: 245 SSA-LVDMYGKCGCLEMAREVFEQTVLKSVV-AWNALI 280
             A ++++ G+ G L+ A  +  +   K  V  W AL+
Sbjct: 464 HYACMIELLGREGLLDEAYAMIRRAPFKPTVNMWAALL 501

Length = 697

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

 Score = 93.8 bits (233), Expect = 1e-19
 Identities = 84/348 (24%), Positives = 152/348 (43%), Gaps = 25/348 (7%)

Query: 181 CYYQDGQAEKALELFKKMRGSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVS 240
              QD   + AL + + ++ +G + +    TT+IS+CA+   +D   E+  E +  G  +
Sbjct: 448 ASSQD--IDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEA 505

Query: 241 DSYISSALVDMYGKCGCLEMAREVFEQTVLKSV----VAWNALIAGYSSRGDSKSCVKLF 296
           + +   AL+D   + G +  A   +     K+V    V +NALI+     G       + 
Sbjct: 506 NVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVL 565

Query: 297 WRMNEEG--IKPTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYF 354
             M  E   I P   T+ +++ +C+ +GQ+   K ++  I    I+G   + +  ++   
Sbjct: 566 AEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCS 625

Query: 355 KCGRVSSAENVFEKMSKTDVVYWNVMISGYVTV----GDYFKALAIYSDMKEVGAKPDAV 410
           + G    A ++++ M K  V    V  S  V V    GD  KA  I  D ++ G K   V
Sbjct: 626 QKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTV 685

Query: 411 TFTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGA--VDEAFKVFN 468
           +++S++ ACS     +K  E++  I   KL      M AL  + A C    + +A +V +
Sbjct: 686 SYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNAL--ITALCEGNQLPKALEVLS 743

Query: 469 ELPERDL----VSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSIT 512
           E+    L    ++++ ++ A      A   L L      S A+ D I 
Sbjct: 744 EMKRLGLCPNTITYSILLVASERKDDADVGLDLL-----SQAKEDGIK 786

Length = 1060

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

 Score = 78.4 bits (193), Expect = 6e-15
 Identities = 70/378 (18%), Positives = 156/378 (41%), Gaps = 53/378 (14%)

Query: 158 ECAVKMFDEMSERDVASWNTVI------SCYYQDGQAEKALELFKKMRGSGFQPNSVTLT 211
           +C + + ++M +R +   + +       +C  Q    ++A    K +R         T  
Sbjct: 388 DC-IDLLEDMEKRGLLDMDKIYHAKFFKACKKQ-RAVKEAFRFAKLIRNPTLS----TFN 441

Query: 212 TVISSCARLMDLDRGKEIHKEFIKDGFVSDSYISSALVDMYGKCGCLEMAREVFEQTVLK 271
            ++S CA   D+D    + +   + G  +D  + + L+    K G ++   EVF +    
Sbjct: 442 MLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHE---- 497

Query: 272 SVVAWNALIAGYSSRGDSKSCVKLFWRMNEEGIKPTLTTISSVLMSCSRSGQLKHGKVMH 331
                                      M   G++  + T  +++  C+R+GQ+      +
Sbjct: 498 ---------------------------MVNAGVEANVHTFGALIDGCARAGQVAKAFGAY 530

Query: 332 GYIIRNKIQGDVFINSSLIDLYFKCGRVSSAENVFEKMS------KTDVVYWNVMISGYV 385
           G +    ++ D  + ++LI    + G V  A +V  +M         D +    ++    
Sbjct: 531 GIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACA 590

Query: 386 TVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIESKLETNEI 445
             G   +A  +Y  + E   K     +T  + +CSQ    +    I++ + +  ++ +E+
Sbjct: 591 NAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEV 650

Query: 446 VMGALLDMYAKCGAVDEAFKVFNELPERDL----VSWTSMIAAYGSHGRALEALKLFGEM 501
              AL+D+    G +D+AF++  +  ++ +    VS++S++ A  +     +AL+L+ ++
Sbjct: 651 FFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDI 710

Query: 502 QQSNARPDSITFLALLSA 519
           +    RP   T  AL++A
Sbjct: 711 KSIKLRPTVSTMNALITA 728

Length = 1060

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

 Score = 77.6 bits (191), Expect = 1e-14
 Identities = 69/258 (26%), Positives = 114/258 (44%), Gaps = 48/258 (18%)

Query: 377 WNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHII 436
           +N+++S   +  D   AL +   ++E G K D   +T+++  C++   ++   E+ + ++
Sbjct: 440 FNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMV 499

Query: 437 ESKLETNEIVMGALLDMYAKCGAVDEAFKVF------NELPERDLVSWTSMIAAYGSHGR 490
            + +E N    GAL+D  A+ G V +AF  +      N  P+R  V + ++I+A G  G 
Sbjct: 500 NAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDR--VVFNALISACGQSGA 557

Query: 491 ALEALKLFGEMQQSNA--RPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNI------ 542
              A  +  EM+       PD IT  AL+ AC++AG VD     +  MI EYNI      
Sbjct: 558 VDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQ-MIHEYNIKGTPEV 616

Query: 543 -----------------------------QPRNEHYSCLIDLLGRAGRLQEAYGILQS-- 571
                                        +P    +S L+D+ G AG L +A+ ILQ   
Sbjct: 617 YTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDAR 676

Query: 572 TPEIREDAGLLSTLFSAC 589
              I+      S+L  AC
Sbjct: 677 KQGIKLGTVSYSSLMGAC 694

Length = 1060

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

 Score = 59.7 bits (146), Expect = 1e-11
 Identities = 18/49 (36%), Positives = 31/49 (63%)

Query: 171 DVASWNTVISCYYQDGQAEKALELFKKMRGSGFQPNSVTLTTVISSCAR 219
           DV ++NT+I  Y + G+ E+AL+LF +M+  G +PN  T + +I    +
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 63.7 bits (155), Expect = 2e-10
 Identities = 97/449 (21%), Positives = 181/449 (40%), Gaps = 77/449 (17%)

Query: 62  KTIDNPLDLSLWNGLMASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLGS 121
           K I NP  LS +N LM+    +     AL +   L+Q   LK D   Y +++  C   G 
Sbjct: 430 KLIRNP-TLSTFNMLMSVCASSQDIDGALRVL-RLVQEAGLKADCKLYTTLISTCAKSGK 487

Query: 122 V-------------GIGKMIHTHLIKTGFLLDVVIASSTAGMYAKCNSFECAVKMFDEMS 168
           V             G+   +HT     G L+D     + AG  AK      A   +  M 
Sbjct: 488 VDAMFEVFHEMVNAGVEANVHTF----GALID---GCARAGQVAK------AFGAYGIMR 534

Query: 169 ERDVAS----WNTVISCYYQDGQAEKALELFKKMRGSG--FQPNSVTLTTVISSCARLMD 222
            ++V      +N +IS   Q G  ++A ++  +M+       P+ +T+  ++ +CA    
Sbjct: 535 SKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQ 594

Query: 223 LDRGKEIHKEFIKDGFVSDSYISSALVDMYGKCGCLEMAREVFEQTVLKSV----VAWNA 278
           +DR KE+++   +        + +  V+   + G  + A  +++    K V    V ++A
Sbjct: 595 VDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSA 654

Query: 279 LI--AGYSSRGDSKSCVKLFWRMNEEGIKPTLTTISSVLMSCSRSGQLKHGKVMHGYIIR 336
           L+  AG++  GD     ++     ++GIK    + SS++ +CS +   K           
Sbjct: 655 LVDVAGHA--GDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKA--------- 703

Query: 337 NKIQGDVFINSSLIDLYFKCGRVSSAENVFEKMSKTDVVYWNVMISGYVTVGDYFKALAI 396
                        ++LY     +        K+  T V   N +I+         KAL +
Sbjct: 704 -------------LELYEDIKSI--------KLRPT-VSTMNALITALCEGNQLPKALEV 741

Query: 397 YSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGAL----LD 452
            S+MK +G  P+ +T++ +L A  +    + G ++ +   E  ++ N ++   +    L 
Sbjct: 742 LSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCLR 801

Query: 453 MYAKCGAVDEAFKVFNELPERDLVSWTSM 481
            + K  A+ E    F+    +    WTS 
Sbjct: 802 RFEKACALGEPVVSFDSGRPQIENKWTSW 830

Length = 1060

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

 Score = 55.9 bits (136), Expect = 2e-10
 Identities = 16/49 (32%), Positives = 30/49 (61%)

Query: 373 DVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQ 421
           DVV +N +I GY   G   +AL ++++MK+ G KP+  T++ ++    +
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 63.0 bits (153), Expect = 4e-10
 Identities = 70/326 (21%), Positives = 128/326 (39%), Gaps = 58/326 (17%)

Query: 314 VLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAENVFEKMSKTD 373
             ++    G +   +    YI       D + N  L D     GR+    ++ E M K  
Sbjct: 355 NSLAAYNGG-VSGKRKSPEYI-------DAY-NRLLRD-----GRIKDCIDLLEDMEKRG 400

Query: 374 VVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLP------------ACSQ 421
           ++  +      +    +FKA       K+  A  +A  F  ++              C+ 
Sbjct: 401 LLDMD-----KIYHAKFFKAC------KKQRAVKEAFRFAKLIRNPTLSTFNMLMSVCAS 449

Query: 422 LAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELP----ERDLVS 477
              ++    +   + E+ L+ +  +   L+   AK G VD  F+VF+E+     E ++ +
Sbjct: 450 SQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHT 509

Query: 478 WTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMI 537
           + ++I      G+  +A   +G M+  N +PD + F AL+SAC  +G VD        M 
Sbjct: 510 FGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMK 569

Query: 538 SEYN-IQPRNEHYSCLIDLLGRAG---RLQEAYGILQS-----TPEIREDAGLLSTLFSA 588
           +E + I P +     L+     AG   R +E Y ++       TPE+   A       ++
Sbjct: 570 AETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIA------VNS 623

Query: 589 CRLHRDIEMGEKIAKLLIEKD--PDD 612
           C    D +    I   + +K   PD+
Sbjct: 624 CSQKGDWDFALSIYDDMKKKGVKPDE 649

Length = 1060

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

 Score = 53.9 bits (131), Expect = 1e-09
 Identities = 16/49 (32%), Positives = 28/49 (57%)

Query: 474 DLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSH 522
           D+V++ ++I  Y   G+  EALKLF EM++   +P+  T+  L+     
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 45.9 bits (110), Expect = 7e-07
 Identities = 18/50 (36%), Positives = 27/50 (54%)

Query: 271 KSVVAWNALIAGYSSRGDSKSCVKLFWRMNEEGIKPTLTTISSVLMSCSR 320
             VV +N LI GY  +G  +  +KLF  M + GIKP + T S ++    +
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 = 52.2 bits (125), Expect = 9e-07
 Identities = 37/126 (29%), Positives = 61/126 (48%), Gaps = 3/126 (2%)

Query: 2   NITRILTLLRTCTGSKSLKEGKIIHQKVVTLGLQNNIALCKSLINLYFSCQNYDYAMLVF 61
           N   ++  L  C    +L  GK IH  V+  G+  +  L  +L++LY  C   +YA   F
Sbjct: 488 NSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQF 547

Query: 62  KTIDNPLDLSLWNGLMASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLGS 121
            +  +  D+  WN L+  Y  +     A+ELF+ ++++  + PD  T+ S+L AC   G 
Sbjct: 548 NS--HEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESG-VNPDEVTFISLLCACSRSGM 604

Query: 122 VGIGKM 127
           V  G  
Sbjct: 605 VTQGLE 610

Length = 857

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

 Score = 42.4 bits (101), Expect = 9e-06
 Identities = 14/30 (46%), Positives = 23/30 (76%)

Query: 174 SWNTVISCYYQDGQAEKALELFKKMRGSGF 203
           ++N++IS Y + G+ E+ALELFK+M+  G 
Sbjct: 2   TYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 42.1 bits (100), Expect = 1e-05
 Identities = 14/34 (41%), Positives = 24/34 (70%)

Query: 174 SWNTVISCYYQDGQAEKALELFKKMRGSGFQPNS 207
           ++NT+I    + G+ E+ALELFK+M+  G +P+ 
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 = 41.7 bits (99), Expect = 2e-05
 Identities = 12/30 (40%), Positives = 20/30 (66%)

Query: 476 VSWTSMIAAYGSHGRALEALKLFGEMQQSN 505
           V++ S+I+ Y   G+  EAL+LF EM++  
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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 38.2 bits (90), Expect = 3e-04
 Identities = 13/35 (37%), Positives = 20/35 (57%)

Query: 476 VSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDS 510
           V++ ++I      GR  EAL+LF EM++    PD 
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|205222 pfam13041, PPR_2, PPR repeat family

 Score = 38.2 bits (90), Expect = 4e-04
 Identities = 14/47 (29%), Positives = 27/47 (57%), Gaps = 4/47 (8%)

Query: 443 NEIVMGALLDMYAKCGAVDEAFKVFNELPER----DLVSWTSMIAAY 485
           + +    L+D Y K G V+EA K+FNE+ +R    ++ +++ +I   
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 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|215636 PLN03218, PLN03218, maturation of RBCL 1; Provisional

 Score = 42.9 bits (101), Expect = 5e-04
 Identities = 46/222 (20%), Positives = 94/222 (42%), Gaps = 22/222 (9%)

Query: 103 KPDSYTYPSVLKACGGLGSVGIGKMIHTHLIKTGFLLDVVIASSTAGMYAKCNSFECAVK 162
           KPD   + +++   G  G +     I     K G  L  V  SS  G  +   +++ A++
Sbjct: 646 KPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALE 705

Query: 163 MFDEMS----ERDVASWNTVISCYYQDGQAEKALELFKKMRGSGFQPNSVTLTTVISSCA 218
           +++++        V++ N +I+   +  Q  KALE+  +M+  G  PN++T + ++ +  
Sbjct: 706 LYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASE 765

Query: 219 RLMDLDRGKEIHKEFIKDGFVSDSYISSALVDMYGKCGCLEMAREVFEQTVLKSVVAWNA 278
           R  D D G ++  +  +DG   +  +   +  +     CL      FE    K+      
Sbjct: 766 RKDDADVGLDLLSQAKEDGIKPNLVMCRCITGL-----CLRR----FE----KACALGEP 812

Query: 279 LIAGYSSRGDSK-----SCVKLFWRMNEEGIKPTLTTISSVL 315
           +++  S R   +       + ++      G  PT+  +S VL
Sbjct: 813 VVSFDSGRPQIENKWTSWALMVYRETISAGTLPTMEVLSQVL 854

Length = 1060

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

 Score = 37.8 bits (89), Expect = 5e-04
 Identities = 12/33 (36%), Positives = 19/33 (57%)

Query: 377 WNVMISGYVTVGDYFKALAIYSDMKEVGAKPDA 409
           +N +I G    G   +AL ++ +MKE G +PD 
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|205222 pfam13041, PPR_2, PPR repeat family

 Score = 37.0 bits (87), Expect = 0.001
 Identities = 16/47 (34%), Positives = 26/47 (55%), Gaps = 4/47 (8%)

Query: 342 DVFINSSLIDLYFKCGRVSSAENVFEKMSKT----DVVYWNVMISGY 384
           DV   ++LID Y K G+V  A  +F +M K     +V  ++++I G 
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 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|144943 pfam01535, PPR, PPR repeat

 Score = 36.7 bits (86), Expect = 0.001
 Identities = 12/31 (38%), Positives = 20/31 (64%)

Query: 274 VAWNALIAGYSSRGDSKSCVKLFWRMNEEGI 304
           V +N+LI+GY   G  +  ++LF  M E+G+
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

>gnl|CDD|223533 COG0457, NrfG, FOG: TPR repeat [General function prediction only]

 Score = 39.4 bits (90), Expect = 0.004
 Identities = 41/222 (18%), Positives = 75/222 (33%), Gaps = 9/222 (4%)

Query: 376 YWNVMISGYVTVGDYFKALAIYSDMKEVGAKP-DAVTFTSVLPACSQLAALEKGKEIHNH 434
              ++    + +G   +AL +     E+   P  A    ++      L   E+  E+   
Sbjct: 61  LLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEK 120

Query: 435 IIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPERD------LVSWTSMIAAYGSH 488
            +    + +       L    + G  +EA +++ +  E D        +  ++ A   + 
Sbjct: 121 ALALDPDPDLAEALLALGALYELGDYEEALELYEKALELDPELNELAEALLALGALLEAL 180

Query: 489 GRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEH 548
           GR  EAL+L  +  + N   D+   L L       G  +E   Y+   +         E 
Sbjct: 181 GRYEEALELLEKALKLNPDDDAEALLNLGLLYLKLGKYEEALEYYEKALELDP--DNAEA 238

Query: 549 YSCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACR 590
              L  LL   GR +EA   L+   E+  D   L        
Sbjct: 239 LYNLALLLLELGRYEEALEALEKALELDPDLYNLGLALLLLL 280

Length = 291

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	694
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	100.0
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	100.0
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	100.0
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	100.0
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.97
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.97
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.94
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.93
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.93
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.91
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.91
KOG2076	895	consensus RNA polymerase III transcription factor	99.88
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.88
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.87
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.86
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.86
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.86
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.86
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.86
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.84
KOG2076	895	consensus RNA polymerase III transcription factor	99.84
PRK14574	822	hmsH outer membrane protein; Provisional	99.83
PRK14574	822	hmsH outer membrane protein; Provisional	99.82
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.81
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.8
KOG2003	840	consensus TPR repeat-containing protein [General f	99.8
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.79
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.72
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.69
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.68
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.67
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.66
KOG2003	840	consensus TPR repeat-containing protein [General f	99.66
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.63
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.61
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.61
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.61
KOG1126	638	consensus DNA-binding cell division cycle control	99.6
KOG1126	638	consensus DNA-binding cell division cycle control	99.6
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.6
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.59
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.59
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.58
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.56
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.55
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.55
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.55
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.52
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.51
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.51
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.49
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.48
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.47
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.46
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.44
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	99.44
KOG1129	478	consensus TPR repeat-containing protein [General f	99.43
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.41
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.4
KOG1129	478	consensus TPR repeat-containing protein [General f	99.39
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.38
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.37
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.37
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.36
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.33
PRK12370	553	invasion protein regulator; Provisional	99.32
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	99.31
PRK11189	296	lipoprotein NlpI; Provisional	99.31
PRK12370	553	invasion protein regulator; Provisional	99.3
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	99.29
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.27
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.27
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.26
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.26
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	99.25
KOG1125	579	consensus TPR repeat-containing protein [General f	99.25
KOG3616	1636	consensus Selective LIM binding factor [Transcript	99.24
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.23
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.23
PRK11189	296	lipoprotein NlpI; Provisional	99.22
KOG3616	1636	consensus Selective LIM binding factor [Transcript	99.19
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	99.19
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	99.14
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	99.14
PF13041	50	PPR_2: PPR repeat family	99.14
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.12
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	99.12
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.11
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	99.09
PF13041	50	PPR_2: PPR repeat family	99.08
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.07
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	99.07
KOG4340	459	consensus Uncharacterized conserved protein [Funct	99.05
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	99.02
KOG4340	459	consensus Uncharacterized conserved protein [Funct	99.02
PRK15359	144	type III secretion system chaperone protein SscB;	99.0
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.98
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.94
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.92
KOG1125	579	consensus TPR repeat-containing protein [General f	98.91
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.91
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.91
PRK15359	144	type III secretion system chaperone protein SscB;	98.9
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.87
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.85
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.85
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.84
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.82
PLN02789	320	farnesyltranstransferase	98.82
PRK04841	903	transcriptional regulator MalT; Provisional	98.82
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.8
PRK04841	903	transcriptional regulator MalT; Provisional	98.74
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.74
PLN02789	320	farnesyltranstransferase	98.71
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.7
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.65
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.65
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.64
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.63
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.61
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.61
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.58
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.57
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.56
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.53
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.45
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.44
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.43
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.42
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.42
KOG0553	304	consensus TPR repeat-containing protein [General f	98.35
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.34
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.33
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.31
PF12854	34	PPR_1: PPR repeat	98.3
KOG0553	304	consensus TPR repeat-containing protein [General f	98.29
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.29
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.28
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.27
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.23
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	98.23
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	98.23
PF12854	34	PPR_1: PPR repeat	98.22
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.22
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.2
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	98.2
PRK15331	165	chaperone protein SicA; Provisional	98.18
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	98.16
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.14
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.12
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	98.09
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.07
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	98.06
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	98.05
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	98.02
COG4700	251	Uncharacterized protein conserved in bacteria cont	98.02
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.01
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.94
COG3898	531	Uncharacterized membrane-bound protein [Function u	97.91
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	97.91
PF13371	73	TPR_9: Tetratricopeptide repeat	97.9
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.89
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.88
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.87
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.87
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.86
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.84
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.82
PF13431	34	TPR_17: Tetratricopeptide repeat	97.82
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.81
PF13812	34	PPR_3: Pentatricopeptide repeat domain	97.79
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.78
PRK10803	263	tol-pal system protein YbgF; Provisional	97.76
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	97.76
PF12688	120	TPR_5: Tetratrico peptide repeat	97.75
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.73
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	97.73
PF13812	34	PPR_3: Pentatricopeptide repeat domain	97.69
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.64
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.63
PRK10803	263	tol-pal system protein YbgF; Provisional	97.61
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.58
COG3898	531	Uncharacterized membrane-bound protein [Function u	97.57
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.56
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.54
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.54
PF13371	73	TPR_9: Tetratricopeptide repeat	97.54
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.54
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.53
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.53
PF13428	44	TPR_14: Tetratricopeptide repeat	97.45
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	97.43
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.43
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.41
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.41
PRK11906	458	transcriptional regulator; Provisional	97.38
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.37
PF12688	120	TPR_5: Tetratrico peptide repeat	97.36
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.36
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.3
PF13512	142	TPR_18: Tetratricopeptide repeat	97.27
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.24
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.22
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.21
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.19
PRK11906	458	transcriptional regulator; Provisional	97.18
KOG1258	577	consensus mRNA processing protein [RNA processing	97.17
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.15
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.12
COG0457	291	NrfG FOG: TPR repeat [General function prediction	97.11
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	97.1
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.1
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.01
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	97.0
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.97
COG0457	291	NrfG FOG: TPR repeat [General function prediction	96.93
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.86
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	96.85
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.83
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.78
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.78
PF13512	142	TPR_18: Tetratricopeptide repeat	96.77
KOG1258	577	consensus mRNA processing protein [RNA processing	96.77
KOG4555	175	consensus TPR repeat-containing protein [Function	96.74
KOG2041	1189	consensus WD40 repeat protein [General function pr	96.73
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.71
COG4105	254	ComL DNA uptake lipoprotein [General function pred	96.69
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.66
PRK15331	165	chaperone protein SicA; Provisional	96.59
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	96.56
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.55
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.48
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	96.46
KOG2396	568	consensus HAT (Half-A-TPR) repeat-containing prote	96.42
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	96.4
KOG1585	308	consensus Protein required for fusion of vesicles	96.34
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	96.33
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	96.29
COG3118	304	Thioredoxin domain-containing protein [Posttransla	96.24
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.22
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	96.2
KOG4234	271	consensus TPR repeat-containing protein [General f	96.16
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	96.12
KOG2610	491	consensus Uncharacterized conserved protein [Funct	96.1
COG3118	304	Thioredoxin domain-containing protein [Posttransla	96.06
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.04
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	95.95
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	95.93
KOG4648	536	consensus Uncharacterized conserved protein, conta	95.76
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	95.72
KOG4555	175	consensus TPR repeat-containing protein [Function	95.6
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	95.6
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	95.54
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.45
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	95.43
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	95.32
PRK11619	644	lytic murein transglycosylase; Provisional	95.25
KOG4234	271	consensus TPR repeat-containing protein [General f	95.17
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	95.11
KOG1941	518	consensus Acetylcholine receptor-associated protei	95.1
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	94.98
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	94.96
PF13428	44	TPR_14: Tetratricopeptide repeat	94.93
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	94.91
PRK09687	280	putative lyase; Provisional	94.91
COG1747	711	Uncharacterized N-terminal domain of the transcrip	94.69
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	94.46
KOG2062	929	consensus 26S proteasome regulatory complex, subun	94.39
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	94.3
KOG2610	491	consensus Uncharacterized conserved protein [Funct	94.16
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	94.16
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	94.07
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	93.9
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	93.87
PRK10941	269	hypothetical protein; Provisional	93.7
PRK11619	644	lytic murein transglycosylase; Provisional	93.59
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	93.58
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	93.54
smart00299	140	CLH Clathrin heavy chain repeat homology.	93.52
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	93.5
KOG3941	406	consensus Intermediate in Toll signal transduction	93.36
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	93.31
KOG4642	284	consensus Chaperone-dependent E3 ubiquitin protein	93.26
COG4105	254	ComL DNA uptake lipoprotein [General function pred	93.24
PF13431	34	TPR_17: Tetratricopeptide repeat	93.06
COG3947	361	Response regulator containing CheY-like receiver a	93.03
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	92.92
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	92.72
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	92.71
KOG1586	288	consensus Protein required for fusion of vesicles	92.47
KOG3941	406	consensus Intermediate in Toll signal transduction	92.42
KOG4648	536	consensus Uncharacterized conserved protein, conta	92.33
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	92.29
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	92.09
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	92.0
COG3629	280	DnrI DNA-binding transcriptional activator of the	91.96
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	91.86
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	91.8
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	91.74
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	91.72
KOG0376	476	consensus Serine-threonine phosphatase 2A, catalyt	91.67
KOG1585	308	consensus Protein required for fusion of vesicles	91.6
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	91.5
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	91.37
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	91.05
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	90.84
KOG1308	377	consensus Hsp70-interacting protein Hip/Transient	90.72
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	90.68
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	90.66
KOG0551	390	consensus Hsp90 co-chaperone CNS1 (contains TPR re	90.61
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	90.44
COG3629	280	DnrI DNA-binding transcriptional activator of the	90.34
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	90.32
KOG1550	552	consensus Extracellular protein SEL-1 and related	90.03
KOG4507	886	consensus Uncharacterized conserved protein, conta	90.02
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	89.85
PF14853	53	Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repe	89.78
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	89.53
KOG3364	149	consensus Membrane protein involved in organellar	89.33
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	89.24
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	88.97
PF14561	90	TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S	88.86
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	88.77
COG1747	711	Uncharacterized N-terminal domain of the transcrip	88.72
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	88.36
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	88.23
KOG2396	568	consensus HAT (Half-A-TPR) repeat-containing prote	88.07
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	87.85
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	87.47
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	87.24
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	87.21
KOG1550	552	consensus Extracellular protein SEL-1 and related	86.6
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	86.59
KOG4570	418	consensus Uncharacterized conserved protein [Funct	86.24
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	86.01
KOG0545	329	consensus Aryl-hydrocarbon receptor-interacting pr	85.74
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	85.66
PRK09687	280	putative lyase; Provisional	85.56
PF04910	360	Tcf25: Transcriptional repressor TCF25; InterPro:	85.23
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	85.1
COG4455	273	ImpE Protein of avirulence locus involved in tempe	85.0
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	84.33
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	84.33
KOG2063	877	consensus Vacuolar assembly/sorting proteins VPS39	84.3
COG4455	273	ImpE Protein of avirulence locus involved in tempe	83.81
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	83.79
KOG4570	418	consensus Uncharacterized conserved protein [Funct	83.61
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	83.6
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	83.56
PF09986	214	DUF2225: Uncharacterized protein conserved in bact	83.56
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	82.91
smart00386	33	HAT HAT (Half-A-TPR) repeats. Present in several R	82.58
KOG4507	886	consensus Uncharacterized conserved protein, conta	82.47
KOG2063	877	consensus Vacuolar assembly/sorting proteins VPS39	82.38
PF14853	53	Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repe	82.05
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	81.94
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	81.77
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	81.77
KOG3364	149	consensus Membrane protein involved in organellar	81.67
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	81.5
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	81.14
KOG1586	288	consensus Protein required for fusion of vesicles	81.09
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	80.64
COG2912	269	Uncharacterized conserved protein [Function unknow	80.41
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	80.38
KOG2471	696	consensus TPR repeat-containing protein [General f	80.04

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=3.2e-97  Score=820.40  Aligned_cols=687  Identities=34%  Similarity=0.658  Sum_probs=671.8

Q ss_pred             hhhHHHHHHHhhCCCChhhHhHHHHHHHHhCCCCCchhhhHHHHHHhcCCChhHHHHHHhhCCCCCchhhHHHHHHHHHc
Q 005487            3 ITRILTLLRTCTGSKSLKEGKIIHQKVVTLGLQNNIALCKSLINLYFSCQNYDYAMLVFKTIDNPLDLSLWNGLMASYTK   82 (694)
Q Consensus         3 ~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~l~~~~~~   82 (694)
                      ...+..++++|...+....+..++..+++.|..+++.+++.++..|++.|+++.|.++|++|+.|+.. +|+.||.+|.+
T Consensus        86 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~n~li~~~~~~g~~~~A~~~f~~m~~~d~~-~~n~li~~~~~  164 (857)
T PLN03077         86 EDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPERDLF-SWNVLVGGYAK  164 (857)
T ss_pred             hhHHHHHHHHHhhCCCHHHHHHHHHHHHHcCCCCCchHHHHHHHHHHhCCChHHHHHHHhcCCCCCee-EHHHHHHHHHh
Confidence            44567778888888888888888888888888888889999999999999999999999999999988 99999999999


Q ss_pred             cCChhHHHHHHHHhhhCCCCCCCcccHHHHHHHhhCCCCchhHHHHHHHHHHHcCCCchhHHHHHHHhhhcCCChHHHHH
Q 005487           83 NYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLGSVGIGKMIHTHLIKTGFLLDVVIASSTAGMYAKCNSFECAVK  162 (694)
Q Consensus        83 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  162 (694)
                      .|++++|+++|+.|... |+.||..||+.++++|...+++..+.+++..+.+.|+.||..+++.++.+|++.|++++|.+
T Consensus       165 ~g~~~~A~~~f~~M~~~-g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~  243 (857)
T PLN03077        165 AGYFDEALCLYHRMLWA-GVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARL  243 (857)
T ss_pred             CCCHHHHHHHHHHHHHc-CCCCChhHHHHHHHHhCCccchhhHHHHHHHHHHcCCCcccchHhHHHHHHhcCCCHHHHHH
Confidence            99999999999999998 99999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhccCCCCCcccHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHHhCCCCch
Q 005487          163 MFDEMSERDVASWNTVISCYYQDGQAEKALELFKKMRGSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVSDS  242 (694)
Q Consensus       163 ~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~  242 (694)
                      +|++|+.+|..+||.+|.+|++.|++++|+++|.+|...|+.||..||+.++.+|++.|+.+.+.+++..+.+.|+.||.
T Consensus       244 lf~~m~~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~  323 (857)
T PLN03077        244 VFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDV  323 (857)
T ss_pred             HHhcCCCCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccch
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHhhHhcCChHHHHHHHhcCCCCChhHHHHHHHHHHcCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccC
Q 005487          243 YISSALVDMYGKCGCLEMAREVFEQTVLKSVVAWNALIAGYSSRGDSKSCVKLFWRMNEEGIKPTLTTISSVLMSCSRSG  322 (694)
Q Consensus       243 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~  322 (694)
                      .+|+.|+.+|++.|++++|.++|++|..+|..+|++++.+|.+.|++++|.++|++|.+.|+.||..||+.++.+|++.|
T Consensus       324 ~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g  403 (857)
T PLN03077        324 SVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLG  403 (857)
T ss_pred             HHHHHHHHHHHhcCCHHHHHHHHhhCCCCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ChhhhHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHH
Q 005487          323 QLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAENVFEKMSKTDVVYWNVMISGYVTVGDYFKALAIYSDMKE  402 (694)
Q Consensus       323 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~m~~  402 (694)
                      +++.+.++++.+.+.|+.++..++++++.+|++.|++++|.++|++|.++|..+|+.++.+|++.|+.++|+.+|++|..
T Consensus       404 ~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~  483 (857)
T PLN03077        404 DLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLL  483 (857)
T ss_pred             hHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999986


Q ss_pred             cCCCCCHHHHHHHHHHHcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCCCChHHHHHHH
Q 005487          403 VGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPERDLVSWTSMI  482 (694)
Q Consensus       403 ~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~  482 (694)
                       ++.||..||..++.+|++.|+.+.+.+++..+.+.|+.++..++++++.+|+++|++++|.++|+.+ .+|..+|+.++
T Consensus       484 -~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~-~~d~~s~n~lI  561 (857)
T PLN03077        484 -TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH-EKDVVSWNILL  561 (857)
T ss_pred             -CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhc-CCChhhHHHHH
Confidence             5999999999999999999999999999999999999999999999999999999999999999999 89999999999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCH
Q 005487          483 AAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRL  562 (694)
Q Consensus       483 ~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~  562 (694)
                      .+|++.|+.++|+++|++|.+.|+.||..||+.++.+|.+.|.+++|.++|+.|.+++++.|+..+|..++++|.+.|++
T Consensus       562 ~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~  641 (857)
T PLN03077        562 TGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKL  641 (857)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCH
Confidence            99999999999999999999999999999999999999999999999999999997889999999999999999999999


Q ss_pred             HHHHHHHHhCCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHHHHhC
Q 005487          563 QEAYGILQSTPEIREDAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKEL  642 (694)
Q Consensus       563 ~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  642 (694)
                      ++|.+++++|+ ..|+..+|..++.+|..+|+.+.++...+++++++|+++..|..|+++|...|+|++|.++.+.|++.
T Consensus       642 ~eA~~~~~~m~-~~pd~~~~~aLl~ac~~~~~~e~~e~~a~~l~~l~p~~~~~y~ll~n~ya~~g~~~~a~~vr~~M~~~  720 (857)
T PLN03077        642 TEAYNFINKMP-ITPDPAVWGALLNACRIHRHVELGELAAQHIFELDPNSVGYYILLCNLYADAGKWDEVARVRKTMREN  720 (857)
T ss_pred             HHHHHHHHHCC-CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhhCCCCcchHHHHHHHHHHCCChHHHHHHHHHHHHc
Confidence            99999999998 89999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCccCCceeEEEECCEEEEEEeCCCCCCChHHHHHHHHHHHHHhhh--ccCCCC
Q 005487          643 GLRKNPGCSWIEIGDRIQPFFAEDKFYPQADMVYECLAILAGHMEK--DELLPS  694 (694)
Q Consensus       643 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~  694 (694)
                      |++|+||.||+++++.+|.|+++|..||...++|+.|.++..+|++  |.|+|+
T Consensus       721 g~~k~~g~s~ie~~~~~~~f~~~d~~h~~~~~i~~~l~~l~~~~~~~g~~~~~~  774 (857)
T PLN03077        721 GLTVDPGCSWVEVKGKVHAFLTDDESHPQIKEINTVLEGFYEKMKASGLAGSES  774 (857)
T ss_pred             CCCCCCCccEEEECCEEEEEecCCCCCcchHHHHHHHHHHHHHHHhCCcCCCcc
Confidence            9999999999999999999999999999999999999999999999  999974

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

Probab=100.00  E-value=3e-74  Score=622.03  Aligned_cols=524  Identities=31%  Similarity=0.603  Sum_probs=514.9

Q ss_pred             CCcccHHHHHHHHHhCCChhHHHHHHHHHHhCC-CCCChhhHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchhHHHHH
Q 005487          170 RDVASWNTVISCYYQDGQAEKALELFKKMRGSG-FQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVSDSYISSAL  248 (694)
Q Consensus       170 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  248 (694)
                      ++..+|+.+|..+.+.|++++|+++|+.|...+ +.||..+|+.++.+|++.++.+.+.+++..|.+.|+.||..+++.+
T Consensus        85 ~~~~~~~~~i~~l~~~g~~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~L  164 (697)
T PLN03081         85 KSGVSLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRV  164 (697)
T ss_pred             CCceeHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHHH
Confidence            567799999999999999999999999998764 7899999999999999999999999999999999999999999999


Q ss_pred             HHhhHhcCChHHHHHHHhcCCCCChhHHHHHHHHHHcCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChhhhH
Q 005487          249 VDMYGKCGCLEMAREVFEQTVLKSVVAWNALIAGYSSRGDSKSCVKLFWRMNEEGIKPTLTTISSVLMSCSRSGQLKHGK  328 (694)
Q Consensus       249 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~  328 (694)
                      +.+|++.|+++.|.++|++|..+|..+|++++.+|++.|++++|.++|++|.+.|+.|+..||..++.+|++.|..+.+.
T Consensus       165 i~~y~k~g~~~~A~~lf~~m~~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~  244 (697)
T PLN03081        165 LLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQ  244 (697)
T ss_pred             HHHHhcCCCHHHHHHHHhcCCCCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhcCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC
Q 005487          329 VMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAENVFEKMSKTDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPD  408 (694)
Q Consensus       329 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~m~~~g~~p~  408 (694)
                      +++..+.+.|+.+|..++++++.+|++.|++++|.++|+.|.++|+.+||.++.+|++.|++++|+++|++|.+.|+.||
T Consensus       245 ~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd  324 (697)
T PLN03081        245 QLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSID  324 (697)
T ss_pred             HHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCCCChHHHHHHHHHHHhc
Q 005487          409 AVTFTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPERDLVSWTSMIAAYGSH  488 (694)
Q Consensus       409 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~  488 (694)
                      ..||+.++.+|++.|+++.|.+++..+.+.|++|+..+++.++.+|+++|++++|.++|+.|.++|..+|+.|+.+|++.
T Consensus       325 ~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~~d~~t~n~lI~~y~~~  404 (697)
T PLN03081        325 QFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNH  404 (697)
T ss_pred             HHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHHHHHH
Q 005487          489 GRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGI  568 (694)
Q Consensus       489 ~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~  568 (694)
                      |+.++|+++|++|.+.|+.||..||+.++.+|.+.|.+++|.++|+.|.+++++.|+..+|+.++++|.+.|++++|.++
T Consensus       405 G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~  484 (697)
T PLN03081        405 GRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAM  484 (697)
T ss_pred             CCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHH
Confidence            99999999999999999999999999999999999999999999999997789999999999999999999999999999


Q ss_pred             HHhCCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHHHHhCCCccCC
Q 005487          569 LQSTPEIREDAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELGLRKNP  648 (694)
Q Consensus       569 ~~~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~  648 (694)
                      +++++ ..|+..+|..++.+|..+|+++.|+.+++++++..|++...|..|+.+|.+.|+|++|.++++.|.+.|+++.|
T Consensus       485 ~~~~~-~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~~p~~~~~y~~L~~~y~~~G~~~~A~~v~~~m~~~g~~k~~  563 (697)
T PLN03081        485 IRRAP-FKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMGPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLSMHP  563 (697)
T ss_pred             HHHCC-CCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhCCCCCCCcchHHHHHHHHhCCCHHHHHHHHHHHHHcCCccCC
Confidence            99998 89999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ceeEEEECCEEEEEEeCCCCCCChHHHHHHHHHHHHHhhh--ccCCCC
Q 005487          649 GCSWIEIGDRIQPFFAEDKFYPQADMVYECLAILAGHMEK--DELLPS  694 (694)
Q Consensus       649 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~  694 (694)
                      |.||+++++.++.|+++|..||...++|+.|.++..+|++  |.|+|+
T Consensus       564 g~s~i~~~~~~~~f~~~d~~h~~~~~i~~~l~~l~~~~~~~gy~~~~~  611 (697)
T PLN03081        564 ACTWIEVKKQDHSFFSGDRLHPQSREIYQKLDELMKEISEYGYVAEEN  611 (697)
T ss_pred             CeeEEEECCeEEEEccCCCCCccHHHHHHHHHHHHHHHHHcCCCCCcc
Confidence            9999999999999999999999999999999999999999  999974

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=2e-73  Score=630.84  Aligned_cols=570  Identities=30%  Similarity=0.504  Sum_probs=555.5

Q ss_pred             hHHHHHHHHHccCChhHHHHHHHHhhhCCCCCCCcccHHHHHHHhhCCCCchhHHHHHHHHHHHcCCCchhHHHHHHHhh
Q 005487           72 LWNGLMASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLGSVGIGKMIHTHLIKTGFLLDVVIASSTAGMY  151 (694)
Q Consensus        72 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  151 (694)
                      +++.++.++++.|++++|+.+|+.|.+. |++|+..+|..++.+|.+.+.++.+.+++..+.+.+..++...++.++.+|
T Consensus        53 ~~n~~i~~l~~~g~~~~A~~l~~~m~~~-g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~n~li~~~  131 (857)
T PLN03077         53 DSNSQLRALCSHGQLEQALKLLESMQEL-RVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLGNAMLSMF  131 (857)
T ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHHHhc-CCCCChhHHHHHHHHHhhCCCHHHHHHHHHHHHHcCCCCCchHHHHHHHHH
Confidence            8999999999999999999999999998 899999999999999999999999999999999999999999999999999


Q ss_pred             hcCCChHHHHHHhccCCCCCcccHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChhHHHHHHH
Q 005487          152 AKCNSFECAVKMFDEMSERDVASWNTVISCYYQDGQAEKALELFKKMRGSGFQPNSVTLTTVISSCARLMDLDRGKEIHK  231 (694)
Q Consensus       152 ~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~  231 (694)
                      ++.|+++.|.++|++|++||..+||.+|.+|.+.|++++|+++|++|...|+.||..||+.++.+|+..+++..+.+++.
T Consensus       132 ~~~g~~~~A~~~f~~m~~~d~~~~n~li~~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~  211 (857)
T PLN03077        132 VRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHA  211 (857)
T ss_pred             HhCCChHHHHHHHhcCCCCCeeEHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHhCCccchhhHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhCCCCchhHHHHHHHhhHhcCChHHHHHHHhcCCCCChhHHHHHHHHHHcCCCchHHHHHHHHHHHCCCCCCHHHH
Q 005487          232 EFIKDGFVSDSYISSALVDMYGKCGCLEMAREVFEQTVLKSVVAWNALIAGYSSRGDSKSCVKLFWRMNEEGIKPTLTTI  311 (694)
Q Consensus       232 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~  311 (694)
                      .+.+.|+.|+..+++.|+.+|++.|+++.|.++|++|..+|..+||++|.+|++.|++++|+++|++|.+.|+.||..||
T Consensus       212 ~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty  291 (857)
T PLN03077        212 HVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTI  291 (857)
T ss_pred             HHHHcCCCcccchHhHHHHHHhcCCCHHHHHHHHhcCCCCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhccCChhhhHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChH
Q 005487          312 SSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAENVFEKMSKTDVVYWNVMISGYVTVGDYF  391 (694)
Q Consensus       312 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  391 (694)
                      +.++.+|++.|+.+.+.+++..+.+.|+.||..+|+.++.+|++.|++++|.++|++|..+|..+|+.++.+|.+.|+++
T Consensus       292 ~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~s~n~li~~~~~~g~~~  371 (857)
T PLN03077        292 TSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPD  371 (857)
T ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCeeeHHHHHHHHHhCCCHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC
Q 005487          392 KALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELP  471 (694)
Q Consensus       392 ~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  471 (694)
                      +|+++|++|.+.|+.||..||+.++.+|++.|+++.|.++++.+.+.|+.|+..+++.++.+|++.|++++|.++|++|.
T Consensus       372 ~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~  451 (857)
T PLN03077        372 KALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIP  451 (857)
T ss_pred             HHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHH
Q 005487          472 ERDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSC  551 (694)
Q Consensus       472 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~  551 (694)
                      ++|..+|+.++.+|.+.|+.++|+.+|++|.. ++.||..+|..++.+|.+.|.++.+.+++..+. +.|+.++..+++.
T Consensus       452 ~~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~-~~g~~~~~~~~na  529 (857)
T PLN03077        452 EKDVISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVL-RTGIGFDGFLPNA  529 (857)
T ss_pred             CCCeeeHHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHH-HhCCCccceechH
Confidence            99999999999999999999999999999986 589999999999999999999999999999998 5599999999999


Q ss_pred             HHHHhhhcCCHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCCccHHHHHHHHhhcCChH
Q 005487          552 LIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRDIEMGEKIAKLLIEKD-PDDSSTYIVLSNMYASVKKWD  630 (694)
Q Consensus       552 l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~g~~~  630 (694)
                      |++.|.+.|++++|+++|+.+   .||..+|+.++.+|.++|+.++|.++|+++.+.+ .+|..+|..++.+|.+.|+++
T Consensus       530 Li~~y~k~G~~~~A~~~f~~~---~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~  606 (857)
T PLN03077        530 LLDLYVRCGRMNYAWNQFNSH---EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVT  606 (857)
T ss_pred             HHHHHHHcCCHHHHHHHHHhc---CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHH
Confidence            999999999999999999998   7899999999999999999999999999999865 347888999999999999999


Q ss_pred             HHHHHHHHHH-hCCCccC
Q 005487          631 EVRKIRLKMK-ELGLRKN  647 (694)
Q Consensus       631 ~A~~~~~~~~-~~~~~~~  647 (694)
                      +|.++|+.|. +.|+.++
T Consensus       607 ea~~~f~~M~~~~gi~P~  624 (857)
T PLN03077        607 QGLEYFHSMEEKYSITPN  624 (857)
T ss_pred             HHHHHHHHHHHHhCCCCc
Confidence            9999999998 5676554

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

Probab=100.00  E-value=1.2e-63  Score=539.52  Aligned_cols=471  Identities=28%  Similarity=0.471  Sum_probs=457.0

Q ss_pred             hHHHHHHHHHccCChhHHHHHHHHhhhCCCCCCCcccHHHHHHHhhCCCCchhHHHHHHHHHHHcCCCchhHHHHHHHhh
Q 005487           72 LWNGLMASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLGSVGIGKMIHTHLIKTGFLLDVVIASSTAGMY  151 (694)
Q Consensus        72 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  151 (694)
                      +|+.++.++.+.|++++|+++|+.|...++..||..+|+.++.+|.+.++++.+.+++..|.+.|+.||..+++.++.+|
T Consensus        89 ~~~~~i~~l~~~g~~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~Li~~y  168 (697)
T PLN03081         89 SLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMH  168 (697)
T ss_pred             eHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHHHHHHH
Confidence            89999999999999999999999999875688999999999999999999999999999999999999999999999999


Q ss_pred             hcCCChHHHHHHhccCCCCCcccHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChhHHHHHHH
Q 005487          152 AKCNSFECAVKMFDEMSERDVASWNTVISCYYQDGQAEKALELFKKMRGSGFQPNSVTLTTVISSCARLMDLDRGKEIHK  231 (694)
Q Consensus       152 ~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~  231 (694)
                      ++.|++++|.++|++|++||..+||.+|.+|++.|++++|+++|++|.+.|+.|+..||..++.+|+..|..+.+.+++.
T Consensus       169 ~k~g~~~~A~~lf~~m~~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~  248 (697)
T PLN03081        169 VKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHC  248 (697)
T ss_pred             hcCCCHHHHHHHHhcCCCCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhCCCCchhHHHHHHHhhHhcCChHHHHHHHhcCCCCChhHHHHHHHHHHcCCCchHHHHHHHHHHHCCCCCCHHHH
Q 005487          232 EFIKDGFVSDSYISSALVDMYGKCGCLEMAREVFEQTVLKSVVAWNALIAGYSSRGDSKSCVKLFWRMNEEGIKPTLTTI  311 (694)
Q Consensus       232 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~  311 (694)
                      .+.+.|+.+|..+++.|+.+|++.|++++|.++|++|..+|+.+||+++.+|++.|++++|.++|++|.+.|+.||..||
T Consensus       249 ~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~  328 (697)
T PLN03081        249 CVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTF  328 (697)
T ss_pred             HHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhccCChhhhHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChH
Q 005487          312 SSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAENVFEKMSKTDVVYWNVMISGYVTVGDYF  391 (694)
Q Consensus       312 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  391 (694)
                      +.++.+|++.|.++.|.+++..|.+.|+.++..++++++.+|+++|++++|.++|++|.++|..+||.+|.+|++.|+.+
T Consensus       329 ~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~~d~~t~n~lI~~y~~~G~~~  408 (697)
T PLN03081        329 SIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGT  408 (697)
T ss_pred             HHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHcCCHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHcccCChHHHHHHHHHHHH-hCCCCChhHHHHHHHHHHhcCChHHHHHHHhhC
Q 005487          392 KALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIE-SKLETNEIVMGALLDMYAKCGAVDEAFKVFNEL  470 (694)
Q Consensus       392 ~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  470 (694)
                      +|+++|++|.+.|+.||..||+.++.+|++.|.+++|.++|+.|.+ .|+.|+..+|+.++.+|++.|++++|.++++++
T Consensus       409 ~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~  488 (697)
T PLN03081        409 KAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRA  488 (697)
T ss_pred             HHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHHC
Confidence            9999999999999999999999999999999999999999999976 699999999999999999999999999999999


Q ss_pred             CC-CChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-CHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCC
Q 005487          471 PE-RDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARP-DSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPR  545 (694)
Q Consensus       471 ~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~  545 (694)
                      .. |+..+|++|+.+|...|+++.|..+++++.+.  .| +..+|..++..|.+.|++++|.++++.|.+ .|+.+.
T Consensus       489 ~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~--~p~~~~~y~~L~~~y~~~G~~~~A~~v~~~m~~-~g~~k~  562 (697)
T PLN03081        489 PFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGM--GPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKR-KGLSMH  562 (697)
T ss_pred             CCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhCC--CCCCCcchHHHHHHHHhCCCHHHHHHHHHHHHH-cCCccC
Confidence            76 99999999999999999999999999999864  55 467999999999999999999999999984 476543

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=2.1e-63  Score=537.95  Aligned_cols=542  Identities=15%  Similarity=0.203  Sum_probs=467.9

Q ss_pred             HhHHHHHHHHhCCCCCchhhhHHHHHHhcCCChhHHHHHHhhCCCCCc----hhhHHHHHHHHHccCChhHHHHHHHHhh
Q 005487           22 GKIIHQKVVTLGLQNNIALCKSLINLYFSCQNYDYAMLVFKTIDNPLD----LSLWNGLMASYTKNYMYITALELFDMLL   97 (694)
Q Consensus        22 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~   97 (694)
                      ...+-.........++...|..++..+++.|++++|.++|+.|+.++.    ...++.++.+|.+.|..+.|+.+|+.|.
T Consensus       354 ~~~~~~~~~~~~~~~~~~~~~~~y~~l~r~G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~  433 (1060)
T PLN03218        354 ENSLAAYNGGVSGKRKSPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIR  433 (1060)
T ss_pred             hhhHHHhccccCCCCCchHHHHHHHHHHHCcCHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcC
Confidence            333333344445566777888888888899999999999998876432    2245667788888899999999988885


Q ss_pred             hCCCCCCCcccHHHHHHHhhCCCCchhHHHHHHHHHHHcCCCchhHHHHHHHhhhcCCChHHHHHHhccCCC----CCcc
Q 005487           98 QNPYLKPDSYTYPSVLKACGGLGSVGIGKMIHTHLIKTGFLLDVVIASSTAGMYAKCNSFECAVKMFDEMSE----RDVA  173 (694)
Q Consensus        98 ~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~~  173 (694)
                      .     ||..+|+.++.+|++.|+++.|.++|+.|.+.|+.||..+|+.++.+|++.|++++|.++|++|.+    ||..
T Consensus       434 ~-----pd~~Tyn~LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~Pdvv  508 (1060)
T PLN03218        434 N-----PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVH  508 (1060)
T ss_pred             C-----CCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHH
Confidence            2     788899999999999999999999999999999999999999999999999999999999998873    7888


Q ss_pred             cHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHH--hCCCCchhHHHHHHHh
Q 005487          174 SWNTVISCYYQDGQAEKALELFKKMRGSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIK--DGFVSDSYISSALVDM  251 (694)
Q Consensus       174 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~l~~~  251 (694)
                      +|+.+|.+|++.|++++|.++|+.|.+.|+.||..+|+.++.+|++.|+++.|.+++++|.+  .|+.||..+|+.++.+
T Consensus       509 TynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~a  588 (1060)
T PLN03218        509 TFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKA  588 (1060)
T ss_pred             HHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999986  5788999999999999


Q ss_pred             hHhcCChHHHHHHHhcCCC----CChhHHHHHHHHHHcCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChhhh
Q 005487          252 YGKCGCLEMAREVFEQTVL----KSVVAWNALIAGYSSRGDSKSCVKLFWRMNEEGIKPTLTTISSVLMSCSRSGQLKHG  327 (694)
Q Consensus       252 ~~~~g~~~~A~~~~~~~~~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a  327 (694)
                      |++.|++++|.++|+.|.+    ++..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|++.|+++.|
T Consensus       589 y~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA  668 (1060)
T PLN03218        589 CANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKA  668 (1060)
T ss_pred             HHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHH
Confidence            9999999999999988854    567899999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCC----CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 005487          328 KVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAENVFEKMS----KTDVVYWNVMISGYVTVGDYFKALAIYSDMKEV  403 (694)
Q Consensus       328 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~A~~~~~~m~~~  403 (694)
                      .++++.|.+.|+.|+..+|++++.+|++.|++++|.++|++|.    .||..+|+.+|.+|++.|++++|.++|++|...
T Consensus       669 ~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~  748 (1060)
T PLN03218        669 FEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRL  748 (1060)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc
Confidence            9999999999999999999999999999999999999999995    689999999999999999999999999999999


Q ss_pred             CCCCCHHHHHHHHHHHcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCCCChHHHHHHHH
Q 005487          404 GAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPERDLVSWTSMIA  483 (694)
Q Consensus       404 g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~  483 (694)
                      |+.||..||+.++.+|++.|+++.|.+++.+|.+.|+.|+..+|+.++.++.  +.+++|..+.+.+..-+.      ..
T Consensus       749 Gi~Pd~~Ty~sLL~a~~k~G~le~A~~l~~~M~k~Gi~pd~~tynsLIglc~--~~y~ka~~l~~~v~~f~~------g~  820 (1060)
T PLN03218        749 GLCPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCL--RRFEKACALGEPVVSFDS------GR  820 (1060)
T ss_pred             CCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH--HHHHHHhhhhhhhhhhhc------cc
Confidence            9999999999999999999999999999999999999999999999987654  245555554433322110      01


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHH
Q 005487          484 AYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQ  563 (694)
Q Consensus       484 ~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~  563 (694)
                      .....+..+.|..+|++|++.|+.||..+|..++.++...+....+..+++.|. ..+..|+..+|+.+++.+.+.  .+
T Consensus       821 ~~~~n~w~~~Al~lf~eM~~~Gi~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~-~~~~~~~~~~y~~Li~g~~~~--~~  897 (1060)
T PLN03218        821 PQIENKWTSWALMVYRETISAGTLPTMEVLSQVLGCLQLPHDATLRNRLIENLG-ISADSQKQSNLSTLVDGFGEY--DP  897 (1060)
T ss_pred             cccccchHHHHHHHHHHHHHCCCCCCHHHHHHHHHHhcccccHHHHHHHHHHhc-cCCCCcchhhhHHHHHhhccC--hH
Confidence            111123346799999999999999999999999988888899999988888886 336778888999999988432  47


Q ss_pred             HHHHHHHhCCC--CCCCH
Q 005487          564 EAYGILQSTPE--IREDA  579 (694)
Q Consensus       564 ~A~~~~~~~~~--~~p~~  579 (694)
                      +|..++++|.+  +.|+.
T Consensus       898 ~A~~l~~em~~~Gi~p~~  915 (1060)
T PLN03218        898 RAFSLLEEAASLGVVPSV  915 (1060)
T ss_pred             HHHHHHHHHHHcCCCCCc
Confidence            89999999876  44443

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=3.7e-60  Score=512.72  Aligned_cols=505  Identities=18%  Similarity=0.255  Sum_probs=440.1

Q ss_pred             CCCCcccHHHHHHHhhCCCCchhHHHHHHHHHHHcC-CCchhHHHHHHHhhhcCCChHHHHHHhccCCCCCcccHHHHHH
Q 005487          102 LKPDSYTYPSVLKACGGLGSVGIGKMIHTHLIKTGF-LLDVVIASSTAGMYAKCNSFECAVKMFDEMSERDVASWNTVIS  180 (694)
Q Consensus       102 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~  180 (694)
                      ..++...|..++..+.+.|+++.|.++|+.|.+.|+ +++..+++.++..|.+.|.+++|..+|+.|..||..+|+.++.
T Consensus       366 ~~~~~~~~~~~y~~l~r~G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~~pd~~Tyn~LL~  445 (1060)
T PLN03218        366 GKRKSPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRNPTLSTFNMLMS  445 (1060)
T ss_pred             CCCCchHHHHHHHHHHHCcCHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            456677888888899999999999999999999885 4677778888999999999999999999999999999999999


Q ss_pred             HHHhCCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchhHHHHHHHhhHhcCChHH
Q 005487          181 CYYQDGQAEKALELFKKMRGSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVSDSYISSALVDMYGKCGCLEM  260 (694)
Q Consensus       181 ~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  260 (694)
                      +|++.|+++.|.++|+.|.+.|+.||..+|+.++.+|++.|+++.|.+++++|.+.|+.||..+|+.++.+|++.|++++
T Consensus       446 a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~ee  525 (1060)
T PLN03218        446 VCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAK  525 (1060)
T ss_pred             HHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhcCC----CCChhHHHHHHHHHHcCCCchHHHHHHHHHHH--CCCCCCHHHHHHHHHHhhccCChhhhHHHHHHH
Q 005487          261 AREVFEQTV----LKSVVAWNALIAGYSSRGDSKSCVKLFWRMNE--EGIKPTLTTISSVLMSCSRSGQLKHGKVMHGYI  334 (694)
Q Consensus       261 A~~~~~~~~----~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~--~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~  334 (694)
                      |.++|+.|.    .||..+|+.+|.+|++.|++++|.++|++|..  .|+.||..+|+.++.+|++.|+++.|.++|+.|
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            999998874    47889999999999999999999999999976  578999999999999999999999999999999


Q ss_pred             HHhcCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCC----CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH
Q 005487          335 IRNKIQGDVFINSSLIDLYFKCGRVSSAENVFEKMS----KTDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAV  410 (694)
Q Consensus       335 ~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~A~~~~~~m~~~g~~p~~~  410 (694)
                      .+.++.|+..+|+.++.+|++.|++++|.++|++|.    .||..+|+.++.+|++.|++++|.++|++|.+.|+.||..
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            999999999999999999999999999999999987    4788899999999999999999999999999999999999


Q ss_pred             HHHHHHHHHcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCC----CChHHHHHHHHHHH
Q 005487          411 TFTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPE----RDLVSWTSMIAAYG  486 (694)
Q Consensus       411 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~~~~~~l~~~~~  486 (694)
                      +|+.++.+|++.|+++.|.++|++|.+.|+.|+..+|+.++.+|++.|++++|.++|++|..    ||..+|+.++.+|.
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            99999999999999999999999999999999999999999999999999999999998864    89999999999999


Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHc----c-------------------CCHHHHHHHHHHhHHhcCCC
Q 005487          487 SHGRALEALKLFGEMQQSNARPDSITFLALLSACSH----A-------------------GWVDEGGYYFNLMISEYNIQ  543 (694)
Q Consensus       487 ~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~-------------------g~~~~A~~~~~~~~~~~~~~  543 (694)
                      +.|+++.|.+++++|.+.|+.||..+|+.++..|.+    .                   +..+.|..+|++|. +.|+.
T Consensus       766 k~G~le~A~~l~~~M~k~Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~g~~~~~n~w~~~Al~lf~eM~-~~Gi~  844 (1060)
T PLN03218        766 RKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWALMVYRETI-SAGTL  844 (1060)
T ss_pred             HCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccccccchHHHHHHHHHHHH-HCCCC
Confidence            999999999999999999999999999998865432    1                   12356777777777 34777


Q ss_pred             CChHHHHHHHHHhhhcCCHHHHHHHHHhCCC--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Q 005487          544 PRNEHYSCLIDLLGRAGRLQEAYGILQSTPE--IREDAGLLSTLFSACRLHRDIEMGEKIAKLLIEKD  609 (694)
Q Consensus       544 p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  609 (694)
                      |+..+|..++.++...+..+.+..+++.+..  ..|+..+|+.++.++..  ..++|..+++.+.+.+
T Consensus       845 Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~~~~~~~~~~~y~~Li~g~~~--~~~~A~~l~~em~~~G  910 (1060)
T PLN03218        845 PTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGFGE--YDPRAFSLLEEAASLG  910 (1060)
T ss_pred             CCHHHHHHHHHHhcccccHHHHHHHHHHhccCCCCcchhhhHHHHHhhcc--ChHHHHHHHHHHHHcC
Confidence            7777777777666677777777777766542  44556667777766522  1356777777777655

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

Probab=100.00  E-value=2.1e-38  Score=361.82  Aligned_cols=655  Identities=14%  Similarity=0.084  Sum_probs=444.9

Q ss_pred             hhHHHHHHHhhCCCChhhHhHHHHHHHHhCCCCCchhhhHHHHHHhcCCChhHHHHHHhhCCC--CCchhhHHHHHHHHH
Q 005487            4 TRILTLLRTCTGSKSLKEGKIIHQKVVTLGLQNNIALCKSLINLYFSCQNYDYAMLVFKTIDN--PLDLSLWNGLMASYT   81 (694)
Q Consensus         4 ~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--~~~~~~~~~l~~~~~   81 (694)
                      ..+..+...+...|++++|...++.+.+.. +.+..........+...|++++|...|+++..  |+...++..+...+.
T Consensus       228 ~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~  306 (899)
T TIGR02917       228 AVLLALATILIEAGEFEEAEKHADALLKKA-PNSPLAHYLKALVDFQKKNYEDARETLQDALKSAPEYLPALLLAGASEY  306 (899)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCchHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCchhHHHHHHHHHH
Confidence            445666677778888888888888888776 34444555555566777888888888877632  333334555666777


Q ss_pred             ccCChhHHHHHHHHhhhCCCCCCCcccHHHHHHHhhCCCCchhHHHHHHHHHHHcCCCchhHHHHHHHhhhcCCChHHHH
Q 005487           82 KNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLGSVGIGKMIHTHLIKTGFLLDVVIASSTAGMYAKCNSFECAV  161 (694)
Q Consensus        82 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  161 (694)
                      ..|++++|...|+.+.+.  .+.+...+..+...+...|+++.|...++.+.+.. +.+...+..+...+.+.|++++|.
T Consensus       307 ~~g~~~~A~~~~~~~~~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~  383 (899)
T TIGR02917       307 QLGNLEQAYQYLNQILKY--APNSHQARRLLASIQLRLGRVDEAIATLSPALGLD-PDDPAALSLLGEAYLALGDFEKAA  383 (899)
T ss_pred             HcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCCCHHHHH
Confidence            788888888888887765  34455566667777777888888888887777654 445667777777788888888888


Q ss_pred             HHhccCCC---CCcccHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHHhCC
Q 005487          162 KMFDEMSE---RDVASWNTVISCYYQDGQAEKALELFKKMRGSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGF  238 (694)
Q Consensus       162 ~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  238 (694)
                      +.|+++.+   .+...+..+...+...|++++|.+.++.+.+.+. ........++..+.+.|+++.|..+++.+... .
T Consensus       384 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~  461 (899)
T TIGR02917       384 EYLAKATELDPENAAARTQLGISKLSQGDPSEAIADLETAAQLDP-ELGRADLLLILSYLRSGQFDKALAAAKKLEKK-Q  461 (899)
T ss_pred             HHHHHHHhcCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhhCC-cchhhHHHHHHHHHhcCCHHHHHHHHHHHHHh-C
Confidence            88877654   2344566677777777888888888877766431 12334455666677777777777777777665 3


Q ss_pred             CCchhHHHHHHHhhHhcCChHHHHHHHhcCCC---CChhHHHHHHHHHHcCCCchHHHHHHHHHHHCCCCCCHHHHHHHH
Q 005487          239 VSDSYISSALVDMYGKCGCLEMAREVFEQTVL---KSVVAWNALIAGYSSRGDSKSCVKLFWRMNEEGIKPTLTTISSVL  315 (694)
Q Consensus       239 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll  315 (694)
                      +++..++..+...+...|++++|...|+++..   .+...+..+...+...|++++|.+.++++.+.+ +.+..++..+.
T Consensus       462 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~  540 (899)
T TIGR02917       462 PDNASLHNLLGAIYLGKGDLAKAREAFEKALSIEPDFFPAAANLARIDIQEGNPDDAIQRFEKVLTID-PKNLRAILALA  540 (899)
T ss_pred             CCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHH
Confidence            55666777777777777777777777776532   345566667777777777777777777777653 33556667777


Q ss_pred             HHhhccCChhhhHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChHH
Q 005487          316 MSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAENVFEKMSK---TDVVYWNVMISGYVTVGDYFK  392 (694)
Q Consensus       316 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~  392 (694)
                      ..+...|+.++|...+..+.+.+. .+...+..++..|...|++++|..+++.+.+   .+...|..+..++...|++++
T Consensus       541 ~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  619 (899)
T TIGR02917       541 GLYLRTGNEEEAVAWLEKAAELNP-QEIEPALALAQYYLGKGQLKKALAILNEAADAAPDSPEAWLMLGRAQLAAGDLNK  619 (899)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCc-cchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCHHH
Confidence            777777777777777777766542 3455566677777777777777777776652   345667777777777777777


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCC
Q 005487          393 ALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPE  472 (694)
Q Consensus       393 A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  472 (694)
                      |...|+++.+.. +.+...+..+..++...|+++.|..+++.+.+.. +.+...+..++..+...|++++|..+++.+..
T Consensus       620 A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  697 (899)
T TIGR02917       620 AVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQK  697 (899)
T ss_pred             HHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            777777776653 3345566667777777777777777777776654 44566667777777777777777777777665


Q ss_pred             ---CChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHH
Q 005487          473 ---RDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHY  549 (694)
Q Consensus       473 ---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~  549 (694)
                         .+...+..++..+...|++++|...++++...  .|+..++..++.++...|++++|...++.+.+.  .+.+...+
T Consensus       698 ~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~--~~~~~~~~  773 (899)
T TIGR02917       698 QHPKAALGFELEGDLYLRQKDYPAAIQAYRKALKR--APSSQNAIKLHRALLASGNTAEAVKTLEAWLKT--HPNDAVLR  773 (899)
T ss_pred             hCcCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHH
Confidence               34556666777777777777777777777765  344456666677777777777777777777632  23345566


Q ss_pred             HHHHHHhhhcCCHHHHHHHHHhCCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCC
Q 005487          550 SCLIDLLGRAGRLQEAYGILQSTPEIRE-DAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKK  628 (694)
Q Consensus       550 ~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  628 (694)
                      ..++..|...|++++|...|+++.+..| ++..+..++..+...|+ .+|+..++++++..|+++..+..++.++...|+
T Consensus       774 ~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~  852 (899)
T TIGR02917       774 TALAELYLAQKDYDKAIKHYRTVVKKAPDNAVVLNNLAWLYLELKD-PRALEYAEKALKLAPNIPAILDTLGWLLVEKGE  852 (899)
T ss_pred             HHHHHHHHHCcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCC
Confidence            7777777777777777777777666444 35566677777777777 667777777777777777777777777777777


Q ss_pred             hHHHHHHHHHHHhCCCccCCceeEEEECCEEEEEEeCCCCCCChHHHHHHH
Q 005487          629 WDEVRKIRLKMKELGLRKNPGCSWIEIGDRIQPFFAEDKFYPQADMVYECL  679 (694)
Q Consensus       629 ~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  679 (694)
                      +++|.+.++++.+.++. ++....     .+...+...+.+.++.++++.+
T Consensus       853 ~~~A~~~~~~a~~~~~~-~~~~~~-----~l~~~~~~~g~~~~A~~~~~~~  897 (899)
T TIGR02917       853 ADRALPLLRKAVNIAPE-AAAIRY-----HLALALLATGRKAEARKELDKL  897 (899)
T ss_pred             HHHHHHHHHHHHhhCCC-ChHHHH-----HHHHHHHHcCCHHHHHHHHHHH
Confidence            77777777777765543 222110     0112233334566666666554

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=6.2e-38  Score=357.89  Aligned_cols=624  Identities=12%  Similarity=0.041  Sum_probs=313.8

Q ss_pred             HHHHHHHhhCCCChhhHhHHHHHHHHhCCCCCchhhhHHHHHHhcCCChhHHHHHHhhCC--CCCchhhHHHHHHHHHcc
Q 005487            6 ILTLLRTCTGSKSLKEGKIIHQKVVTLGLQNNIALCKSLINLYFSCQNYDYAMLVFKTID--NPLDLSLWNGLMASYTKN   83 (694)
Q Consensus         6 ~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~--~~~~~~~~~~l~~~~~~~   83 (694)
                      +..+...+...|++..|...|+.+++.. +.+..++..++..+...|++++|..+++++.  .|+....|..+...+...
T Consensus       128 ~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~  206 (899)
T TIGR02917       128 LALRGLAYLGLGQLELAQKSYEQALAID-PRSLYAKLGLAQLALAENRFDEARALIDEVLTADPGNVDALLLKGDLLLSL  206 (899)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCChhhHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhc
Confidence            3344444555666666666666666554 3444555566666666666666666665542  233333555555555666


Q ss_pred             CChhHHHHHHHHhhhCCCCCCCcccHHHHHHHhhCCCCchhHHHHHHHHHHHcCCCchhHHHHHHHhhhcCCChHHHHHH
Q 005487           84 YMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLGSVGIGKMIHTHLIKTGFLLDVVIASSTAGMYAKCNSFECAVKM  163 (694)
Q Consensus        84 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  163 (694)
                      |++++|.+.|+.+...  .+.+..++..++..+...|+++.|...++.+.+... .+...+......+...|++++|...
T Consensus       207 g~~~~A~~~~~~a~~~--~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~A~~~  283 (899)
T TIGR02917       207 GNIELALAAYRKAIAL--RPNNPAVLLALATILIEAGEFEEAEKHADALLKKAP-NSPLAHYLKALVDFQKKNYEDARET  283 (899)
T ss_pred             CCHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCchHHHHHHHHHHHhcCHHHHHHH
Confidence            6666666666665544  233444455555555555555555555555554321 1112222222223333444444444


Q ss_pred             hccCCC-------------------------------------CCcccHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCC
Q 005487          164 FDEMSE-------------------------------------RDVASWNTVISCYYQDGQAEKALELFKKMRGSGFQPN  206 (694)
Q Consensus       164 ~~~~~~-------------------------------------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~  206 (694)
                      |+++.+                                     .+...+..+...+...|++++|...++.+.+.+ +.+
T Consensus       284 ~~~~l~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~  362 (899)
T TIGR02917       284 LQDALKSAPEYLPALLLAGASEYQLGNLEQAYQYLNQILKYAPNSHQARRLLASIQLRLGRVDEAIATLSPALGLD-PDD  362 (899)
T ss_pred             HHHHHHhCCCchhHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCC
Confidence            433322                                     122233344444445555555555555544332 223


Q ss_pred             hhhHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchhHHHHHHHhhHhcCChHHHHHHHhcCCCC---ChhHHHHHHHHH
Q 005487          207 SVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVSDSYISSALVDMYGKCGCLEMAREVFEQTVLK---SVVAWNALIAGY  283 (694)
Q Consensus       207 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~  283 (694)
                      ...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|.+.++.....   .......++..+
T Consensus       363 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~  441 (899)
T TIGR02917       363 PAALSLLGEAYLALGDFEKAAEYLAKATELD-PENAAARTQLGISKLSQGDPSEAIADLETAAQLDPELGRADLLLILSY  441 (899)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhhCCcchhhHHHHHHHH
Confidence            3444445555555555555555555554432 223344444444455555555555554443221   122333344444


Q ss_pred             HcCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChhhhHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCHHHHH
Q 005487          284 SSRGDSKSCVKLFWRMNEEGIKPTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAE  363 (694)
Q Consensus       284 ~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  363 (694)
                      .+.|++++|..+++.+... .+++..++..+...+...|+++.|...+..+.+... .+...+..+...+...|++++|.
T Consensus       442 ~~~~~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~la~~~~~~g~~~~A~  519 (899)
T TIGR02917       442 LRSGQFDKALAAAKKLEKK-QPDNASLHNLLGAIYLGKGDLAKAREAFEKALSIEP-DFFPAAANLARIDIQEGNPDDAI  519 (899)
T ss_pred             HhcCCHHHHHHHHHHHHHh-CCCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhCC-CcHHHHHHHHHHHHHCCCHHHHH
Confidence            5555555555555555443 233444555555555666666666666655554432 23334444555555556666665


Q ss_pred             HHHhcCCC---CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcccCChHHHHHHHHHHHHhCC
Q 005487          364 NVFEKMSK---TDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIESKL  440 (694)
Q Consensus       364 ~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  440 (694)
                      ..|+.+..   .+..++..+...+.+.|++++|...++++...+ +.+...+..+...+...|+++.|..+++.+.+.. 
T Consensus       520 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-  597 (899)
T TIGR02917       520 QRFEKVLTIDPKNLRAILALAGLYLRTGNEEEAVAWLEKAAELN-PQEIEPALALAQYYLGKGQLKKALAILNEAADAA-  597 (899)
T ss_pred             HHHHHHHHhCcCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-
Confidence            55555432   233445555555555555555555555554432 2233444445555555555555555555554432 


Q ss_pred             CCChhHHHHHHHHHHhcCChHHHHHHHhhCCC---CChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHH
Q 005487          441 ETNEIVMGALLDMYAKCGAVDEAFKVFNELPE---RDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALL  517 (694)
Q Consensus       441 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~  517 (694)
                      +.+...+..++.++...|++++|...|+.+..   .++..+..++..+...|++++|...++++.+.. +.+...+..++
T Consensus       598 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~  676 (899)
T TIGR02917       598 PDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQPDSALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLA  676 (899)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHH
Confidence            33445555555555555555555555555433   233445555555555555555555555555432 22344555555


Q ss_pred             HHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHcCCHHH
Q 005487          518 SACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRDIEM  597 (694)
Q Consensus       518 ~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~  597 (694)
                      ..+...|++++|..+++.+...  .+++...+..++..+...|++++|.+.++++....|+...+..++..+...|++++
T Consensus       677 ~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  754 (899)
T TIGR02917       677 QLLLAAKRTESAKKIAKSLQKQ--HPKAALGFELEGDLYLRQKDYPAAIQAYRKALKRAPSSQNAIKLHRALLASGNTAE  754 (899)
T ss_pred             HHHHHcCCHHHHHHHHHHHHhh--CcCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHCCCHHH
Confidence            5555555555555555555422  12233444555555555555555555555555444444445555555555555555


Q ss_pred             HHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHHHHhC
Q 005487          598 GEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKEL  642 (694)
Q Consensus       598 A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  642 (694)
                      |...++++++..|+++..+..++.+|...|++++|.+.++++.+.
T Consensus       755 A~~~~~~~l~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~  799 (899)
T TIGR02917       755 AVKTLEAWLKTHPNDAVLRTALAELYLAQKDYDKAIKHYRTVVKK  799 (899)
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHh
Confidence            555555555555555555555555555555555555555555443

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=100.00  E-value=6.5e-30  Score=290.41  Aligned_cols=619  Identities=11%  Similarity=0.042  Sum_probs=473.9

Q ss_pred             hhhHHHHHHHhhCCCChhhHhHHHHHHHHhCCCCCchhhhHHHHHHhcCCChhHHHHHHhhCCC--CCchhhH-------
Q 005487            3 ITRILTLLRTCTGSKSLKEGKIIHQKVVTLGLQNNIALCKSLINLYFSCQNYDYAMLVFKTIDN--PLDLSLW-------   73 (694)
Q Consensus         3 ~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--~~~~~~~-------   73 (694)
                      .+.+....+-|...++.+.|...+++++... |.++.++..++.++.+.|+.++|.+.++++..  |+....+       
T Consensus        28 ~~~Ll~q~~~~~~~~~~d~a~~~l~kl~~~~-p~~p~~~~~~~~~~l~~g~~~~A~~~l~~l~~~~P~~~~~~~~~~~~~  106 (1157)
T PRK11447         28 QQQLLEQVRLGEATHREDLVRQSLYRLELID-PNNPDVIAARFRLLLRQGDSDGAQKLLDRLSQLAPDSNAYRSSRTTML  106 (1157)
T ss_pred             HHHHHHHHHHHHhhCChHHHHHHHHHHHccC-CCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhhCCCChHHHHHHHHHH
Confidence            3568888999999999999999999999987 67899999999999999999999999999843  5544222       


Q ss_pred             ---------HHHHHHHHccCChhHHHHHHHHhhhCCCCCCCccc-HHHHHHHhhCCCCchhHHHHHHHHHHHcCCCchhH
Q 005487           74 ---------NGLMASYTKNYMYITALELFDMLLQNPYLKPDSYT-YPSVLKACGGLGSVGIGKMIHTHLIKTGFLLDVVI  143 (694)
Q Consensus        74 ---------~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  143 (694)
                               ..++..+...|++++|++.|+.+.+.  .+|+... ...........|+.++|...++.+.+.. +.+...
T Consensus       107 ~~~~~~~~~l~~A~ll~~~g~~~eA~~~~~~~l~~--~p~~~~la~~y~~~~~~~~g~~~~A~~~L~~ll~~~-P~~~~~  183 (1157)
T PRK11447        107 LSTPEGRQALQQARLLATTGRTEEALASYDKLFNG--APPELDLAVEYWRLVAKLPAQRPEAINQLQRLNADY-PGNTGL  183 (1157)
T ss_pred             hcCCchhhHHHHHHHHHhCCCHHHHHHHHHHHccC--CCCChHHHHHHHHHHhhCCccHHHHHHHHHHHHHhC-CCCHHH
Confidence                     22344678999999999999999875  3444322 1112222335689999999999999985 556778


Q ss_pred             HHHHHHhhhcCCChHHHHHHhccCCCCCcc------cH-----------------HHHHHHHHhCCChhHHHHHHHHHHh
Q 005487          144 ASSTAGMYAKCNSFECAVKMFDEMSERDVA------SW-----------------NTVISCYYQDGQAEKALELFKKMRG  200 (694)
Q Consensus       144 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~------~~-----------------~~li~~~~~~~~~~~a~~~~~~m~~  200 (694)
                      +..+..++...|+.++|+..++++......      .|                 ...+..+-.......|...+..+..
T Consensus       184 ~~~LA~ll~~~g~~~eAl~~l~~~~~~~~~~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~  263 (1157)
T PRK11447        184 RNTLALLLFSSGRRDEGFAVLEQMAKSPAGRDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQK  263 (1157)
T ss_pred             HHHHHHHHHccCCHHHHHHHHHHHhhCCCchHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHH
Confidence            888999999999999999999987542111      11                 1111111111223445555555443


Q ss_pred             CCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchhHHHHHHHhhHhcCChHHHHHHHhcCCCCCh-----hH
Q 005487          201 SGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVSDSYISSALVDMYGKCGCLEMAREVFEQTVLKSV-----VA  275 (694)
Q Consensus       201 ~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-----~~  275 (694)
                      ....|+... ......+...|++++|...+++.++.. +.+..++..+..++.+.|++++|+..|++....++     ..
T Consensus       264 ~~~dp~~~~-~~~G~~~~~~g~~~~A~~~l~~aL~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~  341 (1157)
T PRK11447        264 QLADPAFRA-RAQGLAAVDSGQGGKAIPELQQAVRAN-PKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDK  341 (1157)
T ss_pred             hccCcchHH-HHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhH
Confidence            321222211 233456677899999999999999874 55788899999999999999999999988654221     11


Q ss_pred             HH------------HHHHHHHcCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChhhhHHHHHHHHHhcCCCch
Q 005487          276 WN------------ALIAGYSSRGDSKSCVKLFWRMNEEGIKPTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDV  343 (694)
Q Consensus       276 ~~------------~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~  343 (694)
                      |.            .....+.+.|++++|...|+++.+.. +.+...+..+...+...|++++|...|+.+.+.... +.
T Consensus       342 ~~~ll~~~~~~~~~~~g~~~~~~g~~~eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~-~~  419 (1157)
T PRK11447        342 WESLLKVNRYWLLIQQGDAALKANNLAQAERLYQQARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMDPG-NT  419 (1157)
T ss_pred             HHHHHHhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CH
Confidence            21            22346778999999999999999873 345566777888999999999999999999987533 45


Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhcCCCCC------------hhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHH
Q 005487          344 FINSSLIDLYFKCGRVSSAENVFEKMSKTD------------VVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVT  411 (694)
Q Consensus       344 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~------------~~~~~~l~~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~  411 (694)
                      ..+..+...|. .++.++|..+++.+....            ...+..+...+...|++++|+..|++..+.. +-+...
T Consensus       420 ~a~~~L~~l~~-~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~-P~~~~~  497 (1157)
T PRK11447        420 NAVRGLANLYR-QQSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALD-PGSVWL  497 (1157)
T ss_pred             HHHHHHHHHHH-hcCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHH
Confidence            55666777764 467899999998876321            1234556778889999999999999998863 234566


Q ss_pred             HHHHHHHHcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCCC----Ch---------HHH
Q 005487          412 FTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPER----DL---------VSW  478 (694)
Q Consensus       412 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~---------~~~  478 (694)
                      +..+...+...|++++|...++.+.+.. +.+...+..+...+...++.++|+..++.+...    +.         ..+
T Consensus       498 ~~~LA~~~~~~G~~~~A~~~l~~al~~~-P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~  576 (1157)
T PRK11447        498 TYRLAQDLRQAGQRSQADALMRRLAQQK-PNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQV  576 (1157)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHH
Confidence            7788889999999999999999998754 345555556666778899999999999988651    11         112


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCC-hHHHHHHHHHhh
Q 005487          479 TSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPR-NEHYSCLIDLLG  557 (694)
Q Consensus       479 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~  557 (694)
                      ..+...+...|++++|..+++.     .+++...+..+...+.+.|++++|+..|+.+.+   ..|+ ...+..++.+|.
T Consensus       577 l~~a~~l~~~G~~~eA~~~l~~-----~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~---~~P~~~~a~~~la~~~~  648 (1157)
T PRK11447        577 LETANRLRDSGKEAEAEALLRQ-----QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLT---REPGNADARLGLIEVDI  648 (1157)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHh-----CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHH
Confidence            3456778899999999999872     245667778888899999999999999999984   3454 678889999999


Q ss_pred             hcCCHHHHHHHHHhCCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCc------cHHHHHHHHhhcCChH
Q 005487          558 RAGRLQEAYGILQSTPEIRED-AGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSS------TYIVLSNMYASVKKWD  630 (694)
Q Consensus       558 ~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~------~~~~l~~~~~~~g~~~  630 (694)
                      ..|++++|++.++.+.+..|+ ...+..++.++...|++++|.+.++++++..|+++.      .+..++.++...|+++
T Consensus       649 ~~g~~~eA~~~l~~ll~~~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~  728 (1157)
T PRK11447        649 AQGDLAAARAQLAKLPATANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQ  728 (1157)
T ss_pred             HCCCHHHHHHHHHHHhccCCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHH
Confidence            999999999999998877665 556777888899999999999999999998876554      5667799999999999


Q ss_pred             HHHHHHHHHH
Q 005487          631 EVRKIRLKMK  640 (694)
Q Consensus       631 ~A~~~~~~~~  640 (694)
                      +|++.+++..
T Consensus       729 ~A~~~y~~Al  738 (1157)
T PRK11447        729 QALETYKDAM  738 (1157)
T ss_pred             HHHHHHHHHH
Confidence            9999999975

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=100.00  E-value=7e-28  Score=273.91  Aligned_cols=592  Identities=13%  Similarity=0.042  Sum_probs=444.8

Q ss_pred             hhhhHHHHHHhcCCChhHHHHHHhhC--CCCCchhhHHHHHHHHHccCChhHHHHHHHHhhhCCCCCCCcccH-------
Q 005487           39 ALCKSLINLYFSCQNYDYAMLVFKTI--DNPLDLSLWNGLMASYTKNYMYITALELFDMLLQNPYLKPDSYTY-------  109 (694)
Q Consensus        39 ~~~~~l~~~~~~~g~~~~a~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-------  109 (694)
                      ..+...++.+...++.+.|.+.++++  ..|+.+..+..++..+.+.|+.++|.+.++++.+.   .|+...+       
T Consensus        29 ~~Ll~q~~~~~~~~~~d~a~~~l~kl~~~~p~~p~~~~~~~~~~l~~g~~~~A~~~l~~l~~~---~P~~~~~~~~~~~~  105 (1157)
T PRK11447         29 QQLLEQVRLGEATHREDLVRQSLYRLELIDPNNPDVIAARFRLLLRQGDSDGAQKLLDRLSQL---APDSNAYRSSRTTM  105 (1157)
T ss_pred             HHHHHHHHHHHhhCChHHHHHHHHHHHccCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhh---CCCChHHHHHHHHH
Confidence            34667788999999999999999997  45777778999999999999999999999999987   3443222       


Q ss_pred             ----------HHHHHHhhCCCCchhHHHHHHHHHHHcCCCchhH-HHHHHHhhhcCCChHHHHHHhccCCC--C-CcccH
Q 005487          110 ----------PSVLKACGGLGSVGIGKMIHTHLIKTGFLLDVVI-ASSTAGMYAKCNSFECAVKMFDEMSE--R-DVASW  175 (694)
Q Consensus       110 ----------~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~  175 (694)
                                ....+.+.+.|++++|...++.+.+.+ +++... ...+.......|+.++|++.++++..  | +...+
T Consensus       106 ~~~~~~~~~~l~~A~ll~~~g~~~eA~~~~~~~l~~~-p~~~~la~~y~~~~~~~~g~~~~A~~~L~~ll~~~P~~~~~~  184 (1157)
T PRK11447        106 LLSTPEGRQALQQARLLATTGRTEEALASYDKLFNGA-PPELDLAVEYWRLVAKLPAQRPEAINQLQRLNADYPGNTGLR  184 (1157)
T ss_pred             HhcCCchhhHHHHHHHHHhCCCHHHHHHHHHHHccCC-CCChHHHHHHHHHHhhCCccHHHHHHHHHHHHHhCCCCHHHH
Confidence                      233456788999999999999998764 333321 21222223356999999999999876  3 44577


Q ss_pred             HHHHHHHHhCCChhHHHHHHHHHHhCCCC----------------CChh---hHHHHHHHHhccCChhHHHHHHHHHHHh
Q 005487          176 NTVISCYYQDGQAEKALELFKKMRGSGFQ----------------PNSV---TLTTVISSCARLMDLDRGKEIHKEFIKD  236 (694)
Q Consensus       176 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~----------------~~~~---~~~~ll~~~~~~~~~~~a~~~~~~~~~~  236 (694)
                      ..+...+...|+.++|+..++++.+....                ++..   .+...+..+-.......+...+......
T Consensus       185 ~~LA~ll~~~g~~~eAl~~l~~~~~~~~~~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~  264 (1157)
T PRK11447        185 NTLALLLFSSGRRDEGFAVLEQMAKSPAGRDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQ  264 (1157)
T ss_pred             HHHHHHHHccCCHHHHHHHHHHHhhCCCchHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHh
Confidence            88889999999999999999998653210                0000   0111111111222234455555554443


Q ss_pred             CCCCchhHHHHHHHhhHhcCChHHHHHHHhcCCC---CChhHHHHHHHHHHcCCCchHHHHHHHHHHHCCCCCC-HHHH-
Q 005487          237 GFVSDSYISSALVDMYGKCGCLEMAREVFEQTVL---KSVVAWNALIAGYSSRGDSKSCVKLFWRMNEEGIKPT-LTTI-  311 (694)
Q Consensus       237 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~-  311 (694)
                      ...|... .......+...|++++|+..|++...   .+...+..+...+.+.|++++|...|++..+...... ...+ 
T Consensus       265 ~~dp~~~-~~~~G~~~~~~g~~~~A~~~l~~aL~~~P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~  343 (1157)
T PRK11447        265 LADPAFR-ARAQGLAAVDSGQGGKAIPELQQAVRANPKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWE  343 (1157)
T ss_pred             ccCcchH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHH
Confidence            2233222 22446677889999999999988643   3677889999999999999999999999987643221 1111 


Q ss_pred             -----------HHHHHHhhccCChhhhHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC---CChhHH
Q 005487          312 -----------SSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAENVFEKMSK---TDVVYW  377 (694)
Q Consensus       312 -----------~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~  377 (694)
                                 ......+.+.|++++|...++.+.+..+ .+...+..+..++...|++++|++.|+++.+   .+...+
T Consensus       344 ~ll~~~~~~~~~~~g~~~~~~g~~~eA~~~~~~Al~~~P-~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~~~~a~  422 (1157)
T PRK11447        344 SLLKVNRYWLLIQQGDAALKANNLAQAERLYQQARQVDN-TDSYAVLGLGDVAMARKDYAAAERYYQQALRMDPGNTNAV  422 (1157)
T ss_pred             HHHHhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHH
Confidence                       1223456789999999999999998864 3566777889999999999999999998874   344566


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCC--------CCHHHHHHHHHHHcccCChHHHHHHHHHHHHhCCCCChhHHHH
Q 005487          378 NVMISGYVTVGDYFKALAIYSDMKEVGAK--------PDAVTFTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGA  449 (694)
Q Consensus       378 ~~l~~~~~~~~~~~~A~~~~~~m~~~g~~--------p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  449 (694)
                      ..+...+. .++.++|...++.+......        .....+..+...+...|++++|.+.++++++.. +.+...+..
T Consensus       423 ~~L~~l~~-~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~-P~~~~~~~~  500 (1157)
T PRK11447        423 RGLANLYR-QQSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALD-PGSVWLTYR  500 (1157)
T ss_pred             HHHHHHHH-hcCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHH
Confidence            66666664 46789999888765432100        011234456677888999999999999998876 446777888


Q ss_pred             HHHHHHhcCChHHHHHHHhhCCC---CChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHh---------hHHHHH
Q 005487          450 LLDMYAKCGAVDEAFKVFNELPE---RDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSI---------TFLALL  517 (694)
Q Consensus       450 l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~---------~~~~l~  517 (694)
                      +..+|.+.|++++|...++.+..   .++..+..+...+...+++++|+..++++......++..         .+..+.
T Consensus       501 LA~~~~~~G~~~~A~~~l~~al~~~P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a  580 (1157)
T PRK11447        501 LAQDLRQAGQRSQADALMRRLAQQKPNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETA  580 (1157)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHH
Confidence            99999999999999999998765   345566666667788999999999998876442222221         233456


Q ss_pred             HHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCC-HHHHHHHHHHHHHcCCHH
Q 005487          518 SACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIRED-AGLLSTLFSACRLHRDIE  596 (694)
Q Consensus       518 ~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~  596 (694)
                      ..+...|+.++|..+++.      .++++..+..++..+.+.|++++|+..|+++.+..|+ ...+..++..+...|+++
T Consensus       581 ~~l~~~G~~~eA~~~l~~------~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~P~~~~a~~~la~~~~~~g~~~  654 (1157)
T PRK11447        581 NRLRDSGKEAEAEALLRQ------QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTREPGNADARLGLIEVDIAQGDLA  654 (1157)
T ss_pred             HHHHHCCCHHHHHHHHHh------CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHH
Confidence            678899999999999872      2345667788999999999999999999999887775 678899999999999999


Q ss_pred             HHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHHHHhCCC
Q 005487          597 MGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELGL  644 (694)
Q Consensus       597 ~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  644 (694)
                      +|++.++++++..|+++..+..++.++...|++++|.++++++.....
T Consensus       655 eA~~~l~~ll~~~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~  702 (1157)
T PRK11447        655 AARAQLAKLPATANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAK  702 (1157)
T ss_pred             HHHHHHHHHhccCCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCc
Confidence            999999999999999999999999999999999999999999887553

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.97  E-value=1.1e-25  Score=243.50  Aligned_cols=600  Identities=12%  Similarity=0.046  Sum_probs=373.8

Q ss_pred             hCCCChhhHhHHHHHHHHhCCCCCchhhhHHHHHHhcCCChhHHHHHHhhCCC--CCchhhHHHHHHHHHccCChhHHHH
Q 005487           14 TGSKSLKEGKIIHQKVVTLGLQNNIALCKSLINLYFSCQNYDYAMLVFKTIDN--PLDLSLWNGLMASYTKNYMYITALE   91 (694)
Q Consensus        14 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~   91 (694)
                      ...|++.+|...|+.+++.. |.++.++..|..+|.+.|++++|+..+++...  |+.. .|..++..+   +++++|.+
T Consensus        55 ~~~Gd~~~A~~~l~~Al~~d-P~n~~~~~~LA~~yl~~g~~~~A~~~~~kAv~ldP~n~-~~~~~La~i---~~~~kA~~  129 (987)
T PRK09782         55 QKNNDEATAIREFEYIHQQV-PDNIPLTLYLAEAYRHFGHDDRARLLLEDQLKRHPGDA-RLERSLAAI---PVEVKSVT  129 (987)
T ss_pred             HhCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcccH-HHHHHHHHh---ccChhHHH
Confidence            33478888888888888887 44578888888888888888888888887643  4444 333333222   77788888


Q ss_pred             HHHHhhhCCCCCCCcccHHHHHHH--------hhCCCCchhHHHHHHHHHHHcCCCchhHHHHH-HHhhhcCCChHHHHH
Q 005487           92 LFDMLLQNPYLKPDSYTYPSVLKA--------CGGLGSVGIGKMIHTHLIKTGFLLDVVIASST-AGMYAKCNSFECAVK  162 (694)
Q Consensus        92 ~~~~~~~~~~~~~~~~~~~~ll~~--------~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-~~~~~~~g~~~~A~~  162 (694)
                      .++++...  .|-+..++..+...        |.+.   ++|.+.++ .......|+..+.... ..+|.+.|++++|++
T Consensus       130 ~ye~l~~~--~P~n~~~~~~la~~~~~~~~l~y~q~---eqAl~AL~-lr~~~~~~~~~vL~L~~~rlY~~l~dw~~Ai~  203 (987)
T PRK09782        130 TVEELLAQ--QKACDAVPTLRCRSEVGQNALRLAQL---PVARAQLN-DATFAASPEGKTLRTDLLQRAIYLKQWSQADT  203 (987)
T ss_pred             HHHHHHHh--CCCChhHHHHHHHHhhccchhhhhhH---HHHHHHHH-HhhhCCCCCcHHHHHHHHHHHHHHhCHHHHHH
Confidence            88888876  34444455444444        3333   55555555 3333333344444444 777888888888888


Q ss_pred             HhccCCCC---CcccHHHHHHHHHh-CCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHHhCC
Q 005487          163 MFDEMSER---DVASWNTVISCYYQ-DGQAEKALELFKKMRGSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGF  238 (694)
Q Consensus       163 ~~~~~~~~---~~~~~~~li~~~~~-~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  238 (694)
                      ++.++.+.   +......|...|.. .++ +++..++..    .++-+...+..+...+.+.|+.+.|.++++++...-.
T Consensus       204 lL~~L~k~~pl~~~~~~~L~~ay~q~l~~-~~a~al~~~----~lk~d~~l~~ala~~yi~~G~~~~A~~~L~~~~~~~~  278 (987)
T PRK09782        204 LYNEARQQNTLSAAERRQWFDVLLAGQLD-DRLLALQSQ----GIFTDPQSRITYATALAYRGEKARLQHYLIENKPLFT  278 (987)
T ss_pred             HHHHHHhcCCCCHHHHHHHHHHHHHhhCH-HHHHHHhch----hcccCHHHHHHHHHHHHHCCCHHHHHHHHHhCccccc
Confidence            88877652   22234555556666 355 666666442    2335666777777788888888888877776553311


Q ss_pred             C-CchhHH------------------------------HHHHHhhHhcCChHHHHHHHhcCCCCChhHHHHHHHH--HHc
Q 005487          239 V-SDSYIS------------------------------SALVDMYGKCGCLEMAREVFEQTVLKSVVAWNALIAG--YSS  285 (694)
Q Consensus       239 ~-~~~~~~------------------------------~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~--~~~  285 (694)
                      . |...++                              ..++..+.+.++++.+.++.. ....+. .  ..++.  ...
T Consensus       279 ~~~~~~~~~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~-~--~~~r~~~~~~  354 (987)
T PRK09782        279 TDAQEKSWLYLLSKYSANPVQALANYTVQFADNRQYVVGATLPVLLKEGQYDAAQKLLA-TLPANE-M--LEERYAVSVA  354 (987)
T ss_pred             CCCccHHHHHHHHhccCchhhhccchhhhhHHHHHHHHHHHHHHHHhccHHHHHHHHhc-CCCcch-H--HHHHHhhccc
Confidence            1 111111                              112444555555555554422 222222 1  12221  122


Q ss_pred             CCCchHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChhhhHHHHHHHHHh-c-CCCchhHHHHHHHHHHhcCC---HH
Q 005487          286 RGDSKSCVKLFWRMNEEGIKPTLTTISSVLMSCSRSGQLKHGKVMHGYIIRN-K-IQGDVFINSSLIDLYFKCGR---VS  360 (694)
Q Consensus       286 ~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~-~~~~~~~~~~l~~~~~~~~~---~~  360 (694)
                      .+...++.+.++.|.+. .+-+......+.......|+.++|..++...... + -..+....+.++..|.+.+.   ..
T Consensus       355 ~~~~~~~~~~~~~~y~~-~~~~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~  433 (987)
T PRK09782        355 TRNKAEALRLARLLYQQ-EPANLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATPA  433 (987)
T ss_pred             cCchhHHHHHHHHHHhc-CCCCHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccchH
Confidence            35555555556555554 1224444444444556777788888888777653 1 12344455567777777665   33


Q ss_pred             HHHHHHh-------------------------cCC---CC--ChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH
Q 005487          361 SAENVFE-------------------------KMS---KT--DVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAV  410 (694)
Q Consensus       361 ~A~~~~~-------------------------~~~---~~--~~~~~~~l~~~~~~~~~~~~A~~~~~~m~~~g~~p~~~  410 (694)
                      ++..+-.                         ...   .+  +...|..+..++.. ++.++|+..+.+....  .|+..
T Consensus       434 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~--~Pd~~  510 (987)
T PRK09782        434 KVAILSKPLPLAEQRQWQSQLPGIADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQR--QPDAW  510 (987)
T ss_pred             HHHHhccccccchhHHHHhhhhhhhhhHHHHHHhcccCCCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHHh--CCchH
Confidence            3333311                         111   12  44556666666665 6777788877766654  35554


Q ss_pred             HHHHHHHHHcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCCCChH---HHHHHHHHHHh
Q 005487          411 TFTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPERDLV---SWTSMIAAYGS  487 (694)
Q Consensus       411 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~---~~~~l~~~~~~  487 (694)
                      ....+...+...|+++.|...++.+...  +|....+..+..++.+.|++++|...++.....++.   .+..+......
T Consensus       511 ~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~P~~~~l~~~La~~l~~  588 (987)
T PRK09782        511 QHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRGLGDNALYWWLHAQRYI  588 (987)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHh
Confidence            4444445556778888888888776443  333444556667777788888888888777663222   22223333444


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCC-hHHHHHHHHHhhhcCCHHHHH
Q 005487          488 HGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPR-NEHYSCLIDLLGRAGRLQEAY  566 (694)
Q Consensus       488 ~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~  566 (694)
                      .|++++|...+++..+.  .|+...+..+..++.+.|++++|+..++++.   ...|+ ...+..++.++...|++++|+
T Consensus       589 ~Gr~~eAl~~~~~AL~l--~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL---~l~Pd~~~a~~nLG~aL~~~G~~eeAi  663 (987)
T PRK09782        589 PGQPELALNDLTRSLNI--APSANAYVARATIYRQRHNVPAAVSDLRAAL---ELEPNNSNYQAALGYALWDSGDIAQSR  663 (987)
T ss_pred             CCCHHHHHHHHHHHHHh--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH---HhCCCCHHHHHHHHHHHHHCCCHHHHH
Confidence            58888888888888775  4667777777778888888888888888877   34555 456677777888888888888


Q ss_pred             HHHHhCCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHHHHhCCC
Q 005487          567 GILQSTPEIRED-AGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELGL  644 (694)
Q Consensus       567 ~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  644 (694)
                      ..++++.+..|+ ...+..++.++...|++++|+..++++++++|++..+....+++..+..+++.|.+.+++.....+
T Consensus       664 ~~l~~AL~l~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~P~~a~i~~~~g~~~~~~~~~~~a~~~~~r~~~~~~  742 (987)
T PRK09782        664 EMLERAHKGLPDDPALIRQLAYVNQRLDDMAATQHYARLVIDDIDNQALITPLTPEQNQQRFNFRRLHEEVGRRWTFSF  742 (987)
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCchhhhhhhHHHHHHHHHHHHHHHHHHHhhcCc
Confidence            888887776664 567777888888888888888888888888888888888888888888888888877776654444

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.97  E-value=3.8e-25  Score=239.34  Aligned_cols=586  Identities=12%  Similarity=0.048  Sum_probs=417.8

Q ss_pred             HHHHhCCCCCc--hhhhHHHHHH--hcCCChhHHHHHHhhCC--CCCchhhHHHHHHHHHccCChhHHHHHHHHhhhCCC
Q 005487           28 KVVTLGLQNNI--ALCKSLINLY--FSCQNYDYAMLVFKTID--NPLDLSLWNGLMASYTKNYMYITALELFDMLLQNPY  101 (694)
Q Consensus        28 ~~~~~~~~~~~--~~~~~l~~~~--~~~g~~~~a~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  101 (694)
                      ...+.+++|=.  .++..+..++  ...|++++|+..|++..  .|+...++..|+..|...|++++|+..+++..+.  
T Consensus        30 ~~~~~~~~~~~~~~~~~~f~~a~~~~~~Gd~~~A~~~l~~Al~~dP~n~~~~~~LA~~yl~~g~~~~A~~~~~kAv~l--  107 (987)
T PRK09782         30 SAEELGLSDYRHFVIYPRLDKALKAQKNNDEATAIREFEYIHQQVPDNIPLTLYLAEAYRHFGHDDRARLLLEDQLKR--  107 (987)
T ss_pred             ccccCCCchHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--
Confidence            33444444322  2333344333  44599999999999974  4777778999999999999999999999999976  


Q ss_pred             CCCCcccHHHHHHHhhCCCCchhHHHHHHHHHHHcCCCchhHHHHHHHh--------hhcCCChHHHHHHhccCCCCC--
Q 005487          102 LKPDSYTYPSVLKACGGLGSVGIGKMIHTHLIKTGFLLDVVIASSTAGM--------YAKCNSFECAVKMFDEMSERD--  171 (694)
Q Consensus       102 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~--------~~~~g~~~~A~~~~~~~~~~~--  171 (694)
                       .|+...|..++..+   ++.+.|..+++++++.. +.+..++..+...        |.+.++..++++  .+...++  
T Consensus       108 -dP~n~~~~~~La~i---~~~~kA~~~ye~l~~~~-P~n~~~~~~la~~~~~~~~l~y~q~eqAl~AL~--lr~~~~~~~  180 (987)
T PRK09782        108 -HPGDARLERSLAAI---PVEVKSVTTVEELLAQQ-KACDAVPTLRCRSEVGQNALRLAQLPVARAQLN--DATFAASPE  180 (987)
T ss_pred             -CcccHHHHHHHHHh---ccChhHHHHHHHHHHhC-CCChhHHHHHHHHhhccchhhhhhHHHHHHHHH--HhhhCCCCC
Confidence             44544444444333   88999999999999975 3445556555555        777766666666  3333343  


Q ss_pred             cccHHHH-HHHHHhCCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhc-cCChhHHHHHHHHHHHhCCCCchhHHHHHH
Q 005487          172 VASWNTV-ISCYYQDGQAEKALELFKKMRGSGFQPNSVTLTTVISSCAR-LMDLDRGKEIHKEFIKDGFVSDSYISSALV  249 (694)
Q Consensus       172 ~~~~~~l-i~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  249 (694)
                      +.+.... ...|.+.|++++|++++.++.+.+ +.+..-...+-.++.. .++ +.+..+++.    .+..++.....++
T Consensus       181 ~~vL~L~~~rlY~~l~dw~~Ai~lL~~L~k~~-pl~~~~~~~L~~ay~q~l~~-~~a~al~~~----~lk~d~~l~~ala  254 (987)
T PRK09782        181 GKTLRTDLLQRAIYLKQWSQADTLYNEARQQN-TLSAAERRQWFDVLLAGQLD-DRLLALQSQ----GIFTDPQSRITYA  254 (987)
T ss_pred             cHHHHHHHHHHHHHHhCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhhCH-HHHHHHhch----hcccCHHHHHHHH
Confidence            4444444 889999999999999999999975 3344445566667766 356 777766442    3346888899999


Q ss_pred             HhhHhcCChHHHHHHHhcCCCC-----ChhHH------------------------------HHHHHHHHcCCCchHHHH
Q 005487          250 DMYGKCGCLEMAREVFEQTVLK-----SVVAW------------------------------NALIAGYSSRGDSKSCVK  294 (694)
Q Consensus       250 ~~~~~~g~~~~A~~~~~~~~~~-----~~~~~------------------------------~~li~~~~~~~~~~~a~~  294 (694)
                      ..|...|+.++|..+++++...     +..+|                              -.++..+.+.++++.+.+
T Consensus       255 ~~yi~~G~~~~A~~~L~~~~~~~~~~~~~~~~~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  334 (987)
T PRK09782        255 TALAYRGEKARLQHYLIENKPLFTTDAQEKSWLYLLSKYSANPVQALANYTVQFADNRQYVVGATLPVLLKEGQYDAAQK  334 (987)
T ss_pred             HHHHHCCCHHHHHHHHHhCcccccCCCccHHHHHHHHhccCchhhhccchhhhhHHHHHHHHHHHHHHHHhccHHHHHHH
Confidence            9999999999999999887432     11111                              112444556666664443


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHhh--ccCChhhhHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC-
Q 005487          295 LFWRMNEEGIKPTLTTISSVLMSCS--RSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAENVFEKMSK-  371 (694)
Q Consensus       295 ~~~~m~~~g~~p~~~~~~~ll~~~~--~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-  371 (694)
                      +.      .+.|.....  .++...  ..+...++...+..+.+.... +....--+.-...+.|+.++|..+|+.... 
T Consensus       335 ~~------~~~~~~~~~--~~r~~~~~~~~~~~~~~~~~~~~y~~~~~-~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~  405 (987)
T PRK09782        335 LL------ATLPANEML--EERYAVSVATRNKAEALRLARLLYQQEPA-NLTRLDQLTWQLMQNGQSREAADLLLQRYPF  405 (987)
T ss_pred             Hh------cCCCcchHH--HHHHhhccccCchhHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHcccHHHHHHHHHHhcCC
Confidence            31      234444432  333222  335666666666666665322 344444445556788999999999998764 


Q ss_pred             -C----ChhHHHHHHHHHHhcCC---hHHHHHH----------------------HHHHHHc-CC-CC--CHHHHHHHHH
Q 005487          372 -T----DVVYWNVMISGYVTVGD---YFKALAI----------------------YSDMKEV-GA-KP--DAVTFTSVLP  417 (694)
Q Consensus       372 -~----~~~~~~~l~~~~~~~~~---~~~A~~~----------------------~~~m~~~-g~-~p--~~~~~~~ll~  417 (694)
                       +    +....+-++..|.+.+.   ..++..+                      +...... +. ++  +...+..+..
T Consensus       406 ~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~  485 (987)
T PRK09782        406 QGDARLSQTLMARLASLLESHPYLATPAKVAILSKPLPLAEQRQWQSQLPGIADNCPAIVRLLGDMSPSYDAAAWNRLAK  485 (987)
T ss_pred             CcccccCHHHHHHHHHHHHhCCcccchHHHHHhccccccchhHHHHhhhhhhhhhHHHHHHhcccCCCCCCHHHHHHHHH
Confidence             1    22234466677776655   3333322                      2222111 12 23  4556666666


Q ss_pred             HHcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCC--CChHHHHHHHHHHHhcCCHHHHH
Q 005487          418 ACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPE--RDLVSWTSMIAAYGSHGRALEAL  495 (694)
Q Consensus       418 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~  495 (694)
                      ++.. ++..+|...+.......  |+......+...+...|++++|...|+.+..  ++...+..+..++...|++++|.
T Consensus       486 ~l~~-~~~~eAi~a~~~Al~~~--Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~~p~~~a~~~la~all~~Gd~~eA~  562 (987)
T PRK09782        486 CYRD-TLPGVALYAWLQAEQRQ--PDAWQHRAVAYQAYQVEDYATALAAWQKISLHDMSNEDLLAAANTAQAAGNGAARD  562 (987)
T ss_pred             HHHh-CCcHHHHHHHHHHHHhC--CchHHHHHHHHHHHHCCCHHHHHHHHHHHhccCCCcHHHHHHHHHHHHCCCHHHHH
Confidence            6665 78888999888887654  4444444556666799999999999998765  55566778888999999999999


Q ss_pred             HHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHHHHHHHHhCCCC
Q 005487          496 KLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEI  575 (694)
Q Consensus       496 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  575 (694)
                      ..+++..+.+ +++...+..+...+...|++++|...+++..   .+.|+...+..++.++.+.|++++|...++++.+.
T Consensus       563 ~~l~qAL~l~-P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL---~l~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l  638 (987)
T PRK09782        563 RWLQQAEQRG-LGDNALYWWLHAQRYIPGQPELALNDLTRSL---NIAPSANAYVARATIYRQRHNVPAAVSDLRAALEL  638 (987)
T ss_pred             HHHHHHHhcC-CccHHHHHHHHHHHHhCCCHHHHHHHHHHHH---HhCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            9999999864 2333444444455667799999999999998   55788889999999999999999999999999988


Q ss_pred             CCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHHHHhCCC
Q 005487          576 RED-AGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELGL  644 (694)
Q Consensus       576 ~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  644 (694)
                      .|+ ...+..++.++...|++++|+..++++++.+|+++.++..++.++...|++++|+..+++..+..+
T Consensus       639 ~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~P  708 (987)
T PRK09782        639 EPNNSNYQAALGYALWDSGDIAQSREMLERAHKGLPDDPALIRQLAYVNQRLDDMAATQHYARLVIDDID  708 (987)
T ss_pred             CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC
Confidence            886 567788888999999999999999999999999999999999999999999999999999886554

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

Probab=99.94  E-value=1.8e-23  Score=200.17  Aligned_cols=444  Identities=17%  Similarity=0.170  Sum_probs=360.0

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchhHHHHHHHhhHh
Q 005487          175 WNTVISCYYQDGQAEKALELFKKMRGSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVSDSYISSALVDMYGK  254 (694)
Q Consensus       175 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  254 (694)
                      ...|..-..+.|++++|.+.-...-+.+ ..+....-.+-..+.+..+.+.....-....+. .+.-..+|+.+.+.+..
T Consensus        51 ~l~lah~~yq~gd~~~a~~h~nmv~~~d-~t~~~~llll~ai~~q~~r~d~s~a~~~~a~r~-~~q~ae~ysn~aN~~ke  128 (966)
T KOG4626|consen   51 RLELAHRLYQGGDYKQAEKHCNMVGQED-PTNTERLLLLSAIFFQGSRLDKSSAGSLLAIRK-NPQGAEAYSNLANILKE  128 (966)
T ss_pred             HHHHHHHHHhccCHHHHHHHHhHhhccC-CCcccceeeehhhhhcccchhhhhhhhhhhhhc-cchHHHHHHHHHHHHHH
Confidence            4456666778899999988766554432 222223333334455556666555444444443 25556789999999999


Q ss_pred             cCChHHHHHHHhcCCCC---ChhHHHHHHHHHHcCCCchHHHHHHHHHHHCCCCCCHHHHHHHH-HHhhccCChhhhHHH
Q 005487          255 CGCLEMAREVFEQTVLK---SVVAWNALIAGYSSRGDSKSCVKLFWRMNEEGIKPTLTTISSVL-MSCSRSGQLKHGKVM  330 (694)
Q Consensus       255 ~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll-~~~~~~~~~~~a~~~  330 (694)
                      .|++++|+..++.+.+.   .+..|..+..++...|+.+.|.+.|....+.  .|+.....+-+ ...-..|.+++|...
T Consensus       129 rg~~~~al~~y~~aiel~p~fida~inla~al~~~~~~~~a~~~~~~alql--nP~l~ca~s~lgnLlka~Grl~ea~~c  206 (966)
T KOG4626|consen  129 RGQLQDALALYRAAIELKPKFIDAYINLAAALVTQGDLELAVQCFFEALQL--NPDLYCARSDLGNLLKAEGRLEEAKAC  206 (966)
T ss_pred             hchHHHHHHHHHHHHhcCchhhHHHhhHHHHHHhcCCCcccHHHHHHHHhc--CcchhhhhcchhHHHHhhcccchhHHH
Confidence            99999999999887543   4578999999999999999999999888775  56655443333 333457889999999


Q ss_pred             HHHHHHhcCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCCh---hHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC
Q 005487          331 HGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAENVFEKMSKTDV---VYWNVMISGYVTVGDYFKALAIYSDMKEVGAKP  407 (694)
Q Consensus       331 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~A~~~~~~m~~~g~~p  407 (694)
                      +.+.++.... =...|+.|.-.+...|+...|+.-|++..+-|+   ..|-.|...|...+.+++|+..|.+....  .|
T Consensus       207 YlkAi~~qp~-fAiawsnLg~~f~~~Gei~~aiq~y~eAvkldP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~l--rp  283 (966)
T KOG4626|consen  207 YLKAIETQPC-FAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLDPNFLDAYINLGNVYKEARIFDRAVSCYLRALNL--RP  283 (966)
T ss_pred             HHHHHhhCCc-eeeeehhcchHHhhcchHHHHHHHHHHhhcCCCcchHHHhhHHHHHHHHhcchHHHHHHHHHHhc--CC
Confidence            8888776532 244677888889999999999999999876443   57888999999999999999999887765  55


Q ss_pred             C-HHHHHHHHHHHcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCC---CChHHHHHHHH
Q 005487          408 D-AVTFTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPE---RDLVSWTSMIA  483 (694)
Q Consensus       408 ~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~  483 (694)
                      + ...+..+...|...|..+.|+..|++.++.. +.-+..|+.+..++-..|++.+|.+.|++...   ....+.+.|..
T Consensus       284 n~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~-P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p~hadam~NLgn  362 (966)
T KOG4626|consen  284 NHAVAHGNLACIYYEQGLLDLAIDTYKRALELQ-PNFPDAYNNLANALKDKGSVTEAVDCYNKALRLCPNHADAMNNLGN  362 (966)
T ss_pred             cchhhccceEEEEeccccHHHHHHHHHHHHhcC-CCchHHHhHHHHHHHhccchHHHHHHHHHHHHhCCccHHHHHHHHH
Confidence            4 4566677777889999999999999998865 34567899999999999999999999999887   34568999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCC-hHHHHHHHHHhhhcCC
Q 005487          484 AYGSHGRALEALKLFGEMQQSNARPD-SITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPR-NEHYSCLIDLLGRAGR  561 (694)
Q Consensus       484 ~~~~~~~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~  561 (694)
                      +|...|.++.|..+|.....-  .|. ...++.|...|-++|++++|+..+++++   .++|+ ...|..++..|-..|+
T Consensus       363 i~~E~~~~e~A~~ly~~al~v--~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykeal---rI~P~fAda~~NmGnt~ke~g~  437 (966)
T KOG4626|consen  363 IYREQGKIEEATRLYLKALEV--FPEFAAAHNNLASIYKQQGNLDDAIMCYKEAL---RIKPTFADALSNMGNTYKEMGD  437 (966)
T ss_pred             HHHHhccchHHHHHHHHHHhh--ChhhhhhhhhHHHHHHhcccHHHHHHHHHHHH---hcCchHHHHHHhcchHHHHhhh
Confidence            999999999999999999984  566 5789999999999999999999999998   78998 5699999999999999


Q ss_pred             HHHHHHHHHhCCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHH
Q 005487          562 LQEAYGILQSTPEIRED-AGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDE  631 (694)
Q Consensus       562 ~~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  631 (694)
                      .+.|++.+.++..+.|. ......++..+...|+..+|++.++.+++++|+.+.+|.+++.++--..+|.+
T Consensus       438 v~~A~q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkPDfpdA~cNllh~lq~vcdw~D  508 (966)
T KOG4626|consen  438 VSAAIQCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKPDFPDAYCNLLHCLQIVCDWTD  508 (966)
T ss_pred             HHHHHHHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCCCCchhhhHHHHHHHHHhcccc
Confidence            99999999999988886 57889999999999999999999999999999999999999998777666665

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

Probab=99.93  E-value=1.1e-20  Score=191.12  Aligned_cols=614  Identities=13%  Similarity=0.100  Sum_probs=437.6

Q ss_pred             ChhhHhHHHHHHHHhCCCCCchhhhHHHHHHhcCCC--hhHHHHHHhhCC--CCCchhhHHHHHHH--HHccCChhHHHH
Q 005487           18 SLKEGKIIHQKVVTLGLQNNIALCKSLINLYFSCQN--YDYAMLVFKTID--NPLDLSLWNGLMAS--YTKNYMYITALE   91 (694)
Q Consensus        18 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~--~~~a~~~~~~~~--~~~~~~~~~~l~~~--~~~~~~~~~a~~   91 (694)
                      -+..|..+|....+.....+...+..-. .|...|.  .+.|-..|....  .|+.  ....|..+  ....+++..|+.
T Consensus       109 ~~~~at~~~~~A~ki~m~~~~~l~~~~~-~~l~~~~~~~~~A~a~F~~Vl~~sp~N--il~LlGkA~i~ynkkdY~~al~  185 (1018)
T KOG2002|consen  109 LFDKATLLFDLADKIDMYEDSHLLVQRG-FLLLEGDKSMDDADAQFHFVLKQSPDN--ILALLGKARIAYNKKDYRGALK  185 (1018)
T ss_pred             HHHHHHHHhhHHHHhhccCcchhhhhhh-hhhhcCCccHHHHHHHHHHHHhhCCcc--hHHHHHHHHHHhccccHHHHHH
Confidence            3445666666666665555555444444 3444554  588888888763  3433  23444444  457889999999


Q ss_pred             HHHHhhhC-CCCCCCcccHHHHHHHhhCCCCchhHHHHHHHHHHHcCCCchhHHHHHHHhhhcC---CChHHHHHHhccC
Q 005487           92 LFDMLLQN-PYLKPDSYTYPSVLKACGGLGSVGIGKMIHTHLIKTGFLLDVVIASSTAGMYAKC---NSFECAVKMFDEM  167 (694)
Q Consensus        92 ~~~~~~~~-~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---g~~~~A~~~~~~~  167 (694)
                      +|+.+... +..+||...  .+...+.+.++.+.|+..|..+.+... .++.++..|.-+-...   ..+..+..++...
T Consensus       186 yyk~al~inp~~~aD~rI--gig~Cf~kl~~~~~a~~a~~ralqLdp-~~v~alv~L~~~~l~~~d~~s~~~~~~ll~~a  262 (1018)
T KOG2002|consen  186 YYKKALRINPACKADVRI--GIGHCFWKLGMSEKALLAFERALQLDP-TCVSALVALGEVDLNFNDSDSYKKGVQLLQRA  262 (1018)
T ss_pred             HHHHHHhcCcccCCCccc--hhhhHHHhccchhhHHHHHHHHHhcCh-hhHHHHHHHHHHHHHccchHHHHHHHHHHHHH
Confidence            99997654 233444432  334556688999999999999988642 3334444333322222   3455555555554


Q ss_pred             C---CCCcccHHHHHHHHHhCCChhHHHHHHHHHHhCCCC--CChhhHHHHHHHHhccCChhHHHHHHHHHHHhCCCCch
Q 005487          168 S---ERDVASWNTVISCYYQDGQAEKALELFKKMRGSGFQ--PNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVSDS  242 (694)
Q Consensus       168 ~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~--~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~  242 (694)
                      -   ..+++..+.|...|.-.|+++.++.+...+......  .-...|-.+.+++-..|++++|...|.+..+.....-.
T Consensus       263 y~~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  263 YKENNENPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDNFV  342 (1018)
T ss_pred             HhhcCCCcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCCcc
Confidence            3   268889999999999999999999999998775311  22345788899999999999999999888776322223


Q ss_pred             hHHHHHHHhhHhcCChHHHHHHHhcCCCC---ChhHHHHHHHHHHcCC----CchHHHHHHHHHHHCCCCCCHHHHHHHH
Q 005487          243 YISSALVDMYGKCGCLEMAREVFEQTVLK---SVVAWNALIAGYSSRG----DSKSCVKLFWRMNEEGIKPTLTTISSVL  315 (694)
Q Consensus       243 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~~----~~~~a~~~~~~m~~~g~~p~~~~~~~ll  315 (694)
                      ..+-.+..+|.+.|+++.+...|+++...   +..+...+...|...+    ..+.|..++.+..+. .+.|...|..+.
T Consensus       343 l~~~GlgQm~i~~~dle~s~~~fEkv~k~~p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~-~~~d~~a~l~la  421 (1018)
T KOG2002|consen  343 LPLVGLGQMYIKRGDLEESKFCFEKVLKQLPNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQ-TPVDSEAWLELA  421 (1018)
T ss_pred             ccccchhHHHHHhchHHHHHHHHHHHHHhCcchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhc-ccccHHHHHHHH
Confidence            34556889999999999999999987543   4455666666666554    456667777666655 345667777776


Q ss_pred             HHhhccCChhhhHHHHHH----HHHhcCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCC-------Ch------hHHH
Q 005487          316 MSCSRSGQLKHGKVMHGY----IIRNKIQGDVFINSSLIDLYFKCGRVSSAENVFEKMSKT-------DV------VYWN  378 (694)
Q Consensus       316 ~~~~~~~~~~~a~~~~~~----~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-------~~------~~~~  378 (694)
                      ..+....-+.. ...+..    +...+-.+.+.+.|.+...+...|++..|...|......       +.      .+--
T Consensus       422 ql~e~~d~~~s-L~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~Y  500 (1018)
T KOG2002|consen  422 QLLEQTDPWAS-LDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKY  500 (1018)
T ss_pred             HHHHhcChHHH-HHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHH
Confidence            66655443333 555443    345565678889999999999999999999999876521       21      1222


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhc
Q 005487          379 VMISGYVTVGDYFKALAIYSDMKEVGAKPDAV-TFTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKC  457 (694)
Q Consensus       379 ~l~~~~~~~~~~~~A~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  457 (694)
                      .+...+-..++++.|.+.|+.+.+.  .|.-. .|..++......++...|...++.+...+ ..++..+..+...+.+.
T Consensus       501 Nlarl~E~l~~~~~A~e~Yk~Ilke--hp~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d-~~np~arsl~G~~~l~k  577 (1018)
T KOG2002|consen  501 NLARLLEELHDTEVAEEMYKSILKE--HPGYIDAYLRLGCMARDKNNLYEASLLLKDALNID-SSNPNARSLLGNLHLKK  577 (1018)
T ss_pred             HHHHHHHhhhhhhHHHHHHHHHHHH--CchhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcc-cCCcHHHHHHHHHHHhh
Confidence            3555666778999999999999886  45543 44455434445678888999998887754 45666677788889888


Q ss_pred             CChHHHHHHHhhCCC-----CChHHHHHHHHHHH------------hcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHH
Q 005487          458 GAVDEAFKVFNELPE-----RDLVSWTSMIAAYG------------SHGRALEALKLFGEMQQSNARPDSITFLALLSAC  520 (694)
Q Consensus       458 g~~~~A~~~~~~~~~-----~~~~~~~~l~~~~~------------~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~  520 (694)
                      ..+.-|.+-|+.+.+     +|+.+.-+|...+.            ..+..++|+++|.+.++.. +-|...-+.+..++
T Consensus       578 ~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~d-pkN~yAANGIgiVL  656 (1018)
T KOG2002|consen  578 SEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRND-PKNMYAANGIGIVL  656 (1018)
T ss_pred             hhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcC-cchhhhccchhhhh
Confidence            888888885555443     56666666666543            2346788999999999874 55778888888899


Q ss_pred             HccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHHHHHHHHhCCC---CCCCHHHHHHHHHHHHHcCCHHH
Q 005487          521 SHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPE---IREDAGLLSTLFSACRLHRDIEM  597 (694)
Q Consensus       521 ~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~p~~~~~~~l~~~~~~~~~~~~  597 (694)
                      +..|++.+|..+|.+..+..  .....+|..++.+|..+|++-.|+++|+...+   -..+..++..|+.++...|.+.+
T Consensus       657 A~kg~~~~A~dIFsqVrEa~--~~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~e  734 (1018)
T KOG2002|consen  657 AEKGRFSEARDIFSQVREAT--SDFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQE  734 (1018)
T ss_pred             hhccCchHHHHHHHHHHHHH--hhCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHH
Confidence            99999999999999998542  23456788999999999999999999998665   23467889999999999999999


Q ss_pred             HHHHHHHHHhcCCCCCccHHHHHHHHhhc-------------------CChHHHHHHHHHHHhCCCc
Q 005487          598 GEKIAKLLIEKDPDDSSTYIVLSNMYASV-------------------KKWDEVRKIRLKMKELGLR  645 (694)
Q Consensus       598 A~~~~~~~~~~~p~~~~~~~~l~~~~~~~-------------------g~~~~A~~~~~~~~~~~~~  645 (694)
                      |.+.+.+++.+.|.++...++++-+..+.                   +..++|.++|+.+...+.+
T Consensus       735 ak~~ll~a~~~~p~~~~v~FN~a~v~kkla~s~lr~~k~t~eev~~a~~~le~a~r~F~~ls~~~d~  801 (1018)
T KOG2002|consen  735 AKEALLKARHLAPSNTSVKFNLALVLKKLAESILRLEKRTLEEVLEAVKELEEARRLFTELSKNGDK  801 (1018)
T ss_pred             HHHHHHHHHHhCCccchHHhHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence            99999999999999999988887765543                   3567788888888776654

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

Probab=99.93  E-value=3.1e-23  Score=198.55  Aligned_cols=421  Identities=14%  Similarity=0.178  Sum_probs=346.3

Q ss_pred             HHHHHHHHhccCChhHHHHHHHHHHHhCCCCchhHHHHHHHhhHhcCChHHHHHHHhcCCC---CChhHHHHHHHHHHcC
Q 005487          210 LTTVISSCARLMDLDRGKEIHKEFIKDGFVSDSYISSALVDMYGKCGCLEMAREVFEQTVL---KSVVAWNALIAGYSSR  286 (694)
Q Consensus       210 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~  286 (694)
                      ...+..-..+.|++.+|++.-..+-..+ +.+......+-..+....+.+.....-....+   ....+|..+...+-..
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~~ker  129 (966)
T KOG4626|consen   51 RLELAHRLYQGGDYKQAEKHCNMVGQED-PTNTERLLLLSAIFFQGSRLDKSSAGSLLAIRKNPQGAEAYSNLANILKER  129 (966)
T ss_pred             HHHHHHHHHhccCHHHHHHHHhHhhccC-CCcccceeeehhhhhcccchhhhhhhhhhhhhccchHHHHHHHHHHHHHHh
Confidence            3445556667889999988776555443 33334444444556666666655443332222   2456899999999999


Q ss_pred             CCchHHHHHHHHHHHCCCCC-CHHHHHHHHHHhhccCChhhhHHHHHHHHHhcCCCchhHH-HHHHHHHHhcCCHHHHHH
Q 005487          287 GDSKSCVKLFWRMNEEGIKP-TLTTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFIN-SSLIDLYFKCGRVSSAEN  364 (694)
Q Consensus       287 ~~~~~a~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~A~~  364 (694)
                      |+.++|+.+++.+.+.  +| ....|..+..++...|+.+.|...|....+.+  |+.... +-+....-..|++.+|..
T Consensus       130 g~~~~al~~y~~aiel--~p~fida~inla~al~~~~~~~~a~~~~~~alqln--P~l~ca~s~lgnLlka~Grl~ea~~  205 (966)
T KOG4626|consen  130 GQLQDALALYRAAIEL--KPKFIDAYINLAAALVTQGDLELAVQCFFEALQLN--PDLYCARSDLGNLLKAEGRLEEAKA  205 (966)
T ss_pred             chHHHHHHHHHHHHhc--CchhhHHHhhHHHHHHhcCCCcccHHHHHHHHhcC--cchhhhhcchhHHHHhhcccchhHH
Confidence            9999999999999986  44 45778899999999999999999998887764  433332 334455556899999999


Q ss_pred             HHhcCCCCC---hhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHcccCChHHHHHHHHHHHHhCC
Q 005487          365 VFEKMSKTD---VVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPD-AVTFTSVLPACSQLAALEKGKEIHNHIIESKL  440 (694)
Q Consensus       365 ~~~~~~~~~---~~~~~~l~~~~~~~~~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  440 (694)
                      .+.+..+.+   ...|+.|...+-.+|+...|+..|++.++.  .|+ ...|..|...+...+.++.|...|.+..... 
T Consensus       206 cYlkAi~~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkl--dP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lr-  282 (966)
T KOG4626|consen  206 CYLKAIETQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKL--DPNFLDAYINLGNVYKEARIFDRAVSCYLRALNLR-  282 (966)
T ss_pred             HHHHHHhhCCceeeeehhcchHHhhcchHHHHHHHHHHhhcC--CCcchHHHhhHHHHHHHHhcchHHHHHHHHHHhcC-
Confidence            988776433   368999999999999999999999999886  454 4678888889999999999999999887654 


Q ss_pred             CCChhHHHHHHHHHHhcCChHHHHHHHhhCCC--CC-hHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHH
Q 005487          441 ETNEIVMGALLDMYAKCGAVDEAFKVFNELPE--RD-LVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPD-SITFLAL  516 (694)
Q Consensus       441 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~-~~~~~~l  516 (694)
                      +....++..+.-.|-.+|.++-|+..|++..+  |+ +.+|+.|..++...|+..+|...+.+....  .|+ ....+.|
T Consensus       283 pn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l--~p~hadam~NL  360 (966)
T KOG4626|consen  283 PNHAVAHGNLACIYYEQGLLDLAIDTYKRALELQPNFPDAYNNLANALKDKGSVTEAVDCYNKALRL--CPNHADAMNNL  360 (966)
T ss_pred             CcchhhccceEEEEeccccHHHHHHHHHHHHhcCCCchHHHhHHHHHHHhccchHHHHHHHHHHHHh--CCccHHHHHHH
Confidence            44566777788889999999999999999887  44 458999999999999999999999999985  566 6889999


Q ss_pred             HHHHHccCCHHHHHHHHHHhHHhcCCCCC-hHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCC-HHHHHHHHHHHHHcCC
Q 005487          517 LSACSHAGWVDEGGYYFNLMISEYNIQPR-NEHYSCLIDLLGRAGRLQEAYGILQSTPEIRED-AGLLSTLFSACRLHRD  594 (694)
Q Consensus       517 ~~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~  594 (694)
                      ...+.+.|.+++|..+|....   .+.|. ....+.|+..|..+|++++|+..|+++.+++|. ...+..++..|...|+
T Consensus       361 gni~~E~~~~e~A~~ly~~al---~v~p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI~P~fAda~~NmGnt~ke~g~  437 (966)
T KOG4626|consen  361 GNIYREQGKIEEATRLYLKAL---EVFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALRIKPTFADALSNMGNTYKEMGD  437 (966)
T ss_pred             HHHHHHhccchHHHHHHHHHH---hhChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhcCchHHHHHHhcchHHHHhhh
Confidence            999999999999999999988   56777 457899999999999999999999999999997 5789999999999999


Q ss_pred             HHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHHHHhCC
Q 005487          595 IEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELG  643 (694)
Q Consensus       595 ~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  643 (694)
                      ...|.+.+.+++..+|.-+.++.+|+.+|...|+..+|++-+++..+..
T Consensus       438 v~~A~q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklk  486 (966)
T KOG4626|consen  438 VSAAIQCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLK  486 (966)
T ss_pred             HHHHHHHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccC
Confidence            9999999999999999999999999999999999999999999887544

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

Probab=99.91  E-value=2e-19  Score=182.07  Aligned_cols=583  Identities=14%  Similarity=0.131  Sum_probs=427.6

Q ss_pred             hhhHhHHHHHHHHhCCCCCchhhhHHHHHHhcCCChhHHHHHHhhC--CCCCch-hhHHHHHHHHHccCChhHHHHHHHH
Q 005487           19 LKEGKIIHQKVVTLGLQNNIALCKSLINLYFSCQNYDYAMLVFKTI--DNPLDL-SLWNGLMASYTKNYMYITALELFDM   95 (694)
Q Consensus        19 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~--~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~   95 (694)
                      .+.|-..|...++.. ++++-.+..-..+....|++..|..+|+.+  .+|... ...-.+.-++.+.|+.+.|+..|+.
T Consensus       146 ~~~A~a~F~~Vl~~s-p~Nil~LlGkA~i~ynkkdY~~al~yyk~al~inp~~~aD~rIgig~Cf~kl~~~~~a~~a~~r  224 (1018)
T KOG2002|consen  146 MDDADAQFHFVLKQS-PDNILALLGKARIAYNKKDYRGALKYYKKALRINPACKADVRIGIGHCFWKLGMSEKALLAFER  224 (1018)
T ss_pred             HHHHHHHHHHHHhhC-CcchHHHHHHHHHHhccccHHHHHHHHHHHHhcCcccCCCccchhhhHHHhccchhhHHHHHHH
Confidence            588999999998887 667666666666667788999999999994  333211 1234455666789999999999999


Q ss_pred             hhhCCCCCCCcccHHHHHHHhhCCC---CchhHHHHHHHHHHHcCCCchhHHHHHHHhhhcCCChHHHHHHhccCCCC--
Q 005487           96 LLQNPYLKPDSYTYPSVLKACGGLG---SVGIGKMIHTHLIKTGFLLDVVIASSTAGMYAKCNSFECAVKMFDEMSER--  170 (694)
Q Consensus        96 ~~~~~~~~~~~~~~~~ll~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--  170 (694)
                      ..+.  .|.++.++..|...-....   .+..+...+...-... +.++.+.+.|.+.|...|++..+..+...+..-  
T Consensus       225 alqL--dp~~v~alv~L~~~~l~~~d~~s~~~~~~ll~~ay~~n-~~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~  301 (1018)
T KOG2002|consen  225 ALQL--DPTCVSALVALGEVDLNFNDSDSYKKGVQLLQRAYKEN-NENPVALNHLANHFYFKKDYERVWHLAEHAIKNTE  301 (1018)
T ss_pred             HHhc--ChhhHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhhc-CCCcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhh
Confidence            9987  2333444444433322333   3445555555555543 567788999999999999999999998877652  


Q ss_pred             ----CcccHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCh--hhHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchhH
Q 005487          171 ----DVASWNTVISCYYQDGQAEKALELFKKMRGSGFQPNS--VTLTTVISSCARLMDLDRGKEIHKEFIKDGFVSDSYI  244 (694)
Q Consensus       171 ----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~--~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  244 (694)
                          -..+|..+.++|...|++++|...|.+..+.  .|+.  ..+..+...+.+.|+.+.+...|+.+.+.. +.+..+
T Consensus       302 ~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~--~~d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k~~-p~~~et  378 (1018)
T KOG2002|consen  302 NKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKA--DNDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLKQL-PNNYET  378 (1018)
T ss_pred             hhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHcc--CCCCccccccchhHHHHHhchHHHHHHHHHHHHHhC-cchHHH
Confidence                2346888999999999999999999998875  3444  355667888999999999999999999883 667788


Q ss_pred             HHHHHHhhHhcC----ChHHHHHHHhcCCCC---ChhHHHHHHHHHHcCCCchHHHHHHHHHH----HCCCCCCHHHHHH
Q 005487          245 SSALVDMYGKCG----CLEMAREVFEQTVLK---SVVAWNALIAGYSSRGDSKSCVKLFWRMN----EEGIKPTLTTISS  313 (694)
Q Consensus       245 ~~~l~~~~~~~g----~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~----~~g~~p~~~~~~~  313 (694)
                      ...|...|...+    ..+.|..++.+...+   |..+|-.+...+... ++..++..|....    ..+-.+.....+.
T Consensus       379 m~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~~~d~~a~l~laql~e~~-d~~~sL~~~~~A~d~L~~~~~~ip~E~LNN  457 (1018)
T KOG2002|consen  379 MKILGCLYAHSAKKQEKRDKASNVLGKVLEQTPVDSEAWLELAQLLEQT-DPWASLDAYGNALDILESKGKQIPPEVLNN  457 (1018)
T ss_pred             HHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHhc-ChHHHHHHHHHHHHHHHHcCCCCCHHHHHh
Confidence            888888888775    567788888776554   556676666665544 4444476665543    4566677889999


Q ss_pred             HHHHhhccCChhhhHHHHHHHHHh---cCCCch------hHHHHHHHHHHhcCCHHHHHHHHhcCCCCChh---HHHHHH
Q 005487          314 VLMSCSRSGQLKHGKVMHGYIIRN---KIQGDV------FINSSLIDLYFKCGRVSSAENVFEKMSKTDVV---YWNVMI  381 (694)
Q Consensus       314 ll~~~~~~~~~~~a~~~~~~~~~~---~~~~~~------~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~---~~~~l~  381 (694)
                      +.......|+++.|...|......   ...++.      .+--.+..++-..++.+.|.+.|..+.+..+.   .|..++
T Consensus       458 vaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilkehp~YId~ylRl~  537 (1018)
T KOG2002|consen  458 VASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKEHPGYIDAYLRLG  537 (1018)
T ss_pred             HHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHCchhHHHHHHhh
Confidence            999999999999999999988766   222333      22334666777778999999999999864433   344444


Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcccCChHHHHHHHHHHHHh-CCCCChhHHHHHHHHHHh----
Q 005487          382 SGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIES-KLETNEIVMGALLDMYAK----  456 (694)
Q Consensus       382 ~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~----  456 (694)
                      ......+...+|...++.....+ ..++..++.+...+.....+..|.+-|..+.+. ...+|..+.-+|.+.|.+    
T Consensus       538 ~ma~~k~~~~ea~~~lk~~l~~d-~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~  616 (1018)
T KOG2002|consen  538 CMARDKNNLYEASLLLKDALNID-SSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHN  616 (1018)
T ss_pred             HHHHhccCcHHHHHHHHHHHhcc-cCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcc
Confidence            33334577889999999887753 344555555666788888888888877766543 223677777777776653    


Q ss_pred             --------cCChHHHHHHHhhCCC---CChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCC
Q 005487          457 --------CGAVDEAFKVFNELPE---RDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGW  525 (694)
Q Consensus       457 --------~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~  525 (694)
                              .+..+.|+++|.+++.   .|..+-|.+.-.++..|++..|..+|.+..+.. .-+..+|..+..+|...|+
T Consensus       617 ~~rn~ek~kk~~~KAlq~y~kvL~~dpkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~-~~~~dv~lNlah~~~e~~q  695 (1018)
T KOG2002|consen  617 PSRNPEKEKKHQEKALQLYGKVLRNDPKNMYAANGIGIVLAEKGRFSEARDIFSQVREAT-SDFEDVWLNLAHCYVEQGQ  695 (1018)
T ss_pred             cccChHHHHHHHHHHHHHHHHHHhcCcchhhhccchhhhhhhccCchHHHHHHHHHHHHH-hhCCceeeeHHHHHHHHHH
Confidence                    3467899999998887   455667888899999999999999999999874 3467889999999999999


Q ss_pred             HHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCCH-HHHHHHHHHH---------------
Q 005487          526 VDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDA-GLLSTLFSAC---------------  589 (694)
Q Consensus       526 ~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~-~~~~~l~~~~---------------  589 (694)
                      +..|+++|+...+++.-.-+..+...|++++.+.|++.+|.+.+..+....|.. .+...++...               
T Consensus       696 y~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~p~~~~v~FN~a~v~kkla~s~lr~~k~t~  775 (1018)
T KOG2002|consen  696 YRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLAPSNTSVKFNLALVLKKLAESILRLEKRTL  775 (1018)
T ss_pred             HHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCccchHHhHHHHHHHHHHHHHHhcccccH
Confidence            999999999999887766678899999999999999999999999887766643 2222222111               


Q ss_pred             ----HHcCCHHHHHHHHHHHHhcCCC
Q 005487          590 ----RLHRDIEMGEKIAKLLIEKDPD  611 (694)
Q Consensus       590 ----~~~~~~~~A~~~~~~~~~~~p~  611 (694)
                          ...+..+.|.+.|..+....+.
T Consensus       776 eev~~a~~~le~a~r~F~~ls~~~d~  801 (1018)
T KOG2002|consen  776 EEVLEAVKELEEARRLFTELSKNGDK  801 (1018)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence                1123356677777777666554

>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=99.91  E-value=1.3e-20  Score=201.50  Aligned_cols=419  Identities=13%  Similarity=0.052  Sum_probs=278.5

Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchhHHHHHHHhhHh
Q 005487          175 WNTVISCYYQDGQAEKALELFKKMRGSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVSDSYISSALVDMYGK  254 (694)
Q Consensus       175 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  254 (694)
                      +......+...|++++|+..|++.+..  .|+...|..+..++...|+++.|...+...++.. +.+...+..+..+|..
T Consensus       130 ~k~~G~~~~~~~~~~~Ai~~y~~al~~--~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~a~a~~~  206 (615)
T TIGR00990       130 LKEKGNKAYRNKDFNKAIKLYSKAIEC--KPDPVYYSNRAACHNALGDWEKVVEDTTAALELD-PDYSKALNRRANAYDG  206 (615)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHH
Confidence            445566777788888888888887763  5676777777777777788888887777777653 4455666667777777


Q ss_pred             cCChHHHHHHHhcCCCCC---hhHHHHHHHHHHcCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChhhhHHHH
Q 005487          255 CGCLEMAREVFEQTVLKS---VVAWNALIAGYSSRGDSKSCVKLFWRMNEEGIKPTLTTISSVLMSCSRSGQLKHGKVMH  331 (694)
Q Consensus       255 ~g~~~~A~~~~~~~~~~~---~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~  331 (694)
                      .|++++|+..|..+...+   ......++..+..    ..+........+.. ++                         
T Consensus       207 lg~~~eA~~~~~~~~~~~~~~~~~~~~~~~~~l~----~~a~~~~~~~l~~~-~~-------------------------  256 (615)
T TIGR00990       207 LGKYADALLDLTASCIIDGFRNEQSAQAVERLLK----KFAESKAKEILETK-PE-------------------------  256 (615)
T ss_pred             cCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHH----HHHHHHHHHHHhcC-CC-------------------------
Confidence            777777766654332111   1111111111100    11111111111110 00                         


Q ss_pred             HHHHHhcCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCC---hhHHHHHHHH---HHhcCChHHHHHHHHHHHHcC-
Q 005487          332 GYIIRNKIQGDVFINSSLIDLYFKCGRVSSAENVFEKMSKTD---VVYWNVMISG---YVTVGDYFKALAIYSDMKEVG-  404 (694)
Q Consensus       332 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~---~~~~~~l~~~---~~~~~~~~~A~~~~~~m~~~g-  404 (694)
                                +...+..+.. |...........-+....+.+   ...+..+...   ....+++++|...|+.....+ 
T Consensus       257 ----------~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~  325 (615)
T TIGR00990       257 ----------NLPSVTFVGN-YLQSFRPKPRPAGLEDSNELDEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGK  325 (615)
T ss_pred             ----------CCCCHHHHHH-HHHHccCCcchhhhhcccccccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCC
Confidence                      0001111111 111100111111111111100   0111111111   123467888999998888764 


Q ss_pred             CCC-CHHHHHHHHHHHcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCC---CChHHHHH
Q 005487          405 AKP-DAVTFTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPE---RDLVSWTS  480 (694)
Q Consensus       405 ~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~  480 (694)
                      ..| ....+..+...+...|+++.|...++..++.. +.....|..+..++...|++++|...|+.+..   .+...|..
T Consensus       326 ~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p~~~~~~~~  404 (615)
T TIGR00990       326 LGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELD-PRVTQSYIKRASMNLELGDPDKAEEDFDKALKLNSEDPDIYYH  404 (615)
T ss_pred             CChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHH
Confidence            233 34556667777788999999999999888764 33466777888889999999999999988765   45678899


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCC-hHHHHHHHHHhhhc
Q 005487          481 MIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPR-NEHYSCLIDLLGRA  559 (694)
Q Consensus       481 l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~  559 (694)
                      +...+...|++++|+..|++.++.. +.+...+..+...+.+.|++++|+..++...+   ..|+ +..+..++.++...
T Consensus       405 lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~---~~P~~~~~~~~lg~~~~~~  480 (615)
T TIGR00990       405 RAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGVTQYKEGSIASSMATFRRCKK---NFPEAPDVYNYYGELLLDQ  480 (615)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH---hCCCChHHHHHHHHHHHHc
Confidence            9999999999999999999999863 33567788888899999999999999999984   3454 66888999999999


Q ss_pred             CCHHHHHHHHHhCCCCCCCH-HH-------HHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHH
Q 005487          560 GRLQEAYGILQSTPEIREDA-GL-------LSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDE  631 (694)
Q Consensus       560 g~~~~A~~~~~~~~~~~p~~-~~-------~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  631 (694)
                      |++++|++.|+++.+..|+. ..       +......+...|++++|...++++++++|++..++..++.++...|++++
T Consensus       481 g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~p~~~~a~~~la~~~~~~g~~~e  560 (615)
T TIGR00990       481 NKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALIIDPECDIAVATMAQLLLQQGDVDE  560 (615)
T ss_pred             cCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHccCHHH
Confidence            99999999999988766542 11       12222233446999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhC
Q 005487          632 VRKIRLKMKEL  642 (694)
Q Consensus       632 A~~~~~~~~~~  642 (694)
                      |++.+++..+.
T Consensus       561 Ai~~~e~A~~l  571 (615)
T TIGR00990       561 ALKLFERAAEL  571 (615)
T ss_pred             HHHHHHHHHHH
Confidence            99999998654

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

Probab=99.88  E-value=6.9e-17  Score=162.87  Aligned_cols=626  Identities=14%  Similarity=0.128  Sum_probs=391.0

Q ss_pred             hhhHHHHHHHhhCCCChhhHhHHHHHHHHhCCCCCchhhhHHHHHHhcCCChhHHHHHHhhC--CCCCchhhHHHHHHHH
Q 005487            3 ITRILTLLRTCTGSKSLKEGKIIHQKVVTLGLQNNIALCKSLINLYFSCQNYDYAMLVFKTI--DNPLDLSLWNGLMASY   80 (694)
Q Consensus         3 ~~~~~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~--~~~~~~~~~~~l~~~~   80 (694)
                      .+++...+......|++++|+.++..+++.. |.+...|..|..+|-.+|+.+++...+=.+  -+|.+.+-|..+..-.
T Consensus       139 l~~ll~eAN~lfarg~~eeA~~i~~EvIkqd-p~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~d~e~W~~ladls  217 (895)
T KOG2076|consen  139 LRQLLGEANNLFARGDLEEAEEILMEVIKQD-PRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPKDYELWKRLADLS  217 (895)
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-ccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCCChHHHHHHHHHH
Confidence            4677788888888899999999999999987 888999999999999999999998876443  4566556899999999


Q ss_pred             HccCChhHHHHHHHHhhhCCCCCCCcccHHHHHHHhhCCCCchhHHHHHHHHHHHcCCCchhHHH----HHHHhhhcCCC
Q 005487           81 TKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLGSVGIGKMIHTHLIKTGFLLDVVIAS----STAGMYAKCNS  156 (694)
Q Consensus        81 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~----~l~~~~~~~g~  156 (694)
                      .+.|++++|.-.|.++.+.  .|++....-.-...|-+.|+...|...+.++.....+.|..-..    ..+..+...++
T Consensus       218 ~~~~~i~qA~~cy~rAI~~--~p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~  295 (895)
T KOG2076|consen  218 EQLGNINQARYCYSRAIQA--NPSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNE  295 (895)
T ss_pred             HhcccHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhH
Confidence            9999999999999999987  56677777777788889999999999999999876544433333    33555667788


Q ss_pred             hHHHHHHhccCCC-----CCcccHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCChh----------------------h
Q 005487          157 FECAVKMFDEMSE-----RDVASWNTVISCYYQDGQAEKALELFKKMRGSGFQPNSV----------------------T  209 (694)
Q Consensus       157 ~~~A~~~~~~~~~-----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~----------------------~  209 (694)
                      .+.|.+.++....     -+...++.++..+.....++.+......+......+|..                      .
T Consensus       296 ~e~a~~~le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s  375 (895)
T KOG2076|consen  296 RERAAKALEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELS  375 (895)
T ss_pred             HHHHHHHHHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCC
Confidence            8999998887654     355678999999999999999999988887622222211                      1


Q ss_pred             H----HHHHHHHhccCChhHHHHHHHHHHHhCC--CCchhHHHHHHHhhHhcCChHHHHHHHhcCCCC----ChhHHHHH
Q 005487          210 L----TTVISSCARLMDLDRGKEIHKEFIKDGF--VSDSYISSALVDMYGKCGCLEMAREVFEQTVLK----SVVAWNAL  279 (694)
Q Consensus       210 ~----~~ll~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~~~~~~~l  279 (694)
                      |    ..+.-++.+.+..+....+.........  ..+...+..+..+|...|.+.+|+.+|..+...    +...|-.+
T Consensus       376 ~~l~v~rl~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~  455 (895)
T KOG2076|consen  376 YDLRVIRLMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKL  455 (895)
T ss_pred             ccchhHhHhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHH
Confidence            1    1233445566666666666666666663  335667888888888888888888888877543    55678888


Q ss_pred             HHHHHcCCCchHHHHHHHHHHHCCCCCC-HHHHHHHHHHhhccCChhhhHHHHHHHH--------HhcCCCchhHHHHHH
Q 005487          280 IAGYSSRGDSKSCVKLFWRMNEEGIKPT-LTTISSVLMSCSRSGQLKHGKVMHGYII--------RNKIQGDVFINSSLI  350 (694)
Q Consensus       280 i~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~--------~~~~~~~~~~~~~l~  350 (694)
                      ..+|...|.++.|.+.|+..+..  .|+ ...-.++-..+.+.|+.++|.+.+..+.        ..+..|.....-...
T Consensus       456 a~c~~~l~e~e~A~e~y~kvl~~--~p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~  533 (895)
T KOG2076|consen  456 ARCYMELGEYEEAIEFYEKVLIL--APDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRC  533 (895)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHhc--CCCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHH
Confidence            88888888888888888888775  333 3444555566777888888888877743        222334444545555


Q ss_pred             HHHHhcCCHHHHHHHHhcCCC--------------------------CChhHHHHHHHHHHhcCChHHHHHH------HH
Q 005487          351 DLYFKCGRVSSAENVFEKMSK--------------------------TDVVYWNVMISGYVTVGDYFKALAI------YS  398 (694)
Q Consensus       351 ~~~~~~~~~~~A~~~~~~~~~--------------------------~~~~~~~~l~~~~~~~~~~~~A~~~------~~  398 (694)
                      ..+...|+.++=..+-..|..                          .+....-..+.+-.+.++.....+-      +.
T Consensus       534 d~l~~~gk~E~fi~t~~~Lv~~~~~~~~~f~~~~k~r~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~l~d~~~~~  613 (895)
T KOG2076|consen  534 DILFQVGKREEFINTASTLVDDFLKKRYIFPRNKKKRRRAIAGTTSKRYSELLKQIIRAREKATDDNVMEKALSDGTEFR  613 (895)
T ss_pred             HHHHHhhhHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHhhccccccccchhHHHHHHHHhccCchHHhhhcccchhhhh
Confidence            666667766653333222210                          0001111112222222221111100      00


Q ss_pred             HHHHcCCCCCH--HHHHHHHHHHcccCChHHHHHHHHHHHHhCC--CCCh---hHHHHHHHHHHhcCChHHHHHHHhhCC
Q 005487          399 DMKEVGAKPDA--VTFTSVLPACSQLAALEKGKEIHNHIIESKL--ETNE---IVMGALLDMYAKCGAVDEAFKVFNELP  471 (694)
Q Consensus       399 ~m~~~g~~p~~--~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~--~~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~  471 (694)
                      .-...|+.-+.  ..+.-++.+.++.+.+++|..+...+.....  .++.   ..-...+.+....+++..|...++.+.
T Consensus       614 ~~e~~~Lsiddwfel~~e~i~~L~k~~r~qeAl~vv~~a~~~~~f~~~~~~~k~l~~~~l~~s~~~~d~~~a~~~lR~~i  693 (895)
T KOG2076|consen  614 AVELRGLSIDDWFELFRELILSLAKLQRVQEALSVVFTALEAYIFFQDSEIRKELQFLGLKASLYARDPGDAFSYLRSVI  693 (895)
T ss_pred             hhhhccCcHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhhhhhhccHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            01111211111  1233444555666666666666655544321  1111   112233444455666666666666555


Q ss_pred             CC-----Ch---HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC--HhhHHHHHHHHHccCCHHHHHHHHHHhHHhcC
Q 005487          472 ER-----DL---VSWTSMIAAYGSHGRALEALKLFGEMQQSNARPD--SITFLALLSACSHAGWVDEGGYYFNLMISEYN  541 (694)
Q Consensus       472 ~~-----~~---~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  541 (694)
                      ..     ++   ..|+..+....+.++-.--.+.+..+...  .|+  +........-+...+.+..|+..+-.+..   
T Consensus       694 ~~~~~~~~~~q~~l~n~~~s~~~~~~q~v~~~R~~~~~~~~--~~~~~~~l~~i~gh~~~~~~s~~~Al~~y~ra~~---  768 (895)
T KOG2076|consen  694 TQFQFYLDVYQLNLWNLDFSYFSKYGQRVCYLRLIMRLLVK--NKDDTPPLALIYGHNLFVNASFKHALQEYMRAFR---  768 (895)
T ss_pred             HHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc--CccCCcceeeeechhHhhccchHHHHHHHHHHHH---
Confidence            42     22   24444444444444433323333332222  122  12222222234455777788877766653   


Q ss_pred             CCCChHHHH-HHHHHhh----------hcCCHHHHHHHHHhCCCCC-C--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Q 005487          542 IQPRNEHYS-CLIDLLG----------RAGRLQEAYGILQSTPEIR-E--DAGLLSTLFSACRLHRDIEMGEKIAKLLIE  607 (694)
Q Consensus       542 ~~p~~~~~~-~l~~~~~----------~~g~~~~A~~~~~~~~~~~-p--~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  607 (694)
                      ..|+.+..+ +++-++.          +.-..-+++.++.+..+.. +  ...++..++.+|...|=..-|+.+|+++++
T Consensus       769 ~~pd~Pl~nl~lglafih~a~qr~v~~Rh~~i~qG~afL~RY~~lR~~~~~QEa~YNigRayh~~gl~~LA~~YYekvL~  848 (895)
T KOG2076|consen  769 QNPDSPLINLCLGLAFIHLALQRRVSNRHAQIAQGFAFLKRYKELRRCEEKQEAFYNIGRAYHQIGLVHLAVSYYEKVLE  848 (895)
T ss_pred             hCCCCcHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHhC
Confidence            345533322 2222222          1112334566665544322 2  356778888888888989999999999998


Q ss_pred             cCCCCCc------------cHHHHHHHHhhcCChHHHHHHHHH
Q 005487          608 KDPDDSS------------TYIVLSNMYASVKKWDEVRKIRLK  638 (694)
Q Consensus       608 ~~p~~~~------------~~~~l~~~~~~~g~~~~A~~~~~~  638 (694)
                      ..|.+..            +-.+|.-+|...|+...|.+++++
T Consensus       849 ~~p~~~~~~~~d~~dLrkeAA~NL~LIY~~SGn~~lArqil~k  891 (895)
T KOG2076|consen  849 VSPKDVTDPKEDNYDLRKEAAYNLHLIYKKSGNMQLARQILEK  891 (895)
T ss_pred             CCccccccccCCcccHHHHHHhhhhhhhccCCcHHHHHHHHHh
Confidence            8654222            455677788888998888888765

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.88  E-value=3.4e-20  Score=188.74  Aligned_cols=301  Identities=14%  Similarity=0.119  Sum_probs=226.1

Q ss_pred             HHHhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC---HHHHHHHHHHHcccCCh
Q 005487          352 LYFKCGRVSSAENVFEKMSK---TDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPD---AVTFTSVLPACSQLAAL  425 (694)
Q Consensus       352 ~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~m~~~g~~p~---~~~~~~ll~~~~~~~~~  425 (694)
                      .+...|++++|...|.++.+   .++.++..+...+...|++++|..+++.+...+..++   ...+..+...+...|++
T Consensus        44 ~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~  123 (389)
T PRK11788         44 NFLLNEQPDKAIDLFIEMLKVDPETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLL  123 (389)
T ss_pred             HHHhcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCH
Confidence            34455666666666666653   2334566666777777777777777777766432221   23456666677777777


Q ss_pred             HHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCC--CC------hHHHHHHHHHHHhcCCHHHHHHH
Q 005487          426 EKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPE--RD------LVSWTSMIAAYGSHGRALEALKL  497 (694)
Q Consensus       426 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~------~~~~~~l~~~~~~~~~~~~A~~~  497 (694)
                      +.|..+++.+.+.. +.+..++..++.++.+.|++++|.+.++.+..  |+      ...+..++..+...|++++|...
T Consensus       124 ~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~  202 (389)
T PRK11788        124 DRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARAL  202 (389)
T ss_pred             HHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHH
Confidence            77777777776543 34566677777778888888888887777655  21      12355677788899999999999


Q ss_pred             HHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCC--hHHHHHHHHHhhhcCCHHHHHHHHHhCCCC
Q 005487          498 FGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPR--NEHYSCLIDLLGRAGRLQEAYGILQSTPEI  575 (694)
Q Consensus       498 ~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  575 (694)
                      ++++.+.. +.+...+..+...+.+.|++++|.++++++...   .|+  ...+..++.+|.+.|++++|...++++.+.
T Consensus       203 ~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~---~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~  278 (389)
T PRK11788        203 LKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQ---DPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEE  278 (389)
T ss_pred             HHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH---ChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            99998863 334567788888999999999999999999843   344  456788899999999999999999998887


Q ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhh---cCChHHHHHHHHHHHhCCCccCCceeE
Q 005487          576 REDAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYAS---VKKWDEVRKIRLKMKELGLRKNPGCSW  652 (694)
Q Consensus       576 ~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~---~g~~~~A~~~~~~~~~~~~~~~~~~~~  652 (694)
                      .|+...+..++..+...|++++|...++++++..|++.. +..+...+..   .|+.++|..+++++..+++.++|.+.+
T Consensus       279 ~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~~P~~~~-~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p~~~c  357 (389)
T PRK11788        279 YPGADLLLALAQLLEEQEGPEAAQALLREQLRRHPSLRG-FHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKPRYRC  357 (389)
T ss_pred             CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHhCcCHHH-HHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCCCCEEC
Confidence            888777788888999999999999999999999998764 4444444443   569999999999999999999999887


Q ss_pred             EEECCE
Q 005487          653 IEIGDR  658 (694)
Q Consensus       653 ~~~~~~  658 (694)
                      ..+|..
T Consensus       358 ~~cg~~  363 (389)
T PRK11788        358 RNCGFT  363 (389)
T ss_pred             CCCCCC
Confidence            766554

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.87  E-value=1.6e-18  Score=184.52  Aligned_cols=331  Identities=10%  Similarity=0.028  Sum_probs=262.3

Q ss_pred             HHHHHHHHHHcCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChhhhHHHHHHHHHhcCCCchhHHHHHHHHHH
Q 005487          275 AWNALIAGYSSRGDSKSCVKLFWRMNEEGIKPTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYF  354 (694)
Q Consensus       275 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  354 (694)
                      ....++..+.+.|++++|..+++........+ ...+..++.+....|+++.|...++.+....+ .+...+..+...+.
T Consensus        44 ~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~~-~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~P-~~~~a~~~la~~l~  121 (656)
T PRK15174         44 NIILFAIACLRKDETDVGLTLLSDRVLTAKNG-RDLLRRWVISPLASSQPDAVLQVVNKLLAVNV-CQPEDVLLVASVLL  121 (656)
T ss_pred             CHHHHHHHHHhcCCcchhHHHhHHHHHhCCCc-hhHHHHHhhhHhhcCCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHH
Confidence            34556677888999999999999888774333 34455555666778999999999999888753 35667788888999


Q ss_pred             hcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcccCChHHHHHH
Q 005487          355 KCGRVSSAENVFEKMSK---TDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEI  431 (694)
Q Consensus       355 ~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~  431 (694)
                      ..|++++|...+++...   .+...+..+...+...|++++|...++.+....  |+.......+..+...|++++|...
T Consensus       122 ~~g~~~~Ai~~l~~Al~l~P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~--P~~~~a~~~~~~l~~~g~~~eA~~~  199 (656)
T PRK15174        122 KSKQYATVADLAEQAWLAFSGNSQIFALHLRTLVLMDKELQAISLARTQAQEV--PPRGDMIATCLSFLNKSRLPEDHDL  199 (656)
T ss_pred             HcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHcCCHHHHHHH
Confidence            99999999999998764   356678888999999999999999999887653  3332222223347788999999999


Q ss_pred             HHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCC---CChHHHHHHHHHHHhcCCHHH----HHHHHHHHHHc
Q 005487          432 HNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPE---RDLVSWTSMIAAYGSHGRALE----ALKLFGEMQQS  504 (694)
Q Consensus       432 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~----A~~~~~~~~~~  504 (694)
                      ++.+.+....++......++.++...|++++|...++.+..   .+...+..+...+...|++++    |...++++.+.
T Consensus       200 ~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l  279 (656)
T PRK15174        200 ARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARGLDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQF  279 (656)
T ss_pred             HHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhh
Confidence            99987765444455555667788899999999999998776   456678889999999999986    89999999986


Q ss_pred             CCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCC-hHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCCHHH-H
Q 005487          505 NARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPR-NEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAGL-L  582 (694)
Q Consensus       505 ~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~-~  582 (694)
                      . +.+...+..+...+...|++++|...++++..   ..|+ ...+..++.++.+.|++++|+..++++.+..|+... +
T Consensus       280 ~-P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~---l~P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~P~~~~~~  355 (656)
T PRK15174        280 N-SDNVRIVTLYADALIRTGQNEKAIPLLQQSLA---THPDLPYVRAMYARALRQVGQYTAASDEFVQLAREKGVTSKWN  355 (656)
T ss_pred             C-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCccchHHH
Confidence            3 33467888889999999999999999999983   3565 456778899999999999999999998877776543 4


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhcCCCCC
Q 005487          583 STLFSACRLHRDIEMGEKIAKLLIEKDPDDS  613 (694)
Q Consensus       583 ~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~  613 (694)
                      ..++.++...|++++|...++++++..|++.
T Consensus       356 ~~~a~al~~~G~~deA~~~l~~al~~~P~~~  386 (656)
T PRK15174        356 RYAAAALLQAGKTSEAESVFEHYIQARASHL  386 (656)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhChhhc
Confidence            4456778889999999999999999999864

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.86  E-value=8.4e-18  Score=183.15  Aligned_cols=406  Identities=8%  Similarity=-0.033  Sum_probs=250.2

Q ss_pred             CChhhHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchhHHHHHHHhhHhcCChHHHHHHHhcC---CCCChhHHHHHHH
Q 005487          205 PNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVSDSYISSALVDMYGKCGCLEMAREVFEQT---VLKSVVAWNALIA  281 (694)
Q Consensus       205 ~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~---~~~~~~~~~~li~  281 (694)
                      .+..-..-.+......|+.++|.+++..+.... +.+...+..+...+...|++++|...+++.   .+.+...+..+..
T Consensus        13 ~~~~~~~d~~~ia~~~g~~~~A~~~~~~~~~~~-~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~   91 (765)
T PRK10049         13 LSNNQIADWLQIALWAGQDAEVITVYNRYRVHM-QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLEPQNDDYQRGLIL   91 (765)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            344444445555666777777777777766532 444555667777777777777777777763   2334555666666


Q ss_pred             HHHcCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChhhhHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCHHH
Q 005487          282 GYSSRGDSKSCVKLFWRMNEEGIKPTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSS  361 (694)
Q Consensus       282 ~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  361 (694)
                      .+...|++++|...++++.+. .+.+.. +..+...+...|+.+.|...++.+.+..+. +...+..+..++...+..+.
T Consensus        92 ~l~~~g~~~eA~~~l~~~l~~-~P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P~-~~~~~~~la~~l~~~~~~e~  168 (765)
T PRK10049         92 TLADAGQYDEALVKAKQLVSG-APDKAN-LLALAYVYKRAGRHWDELRAMTQALPRAPQ-TQQYPTEYVQALRNNRLSAP  168 (765)
T ss_pred             HHHHCCCHHHHHHHHHHHHHh-CCCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCChHH
Confidence            677777777777777777665 222233 555555666666666666666666665433 33333445555556666666


Q ss_pred             HHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH-----cccCCh---HHHHHHHH
Q 005487          362 AENVFEKMSKTDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPAC-----SQLAAL---EKGKEIHN  433 (694)
Q Consensus       362 A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~-----~~~~~~---~~a~~~~~  433 (694)
                      |+..++.... ++.....+        .                   ......++...     ...+.+   +.|.+.++
T Consensus       169 Al~~l~~~~~-~p~~~~~l--------~-------------------~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~  220 (765)
T PRK10049        169 ALGAIDDANL-TPAEKRDL--------E-------------------ADAAAELVRLSFMPTRSEKERYAIADRALAQYD  220 (765)
T ss_pred             HHHHHHhCCC-CHHHHHHH--------H-------------------HHHHHHHHHhhcccccChhHHHHHHHHHHHHHH
Confidence            6666655543 21100000        0                   00000111111     111122   45556666


Q ss_pred             HHHHh-CCCCChh-HHH----HHHHHHHhcCChHHHHHHHhhCCCCC---hH-HHHHHHHHHHhcCCHHHHHHHHHHHHH
Q 005487          434 HIIES-KLETNEI-VMG----ALLDMYAKCGAVDEAFKVFNELPERD---LV-SWTSMIAAYGSHGRALEALKLFGEMQQ  503 (694)
Q Consensus       434 ~~~~~-~~~~~~~-~~~----~l~~~~~~~g~~~~A~~~~~~~~~~~---~~-~~~~l~~~~~~~~~~~~A~~~~~~~~~  503 (694)
                      .+.+. ...|+.. .+.    ..+.++...|++++|+..|+.+...+   +. ....+..+|...|++++|+..|+++.+
T Consensus       221 ~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~a~~~la~~yl~~g~~e~A~~~l~~~l~  300 (765)
T PRK10049        221 ALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPWAQRWVASAYLKLHQPEKAQSILTELFY  300 (765)
T ss_pred             HHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhh
Confidence            65543 1122111 111    11223456678888888888877621   21 222356678888888888888888776


Q ss_pred             cCCCCC-----HhhHHHHHHHHHccCCHHHHHHHHHHhHHhcC----------CCCC---hHHHHHHHHHhhhcCCHHHH
Q 005487          504 SNARPD-----SITFLALLSACSHAGWVDEGGYYFNLMISEYN----------IQPR---NEHYSCLIDLLGRAGRLQEA  565 (694)
Q Consensus       504 ~~~~p~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~----------~~p~---~~~~~~l~~~~~~~g~~~~A  565 (694)
                      ..  |.     ......+..++.+.|++++|...++.+.....          -.|+   ...+..++.++...|++++|
T Consensus       301 ~~--p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA  378 (765)
T PRK10049        301 HP--ETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQA  378 (765)
T ss_pred             cC--CCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHH
Confidence            42  22     23455566677888888888888888773210          1122   22455677888888999999


Q ss_pred             HHHHHhCCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHHHHhCCC
Q 005487          566 YGILQSTPEIRED-AGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELGL  644 (694)
Q Consensus       566 ~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  644 (694)
                      +++++++....|+ ...+..++..+...|+.++|++.++++++++|+++..+..++..+...|++++|+++++++++..+
T Consensus       379 ~~~l~~al~~~P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~~P  458 (765)
T PRK10049        379 EMRARELAYNAPGNQGLRIDYASVLQARGWPRAAENELKKAEVLEPRNINLEVEQAWTALDLQEWRQMDVLTDDVVAREP  458 (765)
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCC
Confidence            9999887775564 567788888888889999999999999999999888888888889999999999998888876554

>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=99.86  E-value=1e-17  Score=179.29  Aligned_cols=425  Identities=13%  Similarity=0.039  Sum_probs=273.7

Q ss_pred             HHHHHHhhhcCCChHHHHHHhccCCC--CCcccHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccC
Q 005487          144 ASSTAGMYAKCNSFECAVKMFDEMSE--RDVASWNTVISCYYQDGQAEKALELFKKMRGSGFQPNSVTLTTVISSCARLM  221 (694)
Q Consensus       144 ~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~  221 (694)
                      +......+.+.|++++|+..|++...  |++..|..+..+|...|++++|++.++...+.+ +.+...|..+..++...|
T Consensus       130 ~k~~G~~~~~~~~~~~Ai~~y~~al~~~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~a~a~~~lg  208 (615)
T TIGR00990       130 LKEKGNKAYRNKDFNKAIKLYSKAIECKPDPVYYSNRAACHNALGDWEKVVEDTTAALELD-PDYSKALNRRANAYDGLG  208 (615)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcC
Confidence            44556678889999999999998765  677778888889999999999999999988753 234457888888899999


Q ss_pred             ChhHHHHHHHHHHHhCCCCchhHHHHHHHhhHhcCChHHHHHHHhcCCCCChhHHHHHHHHHHcCCCchHHHHHHHHHHH
Q 005487          222 DLDRGKEIHKEFIKDGFVSDSYISSALVDMYGKCGCLEMAREVFEQTVLKSVVAWNALIAGYSSRGDSKSCVKLFWRMNE  301 (694)
Q Consensus       222 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  301 (694)
                      ++++|..-+..+...+...+... ..++..+........+...++.-.. +...+..+.. +...........-+....+
T Consensus       209 ~~~eA~~~~~~~~~~~~~~~~~~-~~~~~~~l~~~a~~~~~~~l~~~~~-~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~  285 (615)
T TIGR00990       209 KYADALLDLTASCIIDGFRNEQS-AQAVERLLKKFAESKAKEILETKPE-NLPSVTFVGN-YLQSFRPKPRPAGLEDSNE  285 (615)
T ss_pred             CHHHHHHHHHHHHHhCCCccHHH-HHHHHHHHHHHHHHHHHHHHhcCCC-CCCCHHHHHH-HHHHccCCcchhhhhcccc
Confidence            99999888876655432222221 1222211121122334444433222 2222222222 2111111111111111000


Q ss_pred             CCCCCCH-HHHHHHHHHhhccCChhhhHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC------CCh
Q 005487          302 EGIKPTL-TTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAENVFEKMSK------TDV  374 (694)
Q Consensus       302 ~g~~p~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~------~~~  374 (694)
                        ..+.. ..+..+...                               . .-....+++++|.+.|+....      ...
T Consensus       286 --~~~~~~~~~~~l~~~-------------------------------~-~e~~~~~~y~~A~~~~~~al~~~~~~~~~a  331 (615)
T TIGR00990       286 --LDEETGNGQLQLGLK-------------------------------S-PESKADESYEEAARAFEKALDLGKLGEKEA  331 (615)
T ss_pred             --cccccccchHHHHHH-------------------------------H-HHhhhhhhHHHHHHHHHHHHhcCCCChhhH
Confidence              00100 000000000                               0 000123455566666655442      123


Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHH
Q 005487          375 VYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPD-AVTFTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDM  453 (694)
Q Consensus       375 ~~~~~l~~~~~~~~~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  453 (694)
                      ..|+.+...+...|++++|+..|++....  .|+ ...|..+...+...|+++.|...++.+++.. +.+..++..+..+
T Consensus       332 ~a~~~lg~~~~~~g~~~eA~~~~~kal~l--~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~~  408 (615)
T TIGR00990       332 IALNLRGTFKCLKGKHLEALADLSKSIEL--DPRVTQSYIKRASMNLELGDPDKAEEDFDKALKLN-SEDPDIYYHRAQL  408 (615)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            45666677777788888888888877765  343 4566677777777888888888888877664 4456777788888


Q ss_pred             HHhcCChHHHHHHHhhCCC---CChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHH
Q 005487          454 YAKCGAVDEAFKVFNELPE---RDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGG  530 (694)
Q Consensus       454 ~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~  530 (694)
                      +...|++++|...|+....   .+...+..+..++.+.|++++|+..+++.+... +.+...+..+...+...|++++|+
T Consensus       409 ~~~~g~~~~A~~~~~kal~l~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~  487 (615)
T TIGR00990       409 HFIKGEFAQAGKDYQKSIDLDPDFIFSHIQLGVTQYKEGSIASSMATFRRCKKNF-PEAPDVYNYYGELLLDQNKFDEAI  487 (615)
T ss_pred             HHHcCCHHHHHHHHHHHHHcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHH
Confidence            8888888888888888766   345577788888889999999999999988752 334678888888899999999999


Q ss_pred             HHHHHhHHhcCCCCCh-H-------HHHHHHHHhhhcCCHHHHHHHHHhCCCCCCCH-HHHHHHHHHHHHcCCHHHHHHH
Q 005487          531 YYFNLMISEYNIQPRN-E-------HYSCLIDLLGRAGRLQEAYGILQSTPEIREDA-GLLSTLFSACRLHRDIEMGEKI  601 (694)
Q Consensus       531 ~~~~~~~~~~~~~p~~-~-------~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~-~~~~~l~~~~~~~~~~~~A~~~  601 (694)
                      ..|++...   +.|+. .       .+...+..+...|++++|..+++++.+..|+. ..+..++..+...|++++|...
T Consensus       488 ~~~~~Al~---l~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~p~~~~a~~~la~~~~~~g~~~eAi~~  564 (615)
T TIGR00990       488 EKFDTAIE---LEKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALIIDPECDIAVATMAQLLLQQGDVDEALKL  564 (615)
T ss_pred             HHHHHHHh---cCCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHccCHHHHHHH
Confidence            99998873   33431 1       11122223344689999999999987777754 4677888899999999999999


Q ss_pred             HHHHHhcCCCCC
Q 005487          602 AKLLIEKDPDDS  613 (694)
Q Consensus       602 ~~~~~~~~p~~~  613 (694)
                      +++++++.+...
T Consensus       565 ~e~A~~l~~~~~  576 (615)
T TIGR00990       565 FERAAELARTEG  576 (615)
T ss_pred             HHHHHHHhccHH
Confidence            999998877543

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

Probab=99.86  E-value=5.7e-15  Score=143.41  Aligned_cols=609  Identities=10%  Similarity=0.072  Sum_probs=447.3

Q ss_pred             CChhhHhHHHHHHHHhCCCCCchhhhHHHHHHhcCCChhHHHHHHhhC--CCCCchhhHHHHHHHHHccCChhHHHHHHH
Q 005487           17 KSLKEGKIIHQKVVTLGLQNNIALCKSLINLYFSCQNYDYAMLVFKTI--DNPLDLSLWNGLMASYTKNYMYITALELFD   94 (694)
Q Consensus        17 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~   94 (694)
                      ++++.|..++....+.+ |.++..+..-.+.=-..|++..|..+..+-  ..|.+.+.|---+    +-..++.|..+.-
T Consensus       265 ~DikKaR~llKSvretn-P~hp~gWIAsArLEEvagKl~~Ar~~I~~GCe~cprSeDvWLeai----RLhp~d~aK~vvA  339 (913)
T KOG0495|consen  265 EDIKKARLLLKSVRETN-PKHPPGWIASARLEEVAGKLSVARNLIMKGCEECPRSEDVWLEAI----RLHPPDVAKTVVA  339 (913)
T ss_pred             HHHHHHHHHHHHHHhcC-CCCCchHHHHHHHHHHhhHHHHHHHHHHHHHhhCCchHHHHHHHH----hcCChHHHHHHHH
Confidence            36667777777777766 555666655555555667777777666543  1233332332222    2233444555555


Q ss_pred             HhhhCCCCCCCcccHHHHHHHhhCCCCchhHHHHHHHHHHHcCCCchhHHHHHHHhhhcCCChHHHHHHhccCCCCCccc
Q 005487           95 MLLQNPYLKPDSYTYPSVLKACGGLGSVGIGKMIHTHLIKTGFLLDVVIASSTAGMYAKCNSFECAVKMFDEMSERDVAS  174 (694)
Q Consensus        95 ~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  174 (694)
                      ...+.  +|.++..|.   .+.--..+...=.+++...+++ ++.++..|...    ....+.+.|+-++.+..+--+. 
T Consensus       340 ~Avr~--~P~Sv~lW~---kA~dLE~~~~~K~RVlRKALe~-iP~sv~LWKaA----VelE~~~darilL~rAveccp~-  408 (913)
T KOG0495|consen  340 NAVRF--LPTSVRLWL---KAADLESDTKNKKRVLRKALEH-IPRSVRLWKAA----VELEEPEDARILLERAVECCPQ-  408 (913)
T ss_pred             HHHHh--CCCChhhhh---hHHhhhhHHHHHHHHHHHHHHh-CCchHHHHHHH----HhccChHHHHHHHHHHHHhccc-
Confidence            55543  233333332   2222233344445666666665 45555555543    3455666688888777651111 


Q ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChhHHHHHHHHHH----HhCCCCchhHHHHHHH
Q 005487          175 WNTVISCYYQDGQAEKALELFKKMRGSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFI----KDGFVSDSYISSALVD  250 (694)
Q Consensus       175 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~----~~~~~~~~~~~~~l~~  250 (694)
                      -..|.-++.+..-++.|..+++..++. ++.+...|.+....--..|+.+.+.+++.+-+    ..|+..+...|..=..
T Consensus       409 s~dLwlAlarLetYenAkkvLNkaRe~-iptd~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe  487 (913)
T KOG0495|consen  409 SMDLWLALARLETYENAKKVLNKAREI-IPTDREIWITAAKLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAE  487 (913)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHhh-CCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHH
Confidence            122334566777788899999988875 67778888888887788888888888876544    4577788777777777


Q ss_pred             hhHhcCChHHHHHHHhcCCCC------ChhHHHHHHHHHHcCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCCh
Q 005487          251 MYGKCGCLEMAREVFEQTVLK------SVVAWNALIAGYSSRGDSKSCVKLFWRMNEEGIKPTLTTISSVLMSCSRSGQL  324 (694)
Q Consensus       251 ~~~~~g~~~~A~~~~~~~~~~------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~  324 (694)
                      .|-..|..--+..+...+..-      --.+|..-...|.+.+.++-|..+|...++. .+.+...|......--..|..
T Consensus       488 ~~e~agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alqv-fp~k~slWlra~~~ek~hgt~  566 (913)
T KOG0495|consen  488 ACEDAGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQV-FPCKKSLWLRAAMFEKSHGTR  566 (913)
T ss_pred             HHhhcCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhh-ccchhHHHHHHHHHHHhcCcH
Confidence            777778777777777654321      2357888888899999999999999888776 445566777777777778889


Q ss_pred             hhhHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHHhcCChHHHHHHHHHHH
Q 005487          325 KHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAENVFEKMSK---TDVVYWNVMISGYVTVGDYFKALAIYSDMK  401 (694)
Q Consensus       325 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~m~  401 (694)
                      +....+++.+....+ .....+-.....+-..|+...|+.++...-+   .+...|-+-+.....+.+++.|..+|.+..
T Consensus       567 Esl~Allqkav~~~p-kae~lwlM~ake~w~agdv~~ar~il~~af~~~pnseeiwlaavKle~en~e~eraR~llakar  645 (913)
T KOG0495|consen  567 ESLEALLQKAVEQCP-KAEILWLMYAKEKWKAGDVPAARVILDQAFEANPNSEEIWLAAVKLEFENDELERARDLLAKAR  645 (913)
T ss_pred             HHHHHHHHHHHHhCC-cchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCcHHHHHHHHHHhhccccHHHHHHHHHHHh
Confidence            999999998888754 3556666777778888999999999887753   345688888888999999999999999887


Q ss_pred             HcCCCCCHHHHHHHHHHHcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCC--C-ChHHH
Q 005487          402 EVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPE--R-DLVSW  478 (694)
Q Consensus       402 ~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~  478 (694)
                      ..  .|+...|..-+..---.++.++|.+++++.++. ++.-...|..+.+.+.+.++++.|...|..-.+  | .+..|
T Consensus       646 ~~--sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~-fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~cP~~ipLW  722 (913)
T KOG0495|consen  646 SI--SGTERVWMKSANLERYLDNVEEALRLLEEALKS-FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKKCPNSIPLW  722 (913)
T ss_pred             cc--CCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHh-CCchHHHHHHHhHHHHHHHHHHHHHHHHHhccccCCCCchHH
Confidence            75  567777766666666688999999999888775 455677888899999999999999999988776  4 45588


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhh
Q 005487          479 TSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGR  558 (694)
Q Consensus       479 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~  558 (694)
                      -.|...--+.|....|..++++..-.+ +-|...|...++.-.+.|+.+.|..++.+++.+  .+.+...|..-+....+
T Consensus       723 llLakleEk~~~~~rAR~ildrarlkN-Pk~~~lwle~Ir~ElR~gn~~~a~~lmakALQe--cp~sg~LWaEaI~le~~  799 (913)
T KOG0495|consen  723 LLLAKLEEKDGQLVRARSILDRARLKN-PKNALLWLESIRMELRAGNKEQAELLMAKALQE--CPSSGLLWAEAIWLEPR  799 (913)
T ss_pred             HHHHHHHHHhcchhhHHHHHHHHHhcC-CCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCccchhHHHHHHhccC
Confidence            888888889999999999999998875 557888999999999999999999999999854  34455677777777778


Q ss_pred             cCCHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHH
Q 005487          559 AGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLK  638 (694)
Q Consensus       559 ~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  638 (694)
                      .++.-.+...+++.   +.|+.++..++..+....++++|.+.|+++++.+|++..+|..+-..+...|.-++-.+++.+
T Consensus       800 ~~rkTks~DALkkc---e~dphVllaia~lfw~e~k~~kar~Wf~Ravk~d~d~GD~wa~fykfel~hG~eed~kev~~~  876 (913)
T KOG0495|consen  800 PQRKTKSIDALKKC---EHDPHVLLAIAKLFWSEKKIEKAREWFERAVKKDPDNGDAWAWFYKFELRHGTEEDQKEVLKK  876 (913)
T ss_pred             cccchHHHHHHHhc---cCCchhHHHHHHHHHHHHHHHHHHHHHHHHHccCCccchHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            88877777777764   577788888889999999999999999999999999999999999999999998888999998


Q ss_pred             HHhCCCccCCceeEEEE
Q 005487          639 MKELGLRKNPGCSWIEI  655 (694)
Q Consensus       639 ~~~~~~~~~~~~~~~~~  655 (694)
                      .....  +..|..|..+
T Consensus       877 c~~~E--P~hG~~W~av  891 (913)
T KOG0495|consen  877 CETAE--PTHGELWQAV  891 (913)
T ss_pred             HhccC--CCCCcHHHHH
Confidence            87654  4455566543

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.86  E-value=2.7e-18  Score=182.82  Aligned_cols=328  Identities=11%  Similarity=0.002  Sum_probs=271.8

Q ss_pred             HHHHHHHHHhhccCChhhhHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC---CChhHHHHHHHHHH
Q 005487          309 TTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAENVFEKMSK---TDVVYWNVMISGYV  385 (694)
Q Consensus       309 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~  385 (694)
                      .....++..+.+.|+++.|..++.......+.+... ...++.+....|+++.|...|+++..   .+...+..+...+.
T Consensus        43 ~~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~~~~~-l~~l~~~~l~~g~~~~A~~~l~~~l~~~P~~~~a~~~la~~l~  121 (656)
T PRK15174         43 QNIILFAIACLRKDETDVGLTLLSDRVLTAKNGRDL-LRRWVISPLASSQPDAVLQVVNKLLAVNVCQPEDVLLVASVLL  121 (656)
T ss_pred             cCHHHHHHHHHhcCCcchhHHHhHHHHHhCCCchhH-HHHHhhhHhhcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHH
Confidence            445667788899999999999999999887665444 44455777789999999999999864   35567888899999


Q ss_pred             hcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHH
Q 005487          386 TVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFK  465 (694)
Q Consensus       386 ~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  465 (694)
                      ..|++++|+..+++..+.. +.+...+..+...+...|+++.|...++.+......+ ...+..+ ..+...|++++|..
T Consensus       122 ~~g~~~~Ai~~l~~Al~l~-P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P~~-~~a~~~~-~~l~~~g~~~eA~~  198 (656)
T PRK15174        122 KSKQYATVADLAEQAWLAF-SGNSQIFALHLRTLVLMDKELQAISLARTQAQEVPPR-GDMIATC-LSFLNKSRLPEDHD  198 (656)
T ss_pred             HcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCCC-HHHHHHH-HHHHHcCCHHHHHH
Confidence            9999999999999998862 3356677888889999999999999999887765333 3333333 34788999999999


Q ss_pred             HHhhCCCC----ChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHH----HHHHHHHhH
Q 005487          466 VFNELPER----DLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDE----GGYYFNLMI  537 (694)
Q Consensus       466 ~~~~~~~~----~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~----A~~~~~~~~  537 (694)
                      .++.+...    +...+..+..++...|++++|+..++++.... +.+...+..+...+...|++++    |...++++.
T Consensus       199 ~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al  277 (656)
T PRK15174        199 LARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHAL  277 (656)
T ss_pred             HHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHH
Confidence            99987662    23344556778899999999999999999864 3457788888999999999986    899999998


Q ss_pred             HhcCCCCC-hHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcc
Q 005487          538 SEYNIQPR-NEHYSCLIDLLGRAGRLQEAYGILQSTPEIRED-AGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSST  615 (694)
Q Consensus       538 ~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~  615 (694)
                         ...|+ ...+..++.++.+.|++++|+..++++.+..|+ ...+..++.++...|++++|...++++++.+|+++..
T Consensus       278 ---~l~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~P~~~~~  354 (656)
T PRK15174        278 ---QFNSDNVRIVTLYADALIRTGQNEKAIPLLQQSLATHPDLPYVRAMYARALRQVGQYTAASDEFVQLAREKGVTSKW  354 (656)
T ss_pred             ---hhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCccchHH
Confidence               34565 568889999999999999999999998887776 5677788889999999999999999999999998877


Q ss_pred             HHHHHHHHhhcCChHHHHHHHHHHHhCCC
Q 005487          616 YIVLSNMYASVKKWDEVRKIRLKMKELGL  644 (694)
Q Consensus       616 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  644 (694)
                      +..++.++...|++++|.+.++++.+...
T Consensus       355 ~~~~a~al~~~G~~deA~~~l~~al~~~P  383 (656)
T PRK15174        355 NRYAAAALLQAGKTSEAESVFEHYIQARA  383 (656)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCh
Confidence            77789999999999999999999877654

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.86  E-value=3.4e-17  Score=178.40  Aligned_cols=416  Identities=11%  Similarity=0.029  Sum_probs=291.5

Q ss_pred             CcccHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchhHHHHHHH
Q 005487          171 DVASWNTVISCYYQDGQAEKALELFKKMRGSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVSDSYISSALVD  250 (694)
Q Consensus       171 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  250 (694)
                      ++....-.+.+....|+.++|++++....... +.+...+..+...+...|++++|..++++.++.. +.+......++.
T Consensus        14 ~~~~~~d~~~ia~~~g~~~~A~~~~~~~~~~~-~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~   91 (765)
T PRK10049         14 SNNQIADWLQIALWAGQDAEVITVYNRYRVHM-QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLE-PQNDDYQRGLIL   91 (765)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            44455667778889999999999999997632 4455568889999999999999999999998874 556777888999


Q ss_pred             hhHhcCChHHHHHHHhcCCC---CChhHHHHHHHHHHcCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChhhh
Q 005487          251 MYGKCGCLEMAREVFEQTVL---KSVVAWNALIAGYSSRGDSKSCVKLFWRMNEEGIKPTLTTISSVLMSCSRSGQLKHG  327 (694)
Q Consensus       251 ~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a  327 (694)
                      ++...|++++|...+++...   .+.. +..+...+...|+.++|+..++++.+... .+...+..+...+...+..+.|
T Consensus        92 ~l~~~g~~~eA~~~l~~~l~~~P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P-~~~~~~~~la~~l~~~~~~e~A  169 (765)
T PRK10049         92 TLADAGQYDEALVKAKQLVSGAPDKAN-LLALAYVYKRAGRHWDELRAMTQALPRAP-QTQQYPTEYVQALRNNRLSAPA  169 (765)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCChHHH
Confidence            99999999999999998743   3556 88888899999999999999999998732 2344555667777788888989


Q ss_pred             HHHHHHHHHhcCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCCh---HHHHHHHHHHHHc-
Q 005487          328 KVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAENVFEKMSKTDVVYWNVMISGYVTVGDY---FKALAIYSDMKEV-  403 (694)
Q Consensus       328 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~---~~A~~~~~~m~~~-  403 (694)
                      ...++.+..   .|+..  .. +       ....+......          .+.......+++   ++|+..++.+.+. 
T Consensus       170 l~~l~~~~~---~p~~~--~~-l-------~~~~~~~~~r~----------~~~~~~~~~~r~~~ad~Al~~~~~ll~~~  226 (765)
T PRK10049        170 LGAIDDANL---TPAEK--RD-L-------EADAAAELVRL----------SFMPTRSEKERYAIADRALAQYDALEALW  226 (765)
T ss_pred             HHHHHhCCC---CHHHH--HH-H-------HHHHHHHHHHh----------hcccccChhHHHHHHHHHHHHHHHHHhhc
Confidence            888765543   22200  00 0       00000000000          000001111222   5666677776643 


Q ss_pred             CCCCCHH-HHH----HHHHHHcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCC--CC--
Q 005487          404 GAKPDAV-TFT----SVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPE--RD--  474 (694)
Q Consensus       404 g~~p~~~-~~~----~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~--  474 (694)
                      ...|+.. .+.    ..+.++...++.++|+..|+.+.+.+.+........+..+|...|++++|+..|+.+..  |.  
T Consensus       227 ~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~  306 (765)
T PRK10049        227 HDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPWAQRWVASAYLKLHQPEKAQSILTELFYHPETIA  306 (765)
T ss_pred             ccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCC
Confidence            1222221 111    11233455677888888888877665321111222356678888888888888887655  21  


Q ss_pred             ---hHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-----------CCCH---hhHHHHHHHHHccCCHHHHHHHHHHhH
Q 005487          475 ---LVSWTSMIAAYGSHGRALEALKLFGEMQQSNA-----------RPDS---ITFLALLSACSHAGWVDEGGYYFNLMI  537 (694)
Q Consensus       475 ---~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-----------~p~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~  537 (694)
                         ......+..++...|++++|...++++.....           .|+.   ..+..+...+...|++++|+.+++++.
T Consensus       307 ~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al  386 (765)
T PRK10049        307 DLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELA  386 (765)
T ss_pred             CCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence               23455566677888888999888888876521           1232   244566778889999999999999998


Q ss_pred             HhcCCCCC-hHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcc
Q 005487          538 SEYNIQPR-NEHYSCLIDLLGRAGRLQEAYGILQSTPEIRED-AGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSST  615 (694)
Q Consensus       538 ~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~  615 (694)
                      ..   .|+ ...+..++.++...|++++|++.++++.+..|+ ...+...+..+...|++++|+..++++++..|+++.+
T Consensus       387 ~~---~P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~~Pd~~~~  463 (765)
T PRK10049        387 YN---APGNQGLRIDYASVLQARGWPRAAENELKKAEVLEPRNINLEVEQAWTALDLQEWRQMDVLTDDVVAREPQDPGV  463 (765)
T ss_pred             Hh---CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCHHH
Confidence            43   444 668889999999999999999999999988886 5667777778888999999999999999999998754


Q ss_pred             H
Q 005487          616 Y  616 (694)
Q Consensus       616 ~  616 (694)
                      .
T Consensus       464 ~  464 (765)
T PRK10049        464 Q  464 (765)
T ss_pred             H
Confidence            3

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.84  E-value=4e-18  Score=173.54  Aligned_cols=294  Identities=11%  Similarity=0.081  Sum_probs=198.3

Q ss_pred             HHHHcCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChhhhHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCHH
Q 005487          281 AGYSSRGDSKSCVKLFWRMNEEGIKPTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVS  360 (694)
Q Consensus       281 ~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  360 (694)
                      ..+...|++++|...|.++.+.+ +.+..++..+...+...|+++.|..+++.+......++..                
T Consensus        43 ~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~----------------  105 (389)
T PRK11788         43 LNFLLNEQPDKAIDLFIEMLKVD-PETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQ----------------  105 (389)
T ss_pred             HHHHhcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHH----------------
Confidence            34456667777777777776652 1223344455555555555555555555444322111000                


Q ss_pred             HHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcccCChHHHHHHHHHHHHhCC
Q 005487          361 SAENVFEKMSKTDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIESKL  440 (694)
Q Consensus       361 ~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  440 (694)
                                  ....+..++..|.+.|++++|..+|+++.+.. +++..++..++..+...|++++|.+.++.+.+.+.
T Consensus       106 ------------~~~~~~~La~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~  172 (389)
T PRK11788        106 ------------RLLALQELGQDYLKAGLLDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGG  172 (389)
T ss_pred             ------------HHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcC
Confidence                        01234555566666666666666666665542 23455566666666666666666666666655442


Q ss_pred             CCC----hhHHHHHHHHHHhcCChHHHHHHHhhCCC--C-ChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhH
Q 005487          441 ETN----EIVMGALLDMYAKCGAVDEAFKVFNELPE--R-DLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITF  513 (694)
Q Consensus       441 ~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~  513 (694)
                      .+.    ...+..++..+.+.|++++|...|+++.+  | +...+..++..+...|++++|.++++++...+......++
T Consensus       173 ~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~  252 (389)
T PRK11788        173 DSLRVEIAHFYCELAQQALARGDLDAARALLKKALAADPQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVL  252 (389)
T ss_pred             CcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhHCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHH
Confidence            221    12345567777888888999888888765  3 3457778889999999999999999999876322224567


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCCHHHHHHHHHHHHH--
Q 005487          514 LALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRL--  591 (694)
Q Consensus       514 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~--  591 (694)
                      ..++.+|...|++++|...++.+.+   ..|+...+..++..+.+.|++++|..+++++.+..|+...+..++..+..  
T Consensus       253 ~~l~~~~~~~g~~~~A~~~l~~~~~---~~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~~P~~~~~~~l~~~~~~~~  329 (389)
T PRK11788        253 PKLMECYQALGDEAEGLEFLRRALE---EYPGADLLLALAQLLEEQEGPEAAQALLREQLRRHPSLRGFHRLLDYHLAEA  329 (389)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHH---hCCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHhCcCHHHHHHHHHHhhhcc
Confidence            8888899999999999999999983   36777777889999999999999999999988888988888777766554  


Q ss_pred             -cCCHHHHHHHHHHHHh
Q 005487          592 -HRDIEMGEKIAKLLIE  607 (694)
Q Consensus       592 -~~~~~~A~~~~~~~~~  607 (694)
                       .|+.+++...++++++
T Consensus       330 ~~g~~~~a~~~~~~~~~  346 (389)
T PRK11788        330 EEGRAKESLLLLRDLVG  346 (389)
T ss_pred             CCccchhHHHHHHHHHH
Confidence             4578888887777764

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

Probab=99.84  E-value=1.7e-15  Score=152.99  Aligned_cols=599  Identities=12%  Similarity=0.020  Sum_probs=404.8

Q ss_pred             hhhhHHHHHHhcCCChhHHHHHHhhCC--CCCchhhHHHHHHHHHccCChhHHHHHHHHhhhCCCCCCCcccHHHHHHHh
Q 005487           39 ALCKSLINLYFSCQNYDYAMLVFKTID--NPLDLSLWNGLMASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKAC  116 (694)
Q Consensus        39 ~~~~~l~~~~~~~g~~~~a~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~  116 (694)
                      .-.......+...|++++|..++.++.  .|....+|.+|...|-.+|+.++++..+-.+--.  .+-|...|..+....
T Consensus       140 ~~ll~eAN~lfarg~~eeA~~i~~EvIkqdp~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL--~p~d~e~W~~ladls  217 (895)
T KOG2076|consen  140 RQLLGEANNLFARGDLEEAEEILMEVIKQDPRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHL--NPKDYELWKRLADLS  217 (895)
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHhCccchhhHHHHHHHHHHcccHHHHHHHHHHHHhc--CCCChHHHHHHHHHH
Confidence            334444555566699999999999984  3655669999999999999999998877665543  456678899999999


Q ss_pred             hCCCCchhHHHHHHHHHHHcCCCchhHHHHHHHhhhcCCChHHHHHHhccCCCCCc-cc-------HHHHHHHHHhCCCh
Q 005487          117 GGLGSVGIGKMIHTHLIKTGFLLDVVIASSTAGMYAKCNSFECAVKMFDEMSERDV-AS-------WNTVISCYYQDGQA  188 (694)
Q Consensus       117 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~-------~~~li~~~~~~~~~  188 (694)
                      .+.|++.+|.-+|.++++.. +++....-.-+.+|-+.|+...|.+.|.++.+.++ +.       -..++..+...++-
T Consensus       218 ~~~~~i~qA~~cy~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~  296 (895)
T KOG2076|consen  218 EQLGNINQARYCYSRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNER  296 (895)
T ss_pred             HhcccHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHH
Confidence            99999999999999999986 55555555667889999999999999998876333 11       22345667777888


Q ss_pred             hHHHHHHHHHHhC-CCCCChhhHHHHHHHHhccCChhHHHHHHHHHHHhC---------------------------CCC
Q 005487          189 EKALELFKKMRGS-GFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDG---------------------------FVS  240 (694)
Q Consensus       189 ~~a~~~~~~m~~~-~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~---------------------------~~~  240 (694)
                      +.|++.++..... +-..+...++.++..+.....++.+......+....                           ..+
T Consensus       297 e~a~~~le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~  376 (895)
T KOG2076|consen  297 ERAAKALEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSY  376 (895)
T ss_pred             HHHHHHHHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCc
Confidence            9999999888762 223455577888888888888888888777766622                           122


Q ss_pred             chhH-HHHHHHhhHhcCChHHHHHHHhcC----CCCChhHHHHHHHHHHcCCCchHHHHHHHHHHHCCCCCCHHHHHHHH
Q 005487          241 DSYI-SSALVDMYGKCGCLEMAREVFEQT----VLKSVVAWNALIAGYSSRGDSKSCVKLFWRMNEEGIKPTLTTISSVL  315 (694)
Q Consensus       241 ~~~~-~~~l~~~~~~~g~~~~A~~~~~~~----~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll  315 (694)
                      +..+ ...+.-...+.+...+++.-|-..    +..++..|.-+..++...|++..|+.+|..+.....--+...|..+.
T Consensus       377 ~l~v~rl~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a  456 (895)
T KOG2076|consen  377 DLRVIRLMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLA  456 (895)
T ss_pred             cchhHhHhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHH
Confidence            2222 111111222334444444433221    22356778889999999999999999999998875555667888899


Q ss_pred             HHhhccCChhhhHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCCh------------hHHHHHHHH
Q 005487          316 MSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAENVFEKMSKTDV------------VYWNVMISG  383 (694)
Q Consensus       316 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~------------~~~~~l~~~  383 (694)
                      ..+...|..+.|.+.++.++... +.+..+-..|...+-+.|+.++|.+.+..+..||.            ...-.....
T Consensus       457 ~c~~~l~e~e~A~e~y~kvl~~~-p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~  535 (895)
T KOG2076|consen  457 RCYMELGEYEEAIEFYEKVLILA-PDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDI  535 (895)
T ss_pred             HHHHHHhhHHHHHHHHHHHHhcC-CCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHH
Confidence            99999999999999999998875 33555667788899999999999999999876552            122233456


Q ss_pred             HHhcCChHHHHHHHHHHHHcC----------------------CCCCHHHHHHHHHHHcccCChHHHHHHHHH------H
Q 005487          384 YVTVGDYFKALAIYSDMKEVG----------------------AKPDAVTFTSVLPACSQLAALEKGKEIHNH------I  435 (694)
Q Consensus       384 ~~~~~~~~~A~~~~~~m~~~g----------------------~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~------~  435 (694)
                      +.+.|+.++=+.+-..|+..+                      ......+...++.+-.+.++......-...      .
T Consensus       536 l~~~gk~E~fi~t~~~Lv~~~~~~~~~f~~~~k~r~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~l~d~~~~~~~  615 (895)
T KOG2076|consen  536 LFQVGKREEFINTASTLVDDFLKKRYIFPRNKKKRRRAIAGTTSKRYSELLKQIIRAREKATDDNVMEKALSDGTEFRAV  615 (895)
T ss_pred             HHHhhhHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHhhccccccccchhHHHHHHHHhccCchHHhhhcccchhhhhhh
Confidence            677888777555555544321                      111122222333333333332222211111      1


Q ss_pred             HHhCCCCC--hhHHHHHHHHHHhcCChHHHHHHHhhCCCC-----ChH----HHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 005487          436 IESKLETN--EIVMGALLDMYAKCGAVDEAFKVFNELPER-----DLV----SWTSMIAAYGSHGRALEALKLFGEMQQS  504 (694)
Q Consensus       436 ~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~~~----~~~~l~~~~~~~~~~~~A~~~~~~~~~~  504 (694)
                      ...++..+  -..+..++..+++.+++++|+.+...+...     +..    .-...+.+....+++..|...++.|+..
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            11233222  235667788899999999999999887761     221    2344566777889999999999999875


Q ss_pred             -CC--CCC-HhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCC--hHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCC
Q 005487          505 -NA--RPD-SITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPR--NEHYSCLIDLLGRAGRLQEAYGILQSTPEIRED  578 (694)
Q Consensus       505 -~~--~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~  578 (694)
                       +.  .|. ...|+..++.+.+.++-.--.+++..+.   ...|+  +......+..+...+.+.-|+..+-++....|+
T Consensus       696 ~~~~~~~~q~~l~n~~~s~~~~~~q~v~~~R~~~~~~---~~~~~~~~~l~~i~gh~~~~~~s~~~Al~~y~ra~~~~pd  772 (895)
T KOG2076|consen  696 FQFYLDVYQLNLWNLDFSYFSKYGQRVCYLRLIMRLL---VKNKDDTPPLALIYGHNLFVNASFKHALQEYMRAFRQNPD  772 (895)
T ss_pred             HhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh---ccCccCCcceeeeechhHhhccchHHHHHHHHHHHHhCCC
Confidence             11  232 2345545555666555444445544443   22232  333344466677788899999888887767777


Q ss_pred             HHHHHHHHH-HHH----------HcCCHHHHHHHHHHHHhcCCC--CCccHHHHHHHHhhcCChHHHHHHHHHHHhCCC
Q 005487          579 AGLLSTLFS-ACR----------LHRDIEMGEKIAKLLIEKDPD--DSSTYIVLSNMYASVKKWDEVRKIRLKMKELGL  644 (694)
Q Consensus       579 ~~~~~~l~~-~~~----------~~~~~~~A~~~~~~~~~~~p~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  644 (694)
                      .+..+.+++ ++.          ++-..-++..++++-.++.-.  .-.+.+++|.+|...|=..-|.+++++...-.+
T Consensus       773 ~Pl~nl~lglafih~a~qr~v~~Rh~~i~qG~afL~RY~~lR~~~~~QEa~YNigRayh~~gl~~LA~~YYekvL~~~p  851 (895)
T KOG2076|consen  773 SPLINLCLGLAFIHLALQRRVSNRHAQIAQGFAFLKRYKELRRCEEKQEAFYNIGRAYHQIGLVHLAVSYYEKVLEVSP  851 (895)
T ss_pred             CcHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHhCCCc
Confidence            544443322 221          122355777888777776643  667899999999999999999999999876543

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.83  E-value=6.5e-16  Score=164.65  Aligned_cols=439  Identities=9%  Similarity=0.034  Sum_probs=278.7

Q ss_pred             HHhhhcCCChHHHHHHhccCCCCCcc---cHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCChh-hH--HHHHHHHhccC
Q 005487          148 AGMYAKCNSFECAVKMFDEMSERDVA---SWNTVISCYYQDGQAEKALELFKKMRGSGFQPNSV-TL--TTVISSCARLM  221 (694)
Q Consensus       148 ~~~~~~~g~~~~A~~~~~~~~~~~~~---~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~-~~--~~ll~~~~~~~  221 (694)
                      +-...+.|+++.|+..|++..+.++.   ....++..+...|+.++|+..+++..    .|+.. .+  ..+...+...|
T Consensus        41 aii~~r~Gd~~~Al~~L~qaL~~~P~~~~av~dll~l~~~~G~~~~A~~~~eka~----~p~n~~~~~llalA~ly~~~g  116 (822)
T PRK14574         41 LIIRARAGDTAPVLDYLQEESKAGPLQSGQVDDWLQIAGWAGRDQEVIDVYERYQ----SSMNISSRGLASAARAYRNEK  116 (822)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHhhCccchhhHHHHHHHHHHcCCcHHHHHHHHHhc----cCCCCCHHHHHHHHHHHHHcC
Confidence            33467888888888888888763332   23477778888888888888888877    23222 22  22345677778


Q ss_pred             ChhHHHHHHHHHHHhCCCCchhHHHHHHHhhHhcCChHHHHHHHhcCCCCChhHHHHHHHHHHc--CCCchHHHHHHHHH
Q 005487          222 DLDRGKEIHKEFIKDGFVSDSYISSALVDMYGKCGCLEMAREVFEQTVLKSVVAWNALIAGYSS--RGDSKSCVKLFWRM  299 (694)
Q Consensus       222 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~--~~~~~~a~~~~~~m  299 (694)
                      ++++|.++++++.+.. +.++..+..++..+...++.++|++.++++...++.....+..++..  .++..+|++.++++
T Consensus       117 dyd~Aiely~kaL~~d-P~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~dp~~~~~l~layL~~~~~~~~~AL~~~ekl  195 (822)
T PRK14574        117 RWDQALALWQSSLKKD-PTNPDLISGMIMTQADAGRGGVVLKQATELAERDPTVQNYMTLSYLNRATDRNYDALQASSEA  195 (822)
T ss_pred             CHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHhhcCCHHHHHHHHHHhcccCcchHHHHHHHHHHHhcchHHHHHHHHHHH
Confidence            8888888888888875 44566666777888888888888888888766554433333334333  45555588888888


Q ss_pred             HHCCCCCCHHHHHHHHHHhhccCChhhhHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHH
Q 005487          300 NEEGIKPTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAENVFEKMSKTDVVYWNV  379 (694)
Q Consensus       300 ~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~  379 (694)
                      .+.. +-+...+.....+..+.|-...|.++...-      |+..+-.-...     =+.+.|.+..+....++.     
T Consensus       196 l~~~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~------p~~f~~~~~~~-----l~~~~~a~~vr~a~~~~~-----  258 (822)
T PRK14574        196 VRLA-PTSEEVLKNHLEILQRNRIVEPALRLAKEN------PNLVSAEHYRQ-----LERDAAAEQVRMAVLPTR-----  258 (822)
T ss_pred             HHhC-CCCHHHHHHHHHHHHHcCCcHHHHHHHHhC------ccccCHHHHHH-----HHHHHHHHHHhhcccccc-----
Confidence            7762 223445555566666666666665544431      11111100000     001111111111100000     


Q ss_pred             HHHHHHhcC---ChHHHHHHHHHHHHc-CCCCCH-HH----HHHHHHHHcccCChHHHHHHHHHHHHhCCCCChhHHHHH
Q 005487          380 MISGYVTVG---DYFKALAIYSDMKEV-GAKPDA-VT----FTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGAL  450 (694)
Q Consensus       380 l~~~~~~~~---~~~~A~~~~~~m~~~-g~~p~~-~~----~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  450 (694)
                           ....   -.+.|+.-++.+... +..|.. ..    ..-.+-++...++...++..++.+...+.+....+..++
T Consensus       259 -----~~~~r~~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~  333 (822)
T PRK14574        259 -----SETERFDIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWA  333 (822)
T ss_pred             -----cchhhHHHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHH
Confidence                 0011   124455555555542 222322 11    223345677788888888888888887766667777888


Q ss_pred             HHHHHhcCChHHHHHHHhhCCCC---------ChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-----------CCCH
Q 005487          451 LDMYAKCGAVDEAFKVFNELPER---------DLVSWTSMIAAYGSHGRALEALKLFGEMQQSNA-----------RPDS  510 (694)
Q Consensus       451 ~~~~~~~g~~~~A~~~~~~~~~~---------~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-----------~p~~  510 (694)
                      ..+|...+++++|..+|..+..+         +......|.-++...+++++|..+++++.+...           .||+
T Consensus       334 adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~  413 (822)
T PRK14574        334 ASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPND  413 (822)
T ss_pred             HHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCc
Confidence            88888888888888888877541         122346678888888888888888888887311           1222


Q ss_pred             ---hhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCCH-HHHHHHH
Q 005487          511 ---ITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDA-GLLSTLF  586 (694)
Q Consensus       511 ---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~-~~~~~l~  586 (694)
                         ..+..++..+...|++.+|.+.++.+...  -+-+......++.++...|.+.+|...++.+....|+. ......+
T Consensus       414 d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~--aP~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l~P~~~~~~~~~~  491 (822)
T PRK14574        414 DWIEGQTLLVQSLVALNDLPTAQKKLEDLSST--APANQNLRIALASIYLARDLPRKAEQELKAVESLAPRSLILERAQA  491 (822)
T ss_pred             cHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhCCccHHHHHHHH
Confidence               23444556677888888888888888732  23345677788888888888888888887777667754 4555666


Q ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCCCCcc
Q 005487          587 SACRLHRDIEMGEKIAKLLIEKDPDDSST  615 (694)
Q Consensus       587 ~~~~~~~~~~~A~~~~~~~~~~~p~~~~~  615 (694)
                      .++...+++++|.....++++..|+++.+
T Consensus       492 ~~al~l~e~~~A~~~~~~l~~~~Pe~~~~  520 (822)
T PRK14574        492 ETAMALQEWHQMELLTDDVISRSPEDIPS  520 (822)
T ss_pred             HHHHhhhhHHHHHHHHHHHHhhCCCchhH
Confidence            67777888888888888888888887744

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.82  E-value=2e-15  Score=161.05  Aligned_cols=460  Identities=10%  Similarity=0.005  Sum_probs=252.7

Q ss_pred             HHccCChhHHHHHHHHhhhCCCCCCCc-ccHHHHHHHhhCCCCchhHHHHHHHHHHHcCCCchhHHHHHHHhhhcCCChH
Q 005487           80 YTKNYMYITALELFDMLLQNPYLKPDS-YTYPSVLKACGGLGSVGIGKMIHTHLIKTGFLLDVVIASSTAGMYAKCNSFE  158 (694)
Q Consensus        80 ~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  158 (694)
                      ..+.|++..|++.|++..+.   .|+. .....++..+...|+.++|...++.... ..+........+...|...|+++
T Consensus        44 ~~r~Gd~~~Al~~L~qaL~~---~P~~~~av~dll~l~~~~G~~~~A~~~~eka~~-p~n~~~~~llalA~ly~~~gdyd  119 (822)
T PRK14574         44 RARAGDTAPVLDYLQEESKA---GPLQSGQVDDWLQIAGWAGRDQEVIDVYERYQS-SMNISSRGLASAARAYRNEKRWD  119 (822)
T ss_pred             HHhCCCHHHHHHHHHHHHhh---CccchhhHHHHHHHHHHcCCcHHHHHHHHHhcc-CCCCCHHHHHHHHHHHHHcCCHH
Confidence            35666666666666666654   2332 1222445555555666666666665551 11111222222244555556666


Q ss_pred             HHHHHhccCCC--C-CcccHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHH
Q 005487          159 CAVKMFDEMSE--R-DVASWNTVISCYYQDGQAEKALELFKKMRGSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIK  235 (694)
Q Consensus       159 ~A~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  235 (694)
                      +|+++|+++.+  | ++..+..++..+...++.++|++.++.+...  .|+...+..++..+...++..+|.+.++++.+
T Consensus       120 ~Aiely~kaL~~dP~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~~AL~~~ekll~  197 (822)
T PRK14574        120 QALALWQSSLKKDPTNPDLISGMIMTQADAGRGGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNYDALQASSEAVR  197 (822)
T ss_pred             HHHHHHHHHHhhCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHHHHHHHHHHHHH
Confidence            66666666544  1 2334445555556666666666666666553  34444443333333333444446666666666


Q ss_pred             hCCCCchhHHHHHHHhhHhcCChHHHHHHHhcCCCC-ChhHHHHHHHHHHcCCCchHHHHHHHHHHHCCCCCCHHHHHHH
Q 005487          236 DGFVSDSYISSALVDMYGKCGCLEMAREVFEQTVLK-SVVAWNALIAGYSSRGDSKSCVKLFWRMNEEGIKPTLTTISSV  314 (694)
Q Consensus       236 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l  314 (694)
                      .. |.+...+..+...+.+.|-...|.++..+-+.- +...+..+ .       .+.|.+.+    +.+..++..-    
T Consensus       198 ~~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~l-~-------~~~~a~~v----r~a~~~~~~~----  260 (822)
T PRK14574        198 LA-PTSEEVLKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQL-E-------RDAAAEQV----RMAVLPTRSE----  260 (822)
T ss_pred             hC-CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHHH-H-------HHHHHHHH----hhcccccccc----
Confidence            53 444555555555666666666665555543311 01000000 0       00011111    0000000000    


Q ss_pred             HHHhhccCChhhhHHHHHHHHHhc-CCCc-hhHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHH
Q 005487          315 LMSCSRSGQLKHGKVMHGYIIRNK-IQGD-VFINSSLIDLYFKCGRVSSAENVFEKMSKTDVVYWNVMISGYVTVGDYFK  392 (694)
Q Consensus       315 l~~~~~~~~~~~a~~~~~~~~~~~-~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  392 (694)
                         -.+.--.+.+..-++.+...- ..|. ...+                           ..+..-.+.++...|++.+
T Consensus       261 ---~~r~~~~d~ala~~~~l~~~~~~~p~~~~~~---------------------------~~~~~Drl~aL~~r~r~~~  310 (822)
T PRK14574        261 ---TERFDIADKALADYQNLLTRWGKDPEAQADY---------------------------QRARIDRLGALLVRHQTAD  310 (822)
T ss_pred             ---hhhHHHHHHHHHHHHHHHhhccCCCccchHH---------------------------HHHHHHHHHHHHHhhhHHH
Confidence               000000111111111111110 0000 0000                           0111223445566677777


Q ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHcccCChHHHHHHHHHHHHhCC-----CCChhHHHHHHHHHHhcCChHHHHHHH
Q 005487          393 ALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIESKL-----ETNEIVMGALLDMYAKCGAVDEAFKVF  467 (694)
Q Consensus       393 A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~~~~l~~~~~~~g~~~~A~~~~  467 (694)
                      +++.|+.+...|.+....+-..+..+|...+.+++|..+++.+.....     +++......|..+|...+++++|..++
T Consensus       311 vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l  390 (822)
T PRK14574        311 LIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFA  390 (822)
T ss_pred             HHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHH
Confidence            777777777666554455666677777777777777777777655321     223333456777777777777777777


Q ss_pred             hhCCC--C-------------Ch---HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHH
Q 005487          468 NELPE--R-------------DL---VSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEG  529 (694)
Q Consensus       468 ~~~~~--~-------------~~---~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A  529 (694)
                      +.+.+  |             |+   ..+..++..+...|+..+|.+.++++.... +-|......+...+...|.+.+|
T Consensus       391 ~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~~a-P~n~~l~~~~A~v~~~Rg~p~~A  469 (822)
T PRK14574        391 VNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSSTA-PANQNLRIALASIYLARDLPRKA  469 (822)
T ss_pred             HHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHHHH
Confidence            76654  1             11   134556778899999999999999998864 55788889999999999999999


Q ss_pred             HHHHHHhHHhcCCCCC-hHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHcCCHH
Q 005487          530 GYYFNLMISEYNIQPR-NEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRDIE  596 (694)
Q Consensus       530 ~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~  596 (694)
                      ...++.+.   .+.|+ ..+....+..+...|++++|..+.+...+..|+......+-.....+..++
T Consensus       470 ~~~~k~a~---~l~P~~~~~~~~~~~~al~l~e~~~A~~~~~~l~~~~Pe~~~~~~l~r~~~~h~~~~  534 (822)
T PRK14574        470 EQELKAVE---SLAPRSLILERAQAETAMALQEWHQMELLTDDVISRSPEDIPSQELDRQRKVHNMYE  534 (822)
T ss_pred             HHHHHHHh---hhCCccHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhCCCchhHHHHHHHHHHhhhHH
Confidence            99998776   45676 456778899999999999999999998887787665555554443344444

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

Probab=99.81  E-value=4.4e-14  Score=137.41  Aligned_cols=547  Identities=12%  Similarity=0.098  Sum_probs=420.5

Q ss_pred             cCCChhHHHHHHhhCCC--CCchhhHHHHHHHHHccCChhHHHHHHHHhhhCCCCCCCcccHHHHHHHhhCCCCchhHHH
Q 005487           50 SCQNYDYAMLVFKTIDN--PLDLSLWNGLMASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLGSVGIGKM  127 (694)
Q Consensus        50 ~~g~~~~a~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~  127 (694)
                      +....+.|..+......  |.++-.|..-+.   -..+...=..++++.++.  +|.+...|...+    ...+.+.|.-
T Consensus       327 RLhp~d~aK~vvA~Avr~~P~Sv~lW~kA~d---LE~~~~~K~RVlRKALe~--iP~sv~LWKaAV----elE~~~dari  397 (913)
T KOG0495|consen  327 RLHPPDVAKTVVANAVRFLPTSVRLWLKAAD---LESDTKNKKRVLRKALEH--IPRSVRLWKAAV----ELEEPEDARI  397 (913)
T ss_pred             hcCChHHHHHHHHHHHHhCCCChhhhhhHHh---hhhHHHHHHHHHHHHHHh--CCchHHHHHHHH----hccChHHHHH
Confidence            44455556665555432  333312322221   112223334566677665  555555565444    3456666888


Q ss_pred             HHHHHHHHcCCCchhHHHHHHHhhhcCCChHHHHHHhccCCC---CCcccHHHHHHHHHhCCChhHHHHHHHHH----Hh
Q 005487          128 IHTHLIKTGFLLDVVIASSTAGMYAKCNSFECAVKMFDEMSE---RDVASWNTVISCYYQDGQAEKALELFKKM----RG  200 (694)
Q Consensus       128 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m----~~  200 (694)
                      ++....+. .+.+...|.+    |++...++.|..++.+.++   .+...|-+-...--.+|+.+....++.+-    ..
T Consensus       398 lL~rAvec-cp~s~dLwlA----larLetYenAkkvLNkaRe~iptd~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~  472 (913)
T KOG0495|consen  398 LLERAVEC-CPQSMDLWLA----LARLETYENAKKVLNKAREIIPTDREIWITAAKLEEANGNVDMVEKIIDRGLSELQA  472 (913)
T ss_pred             HHHHHHHh-ccchHHHHHH----HHHHHHHHHHHHHHHHHHhhCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhh
Confidence            88888876 3444555544    6677788999999988876   46677777766677889988888877654    55


Q ss_pred             CCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHHhCCCCc--hhHHHHHHHhhHhcCChHHHHHHHhcCCC---CChhH
Q 005487          201 SGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVSD--SYISSALVDMYGKCGCLEMAREVFEQTVL---KSVVA  275 (694)
Q Consensus       201 ~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~  275 (694)
                      .|+..+...|..=...|-..|..-.+..+....+..|+...  ..++..-...|.+.+.++-|+.+|....+   .+...
T Consensus       473 ngv~i~rdqWl~eAe~~e~agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alqvfp~k~sl  552 (913)
T KOG0495|consen  473 NGVEINRDQWLKEAEACEDAGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQVFPCKKSL  552 (913)
T ss_pred             cceeecHHHHHHHHHHHhhcCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhhccchhHH
Confidence            79999999999999999999999999999999998887553  46888888999999999999999987654   45677


Q ss_pred             HHHHHHHHHcCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChhhhHHHHHHHHHhcCCCchhHHHHHHHHHHh
Q 005487          276 WNALIAGYSSRGDSKSCVKLFWRMNEEGIKPTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFK  355 (694)
Q Consensus       276 ~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  355 (694)
                      |...+..--..|..+....+|++.... ++-....|.......-..|+...|..++..+.+.... +..++-+-+.....
T Consensus       553 Wlra~~~ek~hgt~Esl~Allqkav~~-~pkae~lwlM~ake~w~agdv~~ar~il~~af~~~pn-seeiwlaavKle~e  630 (913)
T KOG0495|consen  553 WLRAAMFEKSHGTRESLEALLQKAVEQ-CPKAEILWLMYAKEKWKAGDVPAARVILDQAFEANPN-SEEIWLAAVKLEFE  630 (913)
T ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHHh-CCcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCC-cHHHHHHHHHHhhc
Confidence            888777777889999999999999887 4444455555566677789999999999999888754 88889999999999


Q ss_pred             cCCHHHHHHHHhcCC--CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHcccCChHHHHHHH
Q 005487          356 CGRVSSAENVFEKMS--KTDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDA-VTFTSVLPACSQLAALEKGKEIH  432 (694)
Q Consensus       356 ~~~~~~A~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~~~~~~a~~~~  432 (694)
                      ...+++|..+|.+..  .+....|.--+...--.++.++|++++++.++.  -|+- ..|..+.+.+.+.++.+.|.+.|
T Consensus       631 n~e~eraR~llakar~~sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~--fp~f~Kl~lmlGQi~e~~~~ie~aR~aY  708 (913)
T KOG0495|consen  631 NDELERARDLLAKARSISGTERVWMKSANLERYLDNVEEALRLLEEALKS--FPDFHKLWLMLGQIEEQMENIEMAREAY  708 (913)
T ss_pred             cccHHHHHHHHHHHhccCCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHh--CCchHHHHHHHhHHHHHHHHHHHHHHHH
Confidence            999999999999876  456667777777777789999999999998886  5654 45666777888899999999888


Q ss_pred             HHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCC---CChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC
Q 005487          433 NHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPE---RDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPD  509 (694)
Q Consensus       433 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~  509 (694)
                      ..-.+. .|.....|..+...-.+.|.+-.|..+++....   .+...|...++.-.+.|..+.|..+..+..+. ++.+
T Consensus       709 ~~G~k~-cP~~ipLWllLakleEk~~~~~rAR~ildrarlkNPk~~~lwle~Ir~ElR~gn~~~a~~lmakALQe-cp~s  786 (913)
T KOG0495|consen  709 LQGTKK-CPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKNPKNALLWLESIRMELRAGNKEQAELLMAKALQE-CPSS  786 (913)
T ss_pred             Hhcccc-CCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcCCCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHh-CCcc
Confidence            765443 466778888899999999999999999998765   45678999999999999999999999999886 3445


Q ss_pred             HhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCC-HHHHHHHHHH
Q 005487          510 SITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIRED-AGLLSTLFSA  588 (694)
Q Consensus       510 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~  588 (694)
                      ...|..-+...-+.++-......+++      ..-|+.+...++..+....++++|.+.|.++.+..|| .++|.-+...
T Consensus       787 g~LWaEaI~le~~~~rkTks~DALkk------ce~dphVllaia~lfw~e~k~~kar~Wf~Ravk~d~d~GD~wa~fykf  860 (913)
T KOG0495|consen  787 GLLWAEAIWLEPRPQRKTKSIDALKK------CEHDPHVLLAIAKLFWSEKKIEKAREWFERAVKKDPDNGDAWAWFYKF  860 (913)
T ss_pred             chhHHHHHHhccCcccchHHHHHHHh------ccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHccCCccchHHHHHHHH
Confidence            56676666666555554444444433      3456667778899999999999999999999987776 5789999999


Q ss_pred             HHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHH
Q 005487          589 CRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNM  622 (694)
Q Consensus       589 ~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~  622 (694)
                      +..+|.-+.-.+++.+.....|.+...|.....-
T Consensus       861 el~hG~eed~kev~~~c~~~EP~hG~~W~avSK~  894 (913)
T KOG0495|consen  861 ELRHGTEEDQKEVLKKCETAEPTHGELWQAVSKD  894 (913)
T ss_pred             HHHhCCHHHHHHHHHHHhccCCCCCcHHHHHhhh
Confidence            9999999999999999999999998888877643

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.80  E-value=1.6e-15  Score=139.87  Aligned_cols=408  Identities=13%  Similarity=0.098  Sum_probs=235.7

Q ss_pred             hCCCChhhHhHHHHHHHHhCCCCCchhhhHHHHHHhcC--CChh-HHHHHHhhCCCC--CchhhHHHHHHHHHccCChhH
Q 005487           14 TGSKSLKEGKIIHQKVVTLGLQNNIALCKSLINLYFSC--QNYD-YAMLVFKTIDNP--LDLSLWNGLMASYTKNYMYIT   88 (694)
Q Consensus        14 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--g~~~-~a~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~   88 (694)
                      ..+|..+++.-++++|...|++.+..+-..|++.-+--  .++- .-++.|=.+.+.  ++..+|        +.|...+
T Consensus       126 IS~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~S~~sW--------K~G~vAd  197 (625)
T KOG4422|consen  126 ISSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGEDSTSSW--------KSGAVAD  197 (625)
T ss_pred             HhhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhcccccccccccc--------ccccHHH
Confidence            45789999999999999999999988777766653322  2222 223334333221  111122        1122111


Q ss_pred             HHHHHHHhhhCCCCCCCcccHHHHHHHhhCCCCchhHHHHHHHHHHHcCCCchhHHHHHHHhhhcCCChHHHHHHhccCC
Q 005487           89 ALELFDMLLQNPYLKPDSYTYPSVLKACGGLGSVGIGKMIHTHLIKTGFLLDVVIASSTAGMYAKCNSFECAVKMFDEMS  168 (694)
Q Consensus        89 a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  168 (694)
                        -+|+.      .+-...++..++.+.++.-..+.|..++++........+..++|.+|.+-.-.-+    .+++.+|.
T Consensus       198 --L~~E~------~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~----K~Lv~EMi  265 (625)
T KOG4422|consen  198 --LLFET------LPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVG----KKLVAEMI  265 (625)
T ss_pred             --HHHhh------cCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhcc----HHHHHHHH
Confidence              11221      1223344555555555555555555555555444444555555555443322222    22333332


Q ss_pred             ----CCCcccHHHHHHHHHhCCChh----HHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChhH-HHHHHHHHHHh---
Q 005487          169 ----ERDVASWNTVISCYYQDGQAE----KALELFKKMRGSGFQPNSVTLTTVISSCARLMDLDR-GKEIHKEFIKD---  236 (694)
Q Consensus       169 ----~~~~~~~~~li~~~~~~~~~~----~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~-a~~~~~~~~~~---  236 (694)
                          .||..++|+++.+..+.|+++    .|++++.+|++-|+.|...+|..+|..+++.++..+ +-.++.++...   
T Consensus       266 sqkm~Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltG  345 (625)
T KOG4422|consen  266 SQKMTPNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTG  345 (625)
T ss_pred             HhhcCCchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhcc
Confidence                255555555555555555543    356778888999999999999999998888887754 44444444432   


Q ss_pred             -CC----CCchhHHHHHHHhhHhcCChHHHHHHHhcCCC--------C---ChhHHHHHHHHHHcCCCchHHHHHHHHHH
Q 005487          237 -GF----VSDSYISSALVDMYGKCGCLEMAREVFEQTVL--------K---SVVAWNALIAGYSSRGDSKSCVKLFWRMN  300 (694)
Q Consensus       237 -~~----~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--------~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~  300 (694)
                       .+    +.+...|..-+..|.+..+.+-|.++..-+..        +   ...-|..+....+.....+.....|+.|.
T Consensus       346 K~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lV  425 (625)
T KOG4422|consen  346 KTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLV  425 (625)
T ss_pred             CcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence             12    23455677777888888888888776643322        1   22345667777788888999999999998


Q ss_pred             HCCCCCCHHHHHHHHHHhhccCChhhhHHHHHHHHHhcCCCchhHHHHHHHHHHhcC-CHH-H------------HHHHH
Q 005487          301 EEGIKPTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCG-RVS-S------------AENVF  366 (694)
Q Consensus       301 ~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~-~------------A~~~~  366 (694)
                      -.-+-|+..+...++++....|.++-..++|..++..|.........-++..+++.. +.. -            |..++
T Consensus       426 P~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k~hp~tp~r~Ql~~~~ak~aad~~  505 (625)
T KOG4422|consen  426 PSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARDKLHPLTPEREQLQVAFAKCAADIK  505 (625)
T ss_pred             cceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHHHHHH
Confidence            888889999999999999999999999999999998886655555555555555443 110 0            00111


Q ss_pred             hcC-------CC--CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCC----CCCHHHHHHHHHHHcccCChHHHHHHHH
Q 005487          367 EKM-------SK--TDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGA----KPDAVTFTSVLPACSQLAALEKGKEIHN  433 (694)
Q Consensus       367 ~~~-------~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~m~~~g~----~p~~~~~~~ll~~~~~~~~~~~a~~~~~  433 (694)
                      +..       .+  -.....+...-.+.+.|..++|.++|..+.+.+-    .|......-++......+++..|..+++
T Consensus       506 e~~e~~~~R~r~~~~~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~d~a~~~~spsqA~~~lQ  585 (625)
T KOG4422|consen  506 EAYESQPIRQRAQDWPATSLNCIAILLLRAGRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELMDSAKVSNSPSQAIEVLQ  585 (625)
T ss_pred             HHHHhhHHHHHhccCChhHHHHHHHHHHHcchHHHHHHHHHHHHhcCCcCCCCcchhhHHHHHHHHHhcCCHHHHHHHHH
Confidence            100       00  1222334444445556666666666655543321    2222333344444555555555555555


Q ss_pred             HHHHhCCC
Q 005487          434 HIIESKLE  441 (694)
Q Consensus       434 ~~~~~~~~  441 (694)
                      .+...+.+
T Consensus       586 ~a~~~n~~  593 (625)
T KOG4422|consen  586 LASAFNLP  593 (625)
T ss_pred             HHHHcCch
Confidence            55444433

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

Probab=99.80  E-value=4.5e-16  Score=144.40  Aligned_cols=273  Identities=13%  Similarity=0.095  Sum_probs=209.9

Q ss_pred             HHHHhcCCHHHHHHHHhcCCCCChhHHHH----H--HHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcccCC
Q 005487          351 DLYFKCGRVSSAENVFEKMSKTDVVYWNV----M--ISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAA  424 (694)
Q Consensus       351 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~----l--~~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~  424 (694)
                      ..|.+.|+++.|++++.-..+.|..+-.+    +  +..+....++..|...-+..+... +-++.....-.......|+
T Consensus       427 ~~~lk~~d~~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~d-ryn~~a~~nkgn~~f~ngd  505 (840)
T KOG2003|consen  427 GELLKNGDIEGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNID-RYNAAALTNKGNIAFANGD  505 (840)
T ss_pred             HHHHhccCHHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc-ccCHHHhhcCCceeeecCc
Confidence            34677888888888887776554332221    1  222222345666666655544332 2333333333344566899


Q ss_pred             hHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCC---CChHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 005487          425 LEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPE---RDLVSWTSMIAAYGSHGRALEALKLFGEM  501 (694)
Q Consensus       425 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  501 (694)
                      +++|.+.|++.+..+-......|+ +.-.+...|++++|++.|-++..   .+......+...|-...++..|++++.+.
T Consensus       506 ~dka~~~ykeal~ndasc~ealfn-iglt~e~~~~ldeald~f~klh~il~nn~evl~qianiye~led~aqaie~~~q~  584 (840)
T KOG2003|consen  506 LDKAAEFYKEALNNDASCTEALFN-IGLTAEALGNLDEALDCFLKLHAILLNNAEVLVQIANIYELLEDPAQAIELLMQA  584 (840)
T ss_pred             HHHHHHHHHHHHcCchHHHHHHHH-hcccHHHhcCHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhCHHHHHHHHHHh
Confidence            999999999998766444444444 45557788999999999987765   67778888999999999999999999988


Q ss_pred             HHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCCHHH
Q 005487          502 QQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAGL  581 (694)
Q Consensus       502 ~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~  581 (694)
                      ... ++.|+..+..|...|-+.|+-..|.+++..-.+  -++.+.++...|+..|....-+++|+.+|+++.-++|+..-
T Consensus       585 ~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyr--yfp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp~~~k  661 (840)
T KOG2003|consen  585 NSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYR--YFPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQPNQSK  661 (840)
T ss_pred             ccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhccc--ccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCccHHH
Confidence            875 455788999999999999999999988766542  34566889999999999999999999999998778999999


Q ss_pred             HHHHHHHHH-HcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCC
Q 005487          582 LSTLFSACR-LHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKK  628 (694)
Q Consensus       582 ~~~l~~~~~-~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  628 (694)
                      |..++..|. +.|++.+|...++......|.+...+..|.+++...|-
T Consensus       662 wqlmiasc~rrsgnyqka~d~yk~~hrkfpedldclkflvri~~dlgl  709 (840)
T KOG2003|consen  662 WQLMIASCFRRSGNYQKAFDLYKDIHRKFPEDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHHhCccchHHHHHHHHHhccccc
Confidence            998887765 57999999999999999999999999999999888773

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.79  E-value=1.3e-14  Score=134.04  Aligned_cols=447  Identities=14%  Similarity=0.112  Sum_probs=296.8

Q ss_pred             CchhhHHHHHHHHHccCChhHHHHHHHHhhhCCCCCCCcccHHHHHHHhhCCCCchhHHHHHHHHH---HHcCCCchhHH
Q 005487           68 LDLSLWNGLMASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLGSVGIGKMIHTHLI---KTGFLLDVVIA  144 (694)
Q Consensus        68 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~~~  144 (694)
                      ..+++=+.|+.. ..+|....+.-+|+.|.+. |++.+...-..+++..+-.++-+--..-+++.+   +.|- .+..+ 
T Consensus       114 ~~V~~E~nL~km-IS~~EvKDs~ilY~~m~~e-~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E-~S~~s-  189 (625)
T KOG4422|consen  114 LQVETENNLLKM-ISSREVKDSCILYERMRSE-NVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGE-DSTSS-  189 (625)
T ss_pred             hhhcchhHHHHH-HhhcccchhHHHHHHHHhc-CCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhcccccc-ccccc-
Confidence            334344555543 5677888888899999988 777776665555544332222111122222222   2221 11122 


Q ss_pred             HHHHHhhhcCCChHHHHHHhccCCCCCcccHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChh
Q 005487          145 SSTAGMYAKCNSFECAVKMFDEMSERDVASWNTVISCYYQDGQAEKALELFKKMRGSGFQPNSVTLTTVISSCARLMDLD  224 (694)
Q Consensus       145 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~  224 (694)
                             .+.|++.+   ++-+....+..++..+|.++++--..++|.++|++......+.+..+||.+|.+-.-..+  
T Consensus       190 -------WK~G~vAd---L~~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~--  257 (625)
T KOG4422|consen  190 -------WKSGAVAD---LLFETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVG--  257 (625)
T ss_pred             -------cccccHHH---HHHhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhcc--
Confidence                   24455444   444444457789999999999999999999999999888789999999999876543322  


Q ss_pred             HHHHHHHHHHHhCCCCchhHHHHHHHhhHhcCChHHHHHHHhcCCCCChhHHHHHHHHHHcCCCchHHHHHHHHHHHCCC
Q 005487          225 RGKEIHKEFIKDGFVSDSYISSALVDMYGKCGCLEMAREVFEQTVLKSVVAWNALIAGYSSRGDSKSCVKLFWRMNEEGI  304 (694)
Q Consensus       225 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~  304 (694)
                        .+++.+|....+.||..|+|+++.+..+.|+++.|++                           .|.+++.+|++-|+
T Consensus       258 --K~Lv~EMisqkm~Pnl~TfNalL~c~akfg~F~~ar~---------------------------aalqil~EmKeiGV  308 (625)
T KOG4422|consen  258 --KKLVAEMISQKMTPNLFTFNALLSCAAKFGKFEDARK---------------------------AALQILGEMKEIGV  308 (625)
T ss_pred             --HHHHHHHHHhhcCCchHhHHHHHHHHHHhcchHHHHH---------------------------HHHHHHHHHHHhCC
Confidence              7889999999999999999999999999998887755                           36788889999999


Q ss_pred             CCCHHHHHHHHHHhhccCChhhh-HHHHHHHHH----hcCCC----chhHHHHHHHHHHhcCCHHHHHHHHhcCCC----
Q 005487          305 KPTLTTISSVLMSCSRSGQLKHG-KVMHGYIIR----NKIQG----DVFINSSLIDLYFKCGRVSSAENVFEKMSK----  371 (694)
Q Consensus       305 ~p~~~~~~~ll~~~~~~~~~~~a-~~~~~~~~~----~~~~~----~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~----  371 (694)
                      .|...+|..++..+++.++..+. ..+..++..    ..++|    +...|...+..|.+..+.+-|..+-.-+..    
T Consensus       309 ePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~  388 (625)
T KOG4422|consen  309 EPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNW  388 (625)
T ss_pred             CcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCch
Confidence            99999999999999888887553 333333332    22322    455667777888888888888877665542    


Q ss_pred             ----CC---hhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcccCChHHHHHHHHHHHHhCCCCCh
Q 005487          372 ----TD---VVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIESKLETNE  444 (694)
Q Consensus       372 ----~~---~~~~~~l~~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~  444 (694)
                          ++   ..-|..+....++....+.-+..|+.|+-.-+-|+..+...++++....+.++-..+++..++..|.....
T Consensus       389 ~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~  468 (625)
T KOG4422|consen  389 KFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRS  468 (625)
T ss_pred             hhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhH
Confidence                11   23456677777888888999999999998888899999999999999999999999999999887755444


Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHhhCCCCChH---HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHH
Q 005487          445 IVMGALLDMYAKCGAVDEAFKVFNELPERDLV---SWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACS  521 (694)
Q Consensus       445 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~---~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~  521 (694)
                      .....+...+++.+-            .|+..   -+..++.-++. .-.+.....-.++.+..  ......+.++..+.
T Consensus       469 ~l~eeil~~L~~~k~------------hp~tp~r~Ql~~~~ak~aa-d~~e~~e~~~~R~r~~~--~~~t~l~~ia~Ll~  533 (625)
T KOG4422|consen  469 DLREEILMLLARDKL------------HPLTPEREQLQVAFAKCAA-DIKEAYESQPIRQRAQD--WPATSLNCIAILLL  533 (625)
T ss_pred             HHHHHHHHHHhcCCC------------CCCChHHHHHHHHHHHHHH-HHHHHHHhhHHHHHhcc--CChhHHHHHHHHHH
Confidence            444434444433320            12111   11111111110 01111122223444433  33445566666677


Q ss_pred             ccCCHHHHHHHHHHhHHhcCCCCChHHHH---HHHHHhhhcCCHHHHHHHHHhCCC
Q 005487          522 HAGWVDEGGYYFNLMISEYNIQPRNEHYS---CLIDLLGRAGRLQEAYGILQSTPE  574 (694)
Q Consensus       522 ~~g~~~~A~~~~~~~~~~~~~~p~~~~~~---~l~~~~~~~g~~~~A~~~~~~~~~  574 (694)
                      +.|..++|.+++..+.++.+--|.....+   .+++.-.+.+..-.|+..++-+..
T Consensus       534 R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~d~a~~~~spsqA~~~lQ~a~~  589 (625)
T KOG4422|consen  534 RAGRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELMDSAKVSNSPSQAIEVLQLASA  589 (625)
T ss_pred             HcchHHHHHHHHHHHHhcCCcCCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            88888888888888865544445444444   445555667778888888887754

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

Probab=99.72  E-value=4.4e-14  Score=132.85  Aligned_cols=214  Identities=16%  Similarity=0.134  Sum_probs=148.9

Q ss_pred             cCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCC---CChHHHHHHHHHHHhcCCHHHHHHHH
Q 005487          422 LAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPE---RDLVSWTSMIAAYGSHGRALEALKLF  498 (694)
Q Consensus       422 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~  498 (694)
                      .|+.-.+.+-++..++....+. ..|-.+..+|....+.++-...|+....   .|+.+|..-.+.+.-.++++.|..=|
T Consensus       339 ~g~~~~a~~d~~~~I~l~~~~~-~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~n~dvYyHRgQm~flL~q~e~A~aDF  417 (606)
T KOG0547|consen  339 KGDSLGAQEDFDAAIKLDPAFN-SLYIKRAAAYADENQSEKMWKDFNKAEDLDPENPDVYYHRGQMRFLLQQYEEAIADF  417 (606)
T ss_pred             cCCchhhhhhHHHHHhcCcccc-hHHHHHHHHHhhhhccHHHHHHHHHHHhcCCCCCchhHhHHHHHHHHHHHHHHHHHH
Confidence            4555555555555555432222 1244455556666666666666666554   34556666666666677778888888


Q ss_pred             HHHHHcCCCC-CHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCC
Q 005487          499 GEMQQSNARP-DSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIRE  577 (694)
Q Consensus       499 ~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p  577 (694)
                      ++.+..  .| +...|..+.-+..++++++++...|++..++  ++--++.|+..+.++..++++++|.+.|+.+.++.|
T Consensus       418 ~Kai~L--~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk--FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~  493 (606)
T KOG0547|consen  418 QKAISL--DPENAYAYIQLCCALYRQHKIAESMKTFEEAKKK--FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEP  493 (606)
T ss_pred             HHHhhc--ChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhcc
Confidence            887774  34 4566777777777777888888888888753  334466777778888888888888888888776666


Q ss_pred             CH--------HHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHHHH
Q 005487          578 DA--------GLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMK  640 (694)
Q Consensus       578 ~~--------~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  640 (694)
                      ..        ...+..+...+-.+|+..|+.+++++++++|....+|..|+.+..++|+.++|+++|++..
T Consensus       494 ~~~~~~v~~~plV~Ka~l~~qwk~d~~~a~~Ll~KA~e~Dpkce~A~~tlaq~~lQ~~~i~eAielFEksa  564 (606)
T KOG0547|consen  494 REHLIIVNAAPLVHKALLVLQWKEDINQAENLLRKAIELDPKCEQAYETLAQFELQRGKIDEAIELFEKSA  564 (606)
T ss_pred             ccccccccchhhhhhhHhhhchhhhHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            51        1122222222334899999999999999999999999999999999999999999998754

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

Probab=99.69  E-value=5.7e-17  Score=155.74  Aligned_cols=256  Identities=20%  Similarity=0.203  Sum_probs=115.1

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHH-HHHHHHHcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcC
Q 005487          380 MISGYVTVGDYFKALAIYSDMKEVGAKPDAVTF-TSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCG  458 (694)
Q Consensus       380 l~~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~-~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  458 (694)
                      +...+.+.|++++|++++++......+|+...| ..+...+...++.+.|.+.++.+...+.. ++..+..++.. ...+
T Consensus        14 ~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~-~~~~~~~l~~l-~~~~   91 (280)
T PF13429_consen   14 LARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKA-NPQDYERLIQL-LQDG   91 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccc-cccc
Confidence            345566777777777777554443323443333 33444556677888888888888765532 55566667766 6889


Q ss_pred             ChHHHHHHHhhCCC--CChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC-CCCCHhhHHHHHHHHHccCCHHHHHHHHHH
Q 005487          459 AVDEAFKVFNELPE--RDLVSWTSMIAAYGSHGRALEALKLFGEMQQSN-ARPDSITFLALLSACSHAGWVDEGGYYFNL  535 (694)
Q Consensus       459 ~~~~A~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~  535 (694)
                      ++++|.+++...-+  +++..+..++..+...++++++..+++.+.... .+++...|..+...+.+.|+.++|++.+++
T Consensus        92 ~~~~A~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~  171 (280)
T PF13429_consen   92 DPEEALKLAEKAYERDGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRK  171 (280)
T ss_dssp             --------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHH
T ss_pred             cccccccccccccccccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            99999988877654  666778888889999999999999999987542 244667788888899999999999999999


Q ss_pred             hHHhcCCCCC-hHHHHHHHHHhhhcCCHHHHHHHHHhCCCC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCC
Q 005487          536 MISEYNIQPR-NEHYSCLIDLLGRAGRLQEAYGILQSTPEI-REDAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDS  613 (694)
Q Consensus       536 ~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~  613 (694)
                      +.+   ..|+ ......++..+...|+.+++.++++...+. +.++..|..++.++...|++++|...++++++.+|+|+
T Consensus       172 al~---~~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p~d~  248 (280)
T PF13429_consen  172 ALE---LDPDDPDARNALAWLLIDMGDYDEAREALKRLLKAAPDDPDLWDALAAAYLQLGRYEEALEYLEKALKLNPDDP  248 (280)
T ss_dssp             HHH---H-TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHSTT-H
T ss_pred             HHH---cCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHHHHHHHHHHHhcccccccccccccccccccccccc
Confidence            984   3675 667888999999999999988888876553 45667888999999999999999999999999999999


Q ss_pred             ccHHHHHHHHhhcCChHHHHHHHHHHH
Q 005487          614 STYIVLSNMYASVKKWDEVRKIRLKMK  640 (694)
Q Consensus       614 ~~~~~l~~~~~~~g~~~~A~~~~~~~~  640 (694)
                      .....+++++...|+.++|.++.+++.
T Consensus       249 ~~~~~~a~~l~~~g~~~~A~~~~~~~~  275 (280)
T PF13429_consen  249 LWLLAYADALEQAGRKDEALRLRRQAL  275 (280)
T ss_dssp             HHHHHHHHHHT----------------
T ss_pred             ccccccccccccccccccccccccccc
Confidence            999999999999999999999988764

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

Probab=99.68  E-value=5.5e-12  Score=127.36  Aligned_cols=601  Identities=14%  Similarity=0.086  Sum_probs=325.0

Q ss_pred             hHhHHHHHHHHhCCCCCchhhhHHHHHHhcCCChhHHHHHHhhCCC---CCchhhHHHHHHHHHccCChhHHHHHHHHhh
Q 005487           21 EGKIIHQKVVTLGLQNNIALCKSLINLYFSCQNYDYAMLVFKTIDN---PLDLSLWNGLMASYTKNYMYITALELFDMLL   97 (694)
Q Consensus        21 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~   97 (694)
                      ....++..+...|+.|+..+|.++|.-|+..|+++.|- .|.-|.-   |-....++.++.+..+.++.+.+.       
T Consensus         8 ~ptnfla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-------   79 (1088)
T KOG4318|consen    8 FPTNFLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-------   79 (1088)
T ss_pred             CcchHHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC-------
Confidence            34578888999999999999999999999999999998 6665532   222224555665555555554432       


Q ss_pred             hCCCCCCCcccHHHHHHHhhCCCCchh---HHHHHHHHH----HHcCC-----------------CchhHHHHHHHhhhc
Q 005487           98 QNPYLKPDSYTYPSVLKACGGLGSVGI---GKMIHTHLI----KTGFL-----------------LDVVIASSTAGMYAK  153 (694)
Q Consensus        98 ~~~~~~~~~~~~~~ll~~~~~~~~~~~---a~~~~~~~~----~~~~~-----------------~~~~~~~~l~~~~~~  153 (694)
                           .|.+.+|..++.+|...||+..   +++.+..+.    ..|+-                 ||..   ..+....-
T Consensus        80 -----ep~aDtyt~Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~---n~illlv~  151 (1088)
T KOG4318|consen   80 -----EPLADTYTNLLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAE---NAILLLVL  151 (1088)
T ss_pred             -----CCchhHHHHHHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHH---HHHHHHHH
Confidence                 4555666666666666665433   222111111    11110                 1110   11111222


Q ss_pred             CCChHHHHHHhcc---------------------------------CCC-CCcccHHHHHHHHHhCCChhHHHHHHHHHH
Q 005487          154 CNSFECAVKMFDE---------------------------------MSE-RDVASWNTVISCYYQDGQAEKALELFKKMR  199 (694)
Q Consensus       154 ~g~~~~A~~~~~~---------------------------------~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  199 (694)
                      .|-++.+++++..                                 ..+ +++.+|..++.+-.-+|+.+.|..++.+|+
T Consensus       152 eglwaqllkll~~~Pvsa~~~p~~vfLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emk  231 (1088)
T KOG4318|consen  152 EGLWAQLLKLLAKVPVSAWNAPFQVFLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMK  231 (1088)
T ss_pred             HHHHHHHHHHHhhCCcccccchHHHHHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHH
Confidence            2333333333322                                 222 566777777777778888888888888888


Q ss_pred             hCCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchhHHHHHHHhhHhcCChHHHHHHHhcCCCCChhHHHHH
Q 005487          200 GSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVSDSYISSALVDMYGKCGCLEMAREVFEQTVLKSVVAWNAL  279 (694)
Q Consensus       200 ~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l  279 (694)
                      +.|++.+..-|-.++.+   .++...+..+++-|...|+.|+..|+...+..+...|....+.+..+.-..-....+..+
T Consensus       232 e~gfpir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~t~~~~e~sq~~hg~tAavrsaa  308 (1088)
T KOG4318|consen  232 EKGFPIRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQTKYGEEGSQLAHGFTAAVRSAA  308 (1088)
T ss_pred             HcCCCcccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchhhhhcccccchhhhhhHHHHHHH
Confidence            88887777766555544   677777888888888888888888887776666665542222111110000011122222


Q ss_pred             HHHHHcCCCc-----hHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChhhhHHHHHHHHHhcCC---CchhHHHHHHH
Q 005487          280 IAGYSSRGDS-----KSCVKLFWRMNEEGIKPTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQ---GDVFINSSLID  351 (694)
Q Consensus       280 i~~~~~~~~~-----~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~~l~~  351 (694)
                      .++.....+.     .-....+++..-.|+......|..... ....|.-+.++++...+..-...   .++..+..++.
T Consensus       309 ~rg~~a~k~l~~nl~~~v~~s~k~~fLlg~d~~~aiws~c~~-l~hQgk~e~veqlvg~l~npt~r~s~~~V~a~~~~lr  387 (1088)
T KOG4318|consen  309 CRGLLANKRLRQNLRKSVIGSTKKLFLLGTDILEAIWSMCEK-LRHQGKGEEVEQLVGQLLNPTLRDSGQNVDAFGALLR  387 (1088)
T ss_pred             hcccHhHHHHHHHHHHHHHHHhhHHHHhccccchHHHHHHHH-HHHcCCCchHHHHHhhhcCCccccCcchHHHHHHHHH
Confidence            2221111111     111122222222233333333332222 22345555555555554332211   12223333333


Q ss_pred             HHHhc----------------------CCHHHHHHHHhcCCCCChh----------------------------HHHHHH
Q 005487          352 LYFKC----------------------GRVSSAENVFEKMSKTDVV----------------------------YWNVMI  381 (694)
Q Consensus       352 ~~~~~----------------------~~~~~A~~~~~~~~~~~~~----------------------------~~~~l~  381 (694)
                      -|.+.                      .+..+..++..... ||..                            .-+.++
T Consensus       388 qyFrr~e~~~~~~i~~~~qgls~~l~se~tp~vsell~~lr-kns~lr~lv~Lss~Eler~he~~~~~~h~irdi~~ql~  466 (1088)
T KOG4318|consen  388 QYFRRIERHICSRIYYAGQGLSLNLNSEDTPRVSELLENLR-KNSFLRQLVGLSSTELERSHEPWPLIAHLIRDIANQLH  466 (1088)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHhhhchhhhHHHHHHHHHhC-cchHHHHHhhhhHHHHhcccccchhhhhHHHHHHHHHH
Confidence            33322                      12222222222221 2210                            011222


Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcccCChHHHHHHHHHHHHh--CCCCChhHHHHHHHHHHhcCC
Q 005487          382 SGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIES--KLETNEIVMGALLDMYAKCGA  459 (694)
Q Consensus       382 ~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~  459 (694)
                      ..+.+.-+..++...-++.... ..+  ..|..|+.-+......+.|..+.+++...  .+..+..-+..+.+.+.+.+.
T Consensus       467 l~l~se~n~lK~l~~~ekye~~-lf~--g~ya~Li~l~~~hdkle~Al~~~~e~d~~d~s~~Ld~~~m~~l~dLL~r~~~  543 (1088)
T KOG4318|consen  467 LTLNSEYNKLKILCDEEKYEDL-LFA--GLYALLIKLMDLHDKLEYALSFVDEIDTRDESIHLDLPLMTSLQDLLQRLAI  543 (1088)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHH-Hhh--hHHHHHhhhHHHHHHHHHHHhchhhhcccchhhhcccHhHHHHHHHHHHhHH
Confidence            2233333333333222222221 111  55777888888888888888888877432  334566677788888999999


Q ss_pred             hHHHHHHHhhCCC-----CC-hHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-------------------------
Q 005487          460 VDEAFKVFNELPE-----RD-LVSWTSMIAAYGSHGRALEALKLFGEMQQSNARP-------------------------  508 (694)
Q Consensus       460 ~~~A~~~~~~~~~-----~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p-------------------------  508 (694)
                      ...+..++.++.+     ++ ..++-.++......|+.+...++.+-+...|+..                         
T Consensus       544 l~dl~tiL~e~ks~a~n~~~~a~~~f~~lns~a~agqqe~Lkkl~d~lvslgl~etgPl~~vhLrkdd~s~a~ea~e~~~  623 (1088)
T KOG4318|consen  544 LYDLSTILYEDKSSAENEPLVAIILFPLLNSGAPAGQQEKLKKLADILVSLGLSETGPLWMVHLRKDDQSAAQEAPEPEE  623 (1088)
T ss_pred             HHHHHHHHhhhhHHhhCCchHHHHHHHHHhhhhhccCHHHHHHHHHHHHHhhhhhcccceEEEeeccchhhhhhcchHHH
Confidence            9999999888876     21 2244456666777888888888888776655321                         


Q ss_pred             -----CHhhHHHHHHH---------------------HHccCCHHHHHHHHHHh-----------HHhcCCCCC------
Q 005487          509 -----DSITFLALLSA---------------------CSHAGWVDEGGYYFNLM-----------ISEYNIQPR------  545 (694)
Q Consensus       509 -----~~~~~~~l~~~---------------------~~~~g~~~~A~~~~~~~-----------~~~~~~~p~------  545 (694)
                           .+.....+.+.                     |.+.|++.+|..+.+.=           .....+.|-      
T Consensus       624 qkyk~~P~~~e~lcrlv~ke~td~~qk~mDls~~iq~f~k~g~~~~a~di~etpG~r~r~~RDr~~de~e~~~lEll~el  703 (1088)
T KOG4318|consen  624 QKYKPYPKDLEGLCRLVYKETTDSPQKTMDLSIPIQKFEKLGSCVDAGDITETPGVRCRNGRDRDTDEGEIVPLELLLEL  703 (1088)
T ss_pred             HHhcCChHHHHHHHHHHHhhccccHHHHHhhcchhHHHHhcccccchhhccccCcccccCCCccccccCccccHHHHHHH
Confidence                 11111111111                     11122222222211100           000001111      


Q ss_pred             ---hHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHhcCCCCCcc---H
Q 005487          546 ---NEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHR---DIEMGEKIAKLLIEKDPDDSST---Y  616 (694)
Q Consensus       546 ---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~~---~~~~A~~~~~~~~~~~p~~~~~---~  616 (694)
                         ......|...|.+.|+++.|..+|.++. ..|.+.....++..+.+..   ++-++....+++-+..|..+.+   +
T Consensus       704 t~~lg~~dRLL~sy~~~g~~erA~glwnK~Q-V~k~~~~l~~LAsIlr~~n~evdvPe~q~e~ekas~~~~~f~ttt~~~  782 (1088)
T KOG4318|consen  704 THELGKNDRLLQSYLEEGRIERASGLWNKDQ-VSKSPMKLFHLASILRRMNEEVDVPEIQAETEKASELRTLFPTTTCYY  782 (1088)
T ss_pred             HhHhHHHHHHHHHHHhhhHHHHHHhHHhhCc-CCcchHHHHHHHHHHHhhchhccchhHHHHHHHHHhcccccccchHhh
Confidence               0112236668899999999999999998 7788887777777776543   6778888888888877655443   4


Q ss_pred             HHHHHHHhhcCChHHHHHHHHHHHhCCCcc
Q 005487          617 IVLSNMYASVKKWDEVRKIRLKMKELGLRK  646 (694)
Q Consensus       617 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  646 (694)
                      .-.+....+....+.|.+.+.+..++...+
T Consensus       783 ~~~a~~a~q~~qkkaAkk~f~r~eeq~~v~  812 (1088)
T KOG4318|consen  783 EGYAFFATQTEQKKAAKKCFERLEEQLTVS  812 (1088)
T ss_pred             hhhHHHHhhHHHHHHHHHHHHHHHHccCCC
Confidence            444455555566668999999998875433

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

Probab=99.67  E-value=2.3e-11  Score=114.36  Aligned_cols=445  Identities=11%  Similarity=0.107  Sum_probs=237.7

Q ss_pred             chhHHHHHHHhhhcCCChHHHHHHhccCCC---CCcccHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCChh-hHHHHHH
Q 005487          140 DVVIASSTAGMYAKCNSFECAVKMFDEMSE---RDVASWNTVISCYYQDGQAEKALELFKKMRGSGFQPNSV-TLTTVIS  215 (694)
Q Consensus       140 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~-~~~~ll~  215 (694)
                      +...|.....--..++++..|..+|++...   .+...|-..+..-.++.....|..+++.....  -|... .|-.-+.
T Consensus        72 ~~~~WikYaqwEesq~e~~RARSv~ERALdvd~r~itLWlkYae~Emknk~vNhARNv~dRAvt~--lPRVdqlWyKY~y  149 (677)
T KOG1915|consen   72 NMQVWIKYAQWEESQKEIQRARSVFERALDVDYRNITLWLKYAEFEMKNKQVNHARNVWDRAVTI--LPRVDQLWYKYIY  149 (677)
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHhhhhHhHHHHHHHHHHHh--cchHHHHHHHHHH
Confidence            344444444444456778888888888765   55666777777777888888888888887763  33332 3444444


Q ss_pred             HHhccCChhHHHHHHHHHHHhCCCCchhHHHHHHHhhHhcCChHHHHHHHhcC--CCCChhHHHHHHHHHHcCCCchHHH
Q 005487          216 SCARLMDLDRGKEIHKEFIKDGFVSDSYISSALVDMYGKCGCLEMAREVFEQT--VLKSVVAWNALIAGYSSRGDSKSCV  293 (694)
Q Consensus       216 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~li~~~~~~~~~~~a~  293 (694)
                      .--..|+...|.++|++-.+.  .|+...+.+.++.-.+-...+.|+.++++.  ..|++.+|......-.+.|....+.
T Consensus       150 mEE~LgNi~gaRqiferW~~w--~P~eqaW~sfI~fElRykeieraR~IYerfV~~HP~v~~wikyarFE~k~g~~~~aR  227 (677)
T KOG1915|consen  150 MEEMLGNIAGARQIFERWMEW--EPDEQAWLSFIKFELRYKEIERARSIYERFVLVHPKVSNWIKYARFEEKHGNVALAR  227 (677)
T ss_pred             HHHHhcccHHHHHHHHHHHcC--CCcHHHHHHHHHHHHHhhHHHHHHHHHHHHheecccHHHHHHHHHHHHhcCcHHHHH
Confidence            444567788888888877664  677778888888777777888888888763  4577777777777777777777777


Q ss_pred             HHHHHHHHCCCCCCHH----HHHHHHHHhhccCChhhhHHHHHHHHHhcCCC-chhHHHHHHHHHHhcCCHHHHHHHHhc
Q 005487          294 KLFWRMNEEGIKPTLT----TISSVLMSCSRSGQLKHGKVMHGYIIRNKIQG-DVFINSSLIDLYFKCGRVSSAENVFEK  368 (694)
Q Consensus       294 ~~~~~m~~~g~~p~~~----~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~  368 (694)
                      .+|....+.  -.|..    .|.+....-.+...++.|.-++....+.-++. ....|..+...--+-|+........-.
T Consensus       228 ~VyerAie~--~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~  305 (677)
T KOG1915|consen  228 SVYERAIEF--LGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVG  305 (677)
T ss_pred             HHHHHHHHH--hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhh
Confidence            777776654  11121    22222222223344555555555555443221 122333333322233332222111100


Q ss_pred             CCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcccCChHHHHHHHHHHHHhCCCCCh-hHH
Q 005487          369 MSKTDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIESKLETNE-IVM  447 (694)
Q Consensus       369 ~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~  447 (694)
                      -                       -.--|+.+++.+ +-|-.+|--.+..-...|+.+...++|+.++..-.+... ..|
T Consensus       306 K-----------------------Rk~qYE~~v~~n-p~nYDsWfdylrL~e~~g~~~~Ire~yErAIanvpp~~ekr~W  361 (677)
T KOG1915|consen  306 K-----------------------RKFQYEKEVSKN-PYNYDSWFDYLRLEESVGDKDRIRETYERAIANVPPASEKRYW  361 (677)
T ss_pred             h-----------------------hhhHHHHHHHhC-CCCchHHHHHHHHHHhcCCHHHHHHHHHHHHccCCchhHHHHH
Confidence            0                       000122222221 334445555555555555555555555555443222111 111


Q ss_pred             HHHHHHH--------HhcCChHHHHHHHhhCCC--CCh-H----HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhh
Q 005487          448 GALLDMY--------AKCGAVDEAFKVFNELPE--RDL-V----SWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSIT  512 (694)
Q Consensus       448 ~~l~~~~--------~~~g~~~~A~~~~~~~~~--~~~-~----~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~  512 (694)
                      ...+..+        ....+.+.+.++|+.+.+  |.. +    .|........++.+...|.+++...+.  ..|...+
T Consensus       362 ~RYIYLWinYalyeEle~ed~ertr~vyq~~l~lIPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG--~cPK~Kl  439 (677)
T KOG1915|consen  362 RRYIYLWINYALYEELEAEDVERTRQVYQACLDLIPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIG--KCPKDKL  439 (677)
T ss_pred             HHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhcCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhc--cCCchhH
Confidence            1111111        234555555555555444  221 1    233333444455566666666655553  3555556


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCC-hHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCC----CHHHHHHHHH
Q 005487          513 FLALLSACSHAGWVDEGGYYFNLMISEYNIQPR-NEHYSCLIDLLGRAGRLQEAYGILQSTPEIRE----DAGLLSTLFS  587 (694)
Q Consensus       513 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p----~~~~~~~l~~  587 (694)
                      |...+..-.+.+.+|....++++.+   ...|. ..+|...+..-...|+.|.|..+|+-+. .+|    ....|...+.
T Consensus       440 Fk~YIelElqL~efDRcRkLYEkfl---e~~Pe~c~~W~kyaElE~~LgdtdRaRaifelAi-~qp~ldmpellwkaYId  515 (677)
T KOG1915|consen  440 FKGYIELELQLREFDRCRKLYEKFL---EFSPENCYAWSKYAELETSLGDTDRARAIFELAI-SQPALDMPELLWKAYID  515 (677)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHH---hcChHhhHHHHHHHHHHHHhhhHHHHHHHHHHHh-cCcccccHHHHHHHhhh
Confidence            6666655555666666666666665   33343 3355555555556666666666666555 223    1234555555


Q ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHH
Q 005487          588 ACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSN  621 (694)
Q Consensus       588 ~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~  621 (694)
                      .-...|.+++|..+++++++..+... +|...+.
T Consensus       516 FEi~~~E~ekaR~LYerlL~rt~h~k-vWisFA~  548 (677)
T KOG1915|consen  516 FEIEEGEFEKARALYERLLDRTQHVK-VWISFAK  548 (677)
T ss_pred             hhhhcchHHHHHHHHHHHHHhcccch-HHHhHHH
Confidence            55556666666666666666555332 4544444

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

Probab=99.66  E-value=2.9e-12  Score=120.26  Aligned_cols=418  Identities=14%  Similarity=0.118  Sum_probs=198.8

Q ss_pred             hcCChHHHHHHHhcCCC---CChhHHHHHHHHHHcCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChhhhHHH
Q 005487          254 KCGCLEMAREVFEQTVL---KSVVAWNALIAGYSSRGDSKSCVKLFWRMNEEGIKPTLTTISSVLMSCSRSGQLKHGKVM  330 (694)
Q Consensus       254 ~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~  330 (694)
                      ..+++..|+.+|+....   .+...|-..+..-.++..+..|..++++....=...| ..|..-+..-...|++..|.++
T Consensus        85 sq~e~~RARSv~ERALdvd~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVd-qlWyKY~ymEE~LgNi~gaRqi  163 (677)
T KOG1915|consen   85 SQKEIQRARSVFERALDVDYRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVD-QLWYKYIYMEEMLGNIAGARQI  163 (677)
T ss_pred             hHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHH-HHHHHHHHHHHHhcccHHHHHH
Confidence            34444555555544332   2344444445555555555555555555444311111 1222222222344555555555


Q ss_pred             HHHHHHhcCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCC--CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC
Q 005487          331 HGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAENVFEKMS--KTDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPD  408 (694)
Q Consensus       331 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~m~~~g~~p~  408 (694)
                      |+.-.+.  .|+...+.+.++.-.+-...+.|..+++...  .|++.+|-.....--++|+...+..+|....+.  -.|
T Consensus       164 ferW~~w--~P~eqaW~sfI~fElRykeieraR~IYerfV~~HP~v~~wikyarFE~k~g~~~~aR~VyerAie~--~~~  239 (677)
T KOG1915|consen  164 FERWMEW--EPDEQAWLSFIKFELRYKEIERARSIYERFVLVHPKVSNWIKYARFEEKHGNVALARSVYERAIEF--LGD  239 (677)
T ss_pred             HHHHHcC--CCcHHHHHHHHHHHHHhhHHHHHHHHHHHHheecccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH--hhh
Confidence            5544332  4555555555555555555555555555433  355555555555555555555555555554442  111


Q ss_pred             HHHHHHHHHHH----cccCChHHHHHHHHHHHHhCCCC-ChhHHHHHHHHHHhcCChHHHHHHH--------hhCCC---
Q 005487          409 AVTFTSVLPAC----SQLAALEKGKEIHNHIIESKLET-NEIVMGALLDMYAKCGAVDEAFKVF--------NELPE---  472 (694)
Q Consensus       409 ~~~~~~ll~~~----~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~--------~~~~~---  472 (694)
                      ...-..+..++    .....++.|.-+|+..+++-... ....|..+...--+-|+.....+..        +...+   
T Consensus       240 d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v~~np  319 (677)
T KOG1915|consen  240 DEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEVSKNP  319 (677)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHHHHhCC
Confidence            22122222222    23445555555555555432111 1223333332222333332222211        11112   


Q ss_pred             CChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH-------hhHHHHHHHH---HccCCHHHHHHHHHHhHHhcCC
Q 005487          473 RDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDS-------ITFLALLSAC---SHAGWVDEGGYYFNLMISEYNI  542 (694)
Q Consensus       473 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~-------~~~~~l~~~~---~~~g~~~~A~~~~~~~~~~~~~  542 (694)
                      -|-.+|--.++.....|+.+...++|++++.. ++|-.       ..|..+=.+|   ....+.+.+.++++..+   .+
T Consensus       320 ~nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l---~l  395 (677)
T KOG1915|consen  320 YNYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACL---DL  395 (677)
T ss_pred             CCchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHH---hh
Confidence            13335555555555556666666666666654 34422       1111111111   23455666666666655   23


Q ss_pred             CCCh-----HHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHH
Q 005487          543 QPRN-----EHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYI  617 (694)
Q Consensus       543 ~p~~-----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~  617 (694)
                      -|..     ..|...+....++.++..|.+++-.+...-|...++...+..-.+.++++....++++-++-.|.+..+|.
T Consensus       396 IPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~cPK~KlFk~YIelElqL~efDRcRkLYEkfle~~Pe~c~~W~  475 (677)
T KOG1915|consen  396 IPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIGKCPKDKLFKGYIELELQLREFDRCRKLYEKFLEFSPENCYAWS  475 (677)
T ss_pred             cCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhcChHhhHHHH
Confidence            3431     12333344445566666666666666655566666666666666666666666666666666666666666


Q ss_pred             HHHHHHhhcCChHHHHHHHHHHHhCCCccCCceeEEEECCEEEEEEeCCCCCCChHHHHHHHHHHHH
Q 005487          618 VLSNMYASVKKWDEVRKIRLKMKELGLRKNPGCSWIEIGDRIQPFFAEDKFYPQADMVYECLAILAG  684 (694)
Q Consensus       618 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  684 (694)
                      ..+.+-...|+++.|..+|+.+.++...-.|..-|-.    ...|-...+-+..++.+|++|.+.++
T Consensus       476 kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwka----YIdFEi~~~E~ekaR~LYerlL~rt~  538 (677)
T KOG1915|consen  476 KYAELETSLGDTDRARAIFELAISQPALDMPELLWKA----YIDFEIEEGEFEKARALYERLLDRTQ  538 (677)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHH----hhhhhhhcchHHHHHHHHHHHHHhcc
Confidence            6666666666666666666666555443333322221    11233333455666666666655544

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

Probab=99.66  E-value=2.8e-13  Score=126.12  Aligned_cols=415  Identities=11%  Similarity=0.048  Sum_probs=260.6

Q ss_pred             CChhHHHHHHHHHHHhCCCCchhHH-HHHHHhhHhcCChHHHHHHHhcCCC----CC----hhHHHHHHHHHHcCCCchH
Q 005487          221 MDLDRGKEIHKEFIKDGFVSDSYIS-SALVDMYGKCGCLEMAREVFEQTVL----KS----VVAWNALIAGYSSRGDSKS  291 (694)
Q Consensus       221 ~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~g~~~~A~~~~~~~~~----~~----~~~~~~li~~~~~~~~~~~  291 (694)
                      ....+|...++-+++....|+.... ..+.+.+.+...+.+|+++++-...    .+    +...+.+...+.+.|+++.
T Consensus       215 dm~~ealntyeiivknkmf~nag~lkmnigni~~kkr~fskaikfyrmaldqvpsink~~rikil~nigvtfiq~gqy~d  294 (840)
T KOG2003|consen  215 DMTAEALNTYEIIVKNKMFPNAGILKMNIGNIHFKKREFSKAIKFYRMALDQVPSINKDMRIKILNNIGVTFIQAGQYDD  294 (840)
T ss_pred             HHHHHHhhhhhhhhcccccCCCceeeeeecceeeehhhHHHHHHHHHHHHhhccccchhhHHHHHhhcCeeEEecccchh
Confidence            3445556666666655555554332 2344555666666666666543321    11    1223333445666677777


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChhhhHHHHHHHHHhcCCC------------chhHHHHH-----HHHHH
Q 005487          292 CVKLFWRMNEEGIKPTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQG------------DVFINSSL-----IDLYF  354 (694)
Q Consensus       292 a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~------------~~~~~~~l-----~~~~~  354 (694)
                      |+..|+...+.  .|+..+-..++-.+.-.|+.++..+.|..+......+            +....+.-     +.-.-
T Consensus       295 ainsfdh~m~~--~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~~~ll~eai~nd~lk~~e  372 (840)
T KOG2003|consen  295 AINSFDHCMEE--APNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPDDNLLNEAIKNDHLKNME  372 (840)
T ss_pred             hHhhHHHHHHh--CccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcchHHHHHHHhhHHHHHHH
Confidence            77777666654  4666555555555556666666666666665432222            22222211     11111


Q ss_pred             hcC--CHHHHHHHHhcCC----CCChh-------------HHH--------HHHHHHHhcCChHHHHHHHHHHHHcCCCC
Q 005487          355 KCG--RVSSAENVFEKMS----KTDVV-------------YWN--------VMISGYVTVGDYFKALAIYSDMKEVGAKP  407 (694)
Q Consensus       355 ~~~--~~~~A~~~~~~~~----~~~~~-------------~~~--------~l~~~~~~~~~~~~A~~~~~~m~~~g~~p  407 (694)
                      +.+  +.++++-.-.++.    .|+..             .+.        .-...+.++|+++.|+++++-+.+..-+.
T Consensus       373 k~~ka~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~la~dlei~ka~~~lk~~d~~~aieilkv~~~kdnk~  452 (840)
T KOG2003|consen  373 KENKADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLKASQHAELAIDLEINKAGELLKNGDIEGAIEILKVFEKKDNKT  452 (840)
T ss_pred             HhhhhhHHHHHHHHHHHhccccccchhcccHHHHHHHHHhhhhhhhhhhhhhHHHHHHhccCHHHHHHHHHHHHhccchh
Confidence            111  1222222111221    22210             010        11234778999999999999887754333


Q ss_pred             CHHHHHHH--HHHHcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCCCChHHHHHH---H
Q 005487          408 DAVTFTSV--LPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPERDLVSWTSM---I  482 (694)
Q Consensus       408 ~~~~~~~l--l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l---~  482 (694)
                      -...-+.|  +.-.-...++..|.++-+..+..+ ..+......-...-...|+++.|.+.|.+....|...-.+|   .
T Consensus       453 ~saaa~nl~~l~flqggk~~~~aqqyad~aln~d-ryn~~a~~nkgn~~f~ngd~dka~~~ykeal~ndasc~ealfnig  531 (840)
T KOG2003|consen  453 ASAAANNLCALRFLQGGKDFADAQQYADIALNID-RYNAAALTNKGNIAFANGDLDKAAEFYKEALNNDASCTEALFNIG  531 (840)
T ss_pred             hHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc-ccCHHHhhcCCceeeecCcHHHHHHHHHHHHcCchHHHHHHHHhc
Confidence            22222222  222222446777777766665433 22333333333344567999999999999998776644443   4


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCH
Q 005487          483 AAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRL  562 (694)
Q Consensus       483 ~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~  562 (694)
                      -.+-..|+.++|++.|-++... +..+...+..+...|....+...|++++.+...  -++.|+..+..|++.|-+.|+.
T Consensus       532 lt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~~~q~~s--lip~dp~ilskl~dlydqegdk  608 (840)
T KOG2003|consen  532 LTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIELLMQANS--LIPNDPAILSKLADLYDQEGDK  608 (840)
T ss_pred             ccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhcc--cCCCCHHHHHHHHHHhhcccch
Confidence            4577889999999999888764 355778888899999999999999999988762  3444578999999999999999


Q ss_pred             HHHHHHHHhCCCC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHHHHh
Q 005487          563 QEAYGILQSTPEI-REDAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKE  641 (694)
Q Consensus       563 ~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  641 (694)
                      .+|.+..-..-+. +.+..+..-++..|....=.++|+.+++++--+.|+....-..++.++.+.|++.+|.++++..-.
T Consensus       609 sqafq~~ydsyryfp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp~~~kwqlmiasc~rrsgnyqka~d~yk~~hr  688 (840)
T KOG2003|consen  609 SQAFQCHYDSYRYFPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHR  688 (840)
T ss_pred             hhhhhhhhhcccccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCccHHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            9999887665554 445666666677777777889999999999989997766666677788889999999999987653

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

Probab=99.63  E-value=2.7e-10  Score=111.43  Aligned_cols=198  Identities=8%  Similarity=0.096  Sum_probs=116.3

Q ss_pred             hhCCCChhhHhHHHHHHHHhCCCCCchhhhHHHHHHhcCCChhHHHHHHhhC----CC-CCchhhHHHHHHHHHccCChh
Q 005487           13 CTGSKSLKEGKIIHQKVVTLGLQNNIALCKSLINLYFSCQNYDYAMLVFKTI----DN-PLDLSLWNGLMASYTKNYMYI   87 (694)
Q Consensus        13 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~   87 (694)
                      |..+..+.+.+.+|++.+-.= +.=+.++...+....++|++......|+..    +- .... .|...+....+.+-++
T Consensus        78 ~~T~~~~~~vn~c~er~lv~m-HkmpRIwl~Ylq~l~~Q~~iT~tR~tfdrALraLpvtqH~r-IW~lyl~Fv~~~~lPe  155 (835)
T KOG2047|consen   78 CPTDPAYESVNNCFERCLVFM-HKMPRIWLDYLQFLIKQGLITRTRRTFDRALRALPVTQHDR-IWDLYLKFVESHGLPE  155 (835)
T ss_pred             CCCChHHHHHHHHHHHHHHHH-hcCCHHHHHHHHHHHhcchHHHHHHHHHHHHHhCchHhhcc-chHHHHHHHHhCCChH
Confidence            344556666677777665432 344566777777777777777777777764    21 1222 5666777667777777


Q ss_pred             HHHHHHHHhhhCCCCCCCcccHHHHHHHhhCCCCchhHHHHHHHHHHHc------CCCchhHHHHHHHhhhcCCC---hH
Q 005487           88 TALELFDMLLQNPYLKPDSYTYPSVLKACGGLGSVGIGKMIHTHLIKTG------FLLDVVIASSTAGMYAKCNS---FE  158 (694)
Q Consensus        88 ~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~l~~~~~~~g~---~~  158 (694)
                      -++.+|+..++.   .|.  .-...+..++..++.++|.+.+..++...      .+.+...|.-+....++.-+   --
T Consensus       156 ts~rvyrRYLk~---~P~--~~eeyie~L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~sl  230 (835)
T KOG2047|consen  156 TSIRVYRRYLKV---APE--AREEYIEYLAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSL  230 (835)
T ss_pred             HHHHHHHHHHhc---CHH--HHHHHHHHHHhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhccc
Confidence            777777777654   222  25555666667777777777777665432      12334445544444443321   11


Q ss_pred             HHHHHhccCCC--CC--cccHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhc
Q 005487          159 CAVKMFDEMSE--RD--VASWNTVISCYYQDGQAEKALELFKKMRGSGFQPNSVTLTTVISSCAR  219 (694)
Q Consensus       159 ~A~~~~~~~~~--~~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~  219 (694)
                      ....+++.+..  +|  ...|.+|...|.+.|.+++|.++|++..+.  ..+...|..+..+|+.
T Consensus       231 nvdaiiR~gi~rftDq~g~Lw~SLAdYYIr~g~~ekarDvyeeai~~--v~tvrDFt~ifd~Ya~  293 (835)
T KOG2047|consen  231 NVDAIIRGGIRRFTDQLGFLWCSLADYYIRSGLFEKARDVYEEAIQT--VMTVRDFTQIFDAYAQ  293 (835)
T ss_pred             CHHHHHHhhcccCcHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHh--heehhhHHHHHHHHHH
Confidence            12223333322  22  235777788888888888888888777654  3444456666666654

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

Probab=99.61  E-value=1.4e-11  Score=115.55  Aligned_cols=328  Identities=11%  Similarity=0.043  Sum_probs=223.9

Q ss_pred             CCCHHHHHHHHHHhhccCChhhhHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCCh-hHHHHHHHH
Q 005487          305 KPTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAENVFEKMSKTDV-VYWNVMISG  383 (694)
Q Consensus       305 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~l~~~  383 (694)
                      .-|...+..........|....|...+...+..    -+..|.+.+....-..+.+.+..+...+...+. ..--.+..+
T Consensus       161 ~~D~fllYL~Gvv~k~~~~~s~A~~sfv~~v~~----~P~~W~AWleL~~lit~~e~~~~l~~~l~~~~h~M~~~F~~~a  236 (559)
T KOG1155|consen  161 EKDEFLLYLYGVVLKELGLLSLAIDSFVEVVNR----YPWFWSAWLELSELITDIEILSILVVGLPSDMHWMKKFFLKKA  236 (559)
T ss_pred             cchhHHHHHHHHHHHhhchHHHHHHHHHHHHhc----CCcchHHHHHHHHhhchHHHHHHHHhcCcccchHHHHHHHHHH
Confidence            334433333334445556666666666554432    122333333333333333333333333332211 111223445


Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcccCChHHHHHHHHHHHHhCCC--CChhHHHHHHHHHHhcCChH
Q 005487          384 YVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIESKLE--TNEIVMGALLDMYAKCGAVD  461 (694)
Q Consensus       384 ~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~  461 (694)
                      +......+++..-.......|.+.+...-+....+.....|+++|+.+|+++.+.++-  .+..+|..++.+-..+..+.
T Consensus       237 ~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skLs  316 (559)
T KOG1155|consen  237 YQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKLS  316 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHHH
Confidence            5555677777777777777776655555555555666788888999999888876421  24556665553322222221


Q ss_pred             HHHHHHhhCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHHHHccCCHHHHHHHHHHhHHhc
Q 005487          462 EAFKVFNELPERDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPD-SITFLALLSACSHAGWVDEGGYYFNLMISEY  540 (694)
Q Consensus       462 ~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  540 (694)
                      ---...-.+.+--+.|.-.+..-|.-.++.++|..+|++..+.  .|. ...|..+..-|....+...|+..++.++   
T Consensus       317 ~LA~~v~~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkL--Np~~~~aWTLmGHEyvEmKNt~AAi~sYRrAv---  391 (559)
T KOG1155|consen  317 YLAQNVSNIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKL--NPKYLSAWTLMGHEYVEMKNTHAAIESYRRAV---  391 (559)
T ss_pred             HHHHHHHHhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhc--CcchhHHHHHhhHHHHHhcccHHHHHHHHHHH---
Confidence            1111111222223345555667778888999999999999996  455 5677777889999999999999999998   


Q ss_pred             CCCC-ChHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHH
Q 005487          541 NIQP-RNEHYSCLIDLLGRAGRLQEAYGILQSTPEIRE-DAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIV  618 (694)
Q Consensus       541 ~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~  618 (694)
                      .+.| |-..|..|+++|.-.+.+.-|+-+|+++.+..| |+..|..++..|.+.++.++|+..+.+++..+..+..++..
T Consensus       392 di~p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~~~l~~  471 (559)
T KOG1155|consen  392 DINPRDYRAWYGLGQAYEIMKMHFYALYYFQKALELKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEGSALVR  471 (559)
T ss_pred             hcCchhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccccchHHHHH
Confidence            5566 466999999999999999999999999999777 57899999999999999999999999999999888899999


Q ss_pred             HHHHHhhcCChHHHHHHHHHHHh
Q 005487          619 LSNMYASVKKWDEVRKIRLKMKE  641 (694)
Q Consensus       619 l~~~~~~~g~~~~A~~~~~~~~~  641 (694)
                      |+.+|.+.++.++|...+++-.+
T Consensus       472 LakLye~l~d~~eAa~~yek~v~  494 (559)
T KOG1155|consen  472 LAKLYEELKDLNEAAQYYEKYVE  494 (559)
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHH
Confidence            99999999999999999988654

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

Probab=99.61  E-value=5.9e-11  Score=111.50  Aligned_cols=360  Identities=15%  Similarity=0.139  Sum_probs=245.5

Q ss_pred             CCchhHHHHHHHhhHhcCChHHHHHHHhcCCCCChhHHHHHHHHHHcCCCchHHHHHHHHHHHCCCCCCHHHHH--HHHH
Q 005487          239 VSDSYISSALVDMYGKCGCLEMAREVFEQTVLKSVVAWNALIAGYSSRGDSKSCVKLFWRMNEEGIKPTLTTIS--SVLM  316 (694)
Q Consensus       239 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~--~ll~  316 (694)
                      ..|...+-.....+...|....|+..|......-+..|.+.+....-..+.+.+..    +.. |.+.|...+.  .+..
T Consensus       161 ~~D~fllYL~Gvv~k~~~~~s~A~~sfv~~v~~~P~~W~AWleL~~lit~~e~~~~----l~~-~l~~~~h~M~~~F~~~  235 (559)
T KOG1155|consen  161 EKDEFLLYLYGVVLKELGLLSLAIDSFVEVVNRYPWFWSAWLELSELITDIEILSI----LVV-GLPSDMHWMKKFFLKK  235 (559)
T ss_pred             cchhHHHHHHHHHHHhhchHHHHHHHHHHHHhcCCcchHHHHHHHHhhchHHHHHH----HHh-cCcccchHHHHHHHHH
Confidence            44444444445556677778888888877665545555444433222222222222    111 2222222211  2334


Q ss_pred             HhhccCChhhhHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCCh------hHHHHHHHHHHhcCCh
Q 005487          317 SCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAENVFEKMSKTDV------VYWNVMISGYVTVGDY  390 (694)
Q Consensus       317 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~------~~~~~l~~~~~~~~~~  390 (694)
                      ++......+.+..-.+.....|++.+...-+....+.-...++++|+.+|+++.+.|+      .+|..++  |++..+.
T Consensus       236 a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~L--Yv~~~~s  313 (559)
T KOG1155|consen  236 AYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVL--YVKNDKS  313 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHH--HHHhhhH
Confidence            4555567777777777777778777777777777777788888899999888876544      4555544  3333222


Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhC
Q 005487          391 FKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNEL  470 (694)
Q Consensus       391 ~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  470 (694)
                      .  +..+-+-.-.--+-.+.|...+.+-|+-.++.++|..+|++.++.+ +.....|+.++.-|...++...|.+.++..
T Consensus       314 k--Ls~LA~~v~~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLN-p~~~~aWTLmGHEyvEmKNt~AAi~sYRrA  390 (559)
T KOG1155|consen  314 K--LSYLAQNVSNIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLN-PKYLSAWTLMGHEYVEMKNTHAAIESYRRA  390 (559)
T ss_pred             H--HHHHHHHHHHhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcC-cchhHHHHHhhHHHHHhcccHHHHHHHHHH
Confidence            1  2222221111113345566777777888889999999999998876 456778888999999999999999999988


Q ss_pred             CC---CChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChH
Q 005487          471 PE---RDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNE  547 (694)
Q Consensus       471 ~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~  547 (694)
                      .+   .|-..|..|.++|...+.+.-|+-+|++..... +.|+..+..|..+|.+.++.++|++.|.....- + +.+..
T Consensus       391 vdi~p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~k-PnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~-~-dte~~  467 (559)
T KOG1155|consen  391 VDINPRDYRAWYGLGQAYEIMKMHFYALYYFQKALELK-PNDSRLWVALGECYEKLNRLEEAIKCYKRAILL-G-DTEGS  467 (559)
T ss_pred             HhcCchhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHhccHHHHHHHHHHHHhc-c-ccchH
Confidence            77   566789999999999999999999999999852 345789999999999999999999999998832 2 33557


Q ss_pred             HHHHHHHHhhhcCCHHHHHHHHHhCCC-------CCCCH-HHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC
Q 005487          548 HYSCLIDLLGRAGRLQEAYGILQSTPE-------IREDA-GLLSTLFSACRLHRDIEMGEKIAKLLIEKDPD  611 (694)
Q Consensus       548 ~~~~l~~~~~~~g~~~~A~~~~~~~~~-------~~p~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~  611 (694)
                      .+..|+++|.+.++.++|...+++..+       ..|.. ....-|...+.+.+++++|.....++..-+|.
T Consensus       468 ~l~~LakLye~l~d~~eAa~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~~~~~~e  539 (559)
T KOG1155|consen  468 ALVRLAKLYEELKDLNEAAQYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYYATLVLKGETE  539 (559)
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHHHHHHhcCCch
Confidence            888999999999999999999987554       22221 22223455567789999999988888766544

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.61  E-value=9.3e-13  Score=132.37  Aligned_cols=276  Identities=12%  Similarity=0.074  Sum_probs=186.1

Q ss_pred             cCCHHHHHHHHhcCCCC--Chh-HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHH--HHHHHHcccCChHHHHH
Q 005487          356 CGRVSSAENVFEKMSKT--DVV-YWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFT--SVLPACSQLAALEKGKE  430 (694)
Q Consensus       356 ~~~~~~A~~~~~~~~~~--~~~-~~~~l~~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~--~ll~~~~~~~~~~~a~~  430 (694)
                      .|+++.|++.+....+.  ++. .+........+.|+++.|...+.++.+.  .|+.....  .....+...|+++.|..
T Consensus        97 eGd~~~A~k~l~~~~~~~~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~--~~~~~~~~~l~~a~l~l~~g~~~~Al~  174 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHAEQPVVNYLLAAEAAQQRGDEARANQHLERAAEL--ADNDQLPVEITRVRIQLARNENHAARH  174 (398)
T ss_pred             CCCHHHHHHHHHHHHhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHHCCCHHHHHH
Confidence            57777777766655432  222 2333334446778888888888777764  44443222  22456677788888888


Q ss_pred             HHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCC---CChH--------HHHHHHHHHHhcCCHHHHHHHHH
Q 005487          431 IHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPE---RDLV--------SWTSMIAAYGSHGRALEALKLFG  499 (694)
Q Consensus       431 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~--------~~~~l~~~~~~~~~~~~A~~~~~  499 (694)
                      .++.+.+.. |.++.....+..+|.+.|++++|.+++..+.+   .+..        +|..++.......+.+...++++
T Consensus       175 ~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~  253 (398)
T PRK10747        175 GVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWK  253 (398)
T ss_pred             HHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            888777765 44566777777888888888888877777765   1111        23333444444455666666777


Q ss_pred             HHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCC-
Q 005487          500 EMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIRED-  578 (694)
Q Consensus       500 ~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-  578 (694)
                      .+... .+.++.....+...+...|+.++|...+++..+   ..|++....  .......++.+++++.+++..+..|+ 
T Consensus       254 ~lp~~-~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~---~~~~~~l~~--l~~~l~~~~~~~al~~~e~~lk~~P~~  327 (398)
T PRK10747        254 NQSRK-TRHQVALQVAMAEHLIECDDHDTAQQIILDGLK---RQYDERLVL--LIPRLKTNNPEQLEKVLRQQIKQHGDT  327 (398)
T ss_pred             hCCHH-HhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh---cCCCHHHHH--HHhhccCCChHHHHHHHHHHHhhCCCC
Confidence            66544 244677777888888888888888888888873   345554332  23333458888888888887776665 


Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHHHHh
Q 005487          579 AGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKE  641 (694)
Q Consensus       579 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  641 (694)
                      +..+..++..|...+++++|.+.++++++..|++ ..+..++.++.+.|+.++|.+++++-..
T Consensus       328 ~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~~-~~~~~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        328 PLLWSTLGQLLMKHGEWQEASLAFRAALKQRPDA-YDYAWLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCH-HHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            4567788888888888888888888888888864 4566788888888888888888886543

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

Probab=99.60  E-value=9.2e-14  Score=136.36  Aligned_cols=277  Identities=15%  Similarity=0.110  Sum_probs=218.7

Q ss_pred             CHHHHHHHHhcCCC--C-ChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCC--CCCHHHHHHHHHHHcccCChHHHHHH-
Q 005487          358 RVSSAENVFEKMSK--T-DVVYWNVMISGYVTVGDYFKALAIYSDMKEVGA--KPDAVTFTSVLPACSQLAALEKGKEI-  431 (694)
Q Consensus       358 ~~~~A~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~A~~~~~~m~~~g~--~p~~~~~~~ll~~~~~~~~~~~a~~~-  431 (694)
                      +..+|...|..++.  . .......+..+|...+++++|.++|+.+.+...  .-+...|.+.+..+-+    +-+... 
T Consensus       334 ~~~~A~~~~~klp~h~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~----~v~Ls~L  409 (638)
T KOG1126|consen  334 NCREALNLFEKLPSHHYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQD----EVALSYL  409 (638)
T ss_pred             HHHHHHHHHHhhHHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHh----hHHHHHH
Confidence            45678888887553  2 334556778889999999999999999887521  1245667776654321    112222 


Q ss_pred             HHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCCCC---hHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC
Q 005487          432 HNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPERD---LVSWTSMIAAYGSHGRALEALKLFGEMQQSNARP  508 (694)
Q Consensus       432 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p  508 (694)
                      -+.+.+.. +..+.+|.++..+|.-+++.+.|++.|++...-|   ..+|+.+..=+.....+|.|...|+..+.-  .|
T Consensus       410 aq~Li~~~-~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~--~~  486 (638)
T KOG1126|consen  410 AQDLIDTD-PNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPRFAYAYTLLGHESIATEEFDKAMKSFRKALGV--DP  486 (638)
T ss_pred             HHHHHhhC-CCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCccchhhhhcCChhhhhHHHHhHHHHHHhhhcC--Cc
Confidence            23333333 6678999999999999999999999999998844   457888888888889999999999998874  44


Q ss_pred             C-HhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChH-HHHHHHHHhhhcCCHHHHHHHHHhCCCCCC-CHHHHHHH
Q 005487          509 D-SITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNE-HYSCLIDLLGRAGRLQEAYGILQSTPEIRE-DAGLLSTL  585 (694)
Q Consensus       509 ~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l  585 (694)
                      . -..|..+...|.++++++.|.-.|+++.   .+.|... ....++..+.+.|+.|+|+.+++++...+| ++..-..-
T Consensus       487 rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~---~INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~~  563 (638)
T KOG1126|consen  487 RHYNAWYGLGTVYLKQEKLEFAEFHFQKAV---EINPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYHR  563 (638)
T ss_pred             hhhHHHHhhhhheeccchhhHHHHHHHhhh---cCCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHHH
Confidence            3 4677777889999999999999999998   7788744 567788999999999999999999887666 45555566


Q ss_pred             HHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHHHHhCCC
Q 005487          586 FSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELGL  644 (694)
Q Consensus       586 ~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  644 (694)
                      +..+...+++++|...++++.++-|++..++..+|.+|.+.|+.+.|+.-|.-+.+..+
T Consensus       564 ~~il~~~~~~~eal~~LEeLk~~vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~ldp  622 (638)
T KOG1126|consen  564 ASILFSLGRYVEALQELEELKELVPQESSVFALLGKIYKRLGNTDLALLHFSWALDLDP  622 (638)
T ss_pred             HHHHHhhcchHHHHHHHHHHHHhCcchHHHHHHHHHHHHHHccchHHHHhhHHHhcCCC
Confidence            77788889999999999999999999999999999999999999999999988876554

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

Probab=99.60  E-value=2.4e-13  Score=133.49  Aligned_cols=249  Identities=14%  Similarity=0.098  Sum_probs=199.2

Q ss_pred             ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcccCChHHHHHHHHHHHHhCCC--CChhHHHHHHHHHHhcCChHHHHHH
Q 005487          389 DYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIESKLE--TNEIVMGALLDMYAKCGAVDEAFKV  466 (694)
Q Consensus       389 ~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~  466 (694)
                      +..+|+..|.++... +.........+..+|...++++++..+|+.+.+...-  -+..+|...+--+-+.-...---+-
T Consensus       334 ~~~~A~~~~~klp~h-~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~Laq~  412 (638)
T KOG1126|consen  334 NCREALNLFEKLPSH-HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLAQD  412 (638)
T ss_pred             HHHHHHHHHHhhHHh-cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHHHH
Confidence            567899999985544 3444566677888999999999999999999775311  2455565554322211111111111


Q ss_pred             HhhCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-CHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCC
Q 005487          467 FNELPERDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARP-DSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPR  545 (694)
Q Consensus       467 ~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~  545 (694)
                      +-......+.+|-++...|.-+++.+.|++.|++.++.  .| ...+|..+..-+.....+|.|...|+.++   ++.|.
T Consensus       413 Li~~~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQl--dp~faYayTLlGhE~~~~ee~d~a~~~fr~Al---~~~~r  487 (638)
T KOG1126|consen  413 LIDTDPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQL--DPRFAYAYTLLGHESIATEEFDKAMKSFRKAL---GVDPR  487 (638)
T ss_pred             HHhhCCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhcc--CCccchhhhhcCChhhhhHHHHhHHHHHHhhh---cCCch
Confidence            11222356789999999999999999999999999995  56 47888888888999999999999999998   66666


Q ss_pred             hH-HHHHHHHHhhhcCCHHHHHHHHHhCCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHH
Q 005487          546 NE-HYSCLIDLLGRAGRLQEAYGILQSTPEIRED-AGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMY  623 (694)
Q Consensus       546 ~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~  623 (694)
                      .. .|.-++-.|.++++++.|.-.|+++.++.|. .++...++..+.+.|+.++|+.++++++.++|.|+-.-+.-+.++
T Consensus       488 hYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~~~~il  567 (638)
T KOG1126|consen  488 HYNAWYGLGTVYLKQEKLEFAEFHFQKAVEINPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYHRASIL  567 (638)
T ss_pred             hhHHHHhhhhheeccchhhHHHHHHHhhhcCCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHHHHHHH
Confidence            43 7778899999999999999999999998886 456778888899999999999999999999999999999999999


Q ss_pred             hhcCChHHHHHHHHHHHhCC
Q 005487          624 ASVKKWDEVRKIRLKMKELG  643 (694)
Q Consensus       624 ~~~g~~~~A~~~~~~~~~~~  643 (694)
                      ...+++++|+..++++++.-
T Consensus       568 ~~~~~~~eal~~LEeLk~~v  587 (638)
T KOG1126|consen  568 FSLGRYVEALQELEELKELV  587 (638)
T ss_pred             HhhcchHHHHHHHHHHHHhC
Confidence            99999999999999998644

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

Probab=99.60  E-value=1.1e-11  Score=125.23  Aligned_cols=512  Identities=12%  Similarity=0.072  Sum_probs=274.8

Q ss_pred             HHHhhhCCCCCCCcccHHHHHHHhhCCCCchhHHHHHHHHHHHcCCCchhHHHHHHHhhhcCCChHHHHHHhccCCCCCc
Q 005487           93 FDMLLQNPYLKPDSYTYPSVLKACGGLGSVGIGKMIHTHLIKTGFLLDVVIASSTAGMYAKCNSFECAVKMFDEMSERDV  172 (694)
Q Consensus        93 ~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  172 (694)
                      +-.+... |+.|+..||..++..|+..|+.+.|- +|..|.-...+.+...++.++......++.+.+.       +|.+
T Consensus        13 la~~e~~-gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-------ep~a   83 (1088)
T KOG4318|consen   13 LALHEIS-GILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-------EPLA   83 (1088)
T ss_pred             HHHHHHh-cCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC-------CCch
Confidence            3344444 66777777777777777777776666 6666666666666666666666666666655544       5566


Q ss_pred             ccHHHHHHHHHhCCChhHHHHHHHH-HH-------hCC-----------------CCCChhhHHHHHHHHhccCChhHHH
Q 005487          173 ASWNTVISCYYQDGQAEKALELFKK-MR-------GSG-----------------FQPNSVTLTTVISSCARLMDLDRGK  227 (694)
Q Consensus       173 ~~~~~li~~~~~~~~~~~a~~~~~~-m~-------~~~-----------------~~~~~~~~~~ll~~~~~~~~~~~a~  227 (694)
                      .+|..|..+|.+.||... ++..++ |.       ..|                 .-||..+   ++......|-++.+.
T Consensus        84 Dtyt~Ll~ayr~hGDli~-fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n---~illlv~eglwaqll  159 (1088)
T KOG4318|consen   84 DTYTNLLKAYRIHGDLIL-FEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAEN---AILLLVLEGLWAQLL  159 (1088)
T ss_pred             hHHHHHHHHHHhccchHH-HHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHH---HHHHHHHHHHHHHHH
Confidence            677777777777766543 121111 11       112                 1222221   111112222333333


Q ss_pred             HHHHHHHHhCCCCchhHHHHHHHhh-HhcCChHHHHHHHhcCCC-CChhHHHHHHHHHHcCCCchHHHHHHHHHHHCCCC
Q 005487          228 EIHKEFIKDGFVSDSYISSALVDMY-GKCGCLEMAREVFEQTVL-KSVVAWNALIAGYSSRGDSKSCVKLFWRMNEEGIK  305 (694)
Q Consensus       228 ~~~~~~~~~~~~~~~~~~~~l~~~~-~~~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~  305 (694)
                      +++..+...... .+...  .++-+ .....+++-..+-+.... +++.+|.+++.+-..+|+.+.|..++..|++.|.+
T Consensus       160 kll~~~Pvsa~~-~p~~v--fLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfp  236 (1088)
T KOG4318|consen  160 KLLAKVPVSAWN-APFQV--FLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFP  236 (1088)
T ss_pred             HHHhhCCccccc-chHHH--HHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCC
Confidence            333222111000 01111  12222 222344555555555444 78999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHhhccCChhhhHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHH
Q 005487          306 PTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAENVFEKMSKTDVVYWNVMISGYV  385 (694)
Q Consensus       306 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~  385 (694)
                      .+.+-|..++-+   .++...++.++..|...|+.|+..|+.-.+..+...|....+.+.     .+....+++-+..-+
T Consensus       237 ir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~t~~~~e~-----sq~~hg~tAavrsaa  308 (1088)
T KOG4318|consen  237 IRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQTKYGEEG-----SQLAHGFTAAVRSAA  308 (1088)
T ss_pred             cccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchhhhhcccc-----cchhhhhhHHHHHHH
Confidence            999988888866   888899999999999999999999999888887775553322222     122222222222222


Q ss_pred             hcC-----ChH-----HHHHHHHHHHHcCCCCCHHHHHHHHHHHcccCChHHHHHHHHHHHHhCCC---CChhHHHHHHH
Q 005487          386 TVG-----DYF-----KALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIESKLE---TNEIVMGALLD  452 (694)
Q Consensus       386 ~~~-----~~~-----~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~~l~~  452 (694)
                      -.|     +.+     -....+++..-.|.......|...... ...|.-+...++-..+......   .++..+..++.
T Consensus       309 ~rg~~a~k~l~~nl~~~v~~s~k~~fLlg~d~~~aiws~c~~l-~hQgk~e~veqlvg~l~npt~r~s~~~V~a~~~~lr  387 (1088)
T KOG4318|consen  309 CRGLLANKRLRQNLRKSVIGSTKKLFLLGTDILEAIWSMCEKL-RHQGKGEEVEQLVGQLLNPTLRDSGQNVDAFGALLR  387 (1088)
T ss_pred             hcccHhHHHHHHHHHHHHHHHhhHHHHhccccchHHHHHHHHH-HHcCCCchHHHHHhhhcCCccccCcchHHHHHHHHH
Confidence            223     111     122222222223433333333332222 2256666666665555322111   12333333333


Q ss_pred             HHHhcCChHHHHHHHhhCCCCChH-HHH---------------HHHHHHHhcCCHHHHHHHHHHHHHcC----CCC----
Q 005487          453 MYAKCGAVDEAFKVFNELPERDLV-SWT---------------SMIAAYGSHGRALEALKLFGEMQQSN----ARP----  508 (694)
Q Consensus       453 ~~~~~g~~~~A~~~~~~~~~~~~~-~~~---------------~l~~~~~~~~~~~~A~~~~~~~~~~~----~~p----  508 (694)
                      -|.            .+...+... .++               .+.....+ -+...+++-+..+....    ..|    
T Consensus       388 qyF------------rr~e~~~~~~i~~~~qgls~~l~se~tp~vsell~~-lrkns~lr~lv~Lss~Eler~he~~~~~  454 (1088)
T KOG4318|consen  388 QYF------------RRIERHICSRIYYAGQGLSLNLNSEDTPRVSELLEN-LRKNSFLRQLVGLSSTELERSHEPWPLI  454 (1088)
T ss_pred             HHH------------HHHHhhHHHHHHHHHHHHHhhhchhhhHHHHHHHHH-hCcchHHHHHhhhhHHHHhcccccchhh
Confidence            332            222221111 000               01111111 12222222221111110    111    


Q ss_pred             ---CHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHHHHHHHHhCCC----CCCCHHH
Q 005487          509 ---DSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPE----IREDAGL  581 (694)
Q Consensus       509 ---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~p~~~~  581 (694)
                         =...-+.++..|...-+..++...-+... ..-+   +..|..|++.+....+.+.|..+.++...    ..-+...
T Consensus       455 ~h~irdi~~ql~l~l~se~n~lK~l~~~ekye-~~lf---~g~ya~Li~l~~~hdkle~Al~~~~e~d~~d~s~~Ld~~~  530 (1088)
T KOG4318|consen  455 AHLIRDIANQLHLTLNSEYNKLKILCDEEKYE-DLLF---AGLYALLIKLMDLHDKLEYALSFVDEIDTRDESIHLDLPL  530 (1088)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHh---hhHHHHHhhhHHHHHHHHHHHhchhhhcccchhhhcccHh
Confidence               11233444445555555555554444333 1111   25677888888888889999988888763    2223445


Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhcC---CCCCccHHHHHHHHhhcCChHHHHHHHHHHHhCCCcc
Q 005487          582 LSTLFSACRLHRDIEMGEKIAKLLIEKD---PDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELGLRK  646 (694)
Q Consensus       582 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~---p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  646 (694)
                      +..+.....+.+....+..+++...+.-   |.-......+.......|+.+.-.+..+-+...|+..
T Consensus       531 m~~l~dLL~r~~~l~dl~tiL~e~ks~a~n~~~~a~~~f~~lns~a~agqqe~Lkkl~d~lvslgl~e  598 (1088)
T KOG4318|consen  531 MTSLQDLLQRLAILYDLSTILYEDKSSAENEPLVAIILFPLLNSGAPAGQQEKLKKLADILVSLGLSE  598 (1088)
T ss_pred             HHHHHHHHHHhHHHHHHHHHHhhhhHHhhCCchHHHHHHHHHhhhhhccCHHHHHHHHHHHHHhhhhh
Confidence            6667777778888888888877766532   3233445555666667788888888888888777755

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

Probab=99.59  E-value=5.1e-12  Score=121.64  Aligned_cols=252  Identities=15%  Similarity=0.081  Sum_probs=131.4

Q ss_pred             HHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHH
Q 005487          383 GYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDE  462 (694)
Q Consensus       383 ~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  462 (694)
                      -+...+++.+..++++...+.. ++....+..-|.++...|+..+-..+-..+++. .|..+.+|-+++--|...|+..+
T Consensus       253 ~~y~~c~f~~c~kit~~lle~d-pfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~-yP~~a~sW~aVg~YYl~i~k~se  330 (611)
T KOG1173|consen  253 RLYYGCRFKECLKITEELLEKD-PFHLPCLPLHIACLYELGKSNKLFLLSHKLVDL-YPSKALSWFAVGCYYLMIGKYSE  330 (611)
T ss_pred             HHHHcChHHHHHHHhHHHHhhC-CCCcchHHHHHHHHHHhcccchHHHHHHHHHHh-CCCCCcchhhHHHHHHHhcCcHH
Confidence            3334445555555555544432 223333333333444444444444443344333 24445555555555555566666


Q ss_pred             HHHHHhhCCCCC---hHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHh
Q 005487          463 AFKVFNELPERD---LVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISE  539 (694)
Q Consensus       463 A~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  539 (694)
                      |.+.|.+...-|   ...|-..+.+|.-.|..++|+..+..+.+. ++-....+..+.--|.+.+++.-|.++|.++.  
T Consensus       331 ARry~SKat~lD~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl-~~G~hlP~LYlgmey~~t~n~kLAe~Ff~~A~--  407 (611)
T KOG1173|consen  331 ARRYFSKATTLDPTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARL-MPGCHLPSLYLGMEYMRTNNLKLAEKFFKQAL--  407 (611)
T ss_pred             HHHHHHHHhhcCccccHHHHHHhHHhhhcchHHHHHHHHHHHHHh-ccCCcchHHHHHHHHHHhccHHHHHHHHHHHH--
Confidence            666665554422   235666666666666666666666555543 12222333334444555666666666666655  


Q ss_pred             cCCCCC-hHHHHHHHHHhhhcCCHHHHHHHHHhCCC----CCC----CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Q 005487          540 YNIQPR-NEHYSCLIDLLGRAGRLQEAYGILQSTPE----IRE----DAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDP  610 (694)
Q Consensus       540 ~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~p----~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p  610 (694)
                       ++.|+ +..+..++-.....+.+.+|..+|+....    ..+    -..+++.++.++++.+.+++|+..+++++.+.|
T Consensus       408 -ai~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~~  486 (611)
T KOG1173|consen  408 -AIAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLLSP  486 (611)
T ss_pred             -hcCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHcCC
Confidence             44444 33455555555555666666666655432    111    123455566666666666666666666666666


Q ss_pred             CCCccHHHHHHHHhhcCChHHHHHHHHHHH
Q 005487          611 DDSSTYIVLSNMYASVKKWDEVRKIRLKMK  640 (694)
Q Consensus       611 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  640 (694)
                      .++.+|..+|-+|...|+++.|.+.|.+..
T Consensus       487 k~~~~~asig~iy~llgnld~Aid~fhKaL  516 (611)
T KOG1173|consen  487 KDASTHASIGYIYHLLGNLDKAIDHFHKAL  516 (611)
T ss_pred             CchhHHHHHHHHHHHhcChHHHHHHHHHHH
Confidence            666666666666666666666666666543

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.59  E-value=1.8e-12  Score=130.39  Aligned_cols=288  Identities=13%  Similarity=0.057  Sum_probs=176.8

Q ss_pred             CCCchHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChhhhHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCHHHHHHH
Q 005487          286 RGDSKSCVKLFWRMNEEGIKPTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAENV  365 (694)
Q Consensus       286 ~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~  365 (694)
                      .|+++.|.+.+....+.+-.| ...+.....+....|+++.+...+..+.+................+...|+++.|...
T Consensus        97 eGd~~~A~k~l~~~~~~~~~p-~l~~llaA~aA~~~g~~~~A~~~l~~A~~~~~~~~~~~~l~~a~l~l~~g~~~~Al~~  175 (398)
T PRK10747         97 EGDYQQVEKLMTRNADHAEQP-VVNYLLAAEAAQQRGDEARANQHLERAAELADNDQLPVEITRVRIQLARNENHAARHG  175 (398)
T ss_pred             CCCHHHHHHHHHHHHhcccch-HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHCCCHHHHHHH
Confidence            456666655555443321111 1122222333345555555555555554432221111111224455555666666665


Q ss_pred             HhcCCC---CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcccCChHHHHHHHHHHHHhCCCC
Q 005487          366 FEKMSK---TDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIESKLET  442 (694)
Q Consensus       366 ~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  442 (694)
                      ++.+.+   .++.....+...|.+.|++++|..++..+.+.+..++ .....+-                          
T Consensus       176 l~~~~~~~P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~-~~~~~l~--------------------------  228 (398)
T PRK10747        176 VDKLLEVAPRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDE-EHRAMLE--------------------------  228 (398)
T ss_pred             HHHHHhcCCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCH-HHHHHHH--------------------------
Confidence            555542   2344555555666666666666666666665543221 1111000                          


Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHhhCCC---CChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHH
Q 005487          443 NEIVMGALLDMYAKCGAVDEAFKVFNELPE---RDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSA  519 (694)
Q Consensus       443 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~  519 (694)
                       ...|..++.......+.+...++++.++.   .++.....+...+...|+.++|..++++..+.  +|++...  ++.+
T Consensus       229 -~~a~~~l~~~~~~~~~~~~l~~~w~~lp~~~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l~--~l~~  303 (398)
T PRK10747        229 -QQAWIGLMDQAMADQGSEGLKRWWKNQSRKTRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERLV--LLIP  303 (398)
T ss_pred             -HHHHHHHHHHHHHhcCHHHHHHHHHhCCHHHhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHH--HHHh
Confidence             01222233333344456666777777765   56778888889999999999999999988874  4555322  2334


Q ss_pred             HHccCCHHHHHHHHHHhHHhcCCCCC-hHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHcCCHHHH
Q 005487          520 CSHAGWVDEGGYYFNLMISEYNIQPR-NEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRDIEMG  598 (694)
Q Consensus       520 ~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~A  598 (694)
                      ....++.+++.+..+...++   .|+ +..+..++..+.+.|++++|.+.|+++.+..|+...+..+...+...|+.++|
T Consensus       304 ~l~~~~~~~al~~~e~~lk~---~P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~~~~~~~La~~~~~~g~~~~A  380 (398)
T PRK10747        304 RLKTNNPEQLEKVLRQQIKQ---HGDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQRPDAYDYAWLADALDRLHKPEEA  380 (398)
T ss_pred             hccCCChHHHHHHHHHHHhh---CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCHHHH
Confidence            44568899999999988843   344 55677889999999999999999999888889988888899999999999999


Q ss_pred             HHHHHHHHhcC
Q 005487          599 EKIAKLLIEKD  609 (694)
Q Consensus       599 ~~~~~~~~~~~  609 (694)
                      .+++++.+.+.
T Consensus       381 ~~~~~~~l~~~  391 (398)
T PRK10747        381 AAMRRDGLMLT  391 (398)
T ss_pred             HHHHHHHHhhh
Confidence            99999988754

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.58  E-value=8.3e-11  Score=117.67  Aligned_cols=408  Identities=16%  Similarity=0.119  Sum_probs=264.6

Q ss_pred             CCCCchhHHHHHHHhhHhcCChHHHHHHHhcCCCC---ChhHHHHHHHHHHcCCCchHHHHHHHHHHHCCCCCCHHHHHH
Q 005487          237 GFVSDSYISSALVDMYGKCGCLEMAREVFEQTVLK---SVVAWNALIAGYSSRGDSKSCVKLFWRMNEEGIKPTLTTISS  313 (694)
Q Consensus       237 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~  313 (694)
                      .+.-+..+|..+.-+....|+++.+-+.|++...-   ....|+.+...+...|.-..|..+++.-......|+..+...
T Consensus       318 ~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~~L  397 (799)
T KOG4162|consen  318 KFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSFGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISVLL  397 (799)
T ss_pred             hhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchHHH
Confidence            35567788888888889999999999999886543   456788899999999999999999988766543354444333


Q ss_pred             HH-HHhh-ccCChhhhHHHHHHHHHhc----CCCchhHHHHHHHHHHhc-----------CCHHHHHHHHhcCCC---CC
Q 005487          314 VL-MSCS-RSGQLKHGKVMHGYIIRNK----IQGDVFINSSLIDLYFKC-----------GRVSSAENVFEKMSK---TD  373 (694)
Q Consensus       314 ll-~~~~-~~~~~~~a~~~~~~~~~~~----~~~~~~~~~~l~~~~~~~-----------~~~~~A~~~~~~~~~---~~  373 (694)
                      +. ..|. +.+..+++..+-..+....    -...+..+..+.-+|...           ....++...+++..+   .|
T Consensus       398 masklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d~~d  477 (799)
T KOG4162|consen  398 MASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFDPTD  477 (799)
T ss_pred             HHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcCCCC
Confidence            33 3333 4567777777666665521    112333444444444321           123445556665532   33


Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcccCChHHHHHHHHHHHH-hCCCCChhHHHHHHH
Q 005487          374 VVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIE-SKLETNEIVMGALLD  452 (694)
Q Consensus       374 ~~~~~~l~~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~  452 (694)
                      +...-.+.--|+..++.+.|+...++..+.+-..+...|..+.-.+...+++..|..+.+.... .|..  ......-+.
T Consensus       478 p~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~~~N--~~l~~~~~~  555 (799)
T KOG4162|consen  478 PLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGDN--HVLMDGKIH  555 (799)
T ss_pred             chHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhh--hhhchhhhh
Confidence            3333334445677888999999999998886677888888888888888999999988887654 2211  111111111


Q ss_pred             HHHhcCChHHHHHHHhhCCC--------------------------------CChHHHHHHHHHHHhcCCHHHHHHHHHH
Q 005487          453 MYAKCGAVDEAFKVFNELPE--------------------------------RDLVSWTSMIAAYGSHGRALEALKLFGE  500 (694)
Q Consensus       453 ~~~~~g~~~~A~~~~~~~~~--------------------------------~~~~~~~~l~~~~~~~~~~~~A~~~~~~  500 (694)
                      .-..-++.++|+.....+..                                ..+.++..+.......+....-...   
T Consensus       556 i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~~~~~se~~---  632 (799)
T KOG4162|consen  556 IELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQLKSAGSELK---  632 (799)
T ss_pred             hhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHhhhhhcccccc---
Confidence            12223444444433222111                                0111222222111111100000000   


Q ss_pred             HHHcCCCCCH--------hhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCC-hHHHHHHHHHhhhcCCHHHHHHHHHh
Q 005487          501 MQQSNARPDS--------ITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPR-NEHYSCLIDLLGRAGRLQEAYGILQS  571 (694)
Q Consensus       501 ~~~~~~~p~~--------~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~  571 (694)
                      +...-+.|.+        ..+......+...++.++|...+.++.   ++.|- ...|...+..+...|++++|.+.|..
T Consensus       633 Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~---~~~~l~~~~~~~~G~~~~~~~~~~EA~~af~~  709 (799)
T KOG4162|consen  633 LPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEAS---KIDPLSASVYYLRGLLLEVKGQLEEAKEAFLV  709 (799)
T ss_pred             cCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHH---hcchhhHHHHHHhhHHHHHHHhhHHHHHHHHH
Confidence            1111112222        223444557788899999998888876   44454 56788888999999999999999999


Q ss_pred             CCCCCCC-HHHHHHHHHHHHHcCCHHHHHH--HHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHHHHhCCCccCC
Q 005487          572 TPEIRED-AGLLSTLFSACRLHRDIEMGEK--IAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELGLRKNP  648 (694)
Q Consensus       572 ~~~~~p~-~~~~~~l~~~~~~~~~~~~A~~--~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~  648 (694)
                      +...+|+ ......++..+...|+-..|..  ++..+++.+|.++.+|+.||.++.+.|+.+.|.+.|+...+... ..|
T Consensus       710 Al~ldP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qLe~-S~P  788 (799)
T KOG4162|consen  710 ALALDPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVFKKLGDSKQAAECFQAALQLEE-SNP  788 (799)
T ss_pred             HHhcCCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHccchHHHHHHHHHHHhhcc-CCC
Confidence            8888887 5688899999999998777777  99999999999999999999999999999999999999876553 445


Q ss_pred             ceeEE
Q 005487          649 GCSWI  653 (694)
Q Consensus       649 ~~~~~  653 (694)
                      .-+|.
T Consensus       789 V~pFs  793 (799)
T KOG4162|consen  789 VLPFS  793 (799)
T ss_pred             ccccc
Confidence            44444

>TIGR00540 hemY_coli hemY protein

Probab=99.56  E-value=5.7e-12  Score=127.51  Aligned_cols=279  Identities=11%  Similarity=0.044  Sum_probs=154.1

Q ss_pred             hcCCHHHHHHHHhcCCC--CC-hhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH--HHHHHHHHHcccCChHHHH
Q 005487          355 KCGRVSSAENVFEKMSK--TD-VVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAV--TFTSVLPACSQLAALEKGK  429 (694)
Q Consensus       355 ~~~~~~~A~~~~~~~~~--~~-~~~~~~l~~~~~~~~~~~~A~~~~~~m~~~g~~p~~~--~~~~ll~~~~~~~~~~~a~  429 (694)
                      ..|+++.|.+.+....+  ++ ...+-.......+.|+++.|...+.+..+.  .|+..  .-......+...|+++.|.
T Consensus        96 ~~g~~~~A~~~l~~~~~~~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~--~p~~~l~~~~~~a~l~l~~~~~~~Al  173 (409)
T TIGR00540        96 AEGDYAKAEKLIAKNADHAAEPVLNLIKAAEAAQQRGDEARANQHLEEAAEL--AGNDNILVEIARTRILLAQNELHAAR  173 (409)
T ss_pred             hCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCcCchHHHHHHHHHHHHCCCHHHHH
Confidence            34555555555554432  22 122233344455556666666666665543  23321  2222344555566666666


Q ss_pred             HHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCC---CChHHHH----HHHHHHHhcCCHHHHHHHHHHHH
Q 005487          430 EIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPE---RDLVSWT----SMIAAYGSHGRALEALKLFGEMQ  502 (694)
Q Consensus       430 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~----~l~~~~~~~~~~~~A~~~~~~~~  502 (694)
                      ..++.+.+.. |-+..+...+..++...|++++|.+.+..+.+   .+...+.    .........+..+.+.+.+..+.
T Consensus       174 ~~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~~  252 (409)
T TIGR00540       174 HGVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMADEGIDGLLNWW  252 (409)
T ss_pred             HHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHH
Confidence            6666666554 33445555666666666666666666665553   2222221    11111122222233333444444


Q ss_pred             HcCC---CCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHH---HHHHHHHhhhcCCHHHHHHHHHhCCCCC
Q 005487          503 QSNA---RPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEH---YSCLIDLLGRAGRLQEAYGILQSTPEIR  576 (694)
Q Consensus       503 ~~~~---~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~---~~~l~~~~~~~g~~~~A~~~~~~~~~~~  576 (694)
                      +...   +.+...+..+...+...|+.++|...+++..++   .|+...   ...........++.+.+.+.+++..+..
T Consensus       253 ~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~---~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~  329 (409)
T TIGR00540       253 KNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKK---LGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKNV  329 (409)
T ss_pred             HHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhh---CCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHhC
Confidence            3311   125566666667777777777777777777632   344331   1111222233466777777777766655


Q ss_pred             CC-H--HHHHHHHHHHHHcCCHHHHHHHHH--HHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHHHH
Q 005487          577 ED-A--GLLSTLFSACRLHRDIEMGEKIAK--LLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMK  640 (694)
Q Consensus       577 p~-~--~~~~~l~~~~~~~~~~~~A~~~~~--~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  640 (694)
                      |+ +  ....++++.+.+.|++++|.+.++  .+++..|++. .+..++.++.+.|+.++|.+++++..
T Consensus       330 p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~-~~~~La~ll~~~g~~~~A~~~~~~~l  397 (409)
T TIGR00540       330 DDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDAN-DLAMAADAFDQAGDKAEAAAMRQDSL  397 (409)
T ss_pred             CCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHH-HHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            54 3  456677788888888888888888  4666666543 46688888888888888888887653

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.

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

Probab=99.55  E-value=3.6e-12  Score=113.96  Aligned_cols=300  Identities=15%  Similarity=0.158  Sum_probs=183.6

Q ss_pred             CCHHHHHHHHhcCCCCChh---HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH------HHHHHHHHHHcccCChHH
Q 005487          357 GRVSSAENVFEKMSKTDVV---YWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDA------VTFTSVLPACSQLAALEK  427 (694)
Q Consensus       357 ~~~~~A~~~~~~~~~~~~~---~~~~l~~~~~~~~~~~~A~~~~~~m~~~g~~p~~------~~~~~ll~~~~~~~~~~~  427 (694)
                      ++.++|...|-+|.+.|+.   +.-++.+.|.+.|..+.|+++-..+.++   ||.      ...-.|..-|...|-++.
T Consensus        49 ~Q~dKAvdlF~e~l~~d~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~s---pdlT~~qr~lAl~qL~~Dym~aGl~DR  125 (389)
T COG2956          49 NQPDKAVDLFLEMLQEDPETFEAHLTLGNLFRSRGEVDRAIRIHQTLLES---PDLTFEQRLLALQQLGRDYMAAGLLDR  125 (389)
T ss_pred             cCcchHHHHHHHHHhcCchhhHHHHHHHHHHHhcchHHHHHHHHHHHhcC---CCCchHHHHHHHHHHHHHHHHhhhhhH
Confidence            3444455555444433332   2233444455555555555555444442   221      112223333444555555


Q ss_pred             HHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCCCCh--------HHHHHHHHHHHhcCCHHHHHHHHH
Q 005487          428 GKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPERDL--------VSWTSMIAAYGSHGRALEALKLFG  499 (694)
Q Consensus       428 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~--------~~~~~l~~~~~~~~~~~~A~~~~~  499 (694)
                      |+.+|..+.+.+ ..-......|+..|....+|++|+++-+++.+.+.        ..|-.|...+....+.+.|...+.
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            555555554422 22233344555666666666666665554443111        134445666666778888888888


Q ss_pred             HHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCCH
Q 005487          500 EMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDA  579 (694)
Q Consensus       500 ~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~  579 (694)
                      +..+.+ +.+...-..+.......|+++.|++.|+.+.+. +..--+.+...|..+|...|+.++....+.++.+..+..
T Consensus       205 kAlqa~-~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQ-n~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~~g~  282 (389)
T COG2956         205 KALQAD-KKCVRASIILGRVELAKGDYQKAVEALERVLEQ-NPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETNTGA  282 (389)
T ss_pred             HHHhhC-ccceehhhhhhHHHHhccchHHHHHHHHHHHHh-ChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHccCCc
Confidence            888763 223344445566778888888888888888733 222225577788888888888888888888877766666


Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhh---cCChHHHHHHHHHHHhCCCccCCceeEEEEC
Q 005487          580 GLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYAS---VKKWDEVRKIRLKMKELGLRKNPGCSWIEIG  656 (694)
Q Consensus       580 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~---~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~  656 (694)
                      .....+...-....-.+.|...+.+-+...|.-.. ...|++....   .|.+.+.+..++.|....++..|.+.+..||
T Consensus       283 ~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r~Pt~~g-f~rl~~~~l~daeeg~~k~sL~~lr~mvge~l~~~~~YRC~~CG  361 (389)
T COG2956         283 DAELMLADLIELQEGIDAAQAYLTRQLRRKPTMRG-FHRLMDYHLADAEEGRAKESLDLLRDMVGEQLRRKPRYRCQNCG  361 (389)
T ss_pred             cHHHHHHHHHHHhhChHHHHHHHHHHHhhCCcHHH-HHHHHHhhhccccccchhhhHHHHHHHHHHHHhhcCCceecccC
Confidence            66666666555556667777777777777775433 3344444332   3678999999999999999999999999999


Q ss_pred             CEEEEEE
Q 005487          657 DRIQPFF  663 (694)
Q Consensus       657 ~~~~~~~  663 (694)
                      ...+.++
T Consensus       362 F~a~~l~  368 (389)
T COG2956         362 FTAHTLY  368 (389)
T ss_pred             Ccceeee
Confidence            8866653

>TIGR00540 hemY_coli hemY protein

Probab=99.55  E-value=2e-11  Score=123.64  Aligned_cols=289  Identities=11%  Similarity=0.046  Sum_probs=170.9

Q ss_pred             HcCCCchHHHHHHHHHHHCCCCCCH-HHHHHHHHHhhccCChhhhHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCHHHH
Q 005487          284 SSRGDSKSCVKLFWRMNEEGIKPTL-TTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSA  362 (694)
Q Consensus       284 ~~~~~~~~a~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  362 (694)
                      ...|+++.|.+.+.+..+.  .|+. ..+.....+....|+.+.+...+....+....+...+.......+...      
T Consensus        95 ~~~g~~~~A~~~l~~~~~~--~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~------  166 (409)
T TIGR00540        95 LAEGDYAKAEKLIAKNADH--AAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQ------  166 (409)
T ss_pred             HhCCCHHHHHHHHHHHhhc--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHC------
Confidence            3567777777777665554  2332 223333444555566666666665554433222222222234444444      


Q ss_pred             HHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcccCChHHHHHHHHHHHHhCCCC
Q 005487          363 ENVFEKMSKTDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIESKLET  442 (694)
Q Consensus       363 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  442 (694)
                                               |+++.|...++.+.+.. +-+......+...+...|+++.+.+.+..+.+.+..+
T Consensus       167 -------------------------~~~~~Al~~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~  220 (409)
T TIGR00540       167 -------------------------NELHAARHGVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFD  220 (409)
T ss_pred             -------------------------CCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCC
Confidence                                     44555555554444442 1123334444444455555555555555554443222


Q ss_pred             ChhH-------HHHHHHHHHhcCChHHHHHHHhhCCC---CChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhh
Q 005487          443 NEIV-------MGALLDMYAKCGAVDEAFKVFNELPE---RDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSIT  512 (694)
Q Consensus       443 ~~~~-------~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~  512 (694)
                      ....       +..++..-......+...+.++..+.   .++..+..++..+...|++++|.+.+++..+.  .||...
T Consensus       221 ~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~--~pd~~~  298 (409)
T TIGR00540       221 DEEFADLEQKAEIGLLDEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKK--LGDDRA  298 (409)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhh--CCCccc
Confidence            1111       11111111122234455555665554   47778888899999999999999999999986  344432


Q ss_pred             --H-HHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHHHHHHHH--hCCCCCCCHHHHHHHHH
Q 005487          513 --F-LALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQ--STPEIREDAGLLSTLFS  587 (694)
Q Consensus       513 --~-~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~--~~~~~~p~~~~~~~l~~  587 (694)
                        + ..........++.+.+.+.++...+...-.|+......++..+.+.|++++|.+.|+  ...+..|++..+..++.
T Consensus       299 ~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~  378 (409)
T TIGR00540       299 ISLPLCLPIPRLKPEDNEKLEKLIEKQAKNVDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAAD  378 (409)
T ss_pred             chhHHHHHhhhcCCCChHHHHHHHHHHHHhCCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHH
Confidence              1 112223344578888999998888543222322566788999999999999999999  46557898888889999


Q ss_pred             HHHHcCCHHHHHHHHHHHHhc
Q 005487          588 ACRLHRDIEMGEKIAKLLIEK  608 (694)
Q Consensus       588 ~~~~~~~~~~A~~~~~~~~~~  608 (694)
                      .+...|+.++|.+++++++..
T Consensus       379 ll~~~g~~~~A~~~~~~~l~~  399 (409)
T TIGR00540       379 AFDQAGDKAEAAAMRQDSLGL  399 (409)
T ss_pred             HHHHcCCHHHHHHHHHHHHHH
Confidence            999999999999999998654

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=99.55  E-value=1.4e-14  Score=139.28  Aligned_cols=228  Identities=18%  Similarity=0.170  Sum_probs=107.2

Q ss_pred             HHHHHHcccCChHHHHHHHHHHHHhC-CCCChhHHHHHHHHHHhcCChHHHHHHHhhCCCC---ChHHHHHHHHHHHhcC
Q 005487          414 SVLPACSQLAALEKGKEIHNHIIESK-LETNEIVMGALLDMYAKCGAVDEAFKVFNELPER---DLVSWTSMIAAYGSHG  489 (694)
Q Consensus       414 ~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~~  489 (694)
                      .+...+...|++++|.++++...... .+.+...|..+.......++++.|...++.+...   ++..+..++.. ...+
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~~~~~~~~l~~l-~~~~   91 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKANPQDYERLIQL-LQDG   91 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-cccc
Confidence            55777889999999999997655444 3556677777888888899999999999999873   34466667766 7889


Q ss_pred             CHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHHHHHHH
Q 005487          490 RALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGIL  569 (694)
Q Consensus       490 ~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~  569 (694)
                      ++++|.+++++..+.  .+++..+..++..+...++++++..+++.+......+++...|..++..+.+.|+.++|++.+
T Consensus        92 ~~~~A~~~~~~~~~~--~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~  169 (280)
T PF13429_consen   92 DPEEALKLAEKAYER--DGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDY  169 (280)
T ss_dssp             ----------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHH
T ss_pred             ccccccccccccccc--ccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            999999999988765  466777888888999999999999999998754344567778899999999999999999999


Q ss_pred             HhCCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHHHHhCCC
Q 005487          570 QSTPEIRED-AGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELGL  644 (694)
Q Consensus       570 ~~~~~~~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  644 (694)
                      +++.+..|+ ......++..+...|+.+++.++++...+..|+++..+..++.+|...|+.++|+.++++......
T Consensus       170 ~~al~~~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p  245 (280)
T PF13429_consen  170 RKALELDPDDPDARNALAWLLIDMGDYDEAREALKRLLKAAPDDPDLWDALAAAYLQLGRYEEALEYLEKALKLNP  245 (280)
T ss_dssp             HHHHHH-TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHST
T ss_pred             HHHHHcCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHHHHHHHHHHHhccccccccccccccccccccc
Confidence            999987885 678889999999999999999999999999999999999999999999999999999999876443

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.52  E-value=7.4e-11  Score=106.85  Aligned_cols=409  Identities=15%  Similarity=0.088  Sum_probs=191.1

Q ss_pred             hhhcCCChHHHHHHhccCCC---CCcccHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChhHH
Q 005487          150 MYAKCNSFECAVKMFDEMSE---RDVASWNTVISCYYQDGQAEKALELFKKMRGSGFQPNSVTLTTVISSCARLMDLDRG  226 (694)
Q Consensus       150 ~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a  226 (694)
                      .+.+.|++++|...+..+.+   ++...+-.|..++.-.|.+.+|..+-....+     ++..-..++....+.++-++.
T Consensus        66 C~fhLgdY~~Al~~Y~~~~~~~~~~~el~vnLAcc~FyLg~Y~eA~~~~~ka~k-----~pL~~RLlfhlahklndEk~~  140 (557)
T KOG3785|consen   66 CYFHLGDYEEALNVYTFLMNKDDAPAELGVNLACCKFYLGQYIEAKSIAEKAPK-----TPLCIRLLFHLAHKLNDEKRI  140 (557)
T ss_pred             HHHhhccHHHHHHHHHHHhccCCCCcccchhHHHHHHHHHHHHHHHHHHhhCCC-----ChHHHHHHHHHHHHhCcHHHH
Confidence            34455666666665555433   3344444555555555666666555443221     222223333333444554444


Q ss_pred             HHHHHHHHHhCCCCchhHHHHHHHhhHhcCChHHHHHHHhcCCCCCh--hHHHH-HHHHHHcCCCchHHHHHHHHHHHCC
Q 005487          227 KEIHKEFIKDGFVSDSYISSALVDMYGKCGCLEMAREVFEQTVLKSV--VAWNA-LIAGYSSRGDSKSCVKLFWRMNEEG  303 (694)
Q Consensus       227 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~--~~~~~-li~~~~~~~~~~~a~~~~~~m~~~g  303 (694)
                      ..+.+.+.+.     ..-..+|..+.-..-.+++|++++.++...++  ...|. +.-+|.+..-++-+.++++-..+. 
T Consensus       141 ~~fh~~LqD~-----~EdqLSLAsvhYmR~HYQeAIdvYkrvL~dn~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q-  214 (557)
T KOG3785|consen  141 LTFHSSLQDT-----LEDQLSLASVHYMRMHYQEAIDVYKRVLQDNPEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQ-  214 (557)
T ss_pred             HHHHHHHhhh-----HHHHHhHHHHHHHHHHHHHHHHHHHHHHhcChhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHh-
Confidence            4444443321     12233344444444567777777777655433  33333 334667777777777777766665 


Q ss_pred             CCCCHHHHHHHHHHhhccCChhhhHHHHHHHHHhcCCCchhHHHHHHHHHHhc-----CCHHHHHHHHhcCCCCChhHHH
Q 005487          304 IKPTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKC-----GRVSSAENVFEKMSKTDVVYWN  378 (694)
Q Consensus       304 ~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----~~~~~A~~~~~~~~~~~~~~~~  378 (694)
                      .+.+....+.......+.=+-..|+.-...+.+.+...-+     .+.-+++.     +.-+.|++++-.+.+.-+..-.
T Consensus       215 ~pdStiA~NLkacn~fRl~ngr~ae~E~k~ladN~~~~~~-----f~~~l~rHNLVvFrngEgALqVLP~L~~~IPEARl  289 (557)
T KOG3785|consen  215 FPDSTIAKNLKACNLFRLINGRTAEDEKKELADNIDQEYP-----FIEYLCRHNLVVFRNGEGALQVLPSLMKHIPEARL  289 (557)
T ss_pred             CCCcHHHHHHHHHHHhhhhccchhHHHHHHHHhcccccch-----hHHHHHHcCeEEEeCCccHHHhchHHHhhChHhhh
Confidence            2222233333332223322223333333333333211111     12222222     2345566655554443344444


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcC
Q 005487          379 VMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCG  458 (694)
Q Consensus       379 ~l~~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  458 (694)
                      .++-.|.+.+++.+|..+.+++.-  ..|-......+..+                              ++.+-.....
T Consensus       290 NL~iYyL~q~dVqeA~~L~Kdl~P--ttP~EyilKgvv~a------------------------------alGQe~gSre  337 (557)
T KOG3785|consen  290 NLIIYYLNQNDVQEAISLCKDLDP--TTPYEYILKGVVFA------------------------------ALGQETGSRE  337 (557)
T ss_pred             hheeeecccccHHHHHHHHhhcCC--CChHHHHHHHHHHH------------------------------HhhhhcCcHH
Confidence            555667777777777777665431  12222211111111                              1111111112


Q ss_pred             ChHHHHHHHhhCCC-----CChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHH
Q 005487          459 AVDEAFKVFNELPE-----RDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYF  533 (694)
Q Consensus       459 ~~~~A~~~~~~~~~-----~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~  533 (694)
                      ...-|...|+..-.     ..+....++...+.-..++++.+.++..+..- +..|......+.++.+..|++.+|.++|
T Consensus       338 HlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~sY-F~NdD~Fn~N~AQAk~atgny~eaEelf  416 (557)
T KOG3785|consen  338 HLKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIESY-FTNDDDFNLNLAQAKLATGNYVEAEELF  416 (557)
T ss_pred             HHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHH-hcCcchhhhHHHHHHHHhcChHHHHHHH
Confidence            23333333332221     12222333444444445566666655555543 2333333344556666667777777666


Q ss_pred             HHhHHhcCCC-CChHHH-HHHHHHhhhcCCHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Q 005487          534 NLMISEYNIQ-PRNEHY-SCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDP  610 (694)
Q Consensus       534 ~~~~~~~~~~-p~~~~~-~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p  610 (694)
                      -.+.   +.+ .+..+| ..|+++|.+.++++-|+.++-++......-..+..++.-|.+.+.+=-|-..|..+-.++|
T Consensus       417 ~~is---~~~ikn~~~Y~s~LArCyi~nkkP~lAW~~~lk~~t~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lDP  492 (557)
T KOG3785|consen  417 IRIS---GPEIKNKILYKSMLARCYIRNKKPQLAWDMMLKTNTPSERFSLLQLIANDCYKANEFYYAAKAFDELEILDP  492 (557)
T ss_pred             hhhc---ChhhhhhHHHHHHHHHHHHhcCCchHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccCC
Confidence            6554   211 122233 3456666777777777766665541111122334445556666666666666666555555

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

Probab=99.51  E-value=2.6e-11  Score=114.59  Aligned_cols=220  Identities=14%  Similarity=0.090  Sum_probs=178.5

Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHH
Q 005487          384 YVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEA  463 (694)
Q Consensus       384 ~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  463 (694)
                      +.-.|+.-.|..-|+..+.....++.. |..+...|....+.++....|....+.+ +-++.+|..-.+++.-.+++++|
T Consensus       336 ~fL~g~~~~a~~d~~~~I~l~~~~~~l-yI~~a~~y~d~~~~~~~~~~F~~A~~ld-p~n~dvYyHRgQm~flL~q~e~A  413 (606)
T KOG0547|consen  336 HFLKGDSLGAQEDFDAAIKLDPAFNSL-YIKRAAAYADENQSEKMWKDFNKAEDLD-PENPDVYYHRGQMRFLLQQYEEA  413 (606)
T ss_pred             hhhcCCchhhhhhHHHHHhcCcccchH-HHHHHHHHhhhhccHHHHHHHHHHHhcC-CCCCchhHhHHHHHHHHHHHHHH
Confidence            445688888888888888875444332 7777888999999999999999998877 55777888888888889999999


Q ss_pred             HHHHhhCCC---CChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhc
Q 005487          464 FKVFNELPE---RDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEY  540 (694)
Q Consensus       464 ~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  540 (694)
                      ..-|++...   .+...|-.+..+..+.+++++++..|++.++. ++..+..|+.....+..+++++.|.+.|+...   
T Consensus       414 ~aDF~Kai~L~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai---  489 (606)
T KOG0547|consen  414 IADFQKAISLDPENAYAYIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAI---  489 (606)
T ss_pred             HHHHHHHhhcChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHH---
Confidence            999999887   34457777888888999999999999999987 45558999999999999999999999999987   


Q ss_pred             CCCCC-------hH--HHHHHHHHhhhcCCHHHHHHHHHhCCCCCCCH-HHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Q 005487          541 NIQPR-------NE--HYSCLIDLLGRAGRLQEAYGILQSTPEIREDA-GLLSTLFSACRLHRDIEMGEKIAKLLIEKDP  610 (694)
Q Consensus       541 ~~~p~-------~~--~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p  610 (694)
                      .+.|+       +.  +...++..-.+ +++..|..+++++.+.+|.. ..+..++....+.|+.++|+++|+++..+..
T Consensus       490 ~LE~~~~~~~v~~~plV~Ka~l~~qwk-~d~~~a~~Ll~KA~e~Dpkce~A~~tlaq~~lQ~~~i~eAielFEksa~lAr  568 (606)
T KOG0547|consen  490 ELEPREHLIIVNAAPLVHKALLVLQWK-EDINQAENLLRKAIELDPKCEQAYETLAQFELQRGKIDEAIELFEKSAQLAR  568 (606)
T ss_pred             hhccccccccccchhhhhhhHhhhchh-hhHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHH
Confidence            34444       22  22233333333 89999999999999988875 5788899999999999999999999986643

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.51  E-value=4.5e-10  Score=104.01  Aligned_cols=288  Identities=12%  Similarity=0.049  Sum_probs=209.6

Q ss_pred             cCChhhhHHHHHHHHHh-cCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHH---HHHHHHHHhcCChHHHHHH
Q 005487          321 SGQLKHGKVMHGYIIRN-KIQGDVFINSSLIDLYFKCGRVSSAENVFEKMSKTDVVYW---NVMISGYVTVGDYFKALAI  396 (694)
Q Consensus       321 ~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~---~~l~~~~~~~~~~~~A~~~  396 (694)
                      .++-..+...+-.+... -++.+......+..++...|+..+|+..|++....|+.+.   ......+.+.|+++....+
T Consensus       209 ~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~dpy~i~~MD~Ya~LL~~eg~~e~~~~L  288 (564)
T KOG1174|consen  209 NFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCANPDNVEAMDLYAVLLGQEGGCEQDSAL  288 (564)
T ss_pred             hcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCChhhhhhHHHHHHHHHhccCHhhHHHH
Confidence            33333444444333333 3567888888999999999999999999998776554432   2334445677888887777


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCC---C
Q 005487          397 YSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPE---R  473 (694)
Q Consensus       397 ~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~  473 (694)
                      ...+.... .-....|..-+......++++.|..+-++.++.+ +.+...+-.-..++...|++++|.-.|+....   -
T Consensus       289 ~~~Lf~~~-~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~-~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~Lap~  366 (564)
T KOG1174|consen  289 MDYLFAKV-KYTASHWFVHAQLLYDEKKFERALNFVEKCIDSE-PRNHEALILKGRLLIALERHTQAVIAFRTAQMLAPY  366 (564)
T ss_pred             HHHHHhhh-hcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccC-cccchHHHhccHHHHhccchHHHHHHHHHHHhcchh
Confidence            77766532 1222223333344456778888888888777655 33455555556778888999999999987665   3


Q ss_pred             ChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHH-HHHH-ccCCHHHHHHHHHHhHHhcCCCCC-hHHHH
Q 005487          474 DLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALL-SACS-HAGWVDEGGYYFNLMISEYNIQPR-NEHYS  550 (694)
Q Consensus       474 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~-~~~~-~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~  550 (694)
                      +...|..|+.+|...|++.+|..+-+..... ++.+..++..+. ..|. ....-++|.+++++..   .+.|+ .....
T Consensus       367 rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L---~~~P~Y~~AV~  442 (564)
T KOG1174|consen  367 RLEIYRGLFHSYLAQKRFKEANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSL---KINPIYTPAVN  442 (564)
T ss_pred             hHHHHHHHHHHHHhhchHHHHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHHHHhhh---ccCCccHHHHH
Confidence            5678999999999999999999888887765 445566666553 3333 3344678889988877   56777 55677


Q ss_pred             HHHHHhhhcCCHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCc
Q 005487          551 CLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSS  614 (694)
Q Consensus       551 ~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~  614 (694)
                      .++..+...|+.++++.++++.....||......++......+.+.+|...|..++.++|++..
T Consensus       443 ~~AEL~~~Eg~~~D~i~LLe~~L~~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~dP~~~~  506 (564)
T KOG1174|consen  443 LIAELCQVEGPTKDIIKLLEKHLIIFPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQDPKSKR  506 (564)
T ss_pred             HHHHHHHhhCccchHHHHHHHHHhhccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCccchH
Confidence            8889999999999999999998888899999999999999999999999999999999998633

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

Probab=99.49  E-value=1.1e-10  Score=108.01  Aligned_cols=289  Identities=14%  Similarity=0.103  Sum_probs=199.5

Q ss_pred             cCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChhhhHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCHHHHHH
Q 005487          285 SRGDSKSCVKLFWRMNEEGIKPTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAEN  364 (694)
Q Consensus       285 ~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  364 (694)
                      -.|++.+|.+++.+-.+.+-.| ...|..-..+....|+.+.+..++.++.+....++..+.-+..+.....|+.+.|..
T Consensus        96 ~eG~~~qAEkl~~rnae~~e~p-~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~  174 (400)
T COG3071          96 FEGDFQQAEKLLRRNAEHGEQP-VLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAARE  174 (400)
T ss_pred             hcCcHHHHHHHHHHhhhcCcch-HHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHH
Confidence            3578888888888876665444 344556666777788888888888888777556677777777788888888888887


Q ss_pred             HHhcCC---CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcccCChHHHHHHHHHHHHhCCC
Q 005487          365 VFEKMS---KTDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIESKLE  441 (694)
Q Consensus       365 ~~~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~  441 (694)
                      -++++.   ..++........+|.+.|++.....++.+|.+.|.-.+...-.                            
T Consensus       175 ~v~~ll~~~pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~----------------------------  226 (400)
T COG3071         175 NVDQLLEMTPRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAAR----------------------------  226 (400)
T ss_pred             HHHHHHHhCcCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHH----------------------------
Confidence            777654   4566777788888888888888888888888877554432110                            


Q ss_pred             CChhHHHHHHHHHHhcCChHHHHHHHhhCCC---CChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHH
Q 005487          442 TNEIVMGALLDMYAKCGAVDEAFKVFNELPE---RDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLS  518 (694)
Q Consensus       442 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~  518 (694)
                      ....++..+++-....+..+.-...++..+.   .++..-.+++.-+.+.|+.++|.++.++..+.+..|+    ....-
T Consensus       227 le~~a~~glL~q~~~~~~~~gL~~~W~~~pr~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~----L~~~~  302 (400)
T COG3071         227 LEQQAWEGLLQQARDDNGSEGLKTWWKNQPRKLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR----LCRLI  302 (400)
T ss_pred             HHHHHHHHHHHHHhccccchHHHHHHHhccHHhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh----HHHHH
Confidence            0112233333333333344444455565554   4566666777778888888888888888888765555    22233


Q ss_pred             HHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHcCCHHHH
Q 005487          519 ACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRDIEMG  598 (694)
Q Consensus       519 ~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~A  598 (694)
                      .+.+-++...-++..+...+.++..|  ..+..|+..|.+.+.+.+|...|+.+.+..|+...+..++.++.+.|+...|
T Consensus       303 ~~l~~~d~~~l~k~~e~~l~~h~~~p--~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~s~~~~~~la~~~~~~g~~~~A  380 (400)
T COG3071         303 PRLRPGDPEPLIKAAEKWLKQHPEDP--LLLSTLGRLALKNKLWGKASEALEAALKLRPSASDYAELADALDQLGEPEEA  380 (400)
T ss_pred             hhcCCCCchHHHHHHHHHHHhCCCCh--hHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCChhhHHHHHHHHHHcCChHHH
Confidence            45666777777777777775544444  5667778888888888888888887777777777777788888888888888


Q ss_pred             HHHHHHHHhc
Q 005487          599 EKIAKLLIEK  608 (694)
Q Consensus       599 ~~~~~~~~~~  608 (694)
                      .++.+.++..
T Consensus       381 ~~~r~e~L~~  390 (400)
T COG3071         381 EQVRREALLL  390 (400)
T ss_pred             HHHHHHHHHH
Confidence            8777777643

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

Probab=99.48  E-value=1.7e-08  Score=99.10  Aligned_cols=538  Identities=12%  Similarity=0.109  Sum_probs=322.9

Q ss_pred             hHHHHHHHHHccCChhHHHHHHHHhhhCCCCCCCcccHHHHHHHhhCCCCchhHHHHHHHHHHHcCCCchhHHHHHHHhh
Q 005487           72 LWNGLMASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLGSVGIGKMIHTHLIKTGFLLDVVIASSTAGMY  151 (694)
Q Consensus        72 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  151 (694)
                      .|-.-+....++|+.......|+..+..-++......|...+......+-++.+..++++.++..    +....-.+..+
T Consensus       104 Iwl~Ylq~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~~----P~~~eeyie~L  179 (835)
T KOG2047|consen  104 IWLDYLQFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKVA----PEAREEYIEYL  179 (835)
T ss_pred             HHHHHHHHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhcC----HHHHHHHHHHH
Confidence            67777777788888888888888887764566666788888888888888888888888887642    33456667777


Q ss_pred             hcCCChHHHHHHhccCCCCC----------cccHHHHHHHHHhCCChhHH---HHHHHHHHhCCCCCChh--hHHHHHHH
Q 005487          152 AKCNSFECAVKMFDEMSERD----------VASWNTVISCYYQDGQAEKA---LELFKKMRGSGFQPNSV--TLTTVISS  216 (694)
Q Consensus       152 ~~~g~~~~A~~~~~~~~~~~----------~~~~~~li~~~~~~~~~~~a---~~~~~~m~~~~~~~~~~--~~~~ll~~  216 (694)
                      ++.+++++|.+.+..+...+          -..|..+-...+++-+.-..   ..++..+..  .-+|..  .|.+|..-
T Consensus       180 ~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~--rftDq~g~Lw~SLAdY  257 (835)
T KOG2047|consen  180 AKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIR--RFTDQLGFLWCSLADY  257 (835)
T ss_pred             HhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhcc--cCcHHHHHHHHHHHHH
Confidence            88888888888887776422          22355554444444332222   222333322  134433  46666666


Q ss_pred             HhccCChhHHHHHHHHHHHhCCCCchhHHHHHHHhhHhcCChHHHHHHH-h--c-CCCCChhHHHHHHHHHHcCCCchHH
Q 005487          217 CARLMDLDRGKEIHKEFIKDGFVSDSYISSALVDMYGKCGCLEMAREVF-E--Q-TVLKSVVAWNALIAGYSSRGDSKSC  292 (694)
Q Consensus       217 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~-~--~-~~~~~~~~~~~li~~~~~~~~~~~a  292 (694)
                      |.+.|.+++|..++++.+..  ..+..-|..+-+.|+....---+..+= .  + ..+.+..             +++-.
T Consensus       258 YIr~g~~ekarDvyeeai~~--v~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~-------------dl~~~  322 (835)
T KOG2047|consen  258 YIRSGLFEKARDVYEEAIQT--VMTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDV-------------DLELH  322 (835)
T ss_pred             HHHhhhhHHHHHHHHHHHHh--heehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhh-------------hHHHH
Confidence            66777777777776666554  223333344444443321111111100 0  0 0000111             12222


Q ss_pred             HHHHHHHHHCC-----------CCCCHHHHHHHHHHhhccCChhhhHHHHHHHHHhc-CC----CchhHHHHHHHHHHhc
Q 005487          293 VKLFWRMNEEG-----------IKPTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNK-IQ----GDVFINSSLIDLYFKC  356 (694)
Q Consensus       293 ~~~~~~m~~~g-----------~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~----~~~~~~~~l~~~~~~~  356 (694)
                      +.-|+.+...+           -+-+..+|..-+  -...|+..+....+.++++.- +.    .-...+..+...|-..
T Consensus       323 ~a~~e~lm~rr~~~lNsVlLRQn~~nV~eW~kRV--~l~e~~~~~~i~tyteAv~~vdP~ka~Gs~~~Lw~~faklYe~~  400 (835)
T KOG2047|consen  323 MARFESLMNRRPLLLNSVLLRQNPHNVEEWHKRV--KLYEGNAAEQINTYTEAVKTVDPKKAVGSPGTLWVEFAKLYENN  400 (835)
T ss_pred             HHHHHHHHhccchHHHHHHHhcCCccHHHHHhhh--hhhcCChHHHHHHHHHHHHccCcccCCCChhhHHHHHHHHHHhc
Confidence            33333333321           112223332222  233456666667777666542 11    1234678899999999


Q ss_pred             CCHHHHHHHHhcCCCCCh-------hHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC-----------------HHHH
Q 005487          357 GRVSSAENVFEKMSKTDV-------VYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPD-----------------AVTF  412 (694)
Q Consensus       357 ~~~~~A~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~A~~~~~~m~~~g~~p~-----------------~~~~  412 (694)
                      |+++.|..+|++..+-+-       .+|......-.+..+++.|+++++......-.|.                 ...|
T Consensus       401 ~~l~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiW  480 (835)
T KOG2047|consen  401 GDLDDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIW  480 (835)
T ss_pred             CcHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHH
Confidence            999999999999876433       3455555556678888999988877665321111                 1123


Q ss_pred             HHHHHHHcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCC----CChH-HHHHHHHHHHh
Q 005487          413 TSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPE----RDLV-SWTSMIAAYGS  487 (694)
Q Consensus       413 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~~-~~~~l~~~~~~  487 (694)
                      ...+..-...|-++....+|+.+++..+. ++.+.......+..+.-++++.+++++-..    |+.. .|+..+.-+.+
T Consensus       481 s~y~DleEs~gtfestk~vYdriidLria-TPqii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~  559 (835)
T KOG2047|consen  481 SMYADLEESLGTFESTKAVYDRIIDLRIA-TPQIIINYAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIK  559 (835)
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHH
Confidence            44444455667888888999999887654 344444455556777889999999998776    5554 56665554433


Q ss_pred             ---cCCHHHHHHHHHHHHHcCCCCCHhhHHHHHH--HHHccCCHHHHHHHHHHhHHhcCCCCC--hHHHHHHHHHhhhcC
Q 005487          488 ---HGRALEALKLFGEMQQSNARPDSITFLALLS--ACSHAGWVDEGGYYFNLMISEYNIQPR--NEHYSCLIDLLGRAG  560 (694)
Q Consensus       488 ---~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~--~~~~~g~~~~A~~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g  560 (694)
                         ....+.|..+|++..+ |.+|...-+..|+.  .=.+-|....|..+++++..  ++++.  ...|+..+.--...=
T Consensus       560 rygg~klEraRdLFEqaL~-~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat~--~v~~a~~l~myni~I~kaae~y  636 (835)
T KOG2047|consen  560 RYGGTKLERARDLFEQALD-GCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERATS--AVKEAQRLDMYNIYIKKAAEIY  636 (835)
T ss_pred             HhcCCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh--cCCHHHHHHHHHHHHHHHHHHh
Confidence               2468999999999998 66665433323322  22345888889999999863  44444  335655543322222


Q ss_pred             CHHHHHHHHHhCCCCCCCHHHH---HHHHHHHHHcCCHHHHHHHHHHHHhcCCC--CCccHHHHHHHHhhcCChHHHHHH
Q 005487          561 RLQEAYGILQSTPEIREDAGLL---STLFSACRLHRDIEMGEKIAKLLIEKDPD--DSSTYIVLSNMYASVKKWDEVRKI  635 (694)
Q Consensus       561 ~~~~A~~~~~~~~~~~p~~~~~---~~l~~~~~~~~~~~~A~~~~~~~~~~~p~--~~~~~~~l~~~~~~~g~~~~A~~~  635 (694)
                      -+-.-..+|+++.+.=|+...-   ..++..-.+.|..+.|..++...-+..|+  +...|...-.--.+.|+-+--.+.
T Consensus       637 Gv~~TR~iYekaIe~Lp~~~~r~mclrFAdlEtklGEidRARaIya~~sq~~dPr~~~~fW~twk~FEvrHGnedT~keM  716 (835)
T KOG2047|consen  637 GVPRTREIYEKAIESLPDSKAREMCLRFADLETKLGEIDRARAIYAHGSQICDPRVTTEFWDTWKEFEVRHGNEDTYKEM  716 (835)
T ss_pred             CCcccHHHHHHHHHhCChHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhhhcCCCcCChHHHHHHHHHHHhcCCHHHHHHH
Confidence            2334456666666555555432   33444556789999999999988887644  666788888888888984444333


Q ss_pred             H
Q 005487          636 R  636 (694)
Q Consensus       636 ~  636 (694)
                      +
T Consensus       717 L  717 (835)
T KOG2047|consen  717 L  717 (835)
T ss_pred             H
Confidence            3

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.47  E-value=1.1e-11  Score=116.68  Aligned_cols=199  Identities=12%  Similarity=0.055  Sum_probs=165.7

Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHhhCCC---CChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHH
Q 005487          443 NEIVMGALLDMYAKCGAVDEAFKVFNELPE---RDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSA  519 (694)
Q Consensus       443 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~  519 (694)
                      ....+..+...+...|++++|...++....   .+...+..+...+...|++++|.+.+++..+.. +.+...+..+...
T Consensus        30 ~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~  108 (234)
T TIGR02521        30 AAKIRVQLALGYLEQGDLEVAKENLDKALEHDPDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTF  108 (234)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHH
Confidence            355667778888889999999998887665   345678888899999999999999999998864 4456778888889


Q ss_pred             HHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCC-HHHHHHHHHHHHHcCCHHHH
Q 005487          520 CSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIRED-AGLLSTLFSACRLHRDIEMG  598 (694)
Q Consensus       520 ~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~A  598 (694)
                      +...|++++|...++.+............+..++.++...|++++|...++++.+..|+ ...+..++..+...|++++|
T Consensus       109 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A  188 (234)
T TIGR02521       109 LCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQRPESLLELAELYYLRGQYKDA  188 (234)
T ss_pred             HHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCChHHHHHHHHHHHHcCCHHHH
Confidence            99999999999999999843222223457778899999999999999999998876664 56788888899999999999


Q ss_pred             HHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHHHHhC
Q 005487          599 EKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKEL  642 (694)
Q Consensus       599 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  642 (694)
                      ...++++++..|+++..+..++.++...|+.++|..+.+.+...
T Consensus       189 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  232 (234)
T TIGR02521       189 RAYLERYQQTYNQTAESLWLGIRIARALGDVAAAQRYGAQLQKL  232 (234)
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhh
Confidence            99999999998888888999999999999999999998877543

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

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

Probab=99.46  E-value=3e-10  Score=105.32  Aligned_cols=283  Identities=12%  Similarity=0.067  Sum_probs=169.1

Q ss_pred             CCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchhHHHHHHHhhHhcCChHHHHHH
Q 005487          185 DGQAEKALELFKKMRGSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVSDSYISSALVDMYGKCGCLEMAREV  264 (694)
Q Consensus       185 ~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  264 (694)
                      .|+|.+|.++..+-.+.+- -....|.....+..+.|+.+.+-.++.++.+....++..+.-...+.....|+++.|..-
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 EGDFQQAEKLLRRNAEHGE-QPVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAAREN  175 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCc-chHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHH
Confidence            6888888888887766542 233456666677778888888888888887764456666677777778888888888777


Q ss_pred             HhcC---CCCChhHHHHHHHHHHcCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChhhhHHHHHHHHHhcCCC
Q 005487          265 FEQT---VLKSVVAWNALIAGYSSRGDSKSCVKLFWRMNEEGIKPTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQG  341 (694)
Q Consensus       265 ~~~~---~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  341 (694)
                      ++++   ...++.......++|.+.|++.....++..|.+.|.-.++..-.                            .
T Consensus       176 v~~ll~~~pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~----------------------------l  227 (400)
T COG3071         176 VDQLLEMTPRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAAR----------------------------L  227 (400)
T ss_pred             HHHHHHhCcCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHH----------------------------H
Confidence            7654   44567788888888888888888888888888887654432210                            0


Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhcCC---CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 005487          342 DVFINSSLIDLYFKCGRVSSAENVFEKMS---KTDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPA  418 (694)
Q Consensus       342 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~  418 (694)
                      ...++..+++-....+..+.-...++..+   +.++..-..++.-+.+.|+.++|.++.++..+.+..|+..    ..-.
T Consensus       228 e~~a~~glL~q~~~~~~~~gL~~~W~~~pr~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L~----~~~~  303 (400)
T COG3071         228 EQQAWEGLLQQARDDNGSEGLKTWWKNQPRKLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRLC----RLIP  303 (400)
T ss_pred             HHHHHHHHHHHHhccccchHHHHHHHhccHHhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhHH----HHHh
Confidence            11233444444444444444445555555   3456666667777778888888888888877776555522    2223


Q ss_pred             HcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCC--CChHHHHHHHHHHHhcCCHHHHHH
Q 005487          419 CSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPE--RDLVSWTSMIAAYGSHGRALEALK  496 (694)
Q Consensus       419 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~  496 (694)
                      +.+.++.+.-.+..+...+.. +.++..+..+...|.+.+.|.+|...|+...+  |+..+|+.+..++.+.|++..|.+
T Consensus       304 ~l~~~d~~~l~k~~e~~l~~h-~~~p~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~s~~~~~~la~~~~~~g~~~~A~~  382 (400)
T COG3071         304 RLRPGDPEPLIKAAEKWLKQH-PEDPLLLSTLGRLALKNKLWGKASEALEAALKLRPSASDYAELADALDQLGEPEEAEQ  382 (400)
T ss_pred             hcCCCCchHHHHHHHHHHHhC-CCChhHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCChhhHHHHHHHHHHcCChHHHHH
Confidence            445555555555544443322 22224444444444444444444444443333  333444444444444444444444


Q ss_pred             HHHHH
Q 005487          497 LFGEM  501 (694)
Q Consensus       497 ~~~~~  501 (694)
                      ..++.
T Consensus       383 ~r~e~  387 (400)
T COG3071         383 VRREA  387 (400)
T ss_pred             HHHHH
Confidence            44433

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

Probab=99.44  E-value=6e-10  Score=107.71  Aligned_cols=281  Identities=14%  Similarity=0.098  Sum_probs=145.0

Q ss_pred             HHHHHHHcCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChhhhHHHHHHHHHhcCCCchhHHHHHHHHHHhcC
Q 005487          278 ALIAGYSSRGDSKSCVKLFWRMNEEGIKPTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCG  357 (694)
Q Consensus       278 ~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  357 (694)
                      .-.+-+...+++.+..++.+...+. .++....+..=|..+...|+..+-..+-..+++.- +....+|-++.-.|...|
T Consensus       249 ~~ad~~y~~c~f~~c~kit~~lle~-dpfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~y-P~~a~sW~aVg~YYl~i~  326 (611)
T KOG1173|consen  249 EKADRLYYGCRFKECLKITEELLEK-DPFHLPCLPLHIACLYELGKSNKLFLLSHKLVDLY-PSKALSWFAVGCYYLMIG  326 (611)
T ss_pred             HHHHHHHHcChHHHHHHHhHHHHhh-CCCCcchHHHHHHHHHHhcccchHHHHHHHHHHhC-CCCCcchhhHHHHHHHhc
Confidence            3334444555555555555555544 12222233333334444444444333333333332 334555666666666667


Q ss_pred             CHHHHHHHHhcCCCCC---hhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHcccCChHHHHHHHH
Q 005487          358 RVSSAENVFEKMSKTD---VVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDA-VTFTSVLPACSQLAALEKGKEIHN  433 (694)
Q Consensus       358 ~~~~A~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~~~~~~a~~~~~  433 (694)
                      ..++|++.|.+...-|   ...|-.+...|+-.|..+.|+..+...-+.  .|.. -.+.-+.--|.+.++.+.|.++|.
T Consensus       327 k~seARry~SKat~lD~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl--~~G~hlP~LYlgmey~~t~n~kLAe~Ff~  404 (611)
T KOG1173|consen  327 KYSEARRYFSKATTLDPTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARL--MPGCHLPSLYLGMEYMRTNNLKLAEKFFK  404 (611)
T ss_pred             CcHHHHHHHHHHhhcCccccHHHHHHhHHhhhcchHHHHHHHHHHHHHh--ccCCcchHHHHHHHHHHhccHHHHHHHHH
Confidence            7777777777655433   346777777777777777777777665543  1111 111112223445555666666665


Q ss_pred             HHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhH
Q 005487          434 HIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPERDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITF  513 (694)
Q Consensus       434 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~  513 (694)
                      ++.... |.|+.+.+.+.-+....+.+.+|..+|+....                        ..+..... ..--..++
T Consensus       405 ~A~ai~-P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~------------------------~ik~~~~e-~~~w~p~~  458 (611)
T KOG1173|consen  405 QALAIA-PSDPLVLHELGVVAYTYEEYPEALKYFQKALE------------------------VIKSVLNE-KIFWEPTL  458 (611)
T ss_pred             HHHhcC-CCcchhhhhhhheeehHhhhHHHHHHHHHHHH------------------------Hhhhcccc-ccchhHHH
Confidence            555443 33444444444444444555555554443321                        00000000 00123456


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCCHHHHHHHHHHHH
Q 005487          514 LALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACR  590 (694)
Q Consensus       514 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~  590 (694)
                      +.|..+|.+.+.+++|+..+++.+.  -.+.+..++..++-.|...|+++.|++.|.++..+.|+..+...++..+.
T Consensus       459 ~NLGH~~Rkl~~~~eAI~~~q~aL~--l~~k~~~~~asig~iy~llgnld~Aid~fhKaL~l~p~n~~~~~lL~~ai  533 (611)
T KOG1173|consen  459 NNLGHAYRKLNKYEEAIDYYQKALL--LSPKDASTHASIGYIYHLLGNLDKAIDHFHKALALKPDNIFISELLKLAI  533 (611)
T ss_pred             HhHHHHHHHHhhHHHHHHHHHHHHH--cCCCchhHHHHHHHHHHHhcChHHHHHHHHHHHhcCCccHHHHHHHHHHH
Confidence            6666666666666666666666652  22334556666666666666666666666666666666655555554433

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.44  E-value=2.1e-07  Score=96.18  Aligned_cols=145  Identities=14%  Similarity=0.195  Sum_probs=113.4

Q ss_pred             ChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHH
Q 005487          474 DLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLI  553 (694)
Q Consensus       474 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~  553 (694)
                      .+..|..+..+-.+.|...+|++-|-+      ..|+..|..++....+.|.|++-++++..++++ .-.|..++  .|+
T Consensus      1103 ~p~vWsqlakAQL~~~~v~dAieSyik------adDps~y~eVi~~a~~~~~~edLv~yL~MaRkk-~~E~~id~--eLi 1173 (1666)
T KOG0985|consen 1103 EPAVWSQLAKAQLQGGLVKDAIESYIK------ADDPSNYLEVIDVASRTGKYEDLVKYLLMARKK-VREPYIDS--ELI 1173 (1666)
T ss_pred             ChHHHHHHHHHHHhcCchHHHHHHHHh------cCCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHh-hcCccchH--HHH
Confidence            456789999999999998888876643      236778999999999999999999999888744 55665554  678


Q ss_pred             HHhhhcCCHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHH
Q 005487          554 DLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVR  633 (694)
Q Consensus       554 ~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~  633 (694)
                      -+|.+.+++.+-.+++     ..|+..-....+.-|...|.++.|.-++...        +-|..|+..+...|++..|.
T Consensus      1174 ~AyAkt~rl~elE~fi-----~gpN~A~i~~vGdrcf~~~~y~aAkl~y~~v--------SN~a~La~TLV~LgeyQ~AV 1240 (1666)
T KOG0985|consen 1174 FAYAKTNRLTELEEFI-----AGPNVANIQQVGDRCFEEKMYEAAKLLYSNV--------SNFAKLASTLVYLGEYQGAV 1240 (1666)
T ss_pred             HHHHHhchHHHHHHHh-----cCCCchhHHHHhHHHhhhhhhHHHHHHHHHh--------hhHHHHHHHHHHHHHHHHHH
Confidence            8999999987765544     4677777788889999999999988887654        35777888888888888887


Q ss_pred             HHHHHHH
Q 005487          634 KIRLKMK  640 (694)
Q Consensus       634 ~~~~~~~  640 (694)
                      +.-++.-
T Consensus      1241 D~aRKAn 1247 (1666)
T KOG0985|consen 1241 DAARKAN 1247 (1666)
T ss_pred             HHhhhcc
Confidence            6665543

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.43  E-value=4.7e-12  Score=113.19  Aligned_cols=228  Identities=14%  Similarity=0.110  Sum_probs=128.1

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhc
Q 005487          378 NVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKC  457 (694)
Q Consensus       378 ~~l~~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  457 (694)
                      +.+..+|.+.|.+.+|.+.|+.-.+.  .|-+.||..|-++|.+...+..|..++.+-++. +|.++.......+.+...
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            56677777777777777777766654  455556666666666666666666665555443 233333334455555555


Q ss_pred             CChHHHHHHHhhCCC---CChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHH
Q 005487          458 GAVDEAFKVFNELPE---RDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFN  534 (694)
Q Consensus       458 g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~  534 (694)
                      ++.++|.++|+...+   .++.+...+...|.-.++++-|+.+++++.+.|+ -++..|+.+.-+|.-.+++|-++..|.
T Consensus       304 ~~~~~a~~lYk~vlk~~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~-~speLf~NigLCC~yaqQ~D~~L~sf~  382 (478)
T KOG1129|consen  304 EQQEDALQLYKLVLKLHPINVEAIACIAVGYFYDNNPEMALRYYRRILQMGA-QSPELFCNIGLCCLYAQQIDLVLPSFQ  382 (478)
T ss_pred             HhHHHHHHHHHHHHhcCCccceeeeeeeeccccCCChHHHHHHHHHHHHhcC-CChHHHhhHHHHHHhhcchhhhHHHHH
Confidence            555666666555544   2333344444455555566666666666665552 355555555555555555555555555


Q ss_pred             HhHHhcCCCCChHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCc
Q 005487          535 LMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSS  614 (694)
Q Consensus       535 ~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~  614 (694)
                      ++... ...|+                               ...++|..+.......||+..|.+.|+-++..+|++..
T Consensus       383 RAlst-at~~~-------------------------------~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~h~e  430 (478)
T KOG1129|consen  383 RALST-ATQPG-------------------------------QAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQHGE  430 (478)
T ss_pred             HHHhh-ccCcc-------------------------------hhhhhhhccceeEEeccchHHHHHHHHHHhccCcchHH
Confidence            55421 11222                               12345555555555556666666666666666666666


Q ss_pred             cHHHHHHHHhhcCChHHHHHHHHHHHh
Q 005487          615 TYIVLSNMYASVKKWDEVRKIRLKMKE  641 (694)
Q Consensus       615 ~~~~l~~~~~~~g~~~~A~~~~~~~~~  641 (694)
                      ++.+|+-+-.+.|+.++|..++....+
T Consensus       431 alnNLavL~~r~G~i~~Arsll~~A~s  457 (478)
T KOG1129|consen  431 ALNNLAVLAARSGDILGARSLLNAAKS  457 (478)
T ss_pred             HHHhHHHHHhhcCchHHHHHHHHHhhh
Confidence            666666666666666666666655543

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.41  E-value=2e-09  Score=104.60  Aligned_cols=178  Identities=12%  Similarity=0.136  Sum_probs=117.7

Q ss_pred             cCChHHHHHHHhhCCCCC-hHHHHHHHHH-HH-hcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHH
Q 005487          457 CGAVDEAFKVFNELPERD-LVSWTSMIAA-YG-SHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYF  533 (694)
Q Consensus       457 ~g~~~~A~~~~~~~~~~~-~~~~~~l~~~-~~-~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~  533 (694)
                      .+..+.+.++...++... ...+..++.. .. +...+..|.+++...-+....-.......++......|+++.|.+++
T Consensus       320 tnk~~q~r~~~a~lp~~~p~~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~~p~~s~~v~L~~aQl~is~gn~~~A~~il  399 (652)
T KOG2376|consen  320 TNKMDQVRELSASLPGMSPESLFPILLQEATKVREKKHKKAIELLLQFADGHPEKSKVVLLLRAQLKISQGNPEVALEIL  399 (652)
T ss_pred             hhhHHHHHHHHHhCCccCchHHHHHHHHHHHHHHHHHHhhhHHHHHHHhccCCchhHHHHHHHHHHHHhcCCHHHHHHHH
Confidence            355667777777776632 2233344333 22 22347788888888877531112355566666788899999999999


Q ss_pred             H--------HhHHhcCCCCChHHHHHHHHHhhhcCCHHHHHHHHHhCCC-------CCCC-HHHHHHHHHHHHHcCCHHH
Q 005487          534 N--------LMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPE-------IRED-AGLLSTLFSACRLHRDIEM  597 (694)
Q Consensus       534 ~--------~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-------~~p~-~~~~~~l~~~~~~~~~~~~  597 (694)
                      .        .+.   .+.-.+.+...+...+.+.++.+.|..++.++..       ..+. ...+..++..-.++|+-++
T Consensus       400 ~~~~~~~~ss~~---~~~~~P~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~e  476 (652)
T KOG2376|consen  400 SLFLESWKSSIL---EAKHLPGTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEE  476 (652)
T ss_pred             HHHhhhhhhhhh---hhccChhHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHH
Confidence            8        443   2233345556677788888777767776666543       1121 2345555566677899999


Q ss_pred             HHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHH
Q 005487          598 GEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLK  638 (694)
Q Consensus       598 A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  638 (694)
                      |...++++++.+|++..+...+..+|.... .+.|..+-+.
T Consensus       477 a~s~leel~k~n~~d~~~l~~lV~a~~~~d-~eka~~l~k~  516 (652)
T KOG2376|consen  477 ASSLLEELVKFNPNDTDLLVQLVTAYARLD-PEKAESLSKK  516 (652)
T ss_pred             HHHHHHHHHHhCCchHHHHHHHHHHHHhcC-HHHHHHHhhc
Confidence            999999999999999999999998887764 4556555443

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

Probab=99.40  E-value=2.6e-10  Score=102.35  Aligned_cols=271  Identities=14%  Similarity=0.138  Sum_probs=152.5

Q ss_pred             cCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChhhhHHHHHHHHHhcC-CCc--hhHHHHHHHHHHhcCCHHH
Q 005487          285 SRGDSKSCVKLFWRMNEEGIKPTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNKI-QGD--VFINSSLIDLYFKCGRVSS  361 (694)
Q Consensus       285 ~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~~--~~~~~~l~~~~~~~~~~~~  361 (694)
                      -++++++|.++|-+|.+. -+-+..+-.++...|.+.|..+.|.++.+.+.++.- +.+  ......|..-|...|-+|.
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 LSNQPDKAVDLFLEMLQE-DPETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDR  125 (389)
T ss_pred             hhcCcchHHHHHHHHHhc-CchhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhH
Confidence            457888999999888874 222334445666677777777777777777665421 111  1233345556666666666


Q ss_pred             HHHHHhcCCCCC---hhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcccCChHHHHHHHHHHHHh
Q 005487          362 AENVFEKMSKTD---VVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIES  438 (694)
Q Consensus       362 A~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  438 (694)
                      |+.+|..+...+   ......++..|....+|++|++.-+++.+.|-.+...-.                          
T Consensus       126 AE~~f~~L~de~efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eI--------------------------  179 (389)
T COG2956         126 AEDIFNQLVDEGEFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEI--------------------------  179 (389)
T ss_pred             HHHHHHHHhcchhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHH--------------------------
Confidence            666666655422   234555666666666666666666666555433322110                          


Q ss_pred             CCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCCCCh---HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHH
Q 005487          439 KLETNEIVMGALLDMYAKCGAVDEAFKVFNELPERDL---VSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLA  515 (694)
Q Consensus       439 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~  515 (694)
                           ...|..+...+....+.+.|..++.+..+.|+   .+--.+.+.+...|+++.|.+.++...+.+..--+.+...
T Consensus       180 -----AqfyCELAq~~~~~~~~d~A~~~l~kAlqa~~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~  254 (389)
T COG2956         180 -----AQFYCELAQQALASSDVDRARELLKKALQADKKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEM  254 (389)
T ss_pred             -----HHHHHHHHHHHhhhhhHHHHHHHHHHHHhhCccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHH
Confidence                 11233344444445555666666655554222   2233355566666777777777776666532222455666


Q ss_pred             HHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCCHHHHHHHHHHHH
Q 005487          516 LLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACR  590 (694)
Q Consensus       516 l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~  590 (694)
                      |..+|.+.|+.++...++..+.   ...+....-..+.+.-....-.+.|...+.+-...+|+...+..++....
T Consensus       255 L~~~Y~~lg~~~~~~~fL~~~~---~~~~g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r~Pt~~gf~rl~~~~l  326 (389)
T COG2956         255 LYECYAQLGKPAEGLNFLRRAM---ETNTGADAELMLADLIELQEGIDAAQAYLTRQLRRKPTMRGFHRLMDYHL  326 (389)
T ss_pred             HHHHHHHhCCHHHHHHHHHHHH---HccCCccHHHHHHHHHHHhhChHHHHHHHHHHHhhCCcHHHHHHHHHhhh
Confidence            6667777777777777666665   22344444444445444445556666665555546666666666665543

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.39  E-value=1.2e-11  Score=110.68  Aligned_cols=229  Identities=10%  Similarity=0.058  Sum_probs=181.9

Q ss_pred             HHHHHHHHhcCChHHHHHHHhhCCC--CChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHHHHccC
Q 005487          448 GALLDMYAKCGAVDEAFKVFNELPE--RDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPD-SITFLALLSACSHAG  524 (694)
Q Consensus       448 ~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g  524 (694)
                      +.+..+|.+.|-+.+|.+.|+...+  |.+.+|..|-++|.+..++..|+.++.+..+.  .|- ......+.+.+...+
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q~~~~dTfllLskvY~ridQP~~AL~~~~~gld~--fP~~VT~l~g~ARi~eam~  304 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQFPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS--FPFDVTYLLGQARIHEAME  304 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhcCCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc--CCchhhhhhhhHHHHHHHH
Confidence            4688999999999999999998776  88889999999999999999999999999986  454 444556677889999


Q ss_pred             CHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHHHHHHHHhCCCCC-CCHHHHHHHHHHHHHcCCHHHHHHHHH
Q 005487          525 WVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIR-EDAGLLSTLFSACRLHRDIEMGEKIAK  603 (694)
Q Consensus       525 ~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~l~~~~~~~~~~~~A~~~~~  603 (694)
                      +.++|.++++...+.  .+-+++...+++..|.-.+++|-|+.+|+++.+.. .++..+..++..|.-.++++-+...++
T Consensus       305 ~~~~a~~lYk~vlk~--~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~speLf~NigLCC~yaqQ~D~~L~sf~  382 (478)
T KOG1129|consen  305 QQEDALQLYKLVLKL--HPINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQSPELFCNIGLCCLYAQQIDLVLPSFQ  382 (478)
T ss_pred             hHHHHHHHHHHHHhc--CCccceeeeeeeeccccCCChHHHHHHHHHHHHhcCCChHHHhhHHHHHHhhcchhhhHHHHH
Confidence            999999999999843  23346677778888888999999999999988743 467788999999999999999999999


Q ss_pred             HHHhcCC--C-CCccHHHHHHHHhhcCChHHHHHHHHHHHhCCCccCCceeEEEECCEEEEEEeCCCCCCChHHHHHHHH
Q 005487          604 LLIEKDP--D-DSSTYIVLSNMYASVKKWDEVRKIRLKMKELGLRKNPGCSWIEIGDRIQPFFAEDKFYPQADMVYECLA  680 (694)
Q Consensus       604 ~~~~~~p--~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  680 (694)
                      +++....  + -+.+|++|+.+....|++.-|.+.|+.......  +.+.+...+    ..+..+.+...+++.++..-.
T Consensus       383 RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~--~h~ealnNL----avL~~r~G~i~~Arsll~~A~  456 (478)
T KOG1129|consen  383 RALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDA--QHGEALNNL----AVLAARSGDILGARSLLNAAK  456 (478)
T ss_pred             HHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCc--chHHHHHhH----HHHHhhcCchHHHHHHHHHhh
Confidence            9997653  2 556899999999999999999999997765442  222232222    234455566777777777666


Q ss_pred             HHHHHh
Q 005487          681 ILAGHM  686 (694)
Q Consensus       681 ~~~~~~  686 (694)
                      .+.-.|
T Consensus       457 s~~P~m  462 (478)
T KOG1129|consen  457 SVMPDM  462 (478)
T ss_pred             hhCccc
Confidence            554444

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.38  E-value=1.8e-10  Score=114.91  Aligned_cols=232  Identities=17%  Similarity=0.214  Sum_probs=174.5

Q ss_pred             HHHHHHHHHHHcccCChHHHHHHHHHHHHh-----CC-CCCh-hHHHHHHHHHHhcCChHHHHHHHhhCCC-------C-
Q 005487          409 AVTFTSVLPACSQLAALEKGKEIHNHIIES-----KL-ETNE-IVMGALLDMYAKCGAVDEAFKVFNELPE-------R-  473 (694)
Q Consensus       409 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----~~-~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~-------~-  473 (694)
                      ..+...+...|...|+++.|...++..++.     |. .|.. ...+.+...|...+++++|..+|+++..       + 
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            456666778888889999988888887654     21 2222 2334577888899999999999988765       2 


Q ss_pred             C---hHHHHHHHHHHHhcCCHHHHHHHHHHHHHc-----CC-CCCH-hhHHHHHHHHHccCCHHHHHHHHHHhHHhcC--
Q 005487          474 D---LVSWTSMIAAYGSHGRALEALKLFGEMQQS-----NA-RPDS-ITFLALLSACSHAGWVDEGGYYFNLMISEYN--  541 (694)
Q Consensus       474 ~---~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-----~~-~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~--  541 (694)
                      +   ..+++.|..+|.+.|++.+|...+++..+-     |. .|.. ..+..+...|...+.+++|..+++...+.+.  
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            2   236788888999999999988888776532     11 2222 3466666788899999999999998765433  


Q ss_pred             CCCC----hHHHHHHHHHhhhcCCHHHHHHHHHhCCC------C--CC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Q 005487          542 IQPR----NEHYSCLIDLLGRAGRLQEAYGILQSTPE------I--RE-DAGLLSTLFSACRLHRDIEMGEKIAKLLIEK  608 (694)
Q Consensus       542 ~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~------~--~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  608 (694)
                      ..++    ..++..|+..|...|++++|.++++++..      .  .+ ....++.++..|.+.+++.+|.++|..++.+
T Consensus       359 ~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i  438 (508)
T KOG1840|consen  359 PGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDI  438 (508)
T ss_pred             ccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHH
Confidence            2233    35789999999999999999999998764      1  12 2456788889999999999999999888754


Q ss_pred             ----CCCCC---ccHHHHHHHHhhcCChHHHHHHHHHHH
Q 005487          609 ----DPDDS---STYIVLSNMYASVKKWDEVRKIRLKMK  640 (694)
Q Consensus       609 ----~p~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~  640 (694)
                          .|+++   .+|.+|+.+|..+|++++|.++.+++.
T Consensus       439 ~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  439 MKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             HHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence                35554   478899999999999999999988875

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.37  E-value=9.4e-09  Score=103.34  Aligned_cols=134  Identities=13%  Similarity=0.084  Sum_probs=114.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCC-hHHHHHHHHH
Q 005487          477 SWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPR-NEHYSCLIDL  555 (694)
Q Consensus       477 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~  555 (694)
                      .|......+...+..++|...+.+..+.. +-....|......+...|.+.+|.+.|....   .+.|+ +....+++.+
T Consensus       652 lwllaa~~~~~~~~~~~a~~CL~Ea~~~~-~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al---~ldP~hv~s~~Ala~~  727 (799)
T KOG4162|consen  652 LWLLAADLFLLSGNDDEARSCLLEASKID-PLSASVYYLRGLLLEVKGQLEEAKEAFLVAL---ALDPDHVPSMTALAEL  727 (799)
T ss_pred             HHHHHHHHHHhcCCchHHHHHHHHHHhcc-hhhHHHHHHhhHHHHHHHhhHHHHHHHHHHH---hcCCCCcHHHHHHHHH
Confidence            56667778889999999998888888752 3456777777788999999999999999888   67787 5688899999


Q ss_pred             hhhcCCHHHHHH--HHHhCCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCc
Q 005487          556 LGRAGRLQEAYG--ILQSTPEIRED-AGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSS  614 (694)
Q Consensus       556 ~~~~g~~~~A~~--~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~  614 (694)
                      +.+.|+..-|..  ++..+.+.+|+ ...|..++..+...|+.+.|.+.|+.++++.+.+|.
T Consensus       728 lle~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qLe~S~PV  789 (799)
T KOG4162|consen  728 LLELGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVFKKLGDSKQAAECFQAALQLEESNPV  789 (799)
T ss_pred             HHHhCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHccchHHHHHHHHHHHhhccCCCc
Confidence            999998777776  99999988875 789999999999999999999999999999987664

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=99.37  E-value=6.5e-11  Score=101.24  Aligned_cols=163  Identities=14%  Similarity=0.133  Sum_probs=123.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCC-hHHHHHHHHH
Q 005487          477 SWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPR-NEHYSCLIDL  555 (694)
Q Consensus       477 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~  555 (694)
                      +...|...|...|++..|..-+++.++.. +.+..++..+...|.+.|..+.|.+.|+++.   .+.|+ ..+.+..+..
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAl---sl~p~~GdVLNNYG~F  112 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKAL---SLAPNNGDVLNNYGAF  112 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHH---hcCCCccchhhhhhHH
Confidence            44556777888888888888888888763 2235677777777888888888888888877   44555 4577777888


Q ss_pred             hhhcCCHHHHHHHHHhCCCCCC----CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHH
Q 005487          556 LGRAGRLQEAYGILQSTPEIRE----DAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDE  631 (694)
Q Consensus       556 ~~~~g~~~~A~~~~~~~~~~~p----~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  631 (694)
                      ++.+|++++|...|+++.. .|    -..+|..++.+..+.|+.+.|...++++++.+|+.+.+...++......|++-.
T Consensus       113 LC~qg~~~eA~q~F~~Al~-~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~~~~~~l~~a~~~~~~~~y~~  191 (250)
T COG3063         113 LCAQGRPEEAMQQFERALA-DPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQFPPALLELARLHYKAGDYAP  191 (250)
T ss_pred             HHhCCChHHHHHHHHHHHh-CCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcCCChHHHHHHHHHHhcccchH
Confidence            8888888888888887763 23    245677777777778888888888888888888888888888888888888888


Q ss_pred             HHHHHHHHHhCCC
Q 005487          632 VRKIRLKMKELGL  644 (694)
Q Consensus       632 A~~~~~~~~~~~~  644 (694)
                      |.-++++....+.
T Consensus       192 Ar~~~~~~~~~~~  204 (250)
T COG3063         192 ARLYLERYQQRGG  204 (250)
T ss_pred             HHHHHHHHHhccc
Confidence            8888887776665

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.36  E-value=2.2e-09  Score=97.45  Aligned_cols=451  Identities=12%  Similarity=0.089  Sum_probs=217.2

Q ss_pred             HHHHhcCCChhHHHHHHhhCCCCC--chh-hHHHHHHHHHccCChhHHHHHHHHhhhCCCCCCCcccHHHHHHHhhCCCC
Q 005487           45 INLYFSCQNYDYAMLVFKTIDNPL--DLS-LWNGLMASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLGS  121 (694)
Q Consensus        45 ~~~~~~~g~~~~a~~~~~~~~~~~--~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~  121 (694)
                      ++=+....++..|+.+++--..-+  ..+ .--.+.-++.+-|++++|+..|..+.++  ..++...+..+.-...-.|.
T Consensus        29 Ledfls~rDytGAislLefk~~~~~EEE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~--~~~~~el~vnLAcc~FyLg~  106 (557)
T KOG3785|consen   29 LEDFLSNRDYTGAISLLEFKLNLDREEEDSLQLWIAHCYFHLGDYEEALNVYTFLMNK--DDAPAELGVNLACCKFYLGQ  106 (557)
T ss_pred             HHHHHhcccchhHHHHHHHhhccchhhhHHHHHHHHHHHHhhccHHHHHHHHHHHhcc--CCCCcccchhHHHHHHHHHH
Confidence            344445666777777665543211  110 2223445556777777777777776665  44555555555554445566


Q ss_pred             chhHHHHHHHHHHHcCCCchhHHHHHHHhhhcCCChHHHHHHhccCCCCCcccHHHHHHHHHhCCChhHHHHHHHHHHhC
Q 005487          122 VGIGKMIHTHLIKTGFLLDVVIASSTAGMYAKCNSFECAVKMFDEMSERDVASWNTVISCYYQDGQAEKALELFKKMRGS  201 (694)
Q Consensus       122 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  201 (694)
                      +.+|+.+-...     +.++-....++..-.+.|+-++-..+-+.+.+. ...--+|.+.....-.+++|+++|......
T Consensus       107 Y~eA~~~~~ka-----~k~pL~~RLlfhlahklndEk~~~~fh~~LqD~-~EdqLSLAsvhYmR~HYQeAIdvYkrvL~d  180 (557)
T KOG3785|consen  107 YIEAKSIAEKA-----PKTPLCIRLLFHLAHKLNDEKRILTFHSSLQDT-LEDQLSLASVHYMRMHYQEAIDVYKRVLQD  180 (557)
T ss_pred             HHHHHHHHhhC-----CCChHHHHHHHHHHHHhCcHHHHHHHHHHHhhh-HHHHHhHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            66666554432     223333334444444556655555544444331 122233444444455667777777776654


Q ss_pred             CCCCChhhHHHHH-HHHhccCChhHHHHHHHHHHHhCCCCchhHHHHHHHhhHhcCChHHHHHHHhcCCCCChhHHHHHH
Q 005487          202 GFQPNSVTLTTVI-SSCARLMDLDRGKEIHKEFIKDGFVSDSYISSALVDMYGKCGCLEMAREVFEQTVLKSVVAWNALI  280 (694)
Q Consensus       202 ~~~~~~~~~~~ll-~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li  280 (694)
                        .|.-...+.-+ -+|.+..-++-+.+++.-.++. ++.++...|..+....+                          
T Consensus       181 --n~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q-~pdStiA~NLkacn~fR--------------------------  231 (557)
T KOG3785|consen  181 --NPEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQ-FPDSTIAKNLKACNLFR--------------------------  231 (557)
T ss_pred             --ChhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHh-CCCcHHHHHHHHHHHhh--------------------------
Confidence              24433444333 3344555555566666555554 23333333333222222                          


Q ss_pred             HHHHcCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHH-hhccCChhhhHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCH
Q 005487          281 AGYSSRGDSKSCVKLFWRMNEEGIKPTLTTISSVLMS-CSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRV  359 (694)
Q Consensus       281 ~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  359 (694)
                           .=.-..|.+-.+.+.+.+-.. -....-+++. +.--.+-+.|.+++-.+.+.-    +..-..++-.|.+.+++
T Consensus       232 -----l~ngr~ae~E~k~ladN~~~~-~~f~~~l~rHNLVvFrngEgALqVLP~L~~~I----PEARlNL~iYyL~q~dV  301 (557)
T KOG3785|consen  232 -----LINGRTAEDEKKELADNIDQE-YPFIEYLCRHNLVVFRNGEGALQVLPSLMKHI----PEARLNLIIYYLNQNDV  301 (557)
T ss_pred             -----hhccchhHHHHHHHHhccccc-chhHHHHHHcCeEEEeCCccHHHhchHHHhhC----hHhhhhheeeecccccH
Confidence                 111112222222222221100 0000001100 111233455555554444332    12223466678899999


Q ss_pred             HHHHHHHhcCCCCChhHHHHHHHHHHhcCC-------hHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHcccCChHHHHHH
Q 005487          360 SSAENVFEKMSKTDVVYWNVMISGYVTVGD-------YFKALAIYSDMKEVGAKPDAV-TFTSVLPACSQLAALEKGKEI  431 (694)
Q Consensus       360 ~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~-------~~~A~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~~~~~~a~~~  431 (694)
                      .+|..+.+++....+.-|-.-.-.++..|+       ..-|.+.|+-.-.++..-|.. ---++...+.-...++.+..+
T Consensus       302 qeA~~L~Kdl~PttP~EyilKgvv~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~Y  381 (557)
T KOG3785|consen  302 QEAISLCKDLDPTTPYEYILKGVVFAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTY  381 (557)
T ss_pred             HHHHHHHhhcCCCChHHHHHHHHHHHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHH
Confidence            999999999887666555443334444443       333444444333333222211 112233334444555666666


Q ss_pred             HHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCCCC---hHHHH-HHHHHHHhcCCHHHHHHHHHHHHHcCCC
Q 005487          432 HNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPERD---LVSWT-SMIAAYGSHGRALEALKLFGEMQQSNAR  507 (694)
Q Consensus       432 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---~~~~~-~l~~~~~~~~~~~~A~~~~~~~~~~~~~  507 (694)
                      +..+...-...|...+ .+.++++..|.+.+|.++|-.+..|+   ..+|. .|.++|.+.++++.|..++-++..   +
T Consensus       382 lnSi~sYF~NdD~Fn~-N~AQAk~atgny~eaEelf~~is~~~ikn~~~Y~s~LArCyi~nkkP~lAW~~~lk~~t---~  457 (557)
T KOG3785|consen  382 LNSIESYFTNDDDFNL-NLAQAKLATGNYVEAEELFIRISGPEIKNKILYKSMLARCYIRNKKPQLAWDMMLKTNT---P  457 (557)
T ss_pred             HHHHHHHhcCcchhhh-HHHHHHHHhcChHHHHHHHhhhcChhhhhhHHHHHHHHHHHHhcCCchHHHHHHHhcCC---c
Confidence            5555544333333333 35666666677777777666666533   23333 345566666666666555433322   2


Q ss_pred             CCHhhHHHH-HHHHHccCCHHHHHHHHHHhHHhcCCCCChHHH
Q 005487          508 PDSITFLAL-LSACSHAGWVDEGGYYFNLMISEYNIQPRNEHY  549 (694)
Q Consensus       508 p~~~~~~~l-~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~  549 (694)
                      .+..+...+ ...|.+.+.+=-|.+.|+.+.   ...|+++.|
T Consensus       458 ~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE---~lDP~pEnW  497 (557)
T KOG3785|consen  458 SERFSLLQLIANDCYKANEFYYAAKAFDELE---ILDPTPENW  497 (557)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHHHHhhhHHH---ccCCCcccc
Confidence            233333333 335666666666666666555   345666555

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=99.33  E-value=8.1e-08  Score=94.84  Aligned_cols=445  Identities=13%  Similarity=0.087  Sum_probs=221.7

Q ss_pred             hCCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchhHHHHHHHhhHhcCChHHHHH
Q 005487          184 QDGQAEKALELFKKMRGSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVSDSYISSALVDMYGKCGCLEMARE  263 (694)
Q Consensus       184 ~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  263 (694)
                      ..+++...+.+.+.+.+. .+-...|.....-.+...|+.++|....+...+.. ..+.++|..+.-.+....++++|++
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 ETKQYKKGLKLIKQILKK-FPEHGESLAMKGLTLNCLGKKEEAYELVRLGLRND-LKSHVCWHVLGLLQRSDKKYDEAIK   96 (700)
T ss_pred             HHHHHHhHHHHHHHHHHh-CCccchhHHhccchhhcccchHHHHHHHHHHhccC-cccchhHHHHHHHHhhhhhHHHHHH
Confidence            344455555555544442 22222233333333444455555555555444432 3344445555555555555555555


Q ss_pred             HHhcCC---CCChhHHHHHHHHHHcCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChhhhHHHHHHHHHhcC-
Q 005487          264 VFEQTV---LKSVVAWNALIAGYSSRGDSKSCVKLFWRMNEEGIKPTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNKI-  339 (694)
Q Consensus       264 ~~~~~~---~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-  339 (694)
                      .|+...   +.|...|.-+.-.-.+.|+++.....-..+.+. .+.....|.....+..-.|+...|..+.+...+... 
T Consensus        97 cy~nAl~~~~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql-~~~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~  175 (700)
T KOG1156|consen   97 CYRNALKIEKDNLQILRDLSLLQIQMRDYEGYLETRNQLLQL-RPSQRASWIGFAVAQHLLGEYKMALEILEEFEKTQNT  175 (700)
T ss_pred             HHHHHHhcCCCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHh-hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence            555432   223344444444444445555555444444443 112223344444555555555555555555554432 


Q ss_pred             CCchhHHHHH------HHHHHhcCCHHHHHHHHhcCCCC---ChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH
Q 005487          340 QGDVFINSSL------IDLYFKCGRVSSAENVFEKMSKT---DVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAV  410 (694)
Q Consensus       340 ~~~~~~~~~l------~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~m~~~g~~p~~~  410 (694)
                      .|+...+.-.      .....+.|.++.|.+-+......   ....-..-...+.+.+++++|..++..+...  .||..
T Consensus       176 ~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~r--nPdn~  253 (700)
T KOG1156|consen  176 SPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQIVDKLAFEETKADLLMKLGQLEEAVKVYRRLLER--NPDNL  253 (700)
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhHHHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhh--CchhH
Confidence            2333322211      12334556666666665544421   1122233445566777788888888777775  46655


Q ss_pred             HHHHHHHHHc-cc-CChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCCh-HHHHHHHhhCCCC-ChHHHHHHHHHHH
Q 005487          411 TFTSVLPACS-QL-AALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAV-DEAFKVFNELPER-DLVSWTSMIAAYG  486 (694)
Q Consensus       411 ~~~~ll~~~~-~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~A~~~~~~~~~~-~~~~~~~l~~~~~  486 (694)
                      -|...+..+. .. +..+....+|....+.-.......  .+--.......+ +..-.++....+. =+.++..+...|-
T Consensus       254 ~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y~r~e~p~--Rlplsvl~~eel~~~vdkyL~~~l~Kg~p~vf~dl~SLyk  331 (700)
T KOG1156|consen  254 DYYEGLEKALGKIKDMLEALKALYAILSEKYPRHECPR--RLPLSVLNGEELKEIVDKYLRPLLSKGVPSVFKDLRSLYK  331 (700)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHhhcCcccccch--hccHHHhCcchhHHHHHHHHHHHhhcCCCchhhhhHHHHh
Confidence            5554444333 22 222223244444433211100000  000000011111 1112222222221 1122233333222


Q ss_pred             hcCCHHHHHHHHHHHH----HcC----------CCCCH--hhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCC-hHHH
Q 005487          487 SHGRALEALKLFGEMQ----QSN----------ARPDS--ITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPR-NEHY  549 (694)
Q Consensus       487 ~~~~~~~A~~~~~~~~----~~~----------~~p~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~  549 (694)
                      .-...+-..++.-.+.    ..|          -+|..  .++..++..+-..|+++.|..+++.+.   +..|+ ++.|
T Consensus       332 ~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt~y~laqh~D~~g~~~~A~~yId~AI---dHTPTliEly  408 (700)
T KOG1156|consen  332 DPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAI---DHTPTLIELY  408 (700)
T ss_pred             chhHhHHHHHHHHHHHhhcccccCCCcccccccCCchHHHHHHHHHHHHHHHcccHHHHHHHHHHHh---ccCchHHHHH
Confidence            2111111111111111    111          13443  455566777888999999999999988   66787 4577


Q ss_pred             HHHHHHhhhcCCHHHHHHHHHhCCCCCCCHHHHH-HHHHHHHHcCCHHHHHHHHHHHHhcCCCCCc--------cHHH--
Q 005487          550 SCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLS-TLFSACRLHRDIEMGEKIAKLLIEKDPDDSS--------TYIV--  618 (694)
Q Consensus       550 ~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~-~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~--------~~~~--  618 (694)
                      ..-++++...|.+++|..+++++.+.+.....++ .-+....+.++.++|..++.+-.+.+-+ ..        .|+.  
T Consensus       409 ~~KaRI~kH~G~l~eAa~~l~ea~elD~aDR~INsKcAKYmLrAn~i~eA~~~~skFTr~~~~-~~~~L~~mqcmWf~~E  487 (700)
T KOG1156|consen  409 LVKARIFKHAGLLDEAAAWLDEAQELDTADRAINSKCAKYMLRANEIEEAEEVLSKFTREGFG-AVNNLAEMQCMWFQLE  487 (700)
T ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhccchhHHHHHHHHHHHHHccccHHHHHHHHHhhhcccc-hhhhHHHhhhHHHhHh
Confidence            7778999999999999999999887554444444 6667777888999999888876654421 11        2222  


Q ss_pred             HHHHHhhcCChHHHHHHHHHH
Q 005487          619 LSNMYASVKKWDEVRKIRLKM  639 (694)
Q Consensus       619 l~~~~~~~g~~~~A~~~~~~~  639 (694)
                      =|.+|.++|++..|++-+...
T Consensus       488 ~g~ay~r~~k~g~ALKkfh~i  508 (700)
T KOG1156|consen  488 DGEAYLRQNKLGLALKKFHEI  508 (700)
T ss_pred             hhHHHHHHHHHHHHHHHHhhH
Confidence            266788899998888766544

>PRK12370 invasion protein regulator; Provisional

Probab=99.32  E-value=6e-10  Score=117.37  Aligned_cols=245  Identities=13%  Similarity=0.018  Sum_probs=178.7

Q ss_pred             ChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHc---------ccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcC
Q 005487          389 DYFKALAIYSDMKEVGAKPD-AVTFTSVLPACS---------QLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCG  458 (694)
Q Consensus       389 ~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~---------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  458 (694)
                      +.++|...|++..+.  .|+ ...+..+..++.         ..++.++|...++++++.+ +.+...+..+..++...|
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            456788888888775  443 334444433322         3355789999999988876 456777888888899999


Q ss_pred             ChHHHHHHHhhCCC--C-ChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH-hhHHHHHHHHHccCCHHHHHHHHH
Q 005487          459 AVDEAFKVFNELPE--R-DLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDS-ITFLALLSACSHAGWVDEGGYYFN  534 (694)
Q Consensus       459 ~~~~A~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~  534 (694)
                      ++++|...|++...  | +...+..+..++...|++++|...++++.+.  .|+. ..+..++..+...|++++|+..++
T Consensus       353 ~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l--~P~~~~~~~~~~~~~~~~g~~eeA~~~~~  430 (553)
T PRK12370        353 EYIVGSLLFKQANLLSPISADIKYYYGWNLFMAGQLEEALQTINECLKL--DPTRAAAGITKLWITYYHTGIDDAIRLGD  430 (553)
T ss_pred             CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCChhhHHHHHHHHHhccCHHHHHHHHH
Confidence            99999999998876  4 4567888999999999999999999999986  4543 334444555677899999999999


Q ss_pred             HhHHhcCCCCC-hHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCCHH-HHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCC
Q 005487          535 LMISEYNIQPR-NEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAG-LLSTLFSACRLHRDIEMGEKIAKLLIEKDPDD  612 (694)
Q Consensus       535 ~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~-~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~  612 (694)
                      ++...  ..|+ +..+..++.++...|++++|...++++....|+.. .+..+...+...|  +.|...++++++..-..
T Consensus       431 ~~l~~--~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~~~~~  506 (553)
T PRK12370        431 ELRSQ--HLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEITGLIAVNLLYAEYCQNS--ERALPTIREFLESEQRI  506 (553)
T ss_pred             HHHHh--ccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccchhHHHHHHHHHHHhccH--HHHHHHHHHHHHHhhHh
Confidence            98743  2354 44677889999999999999999999776666543 4555556666666  47777777776644332


Q ss_pred             CccHHHHHHHHhhcCChHHHHHHHHHHHhCC
Q 005487          613 SSTYIVLSNMYASVKKWDEVRKIRLKMKELG  643 (694)
Q Consensus       613 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  643 (694)
                      +.....+..+|.-.|+.+.+..+ +++.+.+
T Consensus       507 ~~~~~~~~~~~~~~g~~~~~~~~-~~~~~~~  536 (553)
T PRK12370        507 DNNPGLLPLVLVAHGEAIAEKMW-NKFKNED  536 (553)
T ss_pred             hcCchHHHHHHHHHhhhHHHHHH-HHhhccc
Confidence            22333377778888998888777 7776654

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.31  E-value=1.2e-06  Score=90.74  Aligned_cols=248  Identities=11%  Similarity=0.056  Sum_probs=144.1

Q ss_pred             hhHHHHHHhcCCChhHHHHHHhhCCCCCchhhHHHHHHHHHccCChhHHHHHHHHhhhCCCCCCCcccHHHHHHHhhCCC
Q 005487           41 CKSLINLYFSCQNYDYAMLVFKTIDNPLDLSLWNGLMASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLG  120 (694)
Q Consensus        41 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~  120 (694)
                      .+..+..|+.+|.++++.-...+....+   -|--+++...+ -.++.+.++...|.+.   .|....++.+...+...+
T Consensus       484 p~KVi~cfAE~Gqf~KiilY~kKvGyTP---dymflLq~l~r-~sPD~~~qFa~~l~Q~---~~~~~die~I~DlFme~N  556 (1666)
T KOG0985|consen  484 PAKVIQCFAETGQFKKIILYAKKVGYTP---DYMFLLQQLKR-SSPDQALQFAMMLVQD---EEPLADIEQIVDLFMELN  556 (1666)
T ss_pred             cHHHHHHHHHhcchhHHHHHHHHcCCCc---cHHHHHHHHHc-cChhHHHHHHHHhhcc---CCCcccHHHHHHHHHHHH
Confidence            3445666666666666666655553322   24456665555 6788888888888765   234444556666666666


Q ss_pred             CchhHHHHHHHHHHHcCCCch-hHHHHHHHhhhcCCChHHHHHHhccCCCCCcccHHHHHHHHHhCCChhHHHHHHHHHH
Q 005487          121 SVGIGKMIHTHLIKTGFLLDV-VIASSTAGMYAKCNSFECAVKMFDEMSERDVASWNTVISCYYQDGQAEKALELFKKMR  199 (694)
Q Consensus       121 ~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  199 (694)
                      ....+..++-.+++.. .|+. ..-+.++..-.. +-.+-|..++-.-.- +..-|..+...|.++|-.++|++.+.++.
T Consensus       557 ~iQq~TSFLLdaLK~~-~Pd~g~LQTrLLE~NL~-~aPqVADAILgN~mF-tHyDra~IAqLCEKAGL~qraLehytDl~  633 (1666)
T KOG0985|consen  557 LIQQCTSFLLDALKLN-SPDEGHLQTRLLEMNLV-HAPQVADAILGNDMF-THYDRAEIAQLCEKAGLLQRALEHYTDLY  633 (1666)
T ss_pred             hhhhhHHHHHHHhcCC-ChhhhhHHHHHHHHHhc-cchHHHHHHHhcccc-ccccHHHHHHHHHhcchHHHHHHhcccHH
Confidence            6666666665555543 3333 233334432221 122222222211000 11226778888888999999998887764


Q ss_pred             hC--CCCCChhhHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchhHHHHHHHhhHhcCChHHHHHHHhcCCC-------
Q 005487          200 GS--GFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVSDSYISSALVDMYGKCGCLEMAREVFEQTVL-------  270 (694)
Q Consensus       200 ~~--~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-------  270 (694)
                      .-  -+..+...----+-.+.-.-.++.+.+.++.|+..++..+..+...+..-|...-..+...++|+....       
T Consensus       634 DIKR~vVhth~L~pEwLv~yFg~lsve~s~eclkaml~~NirqNlQi~VQvatky~eqlg~~~li~lFE~fks~eGL~yf  713 (1666)
T KOG0985|consen  634 DIKRVVVHTHLLNPEWLVNYFGSLSVEDSLECLKAMLSANIRQNLQIVVQVATKYHEQLGAQALIELFESFKSYEGLYYF  713 (1666)
T ss_pred             HHHHHHHHhccCCHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCHHHHHHHHHhhccchhHHHH
Confidence            31  000000000011222223345677888888888888888888777777777777777777777776432       


Q ss_pred             --------CChhHHHHHHHHHHcCCCchHHHHHHHH
Q 005487          271 --------KSVVAWNALIAGYSSRGDSKSCVKLFWR  298 (694)
Q Consensus       271 --------~~~~~~~~li~~~~~~~~~~~a~~~~~~  298 (694)
                              .|+...-..|.+.++.|++.+..++.++
T Consensus       714 LgSivn~seDpevh~KYIqAA~kt~QikEvERicre  749 (1666)
T KOG0985|consen  714 LGSIVNFSEDPEVHFKYIQAACKTGQIKEVERICRE  749 (1666)
T ss_pred             HHHHhccccCchHHHHHHHHHHhhccHHHHHHHHhc
Confidence                    3666666778888888888887776544

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.31  E-value=2.6e-10  Score=109.61  Aligned_cols=189  Identities=14%  Similarity=0.012  Sum_probs=87.4

Q ss_pred             HHHHHHHHHhcCChHHHHHHHhhCCC---CChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHHHHc
Q 005487          447 MGALLDMYAKCGAVDEAFKVFNELPE---RDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPD-SITFLALLSACSH  522 (694)
Q Consensus       447 ~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~  522 (694)
                      |..+...|...|++++|...|+...+   .++..|+.+...+...|+++.|...|++..+.  .|+ ...+..+..++..
T Consensus        67 ~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l--~P~~~~a~~~lg~~l~~  144 (296)
T PRK11189         67 HYERGVLYDSLGLRALARNDFSQALALRPDMADAYNYLGIYLTQAGNFDAAYEAFDSVLEL--DPTYNYAYLNRGIALYY  144 (296)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHH
Confidence            44444555555555555555555443   23345555555556666666666666655553  333 3445555555555


Q ss_pred             cCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHHHHHHHHhCCC-CCCCHHHHHHHHHHHHHcCCHHHH--H
Q 005487          523 AGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPE-IREDAGLLSTLFSACRLHRDIEMG--E  599 (694)
Q Consensus       523 ~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~p~~~~~~~l~~~~~~~~~~~~A--~  599 (694)
                      .|++++|.+.++...+   ..|+..........+...+++++|...+++... ..|+.  |. ........|+...+  .
T Consensus       145 ~g~~~eA~~~~~~al~---~~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~~~~~~--~~-~~~~~~~lg~~~~~~~~  218 (296)
T PRK11189        145 GGRYELAQDDLLAFYQ---DDPNDPYRALWLYLAESKLDPKQAKENLKQRYEKLDKEQ--WG-WNIVEFYLGKISEETLM  218 (296)
T ss_pred             CCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHccCCHHHHHHHHHHHHhhCCccc--cH-HHHHHHHccCCCHHHHH
Confidence            5666666666655552   233322111112223334555666655544321 12221  11 11111122332221  1


Q ss_pred             HHHH----HHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHHHHhCC
Q 005487          600 KIAK----LLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELG  643 (694)
Q Consensus       600 ~~~~----~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  643 (694)
                      +.+.    ...++.|+.+.+|..+|.++...|++++|+..|++..+.+
T Consensus       219 ~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~  266 (296)
T PRK11189        219 ERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANN  266 (296)
T ss_pred             HHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            1111    1123334445556666666666666666666666555433

>PRK12370 invasion protein regulator; Provisional

Probab=99.30  E-value=2.4e-10  Score=120.27  Aligned_cols=214  Identities=13%  Similarity=0.026  Sum_probs=168.9

Q ss_pred             CChHHHHHHHHHHHHhCCCCChhHHHHHHHHHH---------hcCChHHHHHHHhhCCC---CChHHHHHHHHHHHhcCC
Q 005487          423 AALEKGKEIHNHIIESKLETNEIVMGALLDMYA---------KCGAVDEAFKVFNELPE---RDLVSWTSMIAAYGSHGR  490 (694)
Q Consensus       423 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~---------~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~  490 (694)
                      ++.+.|...+++.++.. |.+...+..+..++.         ..+++++|...+++...   .+...+..+...+...|+
T Consensus       275 ~~~~~A~~~~~~Al~ld-P~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ldP~~~~a~~~lg~~~~~~g~  353 (553)
T PRK12370        275 YSLQQALKLLTQCVNMS-PNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELDHNNPQALGLLGLINTIHSE  353 (553)
T ss_pred             HHHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHccC
Confidence            45678999999988765 334555666665544         23458899999998877   456688888899999999


Q ss_pred             HHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChH-HHHHHHHHhhhcCCHHHHHHHH
Q 005487          491 ALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNE-HYSCLIDLLGRAGRLQEAYGIL  569 (694)
Q Consensus       491 ~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~g~~~~A~~~~  569 (694)
                      +++|...++++.+.+ +.+...+..+...+...|++++|+..++++.   .+.|+.. .+..++..+...|++++|+..+
T Consensus       354 ~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al---~l~P~~~~~~~~~~~~~~~~g~~eeA~~~~  429 (553)
T PRK12370        354 YIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTINECL---KLDPTRAAAGITKLWITYYHTGIDDAIRLG  429 (553)
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH---hcCCCChhhHHHHHHHHHhccCHHHHHHHH
Confidence            999999999999974 3346778888889999999999999999998   4566633 3344455677789999999999


Q ss_pred             HhCCCC-CCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHHHHhCC
Q 005487          570 QSTPEI-RED-AGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELG  643 (694)
Q Consensus       570 ~~~~~~-~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  643 (694)
                      +++.+. .|+ +..+..++.++...|++++|.+.++++....|.+......++..|...|  ++|...++++.+..
T Consensus       430 ~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~~  503 (553)
T PRK12370        430 DELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEITGLIAVNLLYAEYCQNS--ERALPTIREFLESE  503 (553)
T ss_pred             HHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccchhHHHHHHHHHHHhccH--HHHHHHHHHHHHHh
Confidence            987643 354 4557778888889999999999999998888888888888998889888  48888888876543

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=99.29  E-value=8.5e-08  Score=99.08  Aligned_cols=598  Identities=11%  Similarity=0.012  Sum_probs=294.9

Q ss_pred             HHHHHHhhCCCChhhHhHHHHHHHHhCCCCC-chhhhHHHHHHhcCCChhHHHHHHhhCCC--CCchhhHHHHHHHHHcc
Q 005487            7 LTLLRTCTGSKSLKEGKIIHQKVVTLGLQNN-IALCKSLINLYFSCQNYDYAMLVFKTIDN--PLDLSLWNGLMASYTKN   83 (694)
Q Consensus         7 ~~~l~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--~~~~~~~~~l~~~~~~~   83 (694)
                      .-++..|.+.. .+.+...|-+.+  +..++ ...|..|...|...-+...|.+.|++.-+  +....++..+...|++.
T Consensus       463 ~w~a~~~~rK~-~~~al~ali~al--rld~~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLDatdaeaaaa~adtyae~  539 (1238)
T KOG1127|consen  463 FWVALGCMRKN-SALALHALIRAL--RLDVSLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELDATDAEAAAASADTYAEE  539 (1238)
T ss_pred             HHHHHHHhhhh-HHHHHHHHHHHH--hcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCchhhhhHHHHHHHhhcc
Confidence            33444444433 444444444444  43455 36788888888888888889998888744  44444788888899999


Q ss_pred             CChhHHHHHHHHhhhCCCCCCCcccHHHHHHHhhCCCCchhHHHHHHHHHHHcCCCchhHHHHHHHhhhcCCChHHHHHH
Q 005487           84 YMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLGSVGIGKMIHTHLIKTGFLLDVVIASSTAGMYAKCNSFECAVKM  163 (694)
Q Consensus        84 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  163 (694)
                      .+++.|..+.-..-+......-...|....-.+...+++..+..-|+...+.. +.|...|..++.+|.++|.+..|.+.
T Consensus       540 ~~we~a~~I~l~~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~d-PkD~n~W~gLGeAY~~sGry~~AlKv  618 (1238)
T KOG1127|consen  540 STWEEAFEICLRAAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTD-PKDYNLWLGLGEAYPESGRYSHALKV  618 (1238)
T ss_pred             ccHHHHHHHHHHHhhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCC-chhHHHHHHHHHHHHhcCceehHHHh
Confidence            99999888844333331111112234444455667778888888888877754 55678888999999999999999999


Q ss_pred             hccCCCCCcccHHH---HHHHHHhCCChhHHHHHHHHHHhC------CCCCChhhHHHHHHHHhccCChhHHHHHHHHHH
Q 005487          164 FDEMSERDVASWNT---VISCYYQDGQAEKALELFKKMRGS------GFQPNSVTLTTVISSCARLMDLDRGKEIHKEFI  234 (694)
Q Consensus       164 ~~~~~~~~~~~~~~---li~~~~~~~~~~~a~~~~~~m~~~------~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  234 (694)
                      |++....++..+..   .....+..|.+.++++.+......      +..--..++..+...+...|=..++..+++.-+
T Consensus       619 F~kAs~LrP~s~y~~fk~A~~ecd~GkYkeald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksi  698 (1238)
T KOG1127|consen  619 FTKASLLRPLSKYGRFKEAVMECDNGKYKEALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSI  698 (1238)
T ss_pred             hhhhHhcCcHhHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHH
Confidence            98887644443322   223345678888888888776442      111112233333333333333333333333222


Q ss_pred             H-------hCCCCchhHHHHHHHhhHhcCChHHHHHHHhcCCCCChh--HHHHHHHH-HHcCCCc---h---HHHHHHHH
Q 005487          235 K-------DGFVSDSYISSALVDMYGKCGCLEMAREVFEQTVLKSVV--AWNALIAG-YSSRGDS---K---SCVKLFWR  298 (694)
Q Consensus       235 ~-------~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~--~~~~li~~-~~~~~~~---~---~a~~~~~~  298 (694)
                      +       +....+...|-.+..          |-.+|-... ++.+  .+..++.. +-+.+..   +   -+.+.+-.
T Consensus       699 e~f~~~l~h~~~~~~~~Wi~asd----------ac~~f~q~e-~~~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~  767 (1238)
T KOG1127|consen  699 ESFIVSLIHSLQSDRLQWIVASD----------ACYIFSQEE-PSIVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIA  767 (1238)
T ss_pred             HHHHHHHHHhhhhhHHHHHHHhH----------HHHHHHHhc-ccchHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhH
Confidence            1       111111111111111          112222221 2211  11111111 1111111   0   00000000


Q ss_pred             HHHCCCCCCHHHHHHHHHHhhc----cC----ChhhhHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCC
Q 005487          299 MNEEGIKPTLTTISSVLMSCSR----SG----QLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAENVFEKMS  370 (694)
Q Consensus       299 m~~~g~~p~~~~~~~ll~~~~~----~~----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  370 (694)
                      -..  ...+..+|..+...+.+    .+    +...|...+...++.. ..+..+++.|.-. ...|.+.-|.-.|-.-.
T Consensus       768 hls--l~~~~~~WyNLGinylr~f~~l~et~~~~~~Ai~c~KkaV~L~-ann~~~WnaLGVl-sg~gnva~aQHCfIks~  843 (1238)
T KOG1127|consen  768 HLS--LAIHMYPWYNLGINYLRYFLLLGETMKDACTAIRCCKKAVSLC-ANNEGLWNALGVL-SGIGNVACAQHCFIKSR  843 (1238)
T ss_pred             HHH--HhhccchHHHHhHHHHHHHHHcCCcchhHHHHHHHHHHHHHHh-hccHHHHHHHHHh-hccchhhhhhhhhhhhh
Confidence            000  11112233333222221    11    1123333333333321 1234444444333 44455655555554332


Q ss_pred             ---CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcccCChHHHHHHHHHH--H--HhCCCCC
Q 005487          371 ---KTDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHI--I--ESKLETN  443 (694)
Q Consensus       371 ---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~--~--~~~~~~~  443 (694)
                         +.+..+|..+...+.+..+++-|...|...+... +.|...|..........|+.-+...++..-  .  ..|--+.
T Consensus       844 ~sep~~~~~W~NlgvL~l~n~d~E~A~~af~~~qSLd-P~nl~~WlG~Ali~eavG~ii~~~~lfaHs~el~~~~gka~~  922 (1238)
T KOG1127|consen  844 FSEPTCHCQWLNLGVLVLENQDFEHAEPAFSSVQSLD-PLNLVQWLGEALIPEAVGRIIERLILFAHSDELCSKEGKAKK  922 (1238)
T ss_pred             hccccchhheeccceeEEecccHHHhhHHHHhhhhcC-chhhHHHHHHHHhHHHHHHHHHHHHHHHhhHHhhccccccch
Confidence               2344566666666677777777777777666542 224444444444444555555555555542  1  1233344


Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHhhCCC------------C-ChHHHHHHHHHHHhcCCHHHHHHHHHHHHHc-CCCCC
Q 005487          444 EIVMGALLDMYAKCGAVDEAFKVFNELPE------------R-DLVSWTSMIAAYGSHGRALEALKLFGEMQQS-NARPD  509 (694)
Q Consensus       444 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~------------~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-~~~p~  509 (694)
                      ...+.........+|+.++-+...+.+..            | +.++|...+...-+.+.+..|.+...+.+.- ..+-+
T Consensus       923 f~Yw~c~te~h~~Ng~~e~~I~t~~ki~sAs~al~~yf~~~p~~~fAy~~~gstlEhL~ey~~a~ela~RliglLe~k~d 1002 (1238)
T KOG1127|consen  923 FQYWLCATEIHLQNGNIEESINTARKISSASLALSYYFLGHPQLCFAYAANGSTLEHLEEYRAALELATRLIGLLELKLD 1002 (1238)
T ss_pred             hhHHHHHHHHHHhccchHHHHHHhhhhhhhHHHHHHHHhcCcchhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            44455555555666666655555444433            1 2345666666666666666666666554321 00122


Q ss_pred             HhhHH----HHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHH--HhhhcCCHHHHHHHHHhCCCCCC---C-H
Q 005487          510 SITFL----ALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLID--LLGRAGRLQEAYGILQSTPEIRE---D-A  579 (694)
Q Consensus       510 ~~~~~----~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~--~~~~~g~~~~A~~~~~~~~~~~p---~-~  579 (694)
                      ...|+    ...+.+...|.++.|...+...       |-..--...+.  ...-.|+++++.+.|+++..+..   + .
T Consensus      1003 ~sqynvak~~~gRL~lslgefe~A~~a~~~~-------~~evdEdi~gt~l~lFfkndf~~sl~~fe~aLsis~se~d~v 1075 (1238)
T KOG1127|consen 1003 ESQYNVAKPDAGRLELSLGEFESAKKASWKE-------WMEVDEDIRGTDLTLFFKNDFFSSLEFFEQALSISNSESDKV 1075 (1238)
T ss_pred             hhhhhhhhhhhhhhhhhhcchhhHhhhhccc-------chhHHHHHhhhhHHHHHHhHHHHHHHHHHHHhhhcccccchh
Confidence            23333    2223344455555444333221       11100000111  11235677777777776554222   2 1


Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHH
Q 005487          580 GLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDE  631 (694)
Q Consensus       580 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  631 (694)
                      ..+..++......+..+.|...+-+++.+.|.+......|+.++.-..+-..
T Consensus      1076 vLl~kva~~~g~~~~k~~A~~lLfe~~~ls~~~~~sll~L~A~~ild~da~~ 1127 (1238)
T KOG1127|consen 1076 VLLCKVAVCMGLARQKNDAQFLLFEVKSLSKVQASSLLPLPAVYILDADAHG 1127 (1238)
T ss_pred             hhhHHHHHHHhhcccchHHHHHHHHHHHhCccchhhHHHHHHHHHHhhhhhh
Confidence            2334444445556667777777777777776666666666665555444333

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.27  E-value=1.6e-09  Score=101.69  Aligned_cols=162  Identities=16%  Similarity=0.137  Sum_probs=95.4

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHhhCCC---CChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-CHhhHHHHHHHH
Q 005487          445 IVMGALLDMYAKCGAVDEAFKVFNELPE---RDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARP-DSITFLALLSAC  520 (694)
Q Consensus       445 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~  520 (694)
                      ..+..+...+...|++++|.+.++....   .+...+..+...+...|++++|...+++.......+ ....+..+..++
T Consensus        66 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~  145 (234)
T TIGR02521        66 LAYLALALYYQQLGELEKAEDSFRRALTLNPNNGDVLNNYGTFLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCA  145 (234)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHH
Confidence            3344444455555555555555554433   233445555666666666666666666666532112 234455556667


Q ss_pred             HccCCHHHHHHHHHHhHHhcCCCCC-hHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCC-CHHHHHHHHHHHHHcCCHHHH
Q 005487          521 SHAGWVDEGGYYFNLMISEYNIQPR-NEHYSCLIDLLGRAGRLQEAYGILQSTPEIRE-DAGLLSTLFSACRLHRDIEMG  598 (694)
Q Consensus       521 ~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~A  598 (694)
                      ...|++++|...+++....   .|+ ...+..++..+...|++++|...++++....| +...+..++..+...|+.++|
T Consensus       146 ~~~g~~~~A~~~~~~~~~~---~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a  222 (234)
T TIGR02521       146 LKAGDFDKAEKYLTRALQI---DPQRPESLLELAELYYLRGQYKDARAYLERYQQTYNQTAESLWLGIRIARALGDVAAA  222 (234)
T ss_pred             HHcCCHHHHHHHHHHHHHh---CcCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHH
Confidence            7777777777777776632   333 44666677777777777777777776654333 344555556666667777777


Q ss_pred             HHHHHHHHhcC
Q 005487          599 EKIAKLLIEKD  609 (694)
Q Consensus       599 ~~~~~~~~~~~  609 (694)
                      ....+.+....
T Consensus       223 ~~~~~~~~~~~  233 (234)
T TIGR02521       223 QRYGAQLQKLF  233 (234)
T ss_pred             HHHHHHHHhhC
Confidence            77776665543

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.

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.27  E-value=1.3e-07  Score=92.35  Aligned_cols=118  Identities=16%  Similarity=0.116  Sum_probs=54.3

Q ss_pred             HHccCChhHHHHHHHHhhhCCCCCCCcccHHHHHHHhhCCCCchhHHHHHHHHHHHcCCCchhHH-HHHHHhhhcCCChH
Q 005487           80 YTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLGSVGIGKMIHTHLIKTGFLLDVVIA-SSTAGMYAKCNSFE  158 (694)
Q Consensus        80 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~g~~~  158 (694)
                      +..+|++++|.+...++...  .+.+...+..-+-+..+.+.++.|..+.+.   .+.......+ ..-.-+..+.+..+
T Consensus        22 ~~~~~e~e~a~k~~~Kil~~--~pdd~~a~~cKvValIq~~ky~~ALk~ikk---~~~~~~~~~~~fEKAYc~Yrlnk~D   96 (652)
T KOG2376|consen   22 HGKNGEYEEAVKTANKILSI--VPDDEDAIRCKVVALIQLDKYEDALKLIKK---NGALLVINSFFFEKAYCEYRLNKLD   96 (652)
T ss_pred             hccchHHHHHHHHHHHHHhc--CCCcHhhHhhhHhhhhhhhHHHHHHHHHHh---cchhhhcchhhHHHHHHHHHcccHH
Confidence            34445555555555555543  233344444444455555555555433221   1100000000 00111223556666


Q ss_pred             HHHHHhccCCCCCcccHHHHHHHHHhCCChhHHHHHHHHHHhCC
Q 005487          159 CAVKMFDEMSERDVASWNTVISCYYQDGQAEKALELFKKMRGSG  202 (694)
Q Consensus       159 ~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~  202 (694)
                      +|+..++-....+..+...-...+.+.|++++|+++|+.+.+++
T Consensus        97 ealk~~~~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~  140 (652)
T KOG2376|consen   97 EALKTLKGLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNN  140 (652)
T ss_pred             HHHHHHhcccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            66666663333333344444555666666666666666665543

>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=99.26  E-value=5.5e-08  Score=98.76  Aligned_cols=46  Identities=24%  Similarity=0.231  Sum_probs=42.0

Q ss_pred             CCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHH
Q 005487          593 RDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLK  638 (694)
Q Consensus       593 ~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  638 (694)
                      .=.++|..+++-+++..|++..+|..-..+|.+.|++--|++.+.+
T Consensus       471 dPLe~A~kfl~pL~~~a~~~~et~~laFeVy~Rk~K~LLaLqaL~k  516 (517)
T PF12569_consen  471 DPLEEAMKFLKPLLELAPDNIETHLLAFEVYLRKGKYLLALQALKK  516 (517)
T ss_pred             cHHHHHHHHHHHHHHhCccchhhHHHHhHHHHhcCcHHHHHHHHHh
Confidence            4578899999999999999999999999999999999999988764

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 [], [].

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.26  E-value=4.6e-08  Score=91.07  Aligned_cols=392  Identities=14%  Similarity=0.060  Sum_probs=254.2

Q ss_pred             CCchhHHHHHHHhhHhcCChHHHHHHHhcCCCCChh-HHHHHHHHHHcC-CCchHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 005487          239 VSDSYISSALVDMYGKCGCLEMAREVFEQTVLKSVV-AWNALIAGYSSR-GDSKSCVKLFWRMNEEGIKPTLTTISSVLM  316 (694)
Q Consensus       239 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~li~~~~~~-~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~  316 (694)
                      +.+.......+.+|...++-+.|...+.++++.-.. .-+.++.-+.+. ++-.++.--+...... .+........++.
T Consensus        94 ~~~~e~~r~~aecy~~~~n~~~Ai~~l~~~p~t~r~p~inlMla~l~~~g~r~~~~vl~ykevvre-cp~aL~~i~~ll~  172 (564)
T KOG1174|consen   94 FGDAEQRRRAAECYRQIGNTDMAIETLLQVPPTLRSPRINLMLARLQHHGSRHKEAVLAYKEVIRE-CPMALQVIEALLE  172 (564)
T ss_pred             cccHHHHHHHHHHHHHHccchHHHHHHhcCCccccchhHHHHHHHHHhccccccHHHHhhhHHHHh-cchHHHHHHHHHH
Confidence            335566677888888899999999999888765333 333333333332 2222222222222221 0111111111111


Q ss_pred             HhhccCChhhhHHHHHHHHHhcCCCchhHHHHHHHH--HHhcCCHHHHHHHHhcCC-----CCChhHHHHHHHHHHhcCC
Q 005487          317 SCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDL--YFKCGRVSSAENVFEKMS-----KTDVVYWNVMISGYVTVGD  389 (694)
Q Consensus       317 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~A~~~~~~~~-----~~~~~~~~~l~~~~~~~~~  389 (694)
                      .-.+     .+...-..|.....++........+.+  .+-.++...|...+-.+.     ..|+.....+...+...|+
T Consensus       173 l~v~-----g~e~~S~~m~~~~~~~~~dwls~wika~Aq~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gd  247 (564)
T KOG1174|consen  173 LGVN-----GNEINSLVMHAATVPDHFDWLSKWIKALAQMFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGD  247 (564)
T ss_pred             Hhhc-----chhhhhhhhhheecCCCccHHHHHHHHHHHHHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcC
Confidence            0000     000111111122223333333333333  333455555555443332     4577788899999999999


Q ss_pred             hHHHHHHHHHHHHcCCCCCHHH-HHHHHHHHcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHh
Q 005487          390 YFKALAIYSDMKEVGAKPDAVT-FTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFN  468 (694)
Q Consensus       390 ~~~A~~~~~~m~~~g~~p~~~~-~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  468 (694)
                      .++|+..|++....  .|+..+ .....-.+.+.|+.+....+...+.... ..+...|..-+..+...++++.|+.+-+
T Consensus       248 n~~a~~~Fe~~~~~--dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~~~~l~~~K~~~rAL~~~e  324 (564)
T KOG1174|consen  248 YFQAEDIFSSTLCA--NPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWFVHAQLLYDEKKFERALNFVE  324 (564)
T ss_pred             chHHHHHHHHHhhC--ChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhhhhhhhhhhhhhHHHHHHHHH
Confidence            99999999988764  343322 1222223456788888888777765533 1222223233344456788999999998


Q ss_pred             hCCC---CChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC-CHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCC
Q 005487          469 ELPE---RDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARP-DSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQP  544 (694)
Q Consensus       469 ~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p  544 (694)
                      +...   .+...+-.-...+...|++++|.-.|+..+..  .| +..+|..|+.+|...|.+.+|...-+...+.  ++.
T Consensus       325 K~I~~~~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~L--ap~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~--~~~  400 (564)
T KOG1174|consen  325 KCIDSEPRNHEALILKGRLLIALERHTQAVIAFRTAQML--APYRLEIYRGLFHSYLAQKRFKEANALANWTIRL--FQN  400 (564)
T ss_pred             HHhccCcccchHHHhccHHHHhccchHHHHHHHHHHHhc--chhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHH--hhc
Confidence            8877   34445555567888999999999999999885  55 5799999999999999999999888877643  344


Q ss_pred             ChHHHHHHH-HHhhh-cCCHHHHHHHHHhCCCCCCCH-HHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHH
Q 005487          545 RNEHYSCLI-DLLGR-AGRLQEAYGILQSTPEIREDA-GLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSN  621 (694)
Q Consensus       545 ~~~~~~~l~-~~~~~-~g~~~~A~~~~~~~~~~~p~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~  621 (694)
                      +..+...++ ..+.. -.--|+|.+++++..+..|+. .....++..|...|.++.++.++++.+...|+ ...+..|++
T Consensus       401 sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~~~D-~~LH~~Lgd  479 (564)
T KOG1174|consen  401 SARSLTLFGTLVLFPDPRMREKAKKFAEKSLKINPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLIIFPD-VNLHNHLGD  479 (564)
T ss_pred             chhhhhhhcceeeccCchhHHHHHHHHHhhhccCCccHHHHHHHHHHHHhhCccchHHHHHHHHHhhccc-cHHHHHHHH
Confidence            555665553 33322 234589999999999899985 57788888999999999999999999998885 578999999


Q ss_pred             HHhhcCChHHHHHHHHHHHhCCC
Q 005487          622 MYASVKKWDEVRKIRLKMKELGL  644 (694)
Q Consensus       622 ~~~~~g~~~~A~~~~~~~~~~~~  644 (694)
                      ++...+.+.+|.+.|.......+
T Consensus       480 ~~~A~Ne~Q~am~~y~~ALr~dP  502 (564)
T KOG1174|consen  480 IMRAQNEPQKAMEYYYKALRQDP  502 (564)
T ss_pred             HHHHhhhHHHHHHHHHHHHhcCc
Confidence            99999999999999998776554

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=99.25  E-value=5.9e-07  Score=90.99  Aligned_cols=240  Identities=14%  Similarity=0.119  Sum_probs=147.8

Q ss_pred             CchhhhHHHH--HHhcCCChhHHHHHHhhCCCCCchhhHHHHHHHHHccCChhHHHHHHHHhhhCCCC--------CCCc
Q 005487           37 NIALCKSLIN--LYFSCQNYDYAMLVFKTIDNPLDLSLWNGLMASYTKNYMYITALELFDMLLQNPYL--------KPDS  106 (694)
Q Consensus        37 ~~~~~~~l~~--~~~~~g~~~~a~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--------~~~~  106 (694)
                      |..+...+++  .|.-.|+.+.|.+..+.++..   ..|..|.+.|.+..+.+-|.-.+-.|....|.        .|+ 
T Consensus       725 d~~TRkaml~FSfyvtiG~MD~AfksI~~IkS~---~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~-  800 (1416)
T KOG3617|consen  725 DESTRKAMLDFSFYVTIGSMDAAFKSIQFIKSD---SVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE-  800 (1416)
T ss_pred             CHHHHHhhhceeEEEEeccHHHHHHHHHHHhhh---HHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc-
Confidence            3444455544  467789999998877776553   27999999999998888877776666532111        121 


Q ss_pred             ccHHHHHHHhhCCCCchhHHHHHHHHHHHcCCCchhHHHHHHHhhhcCCChHHHHHHhccCCC-CCcccHHHHHHHHHhC
Q 005487          107 YTYPSVLKACGGLGSVGIGKMIHTHLIKTGFLLDVVIASSTAGMYAKCNSFECAVKMFDEMSE-RDVASWNTVISCYYQD  185 (694)
Q Consensus       107 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~~  185 (694)
                      .+=..+.-.....|.+++|+.+|..-.+..         .|=..|...|.+++|.++-+.-.. .=..+|..-...+-..
T Consensus       801 e~eakvAvLAieLgMlEeA~~lYr~ckR~D---------LlNKlyQs~g~w~eA~eiAE~~DRiHLr~Tyy~yA~~Lear  871 (1416)
T KOG3617|consen  801 EDEAKVAVLAIELGMLEEALILYRQCKRYD---------LLNKLYQSQGMWSEAFEIAETKDRIHLRNTYYNYAKYLEAR  871 (1416)
T ss_pred             chhhHHHHHHHHHhhHHHHHHHHHHHHHHH---------HHHHHHHhcccHHHHHHHHhhccceehhhhHHHHHHHHHhh
Confidence            222222333447789999999998876643         333467888999999998776443 2233566666667777


Q ss_pred             CChhHHHHHHHHHHhCC-------------------CCCChhhHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchhHHH
Q 005487          186 GQAEKALELFKKMRGSG-------------------FQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVSDSYISS  246 (694)
Q Consensus       186 ~~~~~a~~~~~~m~~~~-------------------~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  246 (694)
                      ++.+.|++.|++.....                   -..|...|.-...-+-..|+.+.|..+|....+         |-
T Consensus       872 ~Di~~AleyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D---------~f  942 (1416)
T KOG3617|consen  872 RDIEAALEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD---------YF  942 (1416)
T ss_pred             ccHHHHHHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh---------hh
Confidence            88888888887632110                   011222222222223344555555555554433         33


Q ss_pred             HHHHhhHhcCChHHHHHHHhcCCCCChhHHHHHHHHHHcCCCchHHHHHHHHHH
Q 005487          247 ALVDMYGKCGCLEMAREVFEQTVLKSVVAWNALIAGYSSRGDSKSCVKLFWRMN  300 (694)
Q Consensus       247 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  300 (694)
                      .+++..|-.|+.++|-.+-++-  .|..+...+.+.|-..|++.+|..+|.+..
T Consensus       943 s~VrI~C~qGk~~kAa~iA~es--gd~AAcYhlaR~YEn~g~v~~Av~FfTrAq  994 (1416)
T KOG3617|consen  943 SMVRIKCIQGKTDKAARIAEES--GDKAACYHLARMYENDGDVVKAVKFFTRAQ  994 (1416)
T ss_pred             hheeeEeeccCchHHHHHHHhc--ccHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence            4555666666666666665543  345566667777777788777777776653

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.25  E-value=1.7e-10  Score=111.88  Aligned_cols=220  Identities=11%  Similarity=0.058  Sum_probs=168.5

Q ss_pred             cccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCC---CChHHHHHHHHHHHhcCCHHHHHH
Q 005487          420 SQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPE---RDLVSWTSMIAAYGSHGRALEALK  496 (694)
Q Consensus       420 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~  496 (694)
                      .+.|++..|.-.|+..++.+ |-+...|..|.......++-..|+..+.+..+   .|..+...|...|...|.-..|+.
T Consensus       296 m~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~NleaLmaLAVSytNeg~q~~Al~  374 (579)
T KOG1125|consen  296 MKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELDPTNLEALMALAVSYTNEGLQNQALK  374 (579)
T ss_pred             HhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhHHHHHH
Confidence            45666777777777666655 45667777777777777877788888877776   344567777778888888888888


Q ss_pred             HHHHHHHcCCC-----C---CHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHHHHHH
Q 005487          497 LFGEMQQSNAR-----P---DSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGI  568 (694)
Q Consensus       497 ~~~~~~~~~~~-----p---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~  568 (694)
                      .++.-+....+     +   +...-..  ..+.....+....++|-.+....+..+|+++...|+-+|.-.|++++|+..
T Consensus       375 ~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiDc  452 (579)
T KOG1125|consen  375 MLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVDC  452 (579)
T ss_pred             HHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHHH
Confidence            88877654211     0   0000000  122223345566677777765667668888999999999999999999999


Q ss_pred             HHhCCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHHHHhC
Q 005487          569 LQSTPEIRED-AGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKEL  642 (694)
Q Consensus       569 ~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  642 (694)
                      |+.+...+|+ ...|+.|+.++....+.++|+..|++++++.|.-..++++||-.|...|.|+||.+.|-.++..
T Consensus       453 f~~AL~v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~m  527 (579)
T KOG1125|consen  453 FEAALQVKPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYVRVRYNLGISCMNLGAYKEAVKHLLEALSM  527 (579)
T ss_pred             HHHHHhcCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHHh
Confidence            9999988885 5789999999999999999999999999999999999999999999999999999998776543

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=99.24  E-value=4.2e-07  Score=90.85  Aligned_cols=259  Identities=17%  Similarity=0.196  Sum_probs=126.9

Q ss_pred             HHHHHHhcCCChhHHHHHHhhCCCCCchhhHHHHHHHHHccCChhHHHHHHHHhhhCCCCCCCcccHHHHHHHhhCCCCc
Q 005487           43 SLINLYFSCQNYDYAMLVFKTIDNPLDLSLWNGLMASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLGSV  122 (694)
Q Consensus        43 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~  122 (694)
                      ..+.+|....++++|+.+-+....|.-...-.+.+.++...|+-++|-++-    .+     +-.++ ..+..|.+.|.+
T Consensus       562 ~aigmy~~lhkwde~i~lae~~~~p~~eklk~sy~q~l~dt~qd~ka~elk----~s-----dgd~l-aaiqlyika~~p  631 (1636)
T KOG3616|consen  562 EAIGMYQELHKWDEAIALAEAKGHPALEKLKRSYLQALMDTGQDEKAAELK----ES-----DGDGL-AAIQLYIKAGKP  631 (1636)
T ss_pred             HHHHHHHHHHhHHHHHHHHHhcCChHHHHHHHHHHHHHHhcCchhhhhhhc----cc-----cCccH-HHHHHHHHcCCc
Confidence            456788888888888888777666643323344455556667766665432    11     11111 234555566666


Q ss_pred             hhHHHHHHHHHHHcCCCchhHHHHHHHhhhcCCChHHHHHHhccCCCCCcc--------cH-------------------
Q 005487          123 GIGKMIHTHLIKTGFLLDVVIASSTAGMYAKCNSFECAVKMFDEMSERDVA--------SW-------------------  175 (694)
Q Consensus       123 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~--------~~-------------------  175 (694)
                      ..|....-.  ...+..|..+...+..++.+..-+++|-.+|+++..++..        .|                   
T Consensus       632 ~~a~~~a~n--~~~l~~de~il~~ia~alik~elydkagdlfeki~d~dkale~fkkgdaf~kaielarfafp~evv~le  709 (1636)
T KOG3616|consen  632 AKAARAALN--DEELLADEEILEHIAAALIKGELYDKAGDLFEKIHDFDKALECFKKGDAFGKAIELARFAFPEEVVKLE  709 (1636)
T ss_pred             hHHHHhhcC--HHHhhccHHHHHHHHHHHHhhHHHHhhhhHHHHhhCHHHHHHHHHcccHHHHHHHHHHhhCcHHHhhHH
Confidence            554432211  1112234444444444444444455555555554432211        01                   


Q ss_pred             HHHHHHHHhCCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchhHHHHHHHhhHhc
Q 005487          176 NTVISCYYQDGQAEKALELFKKMRGSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVSDSYISSALVDMYGKC  255 (694)
Q Consensus       176 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  255 (694)
                      ......+.+.|+++.|+..|-+..         .....+.+....+++.+|..+++.+..+.  ....-|..+...|...
T Consensus       710 e~wg~hl~~~~q~daainhfiea~---------~~~kaieaai~akew~kai~ildniqdqk--~~s~yy~~iadhyan~  778 (1636)
T KOG3616|consen  710 EAWGDHLEQIGQLDAAINHFIEAN---------CLIKAIEAAIGAKEWKKAISILDNIQDQK--TASGYYGEIADHYANK  778 (1636)
T ss_pred             HHHhHHHHHHHhHHHHHHHHHHhh---------hHHHHHHHHhhhhhhhhhHhHHHHhhhhc--cccccchHHHHHhccc
Confidence            111122233344444444333321         11223444445566666666666665542  2233455566666667


Q ss_pred             CChHHHHHHHhcCCCCChhHHHHHHHHHHcCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChhhhHHHH
Q 005487          256 GCLEMAREVFEQTVLKSVVAWNALIAGYSSRGDSKSCVKLFWRMNEEGIKPTLTTISSVLMSCSRSGQLKHGKVMH  331 (694)
Q Consensus       256 g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~  331 (694)
                      |+++.|.++|-+..     .++..|..|.+.|+|++|.++-.+.  .|.......|..-..-....|.+.+|++++
T Consensus       779 ~dfe~ae~lf~e~~-----~~~dai~my~k~~kw~da~kla~e~--~~~e~t~~~yiakaedldehgkf~eaeqly  847 (1636)
T KOG3616|consen  779 GDFEIAEELFTEAD-----LFKDAIDMYGKAGKWEDAFKLAEEC--HGPEATISLYIAKAEDLDEHGKFAEAEQLY  847 (1636)
T ss_pred             hhHHHHHHHHHhcc-----hhHHHHHHHhccccHHHHHHHHHHh--cCchhHHHHHHHhHHhHHhhcchhhhhhee
Confidence            77777766665432     3455566666666666666665443  222333333433333344444444444443

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=99.23  E-value=1.9e-09  Score=92.48  Aligned_cols=194  Identities=11%  Similarity=0.029  Sum_probs=152.9

Q ss_pred             HHHHHHHHHhcCChHHHHHHHhhCCCC---ChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcc
Q 005487          447 MGALLDMYAKCGAVDEAFKVFNELPER---DLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHA  523 (694)
Q Consensus       447 ~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  523 (694)
                      ...+.-.|...|+...|..-+++..+.   +..+|..+...|.+.|+.+.|.+.|++..+.. +-+..+.|....-+|.+
T Consensus        38 rlqLal~YL~~gd~~~A~~nlekAL~~DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~FLC~q  116 (250)
T COG3063          38 RLQLALGYLQQGDYAQAKKNLEKALEHDPSYYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFLCAQ  116 (250)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHHHhC
Confidence            345667788888998888888888772   34478888888899999999999999988853 33467888888888888


Q ss_pred             CCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHH
Q 005487          524 GWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIRED-AGLLSTLFSACRLHRDIEMGEKIA  602 (694)
Q Consensus       524 g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~A~~~~  602 (694)
                      |++++|...|+++...-...-...+|..++-+-.++|+.+.|...|++..+..|+ +.....+.......|++..|...+
T Consensus       117 g~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~~~~~~l~~a~~~~~~~~y~~Ar~~~  196 (250)
T COG3063         117 GRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQFPPALLELARLHYKAGDYAPARLYL  196 (250)
T ss_pred             CChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcCCChHHHHHHHHHHhcccchHHHHHH
Confidence            8999999999988754222222558888888888999999999999988876665 567778888888899999999999


Q ss_pred             HHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHHHHh
Q 005487          603 KLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKE  641 (694)
Q Consensus       603 ~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  641 (694)
                      ++.....+.........+.+-...|+-+.|.++=..+..
T Consensus       197 ~~~~~~~~~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r  235 (250)
T COG3063         197 ERYQQRGGAQAESLLLGIRIAKRLGDRAAAQRYQAQLQR  235 (250)
T ss_pred             HHHHhcccccHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            988888777777777778888888888888777665543

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=99.23  E-value=1.7e-07  Score=92.63  Aligned_cols=418  Identities=12%  Similarity=0.044  Sum_probs=273.2

Q ss_pred             hccCChhHHHHHHHHHHHhCCCCchhHHHHHHHhhHhcCChHHHHHHHhcCCCC---ChhHHHHHHHHHHcCCCchHHHH
Q 005487          218 ARLMDLDRGKEIHKEFIKDGFVSDSYISSALVDMYGKCGCLEMAREVFEQTVLK---SVVAWNALIAGYSSRGDSKSCVK  294 (694)
Q Consensus       218 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~  294 (694)
                      ...+++.......+.+++ +.+....+.....-.+...|+-++|....+.....   +.+.|..+.-.+-...++++|++
T Consensus        18 yE~kQYkkgLK~~~~iL~-k~~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d~~S~vCwHv~gl~~R~dK~Y~eaiK   96 (700)
T KOG1156|consen   18 YETKQYKKGLKLIKQILK-KFPEHGESLAMKGLTLNCLGKKEEAYELVRLGLRNDLKSHVCWHVLGLLQRSDKKYDEAIK   96 (700)
T ss_pred             HHHHHHHhHHHHHHHHHH-hCCccchhHHhccchhhcccchHHHHHHHHHHhccCcccchhHHHHHHHHhhhhhHHHHHH
Confidence            344667777777777776 34555566666666677889999999988876543   56789999888889999999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHhhccCChhhhHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCC---
Q 005487          295 LFWRMNEEGIKPTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAENVFEKMSK---  371 (694)
Q Consensus       295 ~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---  371 (694)
                      .|......+ +.|...+.-+--.-.+.++++..........+.. +.....|..+..++.-.|+...|..+++...+   
T Consensus        97 cy~nAl~~~-~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~-~~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~  174 (700)
T KOG1156|consen   97 CYRNALKIE-KDNLQILRDLSLLQIQMRDYEGYLETRNQLLQLR-PSQRASWIGFAVAQHLLGEYKMALEILEEFEKTQN  174 (700)
T ss_pred             HHHHHHhcC-CCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhh-hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence            999988763 3455667766666777888888877777766653 22455677788888888999888888776542   


Q ss_pred             --CChhHHHH------HHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHH-HHHHHHHcccCChHHHHHHHHHHHHhCCCC
Q 005487          372 --TDVVYWNV------MISGYVTVGDYFKALAIYSDMKEVGAKPDAVTF-TSVLPACSQLAALEKGKEIHNHIIESKLET  442 (694)
Q Consensus       372 --~~~~~~~~------l~~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~-~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  442 (694)
                        ++...+..      ......+.|..++|.+.+..-...  ..|...+ .+-...+.+.+++++|..++..++..+ |.
T Consensus       175 ~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~--i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~rn-Pd  251 (700)
T KOG1156|consen  175 TSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQ--IVDKLAFEETKADLLMKLGQLEEAVKVYRRLLERN-PD  251 (700)
T ss_pred             cCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhH--HHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhhC-ch
Confidence              33332222      223456778888888877665432  2222222 233455678889999999999888875 33


Q ss_pred             ChhHHHHHHHHHHhcCChHHHH-HHHhhCCC--CChHHHHHHHHHHHh-cCCHHHHHHHHHHHHHcCCCCCHhhHHHHHH
Q 005487          443 NEIVMGALLDMYAKCGAVDEAF-KVFNELPE--RDLVSWTSMIAAYGS-HGRALEALKLFGEMQQSNARPDSITFLALLS  518 (694)
Q Consensus       443 ~~~~~~~l~~~~~~~g~~~~A~-~~~~~~~~--~~~~~~~~l~~~~~~-~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~  518 (694)
                      +...|..+..++.+-.+.-++. .+|....+  |-...-..+--.... ..-.+..-.++..+.+.|+++-...+..+  
T Consensus       252 n~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y~r~e~p~Rlplsvl~~eel~~~vdkyL~~~l~Kg~p~vf~dl~SL--  329 (700)
T KOG1156|consen  252 NLDYYEGLEKALGKIKDMLEALKALYAILSEKYPRHECPRRLPLSVLNGEELKEIVDKYLRPLLSKGVPSVFKDLRSL--  329 (700)
T ss_pred             hHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcCcccccchhccHHHhCcchhHHHHHHHHHHHhhcCCCchhhhhHHH--
Confidence            4455555566665333333333 56665544  111111111111111 22234445667777787766533333333  


Q ss_pred             HHHccCCHHHHHHHHHHhHH---hcC----------CCCChH--HHHHHHHHhhhcCCHHHHHHHHHhCCCCCCCH-HHH
Q 005487          519 ACSHAGWVDEGGYYFNLMIS---EYN----------IQPRNE--HYSCLIDLLGRAGRLQEAYGILQSTPEIREDA-GLL  582 (694)
Q Consensus       519 ~~~~~g~~~~A~~~~~~~~~---~~~----------~~p~~~--~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~-~~~  582 (694)
                       |-.....+-..++.-.+..   ..+          -+|++.  ++..++..+.+.|+++.|..+++.+....|.. ..+
T Consensus       330 -yk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt~y~laqh~D~~g~~~~A~~yId~AIdHTPTliEly  408 (700)
T KOG1156|consen  330 -YKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAIDHTPTLIELY  408 (700)
T ss_pred             -HhchhHhHHHHHHHHHHHhhcccccCCCcccccccCCchHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCchHHHHH
Confidence             2221111111111111111   000          134444  44567889999999999999999998777764 456


Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHHHHhCCC
Q 005487          583 STLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELGL  644 (694)
Q Consensus       583 ~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  644 (694)
                      ..-+..+...|+.+.|...++.+.+++-.|.-....-+.-..+.++.++|.++..++-..|.
T Consensus       409 ~~KaRI~kH~G~l~eAa~~l~ea~elD~aDR~INsKcAKYmLrAn~i~eA~~~~skFTr~~~  470 (700)
T KOG1156|consen  409 LVKARIFKHAGLLDEAAAWLDEAQELDTADRAINSKCAKYMLRANEIEEAEEVLSKFTREGF  470 (700)
T ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhccchhHHHHHHHHHHHHHccccHHHHHHHHHhhhccc
Confidence            66677888899999999999999999987777777788899999999999999999877664

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.22  E-value=6.4e-09  Score=100.03  Aligned_cols=228  Identities=11%  Similarity=0.007  Sum_probs=152.9

Q ss_pred             CChHHHHHHHHHHHHcC-CCCC--HHHHHHHHHHHcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHH
Q 005487          388 GDYFKALAIYSDMKEVG-AKPD--AVTFTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAF  464 (694)
Q Consensus       388 ~~~~~A~~~~~~m~~~g-~~p~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  464 (694)
                      +..+.++.-+.++.... ..|+  ...|..+...+...|+.+.|...|++.++.. +.+...|+.+...+...|++++|.
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            34556666666666432 1222  3445666667778888888888888887765 456778888999999999999999


Q ss_pred             HHHhhCCC--C-ChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcC
Q 005487          465 KVFNELPE--R-DLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYN  541 (694)
Q Consensus       465 ~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  541 (694)
                      ..|+...+  | +..+|..++.++...|++++|.+.+++..+.  .|+..........+...++.++|...+.....  .
T Consensus       119 ~~~~~Al~l~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~--~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~--~  194 (296)
T PRK11189        119 EAFDSVLELDPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQD--DPNDPYRALWLYLAESKLDPKQAKENLKQRYE--K  194 (296)
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHccCCHHHHHHHHHHHHh--h
Confidence            99998866  3 4567888888899999999999999999986  45433222222234556789999999977652  2


Q ss_pred             CCCChHHHHHHHHHhhhcCCH--HHHHHHHHhCCC----CCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-CC
Q 005487          542 IQPRNEHYSCLIDLLGRAGRL--QEAYGILQSTPE----IRE-DAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPD-DS  613 (694)
Q Consensus       542 ~~p~~~~~~~l~~~~~~~g~~--~~A~~~~~~~~~----~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~-~~  613 (694)
                      ..|+...+ .+...  ..|+.  +++++.+.+..+    ..| ....|..++..+...|++++|+..|+++++.+|. ..
T Consensus       195 ~~~~~~~~-~~~~~--~lg~~~~~~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~~~~~  271 (296)
T PRK11189        195 LDKEQWGW-NIVEF--YLGKISEETLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNVYNFV  271 (296)
T ss_pred             CCccccHH-HHHHH--HccCCCHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCchHH
Confidence            23332222 23333  34444  334434433322    222 2357889999999999999999999999999974 43


Q ss_pred             ccHHHHHHHH
Q 005487          614 STYIVLSNMY  623 (694)
Q Consensus       614 ~~~~~l~~~~  623 (694)
                      .....++.+.
T Consensus       272 e~~~~~~e~~  281 (296)
T PRK11189        272 EHRYALLELA  281 (296)
T ss_pred             HHHHHHHHHH
Confidence            3444444443

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=99.19  E-value=2.9e-07  Score=91.91  Aligned_cols=492  Identities=15%  Similarity=0.167  Sum_probs=245.4

Q ss_pred             hcCCChhHHHHHHhhCCC-CCchhhHHHHHHHHHccCChhHHHHHHHHhhhCCCCCCCcccHHHHHHHhhCCCCchhHHH
Q 005487           49 FSCQNYDYAMLVFKTIDN-PLDLSLWNGLMASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLGSVGIGKM  127 (694)
Q Consensus        49 ~~~g~~~~a~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~  127 (694)
                      ...|+++.|..+++.... |+....|..+...-...|+.--|...|..+-                       ++..++.
T Consensus       455 id~~df~ra~afles~~~~~da~amw~~laelale~~nl~iaercfaai~-----------------------dvak~r~  511 (1636)
T KOG3616|consen  455 IDDGDFDRATAFLESLEMGPDAEAMWIRLAELALEAGNLFIAERCFAAIG-----------------------DVAKARF  511 (1636)
T ss_pred             cccCchHHHHHHHHhhccCccHHHHHHHHHHHHHHhccchHHHHHHHHHH-----------------------HHHHHHH
Confidence            455677777777777643 5554456666665566666555554444332                       2222222


Q ss_pred             HHHHH-------HHHcCC-CchhHHHHHHHhhhcCCChHHHHHHhccCCCCCcccHHHHHHHHHhCCChhHHHHHHHHHH
Q 005487          128 IHTHL-------IKTGFL-LDVVIASSTAGMYAKCNSFECAVKMFDEMSERDVASWNTVISCYYQDGQAEKALELFKKMR  199 (694)
Q Consensus       128 ~~~~~-------~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  199 (694)
                      +++..       ++.|-. .+..-..+++.+  -..++.+|..+|-+-.     .-...|..|....+|++++.+-+.  
T Consensus       512 lhd~~eiadeas~~~ggdgt~fykvra~lai--l~kkfk~ae~ifleqn-----~te~aigmy~~lhkwde~i~lae~--  582 (1636)
T KOG3616|consen  512 LHDILEIADEASIEIGGDGTDFYKVRAMLAI--LEKKFKEAEMIFLEQN-----ATEEAIGMYQELHKWDEAIALAEA--  582 (1636)
T ss_pred             HHHHHHHHHHHhHhhCCCCchHHHHHHHHHH--HHhhhhHHHHHHHhcc-----cHHHHHHHHHHHHhHHHHHHHHHh--
Confidence            22211       111111 111222222222  2345666666654321     122344555555666666655332  


Q ss_pred             hCCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchhHHHHHHHhhHhcCChHHHHHHHh--cCCCCChhHHH
Q 005487          200 GSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVSDSYISSALVDMYGKCGCLEMAREVFE--QTVLKSVVAWN  277 (694)
Q Consensus       200 ~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~--~~~~~~~~~~~  277 (694)
                       .|.+.-...-.+-++++...|+-++|-++-         .+..--.+-+..|.+.|.+.+|.+...  +....|.....
T Consensus       583 -~~~p~~eklk~sy~q~l~dt~qd~ka~elk---------~sdgd~laaiqlyika~~p~~a~~~a~n~~~l~~de~il~  652 (1636)
T KOG3616|consen  583 -KGHPALEKLKRSYLQALMDTGQDEKAAELK---------ESDGDGLAAIQLYIKAGKPAKAARAALNDEELLADEEILE  652 (1636)
T ss_pred             -cCChHHHHHHHHHHHHHHhcCchhhhhhhc---------cccCccHHHHHHHHHcCCchHHHHhhcCHHHhhccHHHHH
Confidence             222111122233344444445444443221         111112234566777777666655432  22233444455


Q ss_pred             HHHHHHHcCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChhhhHHHHHHHHHhcCCCchh-HHHHHHHHHHhc
Q 005487          278 ALIAGYSSRGDSKSCVKLFWRMNEEGIKPTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVF-INSSLIDLYFKC  356 (694)
Q Consensus       278 ~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~  356 (694)
                      .+..++.+..-+++|-++|+++..         +...+..+-+..-+.+|.++-...    ++.... .-.....-+...
T Consensus       653 ~ia~alik~elydkagdlfeki~d---------~dkale~fkkgdaf~kaielarfa----fp~evv~lee~wg~hl~~~  719 (1636)
T KOG3616|consen  653 HIAAALIKGELYDKAGDLFEKIHD---------FDKALECFKKGDAFGKAIELARFA----FPEEVVKLEEAWGDHLEQI  719 (1636)
T ss_pred             HHHHHHHhhHHHHhhhhHHHHhhC---------HHHHHHHHHcccHHHHHHHHHHhh----CcHHHhhHHHHHhHHHHHH
Confidence            555555555556666666655532         111122222222233333322211    010000 011222334445


Q ss_pred             CCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcccCChHHHHHHHHHHH
Q 005487          357 GRVSSAENVFEKMSKTDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHII  436 (694)
Q Consensus       357 ~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  436 (694)
                      |+++.|..-|-+..     ..-..+.+......+.+|+.+++.+....  ....-|..+...|+..|+++.|.++|-+. 
T Consensus       720 ~q~daainhfiea~-----~~~kaieaai~akew~kai~ildniqdqk--~~s~yy~~iadhyan~~dfe~ae~lf~e~-  791 (1636)
T KOG3616|consen  720 GQLDAAINHFIEAN-----CLIKAIEAAIGAKEWKKAISILDNIQDQK--TASGYYGEIADHYANKGDFEIAEELFTEA-  791 (1636)
T ss_pred             HhHHHHHHHHHHhh-----hHHHHHHHHhhhhhhhhhHhHHHHhhhhc--cccccchHHHHHhccchhHHHHHHHHHhc-
Confidence            66666655553321     11223445566777777887777776653  22334556667777888888887777543 


Q ss_pred             HhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCCCCh--HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHH
Q 005487          437 ESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPERDL--VSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFL  514 (694)
Q Consensus       437 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~  514 (694)
                              ..++-.+.+|.+.|+|+.|.++-.+...|..  ..|-+-..-+-.+|++.+|.+++-...    .|+     
T Consensus       792 --------~~~~dai~my~k~~kw~da~kla~e~~~~e~t~~~yiakaedldehgkf~eaeqlyiti~----~p~-----  854 (1636)
T KOG3616|consen  792 --------DLFKDAIDMYGKAGKWEDAFKLAEECHGPEATISLYIAKAEDLDEHGKFAEAEQLYITIG----EPD-----  854 (1636)
T ss_pred             --------chhHHHHHHHhccccHHHHHHHHHHhcCchhHHHHHHHhHHhHHhhcchhhhhheeEEcc----Cch-----
Confidence                    2344567778888888888887777766433  345555555667777777777664332    233     


Q ss_pred             HHHHHHHccCCHHHHHHHHHHhHHhcCCCCC--hHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHc
Q 005487          515 ALLSACSHAGWVDEGGYYFNLMISEYNIQPR--NEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLH  592 (694)
Q Consensus       515 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~  592 (694)
                      ..+..|-+.|..++.+++..+-.      |+  ..+...++.-|...|++..|...|-++.       -|......|..+
T Consensus       855 ~aiqmydk~~~~ddmirlv~k~h------~d~l~dt~~~f~~e~e~~g~lkaae~~flea~-------d~kaavnmyk~s  921 (1636)
T KOG3616|consen  855 KAIQMYDKHGLDDDMIRLVEKHH------GDHLHDTHKHFAKELEAEGDLKAAEEHFLEAG-------DFKAAVNMYKAS  921 (1636)
T ss_pred             HHHHHHHhhCcchHHHHHHHHhC------hhhhhHHHHHHHHHHHhccChhHHHHHHHhhh-------hHHHHHHHhhhh
Confidence            23455677777777777765432      22  3455566777777788887777666554       344444555555


Q ss_pred             CCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHH
Q 005487          593 RDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLK  638 (694)
Q Consensus       593 ~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  638 (694)
                      +-+++|-++.+   .....|..-.....|+-.-.|  +.|.+++.+
T Consensus       922 ~lw~dayriak---tegg~n~~k~v~flwaksigg--daavkllnk  962 (1636)
T KOG3616|consen  922 ELWEDAYRIAK---TEGGANAEKHVAFLWAKSIGG--DAAVKLLNK  962 (1636)
T ss_pred             hhHHHHHHHHh---ccccccHHHHHHHHHHHhhCc--HHHHHHHHh
Confidence            55554443322   223334333444444433333  466676665

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=99.19  E-value=2.1e-07  Score=96.37  Aligned_cols=550  Identities=11%  Similarity=0.040  Sum_probs=315.1

Q ss_pred             CCchhhHHHHHHHHHccCChhHHHHHHHHhhhCCCCCCCcccHHHHHHHhhCCCCchhHHHHHHHHHHHcCC-CchhHHH
Q 005487           67 PLDLSLWNGLMASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLGSVGIGKMIHTHLIKTGFL-LDVVIAS  145 (694)
Q Consensus        67 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~  145 (694)
                      +.-..+|..|...|...-+..+|.+.|+...+.  ...+......+...+....+++.|..+.-..-+.... .-..-|.
T Consensus       489 ~~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeL--Datdaeaaaa~adtyae~~~we~a~~I~l~~~qka~a~~~k~nW~  566 (1238)
T KOG1127|consen  489 VSLAPAFAFLGQIYRDSDDMKRAKKCFDKAFEL--DATDAEAAAASADTYAEESTWEEAFEICLRAAQKAPAFACKENWV  566 (1238)
T ss_pred             cchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcC--CchhhhhHHHHHHHhhccccHHHHHHHHHHHhhhchHHHHHhhhh
Confidence            333337888888888777888899999988876  5566777888888888888888888883333221100 0112233


Q ss_pred             HHHHhhhcCCChHHHHHHhccCCC---CCcccHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCChhhHHHH--HHHHhcc
Q 005487          146 STAGMYAKCNSFECAVKMFDEMSE---RDVASWNTVISCYYQDGQAEKALELFKKMRGSGFQPNSVTLTTV--ISSCARL  220 (694)
Q Consensus       146 ~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~l--l~~~~~~  220 (694)
                      ...-.|...++...|+.-|+...+   .|...|..+..+|.+.|++..|+++|.+....  .|+.. |...  ....+..
T Consensus       567 ~rG~yyLea~n~h~aV~~fQsALR~dPkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~L--rP~s~-y~~fk~A~~ecd~  643 (1238)
T KOG1127|consen  567 QRGPYYLEAHNLHGAVCEFQSALRTDPKDYNLWLGLGEAYPESGRYSHALKVFTKASLL--RPLSK-YGRFKEAVMECDN  643 (1238)
T ss_pred             hccccccCccchhhHHHHHHHHhcCCchhHHHHHHHHHHHHhcCceehHHHhhhhhHhc--CcHhH-HHHHHHHHHHHHh
Confidence            344456778888888888887765   35567778888999999999999999887663  44432 2222  2233466


Q ss_pred             CChhHHHHHHHHHHHh------CCCCchhHHHHHHHhhHhcCChHHHHHHHhcCCC-----------CChhHHHHHHHHH
Q 005487          221 MDLDRGKEIHKEFIKD------GFVSDSYISSALVDMYGKCGCLEMAREVFEQTVL-----------KSVVAWNALIAGY  283 (694)
Q Consensus       221 ~~~~~a~~~~~~~~~~------~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----------~~~~~~~~li~~~  283 (694)
                      |.+.++...+......      +...-..++..+...+...|-..+|..++++..+           .+...|..+-+  
T Consensus       644 GkYkeald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~~~l~h~~~~~~~~Wi~asd--  721 (1238)
T KOG1127|consen  644 GKYKEALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIESFIVSLIHSLQSDRLQWIVASD--  721 (1238)
T ss_pred             hhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHhhhhhHHHHHHHhH--
Confidence            8888888887776643      1111223333333334444444444444443211           11222222221  


Q ss_pred             HcCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChhhhH------HHHHHHHHhcCCCchhHHHHHHHHHHh--
Q 005487          284 SSRGDSKSCVKLFWRMNEEGIKPTLTTISSVLMSCSRSGQLKHGK------VMHGYIIRNKIQGDVFINSSLIDLYFK--  355 (694)
Q Consensus       284 ~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~------~~~~~~~~~~~~~~~~~~~~l~~~~~~--  355 (694)
                              |..+|-... .. .|+......+..-....+....-.      +.+-.  ......+...+..+...|.+  
T Consensus       722 --------ac~~f~q~e-~~-~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~--hlsl~~~~~~WyNLGinylr~f  789 (1238)
T KOG1127|consen  722 --------ACYIFSQEE-PS-IVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIA--HLSLAIHMYPWYNLGINYLRYF  789 (1238)
T ss_pred             --------HHHHHHHhc-cc-chHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhH--HHHHhhccchHHHHhHHHHHHH
Confidence                    222222222 11 233222222222233333321111      11110  01111123333333333332  


Q ss_pred             --cC----CHHHHHHHHhcCC---CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcccCChH
Q 005487          356 --CG----RVSSAENVFEKMS---KTDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALE  426 (694)
Q Consensus       356 --~~----~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~  426 (694)
                        .+    +...|+..+....   ..+...|+.|.-. ...|++.-+..-|-+-.... +-...+|..+.-.+....+++
T Consensus       790 ~~l~et~~~~~~Ai~c~KkaV~L~ann~~~WnaLGVl-sg~gnva~aQHCfIks~~se-p~~~~~W~NlgvL~l~n~d~E  867 (1238)
T KOG1127|consen  790 LLLGETMKDACTAIRCCKKAVSLCANNEGLWNALGVL-SGIGNVACAQHCFIKSRFSE-PTCHCQWLNLGVLVLENQDFE  867 (1238)
T ss_pred             HHcCCcchhHHHHHHHHHHHHHHhhccHHHHHHHHHh-hccchhhhhhhhhhhhhhcc-ccchhheeccceeEEecccHH
Confidence              11    2235666666544   4567788877665 55577776666665544432 345667777777888999999


Q ss_pred             HHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCC-----C---CChHHHHHHHHHHHhcCCHHHHHHHH
Q 005487          427 KGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELP-----E---RDLVSWTSMIAAYGSHGRALEALKLF  498 (694)
Q Consensus       427 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-----~---~~~~~~~~l~~~~~~~~~~~~A~~~~  498 (694)
                      .|...|....... |.+...|-.........|+.-++..+|..-.     .   ++..-|..........|+.++-+...
T Consensus       868 ~A~~af~~~qSLd-P~nl~~WlG~Ali~eavG~ii~~~~lfaHs~el~~~~gka~~f~Yw~c~te~h~~Ng~~e~~I~t~  946 (1238)
T KOG1127|consen  868 HAEPAFSSVQSLD-PLNLVQWLGEALIPEAVGRIIERLILFAHSDELCSKEGKAKKFQYWLCATEIHLQNGNIEESINTA  946 (1238)
T ss_pred             HhhHHHHhhhhcC-chhhHHHHHHHHhHHHHHHHHHHHHHHHhhHHhhccccccchhhHHHHHHHHHHhccchHHHHHHh
Confidence            9999999887765 3445555444445556787777777776521     1   45555555555556666655544433


Q ss_pred             HH----------HHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHH----HHHHHHhhhcCCHHH
Q 005487          499 GE----------MQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHY----SCLIDLLGRAGRLQE  564 (694)
Q Consensus       499 ~~----------~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~----~~l~~~~~~~g~~~~  564 (694)
                      ++          .... .+.....|...+....+.+.+.+|.+...+...-...+-+...|    ...++.++..|.++.
T Consensus       947 ~ki~sAs~al~~yf~~-~p~~~fAy~~~gstlEhL~ey~~a~ela~RliglLe~k~d~sqynvak~~~gRL~lslgefe~ 1025 (1238)
T KOG1127|consen  947 RKISSASLALSYYFLG-HPQLCFAYAANGSTLEHLEEYRAALELATRLIGLLELKLDESQYNVAKPDAGRLELSLGEFES 1025 (1238)
T ss_pred             hhhhhhHHHHHHHHhc-CcchhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhcchhh
Confidence            33          3332 23335677777777777788888777776654211112222233    356788888999998


Q ss_pred             HHHHHHhCCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCc---cHHHHHHHHhhcCChHHHHHHHHHHHh
Q 005487          565 AYGILQSTPEIREDAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSS---TYIVLSNMYASVKKWDEVRKIRLKMKE  641 (694)
Q Consensus       565 A~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~---~~~~l~~~~~~~g~~~~A~~~~~~~~~  641 (694)
                      |...+.... ...+..+...-+.. .-.|+++++.+.|++++.+...+..   ....++......+..+.|...+-+...
T Consensus      1026 A~~a~~~~~-~evdEdi~gt~l~l-Ffkndf~~sl~~fe~aLsis~se~d~vvLl~kva~~~g~~~~k~~A~~lLfe~~~ 1103 (1238)
T KOG1127|consen 1026 AKKASWKEW-MEVDEDIRGTDLTL-FFKNDFFSSLEFFEQALSISNSESDKVVLLCKVAVCMGLARQKNDAQFLLFEVKS 1103 (1238)
T ss_pred             Hhhhhcccc-hhHHHHHhhhhHHH-HHHhHHHHHHHHHHHHhhhcccccchhhhhHHHHHHHhhcccchHHHHHHHHHHH
Confidence            877666544 22333332222222 4568999999999999988755444   334455566667788888877655543

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=99.14  E-value=2.5e-08  Score=96.37  Aligned_cols=236  Identities=14%  Similarity=0.077  Sum_probs=124.5

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcccCChHHHHHHHHHHHHhCCCC------ChhHHHHHHH
Q 005487          379 VMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIESKLET------NEIVMGALLD  452 (694)
Q Consensus       379 ~l~~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~------~~~~~~~l~~  452 (694)
                      .+.+...+..++..|++.+.......  -+..-++....++...|............++.|...      -...+..+..
T Consensus       229 ~lgnaaykkk~f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre~rad~klIak~~~r~g~  306 (539)
T KOG0548|consen  229 ELGNAAYKKKDFETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRELRADYKLIAKALARLGN  306 (539)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHHHHHHHHHHHHHHHHhhh
Confidence            34444445555566666655555542  222223333334555555544444444433332110      0111122334


Q ss_pred             HHHhcCChHHHHHHHhhCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH-hhHHHHHHHHHccCCHHHHHH
Q 005487          453 MYAKCGAVDEAFKVFNELPERDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDS-ITFLALLSACSHAGWVDEGGY  531 (694)
Q Consensus       453 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~  531 (694)
                      +|.+.++++.|+..|++...+...     -....+....++++...+...-.  .|.. .-...-...+.+.|++..|+.
T Consensus       307 a~~k~~~~~~ai~~~~kaLte~Rt-----~~~ls~lk~~Ek~~k~~e~~a~~--~pe~A~e~r~kGne~Fk~gdy~~Av~  379 (539)
T KOG0548|consen  307 AYTKREDYEGAIKYYQKALTEHRT-----PDLLSKLKEAEKALKEAERKAYI--NPEKAEEEREKGNEAFKKGDYPEAVK  379 (539)
T ss_pred             hhhhHHhHHHHHHHHHHHhhhhcC-----HHHHHHHHHHHHHHHHHHHHHhh--ChhHHHHHHHHHHHHHhccCHHHHHH
Confidence            555566677777776664431110     11122233445555554444432  2332 222222555666777777777


Q ss_pred             HHHHhHHhcCCCCC-hHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCCH-HHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Q 005487          532 YFNLMISEYNIQPR-NEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDA-GLLSTLFSACRLHRDIEMGEKIAKLLIEKD  609 (694)
Q Consensus       532 ~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  609 (694)
                      .|.++++.   .|+ ...|...+-+|.+.|.+..|++-.+...+..|+. ..|..-+.++...+++++|.+.|+++++.+
T Consensus       380 ~YteAIkr---~P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p~~~kgy~RKg~al~~mk~ydkAleay~eale~d  456 (539)
T KOG0548|consen  380 HYTEAIKR---DPEDARLYSNRAACYLKLGEYPEALKDAKKCIELDPNFIKAYLRKGAALRAMKEYDKALEAYQEALELD  456 (539)
T ss_pred             HHHHHHhc---CCchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence            77777632   343 5566677777777777777777766666665553 345555556666677777777777777777


Q ss_pred             CCCCccHHHHHHHHhhc
Q 005487          610 PDDSSTYIVLSNMYASV  626 (694)
Q Consensus       610 p~~~~~~~~l~~~~~~~  626 (694)
                      |++..+...+.+++..+
T Consensus       457 p~~~e~~~~~~rc~~a~  473 (539)
T KOG0548|consen  457 PSNAEAIDGYRRCVEAQ  473 (539)
T ss_pred             chhHHHHHHHHHHHHHh
Confidence            77766666666666554

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=99.14  E-value=1.7e-06  Score=87.85  Aligned_cols=422  Identities=11%  Similarity=0.100  Sum_probs=208.7

Q ss_pred             hHHHHHH--HHHccCChhHHHHHHHHhhhCCCCCCCcccHHHHHHHhhCCCCchhHHHHHHHHHHHc--------CCCch
Q 005487           72 LWNGLMA--SYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLGSVGIGKMIHTHLIKTG--------FLLDV  141 (694)
Q Consensus        72 ~~~~l~~--~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~--------~~~~~  141 (694)
                      +...++.  .|..-|+.+.|.+-.+.+.       +...|..+.+.|.+.++++-|+-.+..|....        .+.+.
T Consensus       728 TRkaml~FSfyvtiG~MD~AfksI~~Ik-------S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~  800 (1416)
T KOG3617|consen  728 TRKAMLDFSFYVTIGSMDAAFKSIQFIK-------SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE  800 (1416)
T ss_pred             HHHhhhceeEEEEeccHHHHHHHHHHHh-------hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc
Confidence            5555553  3556677777766666543       33567777777777777777776666654321        01111


Q ss_pred             hHHHHHHHhhhcCCChHHHHHHhccCCCCCcccHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccC
Q 005487          142 VIASSTAGMYAKCNSFECAVKMFDEMSERDVASWNTVISCYYQDGQAEKALELFKKMRGSGFQPNSVTLTTVISSCARLM  221 (694)
Q Consensus       142 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~  221 (694)
                      ..-....-.....|.+++|+.++.+...     |..|=..|...|.|++|+++-+.--.-   .=..||..-..-+-..+
T Consensus       801 e~eakvAvLAieLgMlEeA~~lYr~ckR-----~DLlNKlyQs~g~w~eA~eiAE~~DRi---HLr~Tyy~yA~~Lear~  872 (1416)
T KOG3617|consen  801 EDEAKVAVLAIELGMLEEALILYRQCKR-----YDLLNKLYQSQGMWSEAFEIAETKDRI---HLRNTYYNYAKYLEARR  872 (1416)
T ss_pred             chhhHHHHHHHHHhhHHHHHHHHHHHHH-----HHHHHHHHHhcccHHHHHHHHhhccce---ehhhhHHHHHHHHHhhc
Confidence            1111222223445566666666655443     333334455556666666654432111   11224444444444455


Q ss_pred             ChhHHHHHHHHHHHhCCCCchhHHHHHHHhhHhcCChHHHHHHHhcCCCCChhHHHHHHHHHHcCCCchHHHHHHHHHHH
Q 005487          222 DLDRGKEIHKEFIKDGFVSDSYISSALVDMYGKCGCLEMAREVFEQTVLKSVVAWNALIAGYSSRGDSKSCVKLFWRMNE  301 (694)
Q Consensus       222 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  301 (694)
                      |.+.|.+.|++...    +--.++..|.      .++.....+.+++.  |...|......+-..|+.+.|+.+|.....
T Consensus       873 Di~~AleyyEK~~~----hafev~rmL~------e~p~~~e~Yv~~~~--d~~L~~WWgqYlES~GemdaAl~~Y~~A~D  940 (1416)
T KOG3617|consen  873 DIEAALEYYEKAGV----HAFEVFRMLK------EYPKQIEQYVRRKR--DESLYSWWGQYLESVGEMDAALSFYSSAKD  940 (1416)
T ss_pred             cHHHHHHHHHhcCC----hHHHHHHHHH------hChHHHHHHHHhcc--chHHHHHHHHHHhcccchHHHHHHHHHhhh
Confidence            55555555553211    1111111110      11122222222222  345555566666677888888888776643


Q ss_pred             CCCCCCHHHHHHHHHHhhccCChhhhHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHH
Q 005487          302 EGIKPTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAENVFEKMSKTDVVYWNVMI  381 (694)
Q Consensus       302 ~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~  381 (694)
                               |-.+++..|-.|+.++|.++-++      .-|....-.+.+.|-..|++.+|..+|-+..     ++...|
T Consensus       941 ---------~fs~VrI~C~qGk~~kAa~iA~e------sgd~AAcYhlaR~YEn~g~v~~Av~FfTrAq-----afsnAI 1000 (1416)
T KOG3617|consen  941 ---------YFSMVRIKCIQGKTDKAARIAEE------SGDKAACYHLARMYENDGDVVKAVKFFTRAQ-----AFSNAI 1000 (1416)
T ss_pred             ---------hhhheeeEeeccCchHHHHHHHh------cccHHHHHHHHHHhhhhHHHHHHHHHHHHHH-----HHHHHH
Confidence                     45566667777888877776654      2355555667778888888888887776543     222222


Q ss_pred             HHHHh---------------cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcccCChHHHHHHHH--------HHHH-
Q 005487          382 SGYVT---------------VGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHN--------HIIE-  437 (694)
Q Consensus       382 ~~~~~---------------~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~--------~~~~-  437 (694)
                      +.+-.               ..+.-.|-++|++.   |.     -+...+..|.+.|.+.+|.++--        +++. 
T Consensus      1001 RlcKEnd~~d~L~nlal~s~~~d~v~aArYyEe~---g~-----~~~~AVmLYHkAGm~~kALelAF~tqQf~aL~lIa~ 1072 (1416)
T KOG3617|consen 1001 RLCKENDMKDRLANLALMSGGSDLVSAARYYEEL---GG-----YAHKAVMLYHKAGMIGKALELAFRTQQFSALDLIAK 1072 (1416)
T ss_pred             HHHHhcCHHHHHHHHHhhcCchhHHHHHHHHHHc---ch-----hhhHHHHHHHhhcchHHHHHHHHhhcccHHHHHHHH
Confidence            22211               11222333333321   11     11222334555565555554311        1112 


Q ss_pred             -hCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHH-cCCCCCH----h
Q 005487          438 -SKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPERDLVSWTSMIAAYGSHGRALEALKLFGEMQQ-SNARPDS----I  511 (694)
Q Consensus       438 -~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-~~~~p~~----~  511 (694)
                       .....|+...+...+.++...++++|..++-...+     |...+..|. ..+..-..++-+.|-- ..-.|+.    .
T Consensus      1073 DLd~~sDp~ll~RcadFF~~~~qyekAV~lL~~ar~-----~~~AlqlC~-~~nv~vtee~aE~mTp~Kd~~~~e~~R~~ 1146 (1416)
T KOG3617|consen 1073 DLDAGSDPKLLRRCADFFENNQQYEKAVNLLCLARE-----FSGALQLCK-NRNVRVTEEFAELMTPTKDDMPNEQERKQ 1146 (1416)
T ss_pred             hcCCCCCHHHHHHHHHHHHhHHHHHHHHHHHHHHHH-----HHHHHHHHh-cCCCchhHHHHHhcCcCcCCCccHHHHHH
Confidence             23334566666677777777777777666543221     222222222 2222222333333321 1112333    3


Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHH
Q 005487          512 TFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQE  564 (694)
Q Consensus       512 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~  564 (694)
                      .+..+...|.++|.+..|.+-|.++-.+          ...++++.+.|+.++
T Consensus      1147 vLeqvae~c~qQG~Yh~AtKKfTQAGdK----------l~AMraLLKSGdt~K 1189 (1416)
T KOG3617|consen 1147 VLEQVAELCLQQGAYHAATKKFTQAGDK----------LSAMRALLKSGDTQK 1189 (1416)
T ss_pred             HHHHHHHHHHhccchHHHHHHHhhhhhH----------HHHHHHHHhcCCcce
Confidence            4566667888888888887777655321          123455566666553

>PF13041 PPR_2: PPR repeat family

Probab=99.14  E-value=1.2e-10  Score=77.48  Aligned_cols=50  Identities=40%  Similarity=0.695  Sum_probs=43.4

Q ss_pred             CCcccHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhc
Q 005487          170 RDVASWNTVISCYYQDGQAEKALELFKKMRGSGFQPNSVTLTTVISSCAR  219 (694)
Q Consensus       170 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~  219 (694)
                      ||..+||.+|.+|++.|++++|+++|++|.+.|+.||..||+.++++|++
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            67888888888888888888888888888888888888888888888764

>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=99.12  E-value=2.4e-08  Score=101.40  Aligned_cols=149  Identities=10%  Similarity=0.009  Sum_probs=107.7

Q ss_pred             HHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhc-------------CCCCChH--HHHHHHHHhh
Q 005487          493 EALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEY-------------NIQPRNE--HYSCLIDLLG  557 (694)
Q Consensus       493 ~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-------------~~~p~~~--~~~~l~~~~~  557 (694)
                      .+..++..+...|+++   +|..+-..|....+.+-...++.......             .-.|+..  ++..++..|.
T Consensus       129 ~~~~yl~~~l~KgvPs---lF~~lk~Ly~d~~K~~~i~~l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd  205 (517)
T PF12569_consen  129 RLDEYLRPQLRKGVPS---LFSNLKPLYKDPEKAAIIESLVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYD  205 (517)
T ss_pred             HHHHHHHHHHhcCCch---HHHHHHHHHcChhHHHHHHHHHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHH
Confidence            3445556666666443   34444444444444444455555443221             1123332  4466788889


Q ss_pred             hcCCHHHHHHHHHhCCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHH
Q 005487          558 RAGRLQEAYGILQSTPEIRED-AGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIR  636 (694)
Q Consensus       558 ~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~  636 (694)
                      ..|++++|+++++++++..|. +..+..-+..+.+.|++.+|.+.++.+.++++.|.-.....+..+.+.|+.++|.+.+
T Consensus       206 ~~g~~~~Al~~Id~aI~htPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~~DRyiNsK~aKy~LRa~~~e~A~~~~  285 (517)
T PF12569_consen  206 YLGDYEKALEYIDKAIEHTPTLVELYMTKARILKHAGDLKEAAEAMDEARELDLADRYINSKCAKYLLRAGRIEEAEKTA  285 (517)
T ss_pred             HhCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCChhhHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            999999999999998887776 5677888888999999999999999999999999888888999999999999999999


Q ss_pred             HHHHhCCC
Q 005487          637 LKMKELGL  644 (694)
Q Consensus       637 ~~~~~~~~  644 (694)
                      ..+...+.
T Consensus       286 ~~Ftr~~~  293 (517)
T PF12569_consen  286 SLFTREDV  293 (517)
T ss_pred             HhhcCCCC
Confidence            88866554

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 [], [].

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=99.12  E-value=3.2e-07  Score=83.42  Aligned_cols=293  Identities=13%  Similarity=0.075  Sum_probs=153.9

Q ss_pred             HHHHHHHHhhccCChhhhHHHHHHHHHhcCCCchhHHHHH---HHHHHhcCCHHHHHHHHhcCCC--CChh-HHHHHHHH
Q 005487          310 TISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSL---IDLYFKCGRVSSAENVFEKMSK--TDVV-YWNVMISG  383 (694)
Q Consensus       310 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l---~~~~~~~~~~~~A~~~~~~~~~--~~~~-~~~~l~~~  383 (694)
                      --.-+...+...|++..|..-|...++.+    +..|.++   ...|...|+...|+.-+..+.+  ||.. .-..-...
T Consensus        40 khlElGk~lla~~Q~sDALt~yHaAve~d----p~~Y~aifrRaT~yLAmGksk~al~Dl~rVlelKpDF~~ARiQRg~v  115 (504)
T KOG0624|consen   40 KHLELGKELLARGQLSDALTHYHAAVEGD----PNNYQAIFRRATVYLAMGKSKAALQDLSRVLELKPDFMAARIQRGVV  115 (504)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHcCC----chhHHHHHHHHHHHhhhcCCccchhhHHHHHhcCccHHHHHHHhchh
Confidence            34445556666667777766666655442    2233322   3456666666666666665553  3322 12223345


Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCCH--HH------------HHHHHHHHcccCChHHHHHHHHHHHHhCCCCChhHHHH
Q 005487          384 YVTVGDYFKALAIYSDMKEVGAKPDA--VT------------FTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGA  449 (694)
Q Consensus       384 ~~~~~~~~~A~~~~~~m~~~g~~p~~--~~------------~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  449 (694)
                      +.+.|.++.|..-|+...+.....+.  ..            ....+..+...||...|++....+++.. +.+...+..
T Consensus       116 llK~Gele~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~-~Wda~l~~~  194 (504)
T KOG0624|consen  116 LLKQGELEQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQ-PWDASLRQA  194 (504)
T ss_pred             hhhcccHHHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcC-cchhHHHHH
Confidence            66777788887777777765321111  11            1122334555667777777777666654 456666666


Q ss_pred             HHHHHHhcCChHHHHHHHhhCCC---CChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHh-h---HHHH------
Q 005487          450 LLDMYAKCGAVDEAFKVFNELPE---RDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSI-T---FLAL------  516 (694)
Q Consensus       450 l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~-~---~~~l------  516 (694)
                      -..+|...|++..|+.-+....+   .+..++..+-..+...|+.+.++...++..+.  .||.. +   |..+      
T Consensus       195 Rakc~i~~~e~k~AI~Dlk~askLs~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKl--dpdHK~Cf~~YKklkKv~K~  272 (504)
T KOG0624|consen  195 RAKCYIAEGEPKKAIHDLKQASKLSQDNTEGHYKISQLLYTVGDAENSLKEIRECLKL--DPDHKLCFPFYKKLKKVVKS  272 (504)
T ss_pred             HHHHHHhcCcHHHHHHHHHHHHhccccchHHHHHHHHHHHhhhhHHHHHHHHHHHHcc--CcchhhHHHHHHHHHHHHHH
Confidence            66777777777777655554433   45555555666666677777777777766663  45542 1   1111      


Q ss_pred             ---HHHHHccCCHHHHHHHHHHhHHhcCCCCCh-----HHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCC-HHHHHHHHH
Q 005487          517 ---LSACSHAGWVDEGGYYFNLMISEYNIQPRN-----EHYSCLIDLLGRAGRLQEAYGILQSTPEIRED-AGLLSTLFS  587 (694)
Q Consensus       517 ---~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~-----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~  587 (694)
                         +....+.++|.+++...+...   ...|..     ..+..+-.++...|++-+|++.-.++..+.|+ ..++..-+.
T Consensus       273 les~e~~ie~~~~t~cle~ge~vl---k~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~~d~~dv~~l~dRAe  349 (504)
T KOG0624|consen  273 LESAEQAIEEKHWTECLEAGEKVL---KNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLDIDPDDVQVLCDRAE  349 (504)
T ss_pred             HHHHHHHHhhhhHHHHHHHHHHHH---hcCCcccceeeeeeheeeecccccCCHHHHHHHHHHHHhcCchHHHHHHHHHH
Confidence               011223344444444444444   122331     12233344444555555555555555544443 334444445


Q ss_pred             HHHHcCCHHHHHHHHHHHHhcCCCC
Q 005487          588 ACRLHRDIEMGEKIAKLLIEKDPDD  612 (694)
Q Consensus       588 ~~~~~~~~~~A~~~~~~~~~~~p~~  612 (694)
                      +|.....++.|+.-|+++.+.+|+|
T Consensus       350 A~l~dE~YD~AI~dye~A~e~n~sn  374 (504)
T KOG0624|consen  350 AYLGDEMYDDAIHDYEKALELNESN  374 (504)
T ss_pred             HHhhhHHHHHHHHHHHHHHhcCccc
Confidence            5555555555555555555555544

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.11  E-value=6.4e-08  Score=96.99  Aligned_cols=202  Identities=16%  Similarity=0.223  Sum_probs=127.0

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHHc-----CC-CC-CHHHHHHHHHHHcccCChHHHHHHHHHHHHhCCCCChhHHHHH
Q 005487          378 NVMISGYVTVGDYFKALAIYSDMKEV-----GA-KP-DAVTFTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGAL  450 (694)
Q Consensus       378 ~~l~~~~~~~~~~~~A~~~~~~m~~~-----g~-~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  450 (694)
                      +.+...|...+++.+|..+|+++...     |- .| -..++..|..+|.+.|++++|...++.+.+.            
T Consensus       245 ~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I------------  312 (508)
T KOG1840|consen  245 NILALVYRSLGKYDEAVNLYEEALTIREEVFGEDHPAVAATLNNLAVLYYKQGKFAEAEEYCERALEI------------  312 (508)
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHH------------
Confidence            34667788888888888888887652     11 11 1234444455566666666666555544321            


Q ss_pred             HHHHHhcCChHHHHHHHhhCCC---CCh-HHHHHHHHHHHhcCCHHHHHHHHHHHHHc---CCCCC----HhhHHHHHHH
Q 005487          451 LDMYAKCGAVDEAFKVFNELPE---RDL-VSWTSMIAAYGSHGRALEALKLFGEMQQS---NARPD----SITFLALLSA  519 (694)
Q Consensus       451 ~~~~~~~g~~~~A~~~~~~~~~---~~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~---~~~p~----~~~~~~l~~~  519 (694)
                                      ++....   +.+ ..++.++..+...+++++|..++++..+.   -+.++    ..+++.|...
T Consensus       313 ----------------~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l  376 (508)
T KOG1840|consen  313 ----------------YEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAEL  376 (508)
T ss_pred             ----------------HHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHH
Confidence                            111000   111 13455566666777777777776655432   01111    2567888888


Q ss_pred             HHccCCHHHHHHHHHHhHHhc----C-CCCC-hHHHHHHHHHhhhcCCHHHHHHHHHhCCC----CCC---C-HHHHHHH
Q 005487          520 CSHAGWVDEGGYYFNLMISEY----N-IQPR-NEHYSCLIDLLGRAGRLQEAYGILQSTPE----IRE---D-AGLLSTL  585 (694)
Q Consensus       520 ~~~~g~~~~A~~~~~~~~~~~----~-~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~p---~-~~~~~~l  585 (694)
                      |...|++++|.++++.++...    + ..+. ...++.++..|.+.+++++|.++|.+...    ..|   + ...+..|
T Consensus       377 ~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL  456 (508)
T KOG1840|consen  377 YLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNL  456 (508)
T ss_pred             HHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHHHH
Confidence            888888888888888776432    1 1222 34667788888888888888888876433    333   3 3567889


Q ss_pred             HHHHHHcCCHHHHHHHHHHHHh
Q 005487          586 FSACRLHRDIEMGEKIAKLLIE  607 (694)
Q Consensus       586 ~~~~~~~~~~~~A~~~~~~~~~  607 (694)
                      +.+|...|+++.|+++.++++.
T Consensus       457 ~~~Y~~~g~~e~a~~~~~~~~~  478 (508)
T KOG1840|consen  457 AALYRAQGNYEAAEELEEKVLN  478 (508)
T ss_pred             HHHHHHcccHHHHHHHHHHHHH
Confidence            9999999999999999988873

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=99.09  E-value=2.5e-07  Score=84.11  Aligned_cols=310  Identities=13%  Similarity=0.088  Sum_probs=214.3

Q ss_pred             HHHHHHhhHhcCChHHHHHHHhcCCCCChhHHHHHH---HHHHcCCCchHHHHHHHHHHHCCCCCCHHHHH-HHHHHhhc
Q 005487          245 SSALVDMYGKCGCLEMAREVFEQTVLKSVVAWNALI---AGYSSRGDSKSCVKLFWRMNEEGIKPTLTTIS-SVLMSCSR  320 (694)
Q Consensus       245 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li---~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~-~ll~~~~~  320 (694)
                      ..-+...+...|++..|+.-|...++.|+..|.++.   ..|...|+...|+.-+.+.++.  +||...-. .-...+.+
T Consensus        41 hlElGk~lla~~Q~sDALt~yHaAve~dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlel--KpDF~~ARiQRg~vllK  118 (504)
T KOG0624|consen   41 HLELGKELLARGQLSDALTHYHAAVEGDPNNYQAIFRRATVYLAMGKSKAALQDLSRVLEL--KPDFMAARIQRGVVLLK  118 (504)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhcCCccchhhHHHHHhc--CccHHHHHHHhchhhhh
Confidence            344556677778888888888888888887777765   4678888888888888887775  67643221 12223456


Q ss_pred             cCChhhhHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHH
Q 005487          321 SGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAENVFEKMSKTDVVYWNVMISGYVTVGDYFKALAIYSDM  400 (694)
Q Consensus       321 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~m  400 (694)
                      .|.++.|..-|+.+.+.....+.     ...++.+.-..++-            ......+..+...|+...|+.....+
T Consensus       119 ~Gele~A~~DF~~vl~~~~s~~~-----~~eaqskl~~~~e~------------~~l~~ql~s~~~~GD~~~ai~~i~~l  181 (504)
T KOG0624|consen  119 QGELEQAEADFDQVLQHEPSNGL-----VLEAQSKLALIQEH------------WVLVQQLKSASGSGDCQNAIEMITHL  181 (504)
T ss_pred             cccHHHHHHHHHHHHhcCCCcch-----hHHHHHHHHhHHHH------------HHHHHHHHHHhcCCchhhHHHHHHHH
Confidence            67777777777776665432111     01111111111111            11223445566788888888888888


Q ss_pred             HHcCCCCCHHHHHHHHHHHcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCC--CChH--
Q 005487          401 KEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPE--RDLV--  476 (694)
Q Consensus       401 ~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~--  476 (694)
                      .+.. +.|...+..-..+|...|++..|+.-++...+.. ..+...+..+...+...|+.+.++...++..+  ||..  
T Consensus       182 lEi~-~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs-~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKldpdHK~C  259 (504)
T KOG0624|consen  182 LEIQ-PWDASLRQARAKCYIAEGEPKKAIHDLKQASKLS-QDNTEGHYKISQLLYTVGDAENSLKEIRECLKLDPDHKLC  259 (504)
T ss_pred             HhcC-cchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHhhhhHHHHHHHHHHHHccCcchhhH
Confidence            8752 4466666667778888899988888887776654 34555566677888888999999888888877  4332  


Q ss_pred             --HHHHH---------HHHHHhcCCHHHHHHHHHHHHHcCCCCC--H---hhHHHHHHHHHccCCHHHHHHHHHHhHHhc
Q 005487          477 --SWTSM---------IAAYGSHGRALEALKLFGEMQQSNARPD--S---ITFLALLSACSHAGWVDEGGYYFNLMISEY  540 (694)
Q Consensus       477 --~~~~l---------~~~~~~~~~~~~A~~~~~~~~~~~~~p~--~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  540 (694)
                        .|..|         +......++|.++++..+...+..  |.  .   ..+..+-.++...|++.+|++...+++   
T Consensus       260 f~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~e--p~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL---  334 (504)
T KOG0624|consen  260 FPFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKNE--PEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVL---  334 (504)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcC--CcccceeeeeeheeeecccccCCHHHHHHHHHHHH---
Confidence              12211         223456788999999999888864  43  2   345566678889999999999999998   


Q ss_pred             CCCCC-hHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCCHH
Q 005487          541 NIQPR-NEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAG  580 (694)
Q Consensus       541 ~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~  580 (694)
                      .+.|+ +.++-.-+.+|.-...+++|+.-|+++.+..++..
T Consensus       335 ~~d~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e~n~sn~  375 (504)
T KOG0624|consen  335 DIDPDDVQVLCDRAEAYLGDEMYDDAIHDYEKALELNESNT  375 (504)
T ss_pred             hcCchHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCcccH
Confidence            67787 77888889999999999999999999987776654

>PF13041 PPR_2: PPR repeat family

Probab=99.08  E-value=4.6e-10  Score=74.66  Aligned_cols=50  Identities=36%  Similarity=0.707  Sum_probs=45.9

Q ss_pred             CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcc
Q 005487          372 TDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQ  421 (694)
Q Consensus       372 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~  421 (694)
                      ||+.+||.++.+|++.|++++|.++|++|.+.|+.||..||+.++.+|++
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            68889999999999999999999999999999999999999999998864

>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=99.07  E-value=7.1e-09  Score=97.90  Aligned_cols=251  Identities=18%  Similarity=0.159  Sum_probs=124.7

Q ss_pred             HHHHHhcCCHHHHHHHHhcCCCC----ChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcccCCh
Q 005487          350 IDLYFKCGRVSSAENVFEKMSKT----DVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAAL  425 (694)
Q Consensus       350 ~~~~~~~~~~~~A~~~~~~~~~~----~~~~~~~l~~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~  425 (694)
                      ++-+.-.|++..++.-.+ ....    +......+.+++...|+++.++.   ++.... .|....+..+...+...++.
T Consensus         8 vrn~fy~G~Y~~~i~e~~-~~~~~~~~~~e~~~~~~Rs~iAlg~~~~vl~---ei~~~~-~~~l~av~~la~y~~~~~~~   82 (290)
T PF04733_consen    8 VRNQFYLGNYQQCINEAS-LKSFSPENKLERDFYQYRSYIALGQYDSVLS---EIKKSS-SPELQAVRLLAEYLSSPSDK   82 (290)
T ss_dssp             HHHHHCTT-HHHHCHHHH-CHTSTCHHHHHHHHHHHHHHHHTT-HHHHHH---HS-TTS-SCCCHHHHHHHHHHCTSTTH
T ss_pred             HHHHHHhhhHHHHHHHhh-ccCCCchhHHHHHHHHHHHHHHcCChhHHHH---HhccCC-ChhHHHHHHHHHHHhCccch
Confidence            345556788888775554 2111    22344456677777787665443   332322 55555555555544443444


Q ss_pred             HHHHHHHHHHHHhCCC-CChhHHHHHHHHHHhcCChHHHHHHHhhCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 005487          426 EKGKEIHNHIIESKLE-TNEIVMGALLDMYAKCGAVDEAFKVFNELPERDLVSWTSMIAAYGSHGRALEALKLFGEMQQS  504 (694)
Q Consensus       426 ~~a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  504 (694)
                      +.+..-++........ .+..+......++...|++++|++++...  .+.......+..|.+.++++.|.+.++.|.+.
T Consensus        83 e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~--~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~  160 (290)
T PF04733_consen   83 ESALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG--GSLELLALAVQILLKMNRPDLAEKELKNMQQI  160 (290)
T ss_dssp             HCHHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT--TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc--CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            4444444333222222 22222233334455667777777666654  34455555666677777777777777776653


Q ss_pred             CCCCCHhhHHHHHHHHHc----cCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCC-H
Q 005487          505 NARPDSITFLALLSACSH----AGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIRED-A  579 (694)
Q Consensus       505 ~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~  579 (694)
                        ..| .+...+..++..    .+.+.+|..+|+++..  ...+++.+.+.++.+....|++++|.++++++.+..|+ +
T Consensus       161 --~eD-~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~--~~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~~~  235 (290)
T PF04733_consen  161 --DED-SILTQLAEAWVNLATGGEKYQDAFYIFEELSD--KFGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPNDP  235 (290)
T ss_dssp             --SCC-HHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHC--CS--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CCHH
T ss_pred             --CCc-HHHHHHHHHHHHHHhCchhHHHHHHHHHHHHh--ccCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccCCH
Confidence              222 333333333221    1246666666666642  23345555555666666666666666666555543332 3


Q ss_pred             HHHHHHHHHHHHcCCH-HHHHHHHHHHHhcCCCC
Q 005487          580 GLLSTLFSACRLHRDI-EMGEKIAKLLIEKDPDD  612 (694)
Q Consensus       580 ~~~~~l~~~~~~~~~~-~~A~~~~~~~~~~~p~~  612 (694)
                      .++..++......|+. +.+.+.++++....|++
T Consensus       236 d~LaNliv~~~~~gk~~~~~~~~l~qL~~~~p~h  269 (290)
T PF04733_consen  236 DTLANLIVCSLHLGKPTEAAERYLSQLKQSNPNH  269 (290)
T ss_dssp             HHHHHHHHHHHHTT-TCHHHHHHHHHCHHHTTTS
T ss_pred             HHHHHHHHHHHHhCCChhHHHHHHHHHHHhCCCC
Confidence            4444444444444444 44555555555555543

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.

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=99.07  E-value=1.5e-07  Score=91.20  Aligned_cols=244  Identities=16%  Similarity=0.136  Sum_probs=157.9

Q ss_pred             HHHHHHHhcCCHHHHHHHHhcCCC--CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCC--C----HHHHHHHHHHH
Q 005487          348 SLIDLYFKCGRVSSAENVFEKMSK--TDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKP--D----AVTFTSVLPAC  419 (694)
Q Consensus       348 ~l~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~m~~~g~~p--~----~~~~~~ll~~~  419 (694)
                      .+.+...+..+++.|++-+.....  .+..-++....+|...|.+.++.......++.|-..  +    ...+..+..++
T Consensus       229 ~lgnaaykkk~f~~a~q~y~~a~el~~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre~rad~klIak~~~r~g~a~  308 (539)
T KOG0548|consen  229 ELGNAAYKKKDFETAIQHYAKALELATDITYLNNIAAVYLERGKYAECIELCEKAVEVGRELRADYKLIAKALARLGNAY  308 (539)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHhHhhhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHHHHHHHHHHHHHHHHhhhhh
Confidence            345555555666666666555442  233345555666777777666666665555443111  1    11222344466


Q ss_pred             cccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCC--CChH-HHHHHHHHHHhcCCHHHHHH
Q 005487          420 SQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPE--RDLV-SWTSMIAAYGSHGRALEALK  496 (694)
Q Consensus       420 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~-~~~~l~~~~~~~~~~~~A~~  496 (694)
                      .+.++++.++..|.+.+.....|+.         ..+....+++....+...-  |... ....-...+.+.|++..|+.
T Consensus       309 ~k~~~~~~ai~~~~kaLte~Rt~~~---------ls~lk~~Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~gdy~~Av~  379 (539)
T KOG0548|consen  309 TKREDYEGAIKYYQKALTEHRTPDL---------LSKLKEAEKALKEAERKAYINPEKAEEEREKGNEAFKKGDYPEAVK  379 (539)
T ss_pred             hhHHhHHHHHHHHHHHhhhhcCHHH---------HHHHHHHHHHHHHHHHHHhhChhHHHHHHHHHHHHHhccCHHHHHH
Confidence            7778899999999987664433332         2334455666555554433  3221 22233667889999999999


Q ss_pred             HHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCC-hHHHHHHHHHhhhcCCHHHHHHHHHhCCCC
Q 005487          497 LFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPR-NEHYSCLIDLLGRAGRLQEAYGILQSTPEI  575 (694)
Q Consensus       497 ~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  575 (694)
                      .|.++++.. +.|...|.....+|.+.|.+..|+.-.+...   .+.|+ ...|..-+.++....++++|++.|++..+.
T Consensus       380 ~YteAIkr~-P~Da~lYsNRAac~~kL~~~~~aL~Da~~~i---eL~p~~~kgy~RKg~al~~mk~ydkAleay~eale~  455 (539)
T KOG0548|consen  380 HYTEAIKRD-PEDARLYSNRAACYLKLGEYPEALKDAKKCI---ELDPNFIKAYLRKGAALRAMKEYDKALEAYQEALEL  455 (539)
T ss_pred             HHHHHHhcC-CchhHHHHHHHHHHHHHhhHHHHHHHHHHHH---hcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            999999985 5568999999999999999999999988887   34666 457777788888889999999999999988


Q ss_pred             CCCHHHHHHHHHHHHHc-CCHHHHHHHHHH
Q 005487          576 REDAGLLSTLFSACRLH-RDIEMGEKIAKL  604 (694)
Q Consensus       576 ~p~~~~~~~l~~~~~~~-~~~~~A~~~~~~  604 (694)
                      .|+..-+..-+.-|... ......+++.++
T Consensus       456 dp~~~e~~~~~~rc~~a~~~~~~~ee~~~r  485 (539)
T KOG0548|consen  456 DPSNAEAIDGYRRCVEAQRGDETPEETKRR  485 (539)
T ss_pred             CchhHHHHHHHHHHHHHhhcCCCHHHHHHh
Confidence            88765444444444332 222333444444

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.05  E-value=2.5e-07  Score=82.41  Aligned_cols=393  Identities=15%  Similarity=0.112  Sum_probs=209.7

Q ss_pred             CCCCChhhHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchhHHHHHHHhhHhcCChHHHHHHHhcCCCC--ChhHHHH-
Q 005487          202 GFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVSDSYISSALVDMYGKCGCLEMAREVFEQTVLK--SVVAWNA-  278 (694)
Q Consensus       202 ~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~-  278 (694)
                      |+....--+..++..+.+..++..|.+++..-.+.. +.+....+.|..+|-...++..|-..++++...  ...-|.. 
T Consensus         5 g~~i~EGeftaviy~lI~d~ry~DaI~~l~s~~Er~-p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~P~~~qYrlY   83 (459)
T KOG4340|consen    5 GAQIPEGEFTAVVYRLIRDARYADAIQLLGSELERS-PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQLHPELEQYRLY   83 (459)
T ss_pred             cccCCCCchHHHHHHHHHHhhHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHH
Confidence            334444446666666677777777777777666553 335566677777777777777777777766442  2222222 


Q ss_pred             HHHHHHcCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChhhhHHHHHHHHHhcCCCchhHHHHHHHHHHhcCC
Q 005487          279 LIAGYSSRGDSKSCVKLFWRMNEEGIKPTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGR  358 (694)
Q Consensus       279 li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  358 (694)
                      -...+.+.+.+.+|+++...|...   |+...-..-+.+.                                 .....++
T Consensus        84 ~AQSLY~A~i~ADALrV~~~~~D~---~~L~~~~lqLqaA---------------------------------IkYse~D  127 (459)
T KOG4340|consen   84 QAQSLYKACIYADALRVAFLLLDN---PALHSRVLQLQAA---------------------------------IKYSEGD  127 (459)
T ss_pred             HHHHHHHhcccHHHHHHHHHhcCC---HHHHHHHHHHHHH---------------------------------Hhccccc
Confidence            234555677777777777666442   2211111111111                                 1122344


Q ss_pred             HHHHHHHHhcCC-CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcccCChHHHHHHHHHHHH
Q 005487          359 VSSAENVFEKMS-KTDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIE  437 (694)
Q Consensus       359 ~~~A~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  437 (694)
                      +..+..++++.+ +.+..+.+.......+.|+++.|.+-|....+-|--.....|+..+ +..+.++...|.+...++++
T Consensus       128 l~g~rsLveQlp~en~Ad~~in~gCllykegqyEaAvqkFqaAlqvsGyqpllAYniAL-aHy~~~qyasALk~iSEIie  206 (459)
T KOG4340|consen  128 LPGSRSLVEQLPSENEADGQINLGCLLYKEGQYEAAVQKFQAALQVSGYQPLLAYNLAL-AHYSSRQYASALKHISEIIE  206 (459)
T ss_pred             CcchHHHHHhccCCCccchhccchheeeccccHHHHHHHHHHHHhhcCCCchhHHHHHH-HHHhhhhHHHHHHHHHHHHH
Confidence            444444444444 2333333333333444555555555555444422111222333222 22344455555555555444


Q ss_pred             hCCCC-------------C---------------hhHHHHHHHHHHhcCChHHHHHHHhhCCC-----CChHHHHHHHHH
Q 005487          438 SKLET-------------N---------------EIVMGALLDMYAKCGAVDEAFKVFNELPE-----RDLVSWTSMIAA  484 (694)
Q Consensus       438 ~~~~~-------------~---------------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~~l~~~  484 (694)
                      +|++.             |               ...+|.-...+.+.|+++.|.+.+-.|+.     .|+++...+.-.
T Consensus       207 RG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~  286 (459)
T KOG4340|consen  207 RGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALM  286 (459)
T ss_pred             hhhhcCCccCccceeccCchhcccchHHHHHHHHHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHh
Confidence            43211             0               11233333446688999999999999986     577877766533


Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCC-CChHHHHHHHHHhh-hcCCH
Q 005487          485 YGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQ-PRNEHYSCLIDLLG-RAGRL  562 (694)
Q Consensus       485 ~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~-p~~~~~~~l~~~~~-~~g~~  562 (694)
                      - ..+++....+-++-+...+ +--..||..++-.|++..-++-|..++.+=. ..... .+...|. |.+++. ..-..
T Consensus       287 n-~~~~p~~g~~KLqFLL~~n-PfP~ETFANlLllyCKNeyf~lAADvLAEn~-~lTyk~L~~Yly~-LLdaLIt~qT~p  362 (459)
T KOG4340|consen  287 N-MDARPTEGFEKLQFLLQQN-PFPPETFANLLLLYCKNEYFDLAADVLAENA-HLTYKFLTPYLYD-LLDALITCQTAP  362 (459)
T ss_pred             c-ccCCccccHHHHHHHHhcC-CCChHHHHHHHHHHhhhHHHhHHHHHHhhCc-chhHHHhhHHHHH-HHHHHHhCCCCH
Confidence            2 2355666677777777653 2245799999999999998998887775322 00000 1122333 333333 34467


Q ss_pred             HHHHHHHHhCCCCCCCHHHHHHH-HHHHH-HcCC----HHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHH
Q 005487          563 QEAYGILQSTPEIREDAGLLSTL-FSACR-LHRD----IEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIR  636 (694)
Q Consensus       563 ~~A~~~~~~~~~~~p~~~~~~~l-~~~~~-~~~~----~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~  636 (694)
                      ++|.+-++...+  .-..-+..+ +.... ++.+    ...|+.-++..+++-   ..+....+++|.+..++..+++.|
T Consensus       363 Eea~KKL~~La~--~l~~kLRklAi~vQe~r~~~dd~a~R~ai~~Yd~~LE~Y---LPVlMa~AkiyW~~~Dy~~vEk~F  437 (459)
T KOG4340|consen  363 EEAFKKLDGLAG--MLTEKLRKLAIQVQEARHNRDDEAIRKAVNEYDETLEKY---LPVLMAQAKIYWNLEDYPMVEKIF  437 (459)
T ss_pred             HHHHHHHHHHHH--HHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHH---HHHHHHHHHhhccccccHHHHHHH
Confidence            777766665431  000111111 11111 1111    334455555655543   235667788999999999999999


Q ss_pred             HHHHh
Q 005487          637 LKMKE  641 (694)
Q Consensus       637 ~~~~~  641 (694)
                      +.-.+
T Consensus       438 r~Sve  442 (459)
T KOG4340|consen  438 RKSVE  442 (459)
T ss_pred             HHHHh
Confidence            86543

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=99.02  E-value=2.8e-08  Score=92.96  Aligned_cols=180  Identities=14%  Similarity=0.038  Sum_probs=107.5

Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHhhCCC--CC-h---HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH-h---h
Q 005487          443 NEIVMGALLDMYAKCGAVDEAFKVFNELPE--RD-L---VSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDS-I---T  512 (694)
Q Consensus       443 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~-~---~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~-~---~  512 (694)
                      ....+...+..+...|++++|...|+.+..  |+ +   .++..+..++...|++++|...++++.+.  .|+. .   .
T Consensus        32 ~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~a  109 (235)
T TIGR03302        32 PAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRL--HPNHPDADYA  109 (235)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--CcCCCchHHH
Confidence            344555556666666666666666665544  22 1   24455566666666666666666666654  2321 1   2


Q ss_pred             HHHHHHHHHcc--------CCHHHHHHHHHHhHHhcCCCCChH-HHHHHHHHhhhcCCHHHHHHHHHhCCCCCCCHHHHH
Q 005487          513 FLALLSACSHA--------GWVDEGGYYFNLMISEYNIQPRNE-HYSCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLS  583 (694)
Q Consensus       513 ~~~l~~~~~~~--------g~~~~A~~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~  583 (694)
                      +..+..++...        |++++|.+.++.+...   .|+.. .+..+....    ......            .....
T Consensus       110 ~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~---~p~~~~~~~a~~~~~----~~~~~~------------~~~~~  170 (235)
T TIGR03302       110 YYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR---YPNSEYAPDAKKRMD----YLRNRL------------AGKEL  170 (235)
T ss_pred             HHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH---CCCChhHHHHHHHHH----HHHHHH------------HHHHH
Confidence            33344444433        4556666666666532   33321 111111100    000000            00112


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcCCCCC---ccHHHHHHHHhhcCChHHHHHHHHHHHhCC
Q 005487          584 TLFSACRLHRDIEMGEKIAKLLIEKDPDDS---STYIVLSNMYASVKKWDEVRKIRLKMKELG  643 (694)
Q Consensus       584 ~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  643 (694)
                      .++..+...|++++|...++++++..|+++   .++..++.++...|++++|..+++.+....
T Consensus       171 ~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~  233 (235)
T TIGR03302       171 YVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANY  233 (235)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            456678889999999999999999987654   689999999999999999999999887644

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).

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.02  E-value=5.7e-07  Score=80.25  Aligned_cols=341  Identities=16%  Similarity=0.089  Sum_probs=192.4

Q ss_pred             HHHHHHhhhcCCChHHHHHHhccCCCC---CcccHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCChhhHHH-HHHHHhc
Q 005487          144 ASSTAGMYAKCNSFECAVKMFDEMSER---DVASWNTVISCYYQDGQAEKALELFKKMRGSGFQPNSVTLTT-VISSCAR  219 (694)
Q Consensus       144 ~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~-ll~~~~~  219 (694)
                      +.+.+..+++..++++|++++....++   +....+.|..+|.+..++..|-+.|+++-..  .|...-|.. -...+.+
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            344444456666777777776665543   3345666777777777777787777777653  455444432 2345556


Q ss_pred             cCChhHHHHHHHHHHHhCCCCchh--HHHHHHHhhHhcCChHHHHHHHhcCCC-CChhHHHHHHHHHHcCCCchHHHHHH
Q 005487          220 LMDLDRGKEIHKEFIKDGFVSDSY--ISSALVDMYGKCGCLEMAREVFEQTVL-KSVVAWNALIAGYSSRGDSKSCVKLF  296 (694)
Q Consensus       220 ~~~~~~a~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~  296 (694)
                      .+.+..|..+...|.+.   ++..  +...-....-..+++..+..+.++.+. .+..+.+.......+.|+++.|++-|
T Consensus        91 A~i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en~Ad~~in~gCllykegqyEaAvqkF  167 (459)
T KOG4340|consen   91 ACIYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSENEADGQINLGCLLYKEGQYEAAVQKF  167 (459)
T ss_pred             hcccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCCCccchhccchheeeccccHHHHHHHH
Confidence            66777777777666542   1111  111112223456777888888887774 45555555555666888888888888


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHhhccCChhhhHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCC----
Q 005487          297 WRMNEEGIKPTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAENVFEKMSKT----  372 (694)
Q Consensus       297 ~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~----  372 (694)
                      ....+-|--.....|+..+.. .+.++.+.|.+...+++++|++..+..-.         |...+... .+.+..+    
T Consensus       168 qaAlqvsGyqpllAYniALaH-y~~~qyasALk~iSEIieRG~r~HPElgI---------Gm~tegiD-vrsvgNt~~lh  236 (459)
T KOG4340|consen  168 QAALQVSGYQPLLAYNLALAH-YSSRQYASALKHISEIIERGIRQHPELGI---------GMTTEGID-VRSVGNTLVLH  236 (459)
T ss_pred             HHHHhhcCCCchhHHHHHHHH-HhhhhHHHHHHHHHHHHHhhhhcCCccCc---------cceeccCc-hhcccchHHHH
Confidence            887776433334556555443 45677888888888888877653222110         00000000 0000000    


Q ss_pred             ---ChhHHHHHHHHHHhcCChHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHcccCChHHHHHHHHHHHHhCCCCChhHHH
Q 005487          373 ---DVVYWNVMISGYVTVGDYFKALAIYSDMKEV-GAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMG  448 (694)
Q Consensus       373 ---~~~~~~~l~~~~~~~~~~~~A~~~~~~m~~~-g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  448 (694)
                         -+..+|.-...+.+.|+++.|.+.+..|.-+ ....|++|...+.-. ...+++....+-+.-+...+ |....+|.
T Consensus       237 ~Sal~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~-n~~~~p~~g~~KLqFLL~~n-PfP~ETFA  314 (459)
T KOG4340|consen  237 QSALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALM-NMDARPTEGFEKLQFLLQQN-PFPPETFA  314 (459)
T ss_pred             HHHHHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHh-cccCCccccHHHHHHHHhcC-CCChHHHH
Confidence               0123444444556777888887777776432 124466666554332 22344445555555555554 35667788


Q ss_pred             HHHHHHHhcCChHHHHHHHhhCCC-----CChHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 005487          449 ALLDMYAKCGAVDEAFKVFNELPE-----RDLVSWTSMIAAYGSHGRALEALKLFGEMQ  502 (694)
Q Consensus       449 ~l~~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  502 (694)
                      .++-.|+++.-++-|-.++-+-..     .+...|+.|=......-.+++|.+-++.+.
T Consensus       315 NlLllyCKNeyf~lAADvLAEn~~lTyk~L~~Yly~LLdaLIt~qT~pEea~KKL~~La  373 (459)
T KOG4340|consen  315 NLLLLYCKNEYFDLAADVLAENAHLTYKFLTPYLYDLLDALITCQTAPEEAFKKLDGLA  373 (459)
T ss_pred             HHHHHHhhhHHHhHHHHHHhhCcchhHHHhhHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            888888888888888888766554     233344433222233345566555554443

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=99.00  E-value=1.1e-08  Score=86.11  Aligned_cols=93  Identities=5%  Similarity=-0.158  Sum_probs=54.4

Q ss_pred             HHHHHHHhhhcCCHHHHHHHHHhCCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcC
Q 005487          549 YSCLIDLLGRAGRLQEAYGILQSTPEIRE-DAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVK  627 (694)
Q Consensus       549 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  627 (694)
                      +..++..+...|++++|...++.+....| +...|..++.++...|++++|...++++++++|+++.++..++.++...|
T Consensus        27 ~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~~~~a~~~lg~~l~~~g  106 (144)
T PRK15359         27 VYASGYASWQEGDYSRAVIDFSWLVMAQPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDASHPEPVYQTGVCLKMMG  106 (144)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHcC
Confidence            33445555556666666666665555444 34455555555666666666666666666666666666666666666666


Q ss_pred             ChHHHHHHHHHHHh
Q 005487          628 KWDEVRKIRLKMKE  641 (694)
Q Consensus       628 ~~~~A~~~~~~~~~  641 (694)
                      ++++|+..+++...
T Consensus       107 ~~~eAi~~~~~Al~  120 (144)
T PRK15359        107 EPGLAREAFQTAIK  120 (144)
T ss_pred             CHHHHHHHHHHHHH
Confidence            66666666665544

>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=98.98  E-value=6.5e-08  Score=91.46  Aligned_cols=229  Identities=13%  Similarity=0.081  Sum_probs=152.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHH-HHHHHHHcccC
Q 005487          345 INSSLIDLYFKCGRVSSAENVFEKMSKTDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTF-TSVLPACSQLA  423 (694)
Q Consensus       345 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~-~~ll~~~~~~~  423 (694)
                      ....+.+++...|+.+.++.-...-..|.......+...+...++-+.++.-+++....+..++..++ ......+...|
T Consensus        37 ~~~~~~Rs~iAlg~~~~vl~ei~~~~~~~l~av~~la~y~~~~~~~e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~  116 (290)
T PF04733_consen   37 RDFYQYRSYIALGQYDSVLSEIKKSSSPELQAVRLLAEYLSSPSDKESALEELKELLADQAGESNEIVQLLAATILFHEG  116 (290)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHS-TTSSCCCHHHHHHHHHHCTSTTHHCHHHHHHHCCCTS---CHHHHHHHHHHHHCCCC
T ss_pred             HHHHHHHHHHHcCChhHHHHHhccCCChhHHHHHHHHHHHhCccchHHHHHHHHHHHHhccccccHHHHHHHHHHHHHcC
Confidence            33445677777888776665555544555555555554444435555666666555444333233333 33334567789


Q ss_pred             ChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCC-CChHHHHHHHHHHH----hcCCHHHHHHHH
Q 005487          424 ALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPE-RDLVSWTSMIAAYG----SHGRALEALKLF  498 (694)
Q Consensus       424 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~l~~~~~----~~~~~~~A~~~~  498 (694)
                      +++.|.+++...      .+.......+.+|.+.++++.|.+.++.|.+ .+-.+...++.++.    -.+.+.+|..+|
T Consensus       117 ~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~~eD~~l~qLa~awv~l~~g~e~~~~A~y~f  190 (290)
T PF04733_consen  117 DYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNMQQIDEDSILTQLAEAWVNLATGGEKYQDAFYIF  190 (290)
T ss_dssp             HHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHTTTCCCHHHHHH
T ss_pred             CHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHhCchhHHHHHHHH
Confidence            999998887542      3556666788999999999999999999987 22333444444333    234699999999


Q ss_pred             HHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCC-hHHHHHHHHHhhhcCCH-HHHHHHHHhCCCCC
Q 005487          499 GEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPR-NEHYSCLIDLLGRAGRL-QEAYGILQSTPEIR  576 (694)
Q Consensus       499 ~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~-~~A~~~~~~~~~~~  576 (694)
                      +++.+. ..+++.+.+.++.++...|++++|..++.+..   ...|+ +.++..++.+....|+. +.+.+++.++....
T Consensus       191 ~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al---~~~~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~~  266 (290)
T PF04733_consen  191 EELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEAL---EKDPNDPDTLANLIVCSLHLGKPTEAAERYLSQLKQSN  266 (290)
T ss_dssp             HHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHC---CC-CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHHT
T ss_pred             HHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHH---HhccCCHHHHHHHHHHHHHhCCChhHHHHHHHHHHHhC
Confidence            998775 56788999999999999999999999999987   33444 66778888888888887 77888999888777


Q ss_pred             CCHHHHH
Q 005487          577 EDAGLLS  583 (694)
Q Consensus       577 p~~~~~~  583 (694)
                      |+.....
T Consensus       267 p~h~~~~  273 (290)
T PF04733_consen  267 PNHPLVK  273 (290)
T ss_dssp             TTSHHHH
T ss_pred             CCChHHH
Confidence            7655443

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.

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.94  E-value=7.9e-08  Score=85.75  Aligned_cols=149  Identities=9%  Similarity=0.073  Sum_probs=115.1

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCC
Q 005487          482 IAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGR  561 (694)
Q Consensus       482 ~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~  561 (694)
                      +..|...|+++.+....+.+..    |. .       .+...++.+++...++...+.  -+.+...|..++..|...|+
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~----~~-~-------~~~~~~~~~~~i~~l~~~L~~--~P~~~~~w~~Lg~~~~~~g~   88 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLAD----PL-H-------QFASQQTPEAQLQALQDKIRA--NPQNSEQWALLGEYYLWRND   88 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhC----cc-c-------cccCchhHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHCCC
Confidence            3457788888776444332221    11 0       122356678888888877732  23457789999999999999


Q ss_pred             HHHHHHHHHhCCCCCCC-HHHHHHHHHHH-HHcCC--HHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHH
Q 005487          562 LQEAYGILQSTPEIRED-AGLLSTLFSAC-RLHRD--IEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRL  637 (694)
Q Consensus       562 ~~~A~~~~~~~~~~~p~-~~~~~~l~~~~-~~~~~--~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~  637 (694)
                      +++|...++++.+..|+ ...+..++.++ ...|+  .++|.++++++++.+|+++.++..++..+.+.|++++|+..++
T Consensus        89 ~~~A~~a~~~Al~l~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~  168 (198)
T PRK10370         89 YDNALLAYRQALQLRGENAELYAALATVLYYQAGQHMTPQTREMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQ  168 (198)
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHH
Confidence            99999999998887775 56777777764 66676  5999999999999999999999999999999999999999999


Q ss_pred             HHHhCCC
Q 005487          638 KMKELGL  644 (694)
Q Consensus       638 ~~~~~~~  644 (694)
                      ++.+...
T Consensus       169 ~aL~l~~  175 (198)
T PRK10370        169 KVLDLNS  175 (198)
T ss_pred             HHHhhCC
Confidence            9987665

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=98.92  E-value=2.8e-06  Score=85.32  Aligned_cols=260  Identities=12%  Similarity=-0.016  Sum_probs=143.6

Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHH---HHHHHcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcC
Q 005487          382 SGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTS---VLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCG  458 (694)
Q Consensus       382 ~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~---ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  458 (694)
                      ..+...|++++|...+++..+.. +.+...+..   ........+....+.+.+... ....+........+..++...|
T Consensus        51 ~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~~~~~~a~~~~~~G  128 (355)
T cd05804          51 LSAWIAGDLPKALALLEQLLDDY-PRDLLALKLHLGAFGLGDFSGMRDHVARVLPLW-APENPDYWYLLGMLAFGLEEAG  128 (355)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHhHHHHHhcccccCchhHHHHHhcc-CcCCCCcHHHHHHHHHHHHHcC
Confidence            34556677777777777776652 222223221   111112234444444444331 1111222334445566777788


Q ss_pred             ChHHHHHHHhhCCC---CChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CCCH--hhHHHHHHHHHccCCHHHHHHH
Q 005487          459 AVDEAFKVFNELPE---RDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNA-RPDS--ITFLALLSACSHAGWVDEGGYY  532 (694)
Q Consensus       459 ~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-~p~~--~~~~~l~~~~~~~g~~~~A~~~  532 (694)
                      ++++|...++....   .+...+..+..++...|++++|...+++...... .|+.  ..+..+...+...|++++|..+
T Consensus       129 ~~~~A~~~~~~al~~~p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~  208 (355)
T cd05804         129 QYDRAEEAARRALELNPDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAI  208 (355)
T ss_pred             CHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHH
Confidence            88888888887765   3445677777788888888888888887776421 1222  2344566777888888888888


Q ss_pred             HHHhHHhcCCCCChHHH-H--HHHHHhhhcCCHHHHHHH--H-HhCCCCCC---CHHHHHHHHHHHHHcCCHHHHHHHHH
Q 005487          533 FNLMISEYNIQPRNEHY-S--CLIDLLGRAGRLQEAYGI--L-QSTPEIRE---DAGLLSTLFSACRLHRDIEMGEKIAK  603 (694)
Q Consensus       533 ~~~~~~~~~~~p~~~~~-~--~l~~~~~~~g~~~~A~~~--~-~~~~~~~p---~~~~~~~l~~~~~~~~~~~~A~~~~~  603 (694)
                      ++.+.......+..... .  .+...+...|..+.+.+.  + .......+   ..........++...|+.+.|...++
T Consensus       209 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~  288 (355)
T cd05804         209 YDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLA  288 (355)
T ss_pred             HHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHH
Confidence            88775221111111111 1  222333333422222222  1 11110101   11222245556667788888888887


Q ss_pred             HHHhcCC---------CCCccHHHHHHHHhhcCChHHHHHHHHHHHhCC
Q 005487          604 LLIEKDP---------DDSSTYIVLSNMYASVKKWDEVRKIRLKMKELG  643 (694)
Q Consensus       604 ~~~~~~p---------~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  643 (694)
                      .+....-         .........+.++...|++++|.+.+.......
T Consensus       289 ~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~~L~~al~~a  337 (355)
T cd05804         289 ALKGRASSADDNKQPARDVGLPLAEALYAFAEGNYATALELLGPVRDDL  337 (355)
T ss_pred             HHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence            7764321         133455667778899999999999998876544

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.

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.91  E-value=6.8e-08  Score=94.30  Aligned_cols=246  Identities=13%  Similarity=0.102  Sum_probs=161.6

Q ss_pred             HHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHH
Q 005487          384 YVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEA  463 (694)
Q Consensus       384 ~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  463 (694)
                      +.+.|+..+|.-.|+..++.. +-+...|..|.......++-..|+..+.+..+.+ +.+......|.-.|...|.-.+|
T Consensus       295 lm~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~Ld-P~NleaLmaLAVSytNeg~q~~A  372 (579)
T KOG1125|consen  295 LMKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELD-PTNLEALMALAVSYTNEGLQNQA  372 (579)
T ss_pred             HHhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcC-CccHHHHHHHHHHHhhhhhHHHH
Confidence            345555555555555555542 2234455555555555555555666666555544 33455555666666666666666


Q ss_pred             HHHHhhCCCCChH-HHHHHH---------HHHHhcCCHHHHHHHHHHH-HHcCCCCCHhhHHHHHHHHHccCCHHHHHHH
Q 005487          464 FKVFNELPERDLV-SWTSMI---------AAYGSHGRALEALKLFGEM-QQSNARPDSITFLALLSACSHAGWVDEGGYY  532 (694)
Q Consensus       464 ~~~~~~~~~~~~~-~~~~l~---------~~~~~~~~~~~A~~~~~~~-~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~  532 (694)
                      +..++......+. .|....         ..+..........++|-++ ...+..+|+.....|.-.|.-.|.++.|+..
T Consensus       373 l~~L~~Wi~~~p~y~~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiDc  452 (579)
T KOG1125|consen  373 LKMLDKWIRNKPKYVHLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVDC  452 (579)
T ss_pred             HHHHHHHHHhCccchhccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHHH
Confidence            6666554321000 000000         0111112233344444444 4444447888888888889999999999999


Q ss_pred             HHHhHHhcCCCCCh-HHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCCH-HHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Q 005487          533 FNLMISEYNIQPRN-EHYSCLIDLLGRAGRLQEAYGILQSTPEIREDA-GLLSTLFSACRLHRDIEMGEKIAKLLIEKDP  610 (694)
Q Consensus       533 ~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p  610 (694)
                      |+.++   .++|+- .+|+.|+..+....+.++|+..|.++.+++|.. ..+..++..|...|.+++|...|-.++.+.+
T Consensus       453 f~~AL---~v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~mq~  529 (579)
T KOG1125|consen  453 FEAAL---QVKPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYVRVRYNLGISCMNLGAYKEAVKHLLEALSMQR  529 (579)
T ss_pred             HHHHH---hcCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHHhhh
Confidence            99998   567874 589999999999999999999999999999985 5788999999999999999999999998765


Q ss_pred             C-----C-----CccHHHHHHHHhhcCChHHHHH
Q 005487          611 D-----D-----SSTYIVLSNMYASVKKWDEVRK  634 (694)
Q Consensus       611 ~-----~-----~~~~~~l~~~~~~~g~~~~A~~  634 (694)
                      .     .     ..+|..|=.++...++.|-+.+
T Consensus       530 ks~~~~~~~~~se~iw~tLR~als~~~~~D~l~~  563 (579)
T KOG1125|consen  530 KSRNHNKAPMASENIWQTLRLALSAMNRSDLLQE  563 (579)
T ss_pred             cccccccCCcchHHHHHHHHHHHHHcCCchHHHH
Confidence            4     1     1366666666777777664443

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.91  E-value=3.6e-08  Score=98.66  Aligned_cols=260  Identities=12%  Similarity=0.004  Sum_probs=192.3

Q ss_pred             CCCHHHHHHHHHHHcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCC--CChHHHHHHHH
Q 005487          406 KPDAVTFTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPE--RDLVSWTSMIA  483 (694)
Q Consensus       406 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~l~~  483 (694)
                      +|-...-..+...+.+.|-...|..+++++.         .+..++.+|...|+..+|..+.....+  |++..|-.++.
T Consensus       395 pp~Wq~q~~laell~slGitksAl~I~Erle---------mw~~vi~CY~~lg~~~kaeei~~q~lek~~d~~lyc~LGD  465 (777)
T KOG1128|consen  395 PPIWQLQRLLAELLLSLGITKSALVIFERLE---------MWDPVILCYLLLGQHGKAEEINRQELEKDPDPRLYCLLGD  465 (777)
T ss_pred             CCcchHHHHHHHHHHHcchHHHHHHHHHhHH---------HHHHHHHHHHHhcccchHHHHHHHHhcCCCcchhHHHhhh
Confidence            4444444556667778888889999888763         355688899999999999888766555  77788888888


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCC-hHHHHHHHHHhhhcCCH
Q 005487          484 AYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPR-NEHYSCLIDLLGRAGRL  562 (694)
Q Consensus       484 ~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~  562 (694)
                      ......-+++|.++.+.....       .-..+.......+++.++.+.|+.-.   .+.|- ..+|..++-+..+.++.
T Consensus       466 v~~d~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl---~~nplq~~~wf~~G~~ALqlek~  535 (777)
T KOG1128|consen  466 VLHDPSLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSL---EINPLQLGTWFGLGCAALQLEKE  535 (777)
T ss_pred             hccChHHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHh---hcCccchhHHHhccHHHHHHhhh
Confidence            877777788888888765432       11122222344789999999999877   34454 66899999999999999


Q ss_pred             HHHHHHHHhCCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHHHHh
Q 005487          563 QEAYGILQSTPEIRED-AGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKE  641 (694)
Q Consensus       563 ~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  641 (694)
                      ..|.+.|......+|+ ...|+++..+|.+.|+..+|...++++++.+-++..+|.+..-+....|.|++|.+.+.++.+
T Consensus       536 q~av~aF~rcvtL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~~~w~iWENymlvsvdvge~eda~~A~~rll~  615 (777)
T KOG1128|consen  536 QAAVKAFHRCVTLEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNYQHWQIWENYMLVSVDVGEFEDAIKAYHRLLD  615 (777)
T ss_pred             HHHHHHHHHHhhcCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCCCCCeeeechhhhhhhcccHHHHHHHHHHHHH
Confidence            9999999999988887 468999999999999999999999999999999999999999999999999999999999876


Q ss_pred             CCCccCCceeEEEE-CCEEEEEEeCCCCCCChHHHHHHHHHHHHHh
Q 005487          642 LGLRKNPGCSWIEI-GDRIQPFFAEDKFYPQADMVYECLAILAGHM  686 (694)
Q Consensus       642 ~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  686 (694)
                      ....+..+.....+ -.++..+.  |..-+++...+.+.+++.++.
T Consensus       616 ~~~~~~d~~vl~~iv~~~~~~~~--d~s~de~~~~k~~~kelmg~~  659 (777)
T KOG1128|consen  616 LRKKYKDDEVLLIIVRTVLEGMT--DESGDEATGLKGKLKELLGKV  659 (777)
T ss_pred             hhhhcccchhhHHHHHHHHhhcc--ccccchhhhhhHHHHHHHHHH
Confidence            55444321111111 00111111  445556666666666555444

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.91  E-value=3.5e-08  Score=80.96  Aligned_cols=97  Identities=8%  Similarity=-0.088  Sum_probs=88.7

Q ss_pred             hHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHh
Q 005487          546 NEHYSCLIDLLGRAGRLQEAYGILQSTPEIRED-AGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYA  624 (694)
Q Consensus       546 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  624 (694)
                      .+....++..+...|++++|.++|+-.....|. ...|..|+.++...|++++|+..|.+++.++|+||.++.+++.++.
T Consensus        35 l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~ddp~~~~~ag~c~L  114 (157)
T PRK15363         35 LNTLYRYAMQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKIDAPQAPWAAAECYL  114 (157)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHHH
Confidence            456677888899999999999999998777774 6789999999999999999999999999999999999999999999


Q ss_pred             hcCChHHHHHHHHHHHhC
Q 005487          625 SVKKWDEVRKIRLKMKEL  642 (694)
Q Consensus       625 ~~g~~~~A~~~~~~~~~~  642 (694)
                      ..|+.+.|++.|+..+..
T Consensus       115 ~lG~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        115 ACDNVCYAIKALKAVVRI  132 (157)
T ss_pred             HcCCHHHHHHHHHHHHHH
Confidence            999999999999987653

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.90  E-value=2.5e-08  Score=84.01  Aligned_cols=124  Identities=10%  Similarity=0.013  Sum_probs=103.4

Q ss_pred             HHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCC-hHHHHHHHHHhhhcCCHHHHHHHHHhCC
Q 005487          495 LKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPR-NEHYSCLIDLLGRAGRLQEAYGILQSTP  573 (694)
Q Consensus       495 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~  573 (694)
                      ..++++.++.  .|+.  +..+...+...|++++|...|+.+.   .+.|+ ...+..++.++.+.|++++|...|+++.
T Consensus        13 ~~~~~~al~~--~p~~--~~~~g~~~~~~g~~~~A~~~~~~al---~~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al   85 (144)
T PRK15359         13 EDILKQLLSV--DPET--VYASGYASWQEGDYSRAVIDFSWLV---MAQPWSWRAHIALAGTWMMLKEYTTAINFYGHAL   85 (144)
T ss_pred             HHHHHHHHHc--CHHH--HHHHHHHHHHcCCHHHHHHHHHHHH---HcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            3456666664  4543  5556778889999999999999988   44554 6688899999999999999999999988


Q ss_pred             CCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhh
Q 005487          574 EIRE-DAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYAS  625 (694)
Q Consensus       574 ~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~  625 (694)
                      +..| ++..+..++.++...|++++|+..++++++..|+++..+...+.+...
T Consensus        86 ~l~p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~~p~~~~~~~~~~~~~~~  138 (144)
T PRK15359         86 MLDASHPEPVYQTGVCLKMMGEPGLAREAFQTAIKMSYADASWSEIRQNAQIM  138 (144)
T ss_pred             hcCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHH
Confidence            8777 467888999999999999999999999999999999999888877654

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=98.87  E-value=5.8e-06  Score=83.07  Aligned_cols=268  Identities=12%  Similarity=0.062  Sum_probs=170.9

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHHcCC-CCCHHHHH-HHHHHHcccCChHHHHHHHHHHHHhCCCCChhHHHH---
Q 005487          375 VYWNVMISGYVTVGDYFKALAIYSDMKEVGA-KPDAVTFT-SVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGA---  449 (694)
Q Consensus       375 ~~~~~l~~~~~~~~~~~~A~~~~~~m~~~g~-~p~~~~~~-~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~---  449 (694)
                      ..|..+...+...|+.+.+...+....+... .++..... .....+...|+++.|..+++.+.+.. |.+...+..   
T Consensus         7 ~a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~~~~   85 (355)
T cd05804           7 LGHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDY-PRDLLALKLHLG   85 (355)
T ss_pred             HHHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHhHH
Confidence            4556666667777777777666666554321 22322222 22334567899999999999988764 334444331   


Q ss_pred             HHHHHHhcCChHHHHHHHhhCCC--CC-hHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCH
Q 005487          450 LLDMYAKCGAVDEAFKVFNELPE--RD-LVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWV  526 (694)
Q Consensus       450 l~~~~~~~g~~~~A~~~~~~~~~--~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~  526 (694)
                      ........+..+.+.+.+.....  |+ ......+...+...|++++|...+++..+.. +.+...+..+...+...|++
T Consensus        86 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g~~  164 (355)
T cd05804          86 AFGLGDFSGMRDHVARVLPLWAPENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQGRF  164 (355)
T ss_pred             HHHhcccccCchhHHHHHhccCcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCH
Confidence            22222335666777777765333  22 2345566778899999999999999999974 44567788888899999999


Q ss_pred             HHHHHHHHHhHHhcCCCCCh--HHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCCHHHH----H--HHHHHHHHcCCHHHH
Q 005487          527 DEGGYYFNLMISEYNIQPRN--EHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAGLL----S--TLFSACRLHRDIEMG  598 (694)
Q Consensus       527 ~~A~~~~~~~~~~~~~~p~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~----~--~l~~~~~~~~~~~~A  598 (694)
                      ++|..++++........|+.  ..|..++..+...|++++|+.+++++....|....+    .  .+...+...|....+
T Consensus       165 ~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~  244 (355)
T cd05804         165 KEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVG  244 (355)
T ss_pred             HHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChH
Confidence            99999999988432222332  346678999999999999999999976444421111    1  223333445544433


Q ss_pred             HHH---HHHHHhcCCCCCc--cHHHHHHHHhhcCChHHHHHHHHHHHhCCC
Q 005487          599 EKI---AKLLIEKDPDDSS--TYIVLSNMYASVKKWDEVRKIRLKMKELGL  644 (694)
Q Consensus       599 ~~~---~~~~~~~~p~~~~--~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  644 (694)
                      ...   ........|....  .-...+.++...|+.++|...++.+.....
T Consensus       245 ~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~~~~  295 (355)
T cd05804         245 DRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLAALKGRAS  295 (355)
T ss_pred             HHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHh
Confidence            333   2222111122112  223567778889999999999998866443

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.

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.85  E-value=2.6e-07  Score=81.54  Aligned_cols=157  Identities=17%  Similarity=0.102  Sum_probs=127.8

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhh
Q 005487          479 TSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGR  558 (694)
Q Consensus       479 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~  558 (694)
                      ..+...+...|+-+....+..+..... +.+.......+....+.|++..|+..++++..  .-++|.+.|+.++-+|.+
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~~-~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~--l~p~d~~~~~~lgaaldq  146 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIAY-PKDRELLAAQGKNQIRNGNFGEAVSVLRKAAR--LAPTDWEAWNLLGAALDQ  146 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhccC-cccHHHHHHHHHHHHHhcchHHHHHHHHHHhc--cCCCChhhhhHHHHHHHH
Confidence            556677778888888888877765431 34556666678888889999999999998873  445668889999999999


Q ss_pred             cCCHHHHHHHHHhCCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHH
Q 005487          559 AGRLQEAYGILQSTPEIRED-AGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRL  637 (694)
Q Consensus       559 ~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~  637 (694)
                      .|+.++|..-|.++.++.|+ +...+.++..+.-.||++.|+.++..+....+.++.+-.+|+.+....|++++|.++..
T Consensus       147 ~Gr~~~Ar~ay~qAl~L~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~ad~~v~~NLAl~~~~~g~~~~A~~i~~  226 (257)
T COG5010         147 LGRFDEARRAYRQALELAPNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAADSRVRQNLALVVGLQGDFREAEDIAV  226 (257)
T ss_pred             ccChhHHHHHHHHHHHhccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCCchHHHHHHHHHHhhcCChHHHHhhcc
Confidence            99999999999988886664 66788899999999999999999999988888899999999999999999999977765


Q ss_pred             H
Q 005487          638 K  638 (694)
Q Consensus       638 ~  638 (694)
                      .
T Consensus       227 ~  227 (257)
T COG5010         227 Q  227 (257)
T ss_pred             c
Confidence            3

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.85  E-value=3e-07  Score=98.45  Aligned_cols=202  Identities=17%  Similarity=0.176  Sum_probs=173.2

Q ss_pred             CCChhHHHHHHHHHHhcCChHHHHHHHhhCCC-C-------ChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhh
Q 005487          441 ETNEIVMGALLDMYAKCGAVDEAFKVFNELPE-R-------DLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSIT  512 (694)
Q Consensus       441 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~-------~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~  512 (694)
                      |.+...|-..+.-....++.+.|+++.++++. -       -...|.+++......|.-+...++|+++.+.  ......
T Consensus      1455 PNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqy--cd~~~V 1532 (1710)
T KOG1070|consen 1455 PNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQY--CDAYTV 1532 (1710)
T ss_pred             CCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHh--cchHHH
Confidence            45566777888888889999999999988876 1       2347888888888889889999999999984  223467


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCC---HHHHHHHHHHH
Q 005487          513 FLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIRED---AGLLSTLFSAC  589 (694)
Q Consensus       513 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~---~~~~~~l~~~~  589 (694)
                      |..|...|.+.+.+++|.++++.|.++++  .....|..+++.+.++.+-+.|..++.++.+.-|.   ..+....+..-
T Consensus      1533 ~~~L~~iy~k~ek~~~A~ell~~m~KKF~--q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLE 1610 (1710)
T KOG1070|consen 1533 HLKLLGIYEKSEKNDEADELLRLMLKKFG--QTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLE 1610 (1710)
T ss_pred             HHHHHHHHHHhhcchhHHHHHHHHHHHhc--chhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHH
Confidence            88888899999999999999999998766  66778999999999999999999999998875554   35667777788


Q ss_pred             HHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHHHHhCCCcc
Q 005487          590 RLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELGLRK  646 (694)
Q Consensus       590 ~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  646 (694)
                      .+.||.++++.+|+..+.-.|.-...|..+++.-.+.|+.+.++++|+++...++..
T Consensus      1611 Fk~GDaeRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~ 1667 (1710)
T KOG1070|consen 1611 FKYGDAERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSI 1667 (1710)
T ss_pred             hhcCCchhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCCh
Confidence            899999999999999999999999999999999999999999999999999888743

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.84  E-value=2.4e-07  Score=98.04  Aligned_cols=161  Identities=10%  Similarity=0.039  Sum_probs=112.5

Q ss_pred             CChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCC-hHHHH
Q 005487          473 RDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPD-SITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPR-NEHYS  550 (694)
Q Consensus       473 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~  550 (694)
                      .++..+..|..+..+.|++++|..+++...+.  .|+ ......++..+.+.+++++|...+++..   ...|+ .....
T Consensus        84 ~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~--~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l---~~~p~~~~~~~  158 (694)
T PRK15179         84 HTELFQVLVARALEAAHRSDEGLAVWRGIHQR--FPDSSEAFILMLRGVKRQQGIEAGRAEIELYF---SGGSSSAREIL  158 (694)
T ss_pred             ccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhh--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHh---hcCCCCHHHHH
Confidence            34667777888888888888888888888874  565 4666777778888888888888888877   34565 44566


Q ss_pred             HHHHHhhhcCCHHHHHHHHHhCCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCCh
Q 005487          551 CLIDLLGRAGRLQEAYGILQSTPEIRED-AGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKW  629 (694)
Q Consensus       551 ~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  629 (694)
                      .++.++.+.|++++|..+|+++....|+ ...+..++..+...|+.++|...|+++++...+-...|..+.      ++.
T Consensus       159 ~~a~~l~~~g~~~~A~~~y~~~~~~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~~~~~~~~~~~~------~~~  232 (694)
T PRK15179        159 LEAKSWDEIGQSEQADACFERLSRQHPEFENGYVGWAQSLTRRGALWRARDVLQAGLDAIGDGARKLTRRL------VDL  232 (694)
T ss_pred             HHHHHHHHhcchHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhCcchHHHHHHH------HHH
Confidence            7778888888888888888887754544 567777788888888888888888888877654333333322      233


Q ss_pred             HHHHHHHHHHHhCCC
Q 005487          630 DEVRKIRLKMKELGL  644 (694)
Q Consensus       630 ~~A~~~~~~~~~~~~  644 (694)
                      ..-...++++.-.+.
T Consensus       233 ~~~~~~~~~~~~~~~  247 (694)
T PRK15179        233 NADLAALRRLGVEGD  247 (694)
T ss_pred             HHHHHHHHHcCcccc
Confidence            444555665544443

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.82  E-value=0.0001  Score=71.96  Aligned_cols=150  Identities=15%  Similarity=0.137  Sum_probs=105.8

Q ss_pred             hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcccCChHHHHHHHHHHHHhCCCC-ChhHHHHHHHHHHhcCChHHHHHHHh
Q 005487          390 YFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIESKLET-NEIVMGALLDMYAKCGAVDEAFKVFN  468 (694)
Q Consensus       390 ~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~  468 (694)
                      .+.....+.++...-..--..+|..+++...+..-+..|..+|.++.+.+..+ .+.+..++++-|+ .++.+.|.++|+
T Consensus       347 ~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~c-skD~~~AfrIFe  425 (656)
T KOG1914|consen  347 EKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYC-SKDKETAFRIFE  425 (656)
T ss_pred             hhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHh-cCChhHHHHHHH
Confidence            45555566665543222223456677777777788888888888888776665 6677777777665 577888888888


Q ss_pred             hCCC--C-ChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH--hhHHHHHHHHHccCCHHHHHHHHHHhHHhc
Q 005487          469 ELPE--R-DLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDS--ITFLALLSACSHAGWVDEGGYYFNLMISEY  540 (694)
Q Consensus       469 ~~~~--~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  540 (694)
                      .-.+  + ++.-....+.-+...++-..|..+|++....++.|+.  ..|..++.-=..-|++..+.++-+++...+
T Consensus       426 LGLkkf~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~af  502 (656)
T KOG1914|consen  426 LGLKKFGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFTAF  502 (656)
T ss_pred             HHHHhcCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHHhc
Confidence            7665  3 3444456677777888888888888888887666653  678888887777788888888777765443

>PLN02789 farnesyltranstransferase

Probab=98.82  E-value=9.7e-07  Score=84.67  Aligned_cols=212  Identities=9%  Similarity=0.040  Sum_probs=138.2

Q ss_pred             CChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcC-ChHHHHHHHhhCCC---CChHHHHHHHHHHHhcCCH--HHHHH
Q 005487          423 AALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCG-AVDEAFKVFNELPE---RDLVSWTSMIAAYGSHGRA--LEALK  496 (694)
Q Consensus       423 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~--~~A~~  496 (694)
                      +..+.|......++... +-+..+|+....++...| ++++++..++.+..   .+..+|+.....+.+.|+.  ++++.
T Consensus        51 e~serAL~lt~~aI~ln-P~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npknyqaW~~R~~~l~~l~~~~~~~el~  129 (320)
T PLN02789         51 ERSPRALDLTADVIRLN-PGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPKNYQIWHHRRWLAEKLGPDAANKELE  129 (320)
T ss_pred             CCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCcchHHhHHHHHHHHHcCchhhHHHHH
Confidence            34445555555555443 223334444444445555 46777777776655   3344566555555555553  56778


Q ss_pred             HHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCC-hHHHHHHHHHhhhc---CC----HHHHHHH
Q 005487          497 LFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPR-NEHYSCLIDLLGRA---GR----LQEAYGI  568 (694)
Q Consensus       497 ~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~---g~----~~~A~~~  568 (694)
                      +++++++.. +-|..+|.....++...|+++++++.++++++.   .|+ ...|+..+.++.+.   |.    .++++.+
T Consensus       130 ~~~kal~~d-pkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~---d~~N~sAW~~R~~vl~~~~~l~~~~~~~e~el~y  205 (320)
T PLN02789        130 FTRKILSLD-AKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEE---DVRNNSAWNQRYFVITRSPLLGGLEAMRDSELKY  205 (320)
T ss_pred             HHHHHHHhC-cccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHH---CCCchhHHHHHHHHHHhccccccccccHHHHHHH
Confidence            888887754 345677877777788888888888888888732   333 44666666555444   22    2567777


Q ss_pred             HHhCCCCCC-CHHHHHHHHHHHHHc----CCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcC----------------
Q 005487          569 LQSTPEIRE-DAGLLSTLFSACRLH----RDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVK----------------  627 (694)
Q Consensus       569 ~~~~~~~~p-~~~~~~~l~~~~~~~----~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g----------------  627 (694)
                      ..++....| +...|..+...+...    ++..+|...+.+++..+|+++.+...|+++|....                
T Consensus       206 ~~~aI~~~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~~~~~~~~~~~~~  285 (320)
T PLN02789        206 TIDAILANPRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKDSNHVFALSDLLDLLCEGLQPTAEFRDTVDTLAEE  285 (320)
T ss_pred             HHHHHHhCCCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhcccCCcHHHHHHHHHHHHhhhccchhhhhhhhccccc
Confidence            767666666 457888888887763    34567888899998889999999999999998743                


Q ss_pred             --ChHHHHHHHHHH
Q 005487          628 --KWDEVRKIRLKM  639 (694)
Q Consensus       628 --~~~~A~~~~~~~  639 (694)
                        ..++|.++++.+
T Consensus       286 ~~~~~~a~~~~~~l  299 (320)
T PLN02789        286 LSDSTLAQAVCSEL  299 (320)
T ss_pred             cccHHHHHHHHHHH
Confidence              236677777776

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.82  E-value=5.8e-06  Score=94.38  Aligned_cols=324  Identities=12%  Similarity=0.025  Sum_probs=184.1

Q ss_pred             ccCChhhhHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCC----CC----C----hhHHHHHHHHHHhc
Q 005487          320 RSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAENVFEKMS----KT----D----VVYWNVMISGYVTV  387 (694)
Q Consensus       320 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~----~~----~----~~~~~~l~~~~~~~  387 (694)
                      ..|+.+.+...+..+.......+..........+...|+++++...+....    ..    +    ......+...+...
T Consensus       386 ~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  465 (903)
T PRK04841        386 NQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAIND  465 (903)
T ss_pred             hcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhC
Confidence            345555555554443211111122223334445556677777777665432    11    1    01112233445567


Q ss_pred             CChHHHHHHHHHHHHcCCCCCH----HHHHHHHHHHcccCChHHHHHHHHHHHHh----CCC-CChhHHHHHHHHHHhcC
Q 005487          388 GDYFKALAIYSDMKEVGAKPDA----VTFTSVLPACSQLAALEKGKEIHNHIIES----KLE-TNEIVMGALLDMYAKCG  458 (694)
Q Consensus       388 ~~~~~A~~~~~~m~~~g~~p~~----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~g  458 (694)
                      |++++|...+++....-...+.    .....+...+...|+++.|...+.+....    +.. ........+...+...|
T Consensus       466 g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G  545 (903)
T PRK04841        466 GDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQG  545 (903)
T ss_pred             CCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCC
Confidence            8888888888776653111111    22344445566788888888887776542    111 11234445566777788


Q ss_pred             ChHHHHHHHhhCCC-------CC----hHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCCC--HhhHHHHHHHHHcc
Q 005487          459 AVDEAFKVFNELPE-------RD----LVSWTSMIAAYGSHGRALEALKLFGEMQQSN--ARPD--SITFLALLSACSHA  523 (694)
Q Consensus       459 ~~~~A~~~~~~~~~-------~~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~p~--~~~~~~l~~~~~~~  523 (694)
                      ++++|...+++...       ++    ...+..+...+...|++++|...+++.....  ..+.  ...+..+...+...
T Consensus       546 ~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~  625 (903)
T PRK04841        546 FLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLAR  625 (903)
T ss_pred             CHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHc
Confidence            88888887765443       11    1234445566677788888888887765431  1121  23344455567778


Q ss_pred             CCHHHHHHHHHHhHHhcCCCCChHHH-----HHHHHHhhhcCCHHHHHHHHHhCCCCCCC-H----HHHHHHHHHHHHcC
Q 005487          524 GWVDEGGYYFNLMISEYNIQPRNEHY-----SCLIDLLGRAGRLQEAYGILQSTPEIRED-A----GLLSTLFSACRLHR  593 (694)
Q Consensus       524 g~~~~A~~~~~~~~~~~~~~p~~~~~-----~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~----~~~~~l~~~~~~~~  593 (694)
                      |++++|...+..+..-.........+     ......+...|+.+.|..++.......+. .    ..+..+..++...|
T Consensus       626 G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g  705 (903)
T PRK04841        626 GDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRNIARAQILLG  705 (903)
T ss_pred             CCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcC
Confidence            88888888887775321111111111     11224445578888888888775532111 1    11345566677788


Q ss_pred             CHHHHHHHHHHHHhcCCC------CCccHHHHHHHHhhcCChHHHHHHHHHHHhCC
Q 005487          594 DIEMGEKIAKLLIEKDPD------DSSTYIVLSNMYASVKKWDEVRKIRLKMKELG  643 (694)
Q Consensus       594 ~~~~A~~~~~~~~~~~p~------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  643 (694)
                      +.++|...+++++.....      ...++..++.++...|+.++|...+.+..+..
T Consensus       706 ~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~la  761 (903)
T PRK04841        706 QFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEALKLA  761 (903)
T ss_pred             CHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHh
Confidence            888888888888765321      22356677888888888888888888876544

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.80  E-value=2.4e-07  Score=93.03  Aligned_cols=225  Identities=17%  Similarity=0.137  Sum_probs=182.2

Q ss_pred             CCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHH
Q 005487          439 KLETNEIVMGALLDMYAKCGAVDEAFKVFNELPERDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLS  518 (694)
Q Consensus       439 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~  518 (694)
                      +.+|--..-..+...+...|-..+|..+|+++.     .|...+..|...|+..+|..+..+..++  +|++..|..++.
T Consensus       393 ~lpp~Wq~q~~laell~slGitksAl~I~Erle-----mw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc~LGD  465 (777)
T KOG1128|consen  393 HLPPIWQLQRLLAELLLSLGITKSALVIFERLE-----MWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLYCLLGD  465 (777)
T ss_pred             CCCCcchHHHHHHHHHHHcchHHHHHHHHHhHH-----HHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhHHHhhh
Confidence            445666666778899999999999999999854     6777888999999999999999998884  789999999998


Q ss_pred             HHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCC-HHHHHHHHHHHHHcCCHHH
Q 005487          519 ACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIRED-AGLLSTLFSACRLHRDIEM  597 (694)
Q Consensus       519 ~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~  597 (694)
                      ......-+++|.++.+..-..        .-..++....+.++++++.+.++...+.+|- ..+|..++.+..+.+++..
T Consensus       466 v~~d~s~yEkawElsn~~sar--------A~r~~~~~~~~~~~fs~~~~hle~sl~~nplq~~~wf~~G~~ALqlek~q~  537 (777)
T KOG1128|consen  466 VLHDPSLYEKAWELSNYISAR--------AQRSLALLILSNKDFSEADKHLERSLEINPLQLGTWFGLGCAALQLEKEQA  537 (777)
T ss_pred             hccChHHHHHHHHHhhhhhHH--------HHHhhccccccchhHHHHHHHHHHHhhcCccchhHHHhccHHHHHHhhhHH
Confidence            888888888998888866422        2233445555689999999999998877774 6789999999999999999


Q ss_pred             HHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHHHHhCCCccCCceeEEEECCEEEEEEeCCC-CCCChHHHH
Q 005487          598 GEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELGLRKNPGCSWIEIGDRIQPFFAEDK-FYPQADMVY  676 (694)
Q Consensus       598 A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~  676 (694)
                      |...|...+.++|++...|+++..+|.+.|+..+|...+++..+..  ..+-.-|-   +  +..++-|- ..+++...|
T Consensus       538 av~aF~rcvtL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn--~~~w~iWE---N--ymlvsvdvge~eda~~A~  610 (777)
T KOG1128|consen  538 AVKAFHRCVTLEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN--YQHWQIWE---N--YMLVSVDVGEFEDAIKAY  610 (777)
T ss_pred             HHHHHHHHhhcCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC--CCCCeeee---c--hhhhhhhcccHHHHHHHH
Confidence            9999999999999999999999999999999999999999988766  22222222   1  23345553 348889999


Q ss_pred             HHHHHHHHH
Q 005487          677 ECLAILAGH  685 (694)
Q Consensus       677 ~~~~~~~~~  685 (694)
                      .++.++..+
T Consensus       611 ~rll~~~~~  619 (777)
T KOG1128|consen  611 HRLLDLRKK  619 (777)
T ss_pred             HHHHHhhhh
Confidence            998877654

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.74  E-value=3.8e-05  Score=87.77  Aligned_cols=365  Identities=12%  Similarity=0.004  Sum_probs=226.6

Q ss_pred             HHHHHhhHhcCChHHHHHHHhcCCCCChhH--HHHHHHHHHcCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCC
Q 005487          246 SALVDMYGKCGCLEMAREVFEQTVLKSVVA--WNALIAGYSSRGDSKSCVKLFWRMNEEGIKPTLTTISSVLMSCSRSGQ  323 (694)
Q Consensus       246 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~--~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~  323 (694)
                      ......+...|++.+|..............  ...........|++..+...+..+.......+..........+...|+
T Consensus       345 ~raa~~~~~~g~~~~Al~~a~~a~d~~~~~~ll~~~a~~l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~  424 (903)
T PRK04841        345 RAAAEAWLAQGFPSEAIHHALAAGDAQLLRDILLQHGWSLFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHR  424 (903)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHCCCHHHHHHHHHHhHHHHHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCC
Confidence            334455666777777776666554432211  111223445567777777776665322111122222333444567788


Q ss_pred             hhhhHHHHHHHHHhcCC------C--chhHHHHHHHHHHhcCCHHHHHHHHhcCCC----CCh----hHHHHHHHHHHhc
Q 005487          324 LKHGKVMHGYIIRNKIQ------G--DVFINSSLIDLYFKCGRVSSAENVFEKMSK----TDV----VYWNVMISGYVTV  387 (694)
Q Consensus       324 ~~~a~~~~~~~~~~~~~------~--~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~----~~~----~~~~~l~~~~~~~  387 (694)
                      ++.+...+......-..      +  .......+...+...|++++|...++....    .+.    ...+.+...+...
T Consensus       425 ~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~  504 (903)
T PRK04841        425 YSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCK  504 (903)
T ss_pred             HHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHc
Confidence            99988888776543111      1  111222334556778999999998887542    221    2345566677889


Q ss_pred             CChHHHHHHHHHHHHcCC---CC--CHHHHHHHHHHHcccCChHHHHHHHHHHHHh----CCCC---ChhHHHHHHHHHH
Q 005487          388 GDYFKALAIYSDMKEVGA---KP--DAVTFTSVLPACSQLAALEKGKEIHNHIIES----KLET---NEIVMGALLDMYA  455 (694)
Q Consensus       388 ~~~~~A~~~~~~m~~~g~---~p--~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~~---~~~~~~~l~~~~~  455 (694)
                      |++++|...+.+.....-   .+  ...+...+...+...|+++.|...+++....    +...   ....+..+...+.
T Consensus       505 G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~  584 (903)
T PRK04841        505 GELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLW  584 (903)
T ss_pred             CCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHH
Confidence            999999999988765311   11  1234445566778899999999998877542    2211   1233445666777


Q ss_pred             hcCChHHHHHHHhhCCC------C--ChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCCCHh--hH--HHHHHHHH
Q 005487          456 KCGAVDEAFKVFNELPE------R--DLVSWTSMIAAYGSHGRALEALKLFGEMQQSN--ARPDSI--TF--LALLSACS  521 (694)
Q Consensus       456 ~~g~~~~A~~~~~~~~~------~--~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~p~~~--~~--~~l~~~~~  521 (694)
                      ..|++++|...++....      +  ....+..+...+...|+++.|...+++.....  ......  ..  ...+..+.
T Consensus       585 ~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  664 (903)
T PRK04841        585 EWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQ  664 (903)
T ss_pred             HhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHH
Confidence            88999999998887644      1  12345556778889999999999998885421  111110  11  11123445


Q ss_pred             ccCCHHHHHHHHHHhHHhcCCCCCh----HHHHHHHHHhhhcCCHHHHHHHHHhCCCC------CCC-HHHHHHHHHHHH
Q 005487          522 HAGWVDEGGYYFNLMISEYNIQPRN----EHYSCLIDLLGRAGRLQEAYGILQSTPEI------RED-AGLLSTLFSACR  590 (694)
Q Consensus       522 ~~g~~~~A~~~~~~~~~~~~~~p~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~------~p~-~~~~~~l~~~~~  590 (694)
                      ..|+.+.|...+...... . ....    ..+..++.++...|++++|...++++...      ..+ ......++.++.
T Consensus       665 ~~g~~~~A~~~l~~~~~~-~-~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~  742 (903)
T PRK04841        665 MTGDKEAAANWLRQAPKP-E-FANNHFLQGQWRNIARAQILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYW  742 (903)
T ss_pred             HCCCHHHHHHHHHhcCCC-C-CccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHH
Confidence            578999999998776521 1 1111    12356788899999999999999987641      111 234556677888


Q ss_pred             HcCCHHHHHHHHHHHHhcCCCC
Q 005487          591 LHRDIEMGEKIAKLLIEKDPDD  612 (694)
Q Consensus       591 ~~~~~~~A~~~~~~~~~~~p~~  612 (694)
                      ..|+.++|...+.+++++....
T Consensus       743 ~~G~~~~A~~~L~~Al~la~~~  764 (903)
T PRK04841        743 QQGRKSEAQRVLLEALKLANRT  764 (903)
T ss_pred             HcCCHHHHHHHHHHHHHHhCcc
Confidence            9999999999999999987543

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.74  E-value=1.1e-06  Score=78.55  Aligned_cols=155  Identities=12%  Similarity=0.132  Sum_probs=118.0

Q ss_pred             HHHHHhcCChHHHHHHHhhCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHH
Q 005487          451 LDMYAKCGAVDEAFKVFNELPERDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGG  530 (694)
Q Consensus       451 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~  530 (694)
                      +..|...|+++......+.+..+.        ..+...++.+++...+++....+ +.|...|..+...|...|++++|.
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~~~--------~~~~~~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A~   93 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLADPL--------HQFASQQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNAL   93 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhCcc--------ccccCchhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHH
Confidence            345677777776654443332221        01223567788888888888764 556888999999999999999999


Q ss_pred             HHHHHhHHhcCCCCC-hHHHHHHHHHh-hhcCC--HHHHHHHHHhCCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHH
Q 005487          531 YYFNLMISEYNIQPR-NEHYSCLIDLL-GRAGR--LQEAYGILQSTPEIRED-AGLLSTLFSACRLHRDIEMGEKIAKLL  605 (694)
Q Consensus       531 ~~~~~~~~~~~~~p~-~~~~~~l~~~~-~~~g~--~~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~  605 (694)
                      ..|+++.   .+.|+ ...+..++.++ ...|+  .++|.++++++.+..|+ ...+..++..+...|++++|+..++++
T Consensus        94 ~a~~~Al---~l~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~~a  170 (198)
T PRK10370         94 LAYRQAL---QLRGENAELYAALATVLYYQAGQHMTPQTREMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQKV  170 (198)
T ss_pred             HHHHHHH---HhCCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            9999998   44564 66778888864 67777  59999999999987775 578888888999999999999999999


Q ss_pred             HhcCCCCCccHH
Q 005487          606 IEKDPDDSSTYI  617 (694)
Q Consensus       606 ~~~~p~~~~~~~  617 (694)
                      ++.+|.+..-+.
T Consensus       171 L~l~~~~~~r~~  182 (198)
T PRK10370        171 LDLNSPRVNRTQ  182 (198)
T ss_pred             HhhCCCCccHHH
Confidence            999988665443

>PLN02789 farnesyltranstransferase

Probab=98.71  E-value=1.6e-06  Score=83.26  Aligned_cols=189  Identities=11%  Similarity=0.077  Sum_probs=144.5

Q ss_pred             HHHHhcCChHHHHHHHhhCCCC---ChHHHHHHHHHHHhcC-CHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCC--
Q 005487          452 DMYAKCGAVDEAFKVFNELPER---DLVSWTSMIAAYGSHG-RALEALKLFGEMQQSNARPDSITFLALLSACSHAGW--  525 (694)
Q Consensus       452 ~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~~-~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~--  525 (694)
                      .++...+..++|+.+.+.+...   +..+|+....++...| ++++++..++++.+.+ +.+..+|+.....+.+.|.  
T Consensus        45 a~l~~~e~serAL~lt~~aI~lnP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~n-pknyqaW~~R~~~l~~l~~~~  123 (320)
T PLN02789         45 AVYASDERSPRALDLTADVIRLNPGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDN-PKNYQIWHHRRWLAEKLGPDA  123 (320)
T ss_pred             HHHHcCCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHC-CcchHHhHHHHHHHHHcCchh
Confidence            3345567889999999988773   3346777777777777 6899999999999874 3455667766656666665  


Q ss_pred             HHHHHHHHHHhHHhcCCCCC-hHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCC-CHHHHHHHHHHHHHc---CC----HH
Q 005487          526 VDEGGYYFNLMISEYNIQPR-NEHYSCLIDLLGRAGRLQEAYGILQSTPEIRE-DAGLLSTLFSACRLH---RD----IE  596 (694)
Q Consensus       526 ~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~---~~----~~  596 (694)
                      .+++..+++++.   ...|. ..+|...+.++.+.|++++|++.++++.+..| +...|+....+....   |.    .+
T Consensus       124 ~~~el~~~~kal---~~dpkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~N~sAW~~R~~vl~~~~~l~~~~~~~e  200 (320)
T PLN02789        124 ANKELEFTRKIL---SLDAKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVRNNSAWNQRYFVITRSPLLGGLEAMRD  200 (320)
T ss_pred             hHHHHHHHHHHH---HhCcccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCchhHHHHHHHHHHhccccccccccHH
Confidence            367889998888   34554 66888889999999999999999999988666 466787777665543   22    35


Q ss_pred             HHHHHHHHHHhcCCCCCccHHHHHHHHhhc----CChHHHHHHHHHHHhCCC
Q 005487          597 MGEKIAKLLIEKDPDDSSTYIVLSNMYASV----KKWDEVRKIRLKMKELGL  644 (694)
Q Consensus       597 ~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~----g~~~~A~~~~~~~~~~~~  644 (694)
                      .+..+..+++..+|+|..+|..++.++...    ++..+|.+.+.+..+.++
T Consensus       201 ~el~y~~~aI~~~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~~  252 (320)
T PLN02789        201 SELKYTIDAILANPRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKDS  252 (320)
T ss_pred             HHHHHHHHHHHhCCCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhcccC
Confidence            788888999999999999999999999883    456778888887766443

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.70  E-value=1.3e-06  Score=77.32  Aligned_cols=135  Identities=14%  Similarity=0.047  Sum_probs=115.4

Q ss_pred             CCC-HhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCC-CHHHHHH
Q 005487          507 RPD-SITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIRE-DAGLLST  584 (694)
Q Consensus       507 ~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~  584 (694)
                      .|+ ... ..+...+...|+-+....+......  ....+......++....+.|++.+|...++++....| |...|+.
T Consensus        63 ~p~d~~i-~~~a~a~~~~G~a~~~l~~~~~~~~--~~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~p~d~~~~~~  139 (257)
T COG5010          63 NPEDLSI-AKLATALYLRGDADSSLAVLQKSAI--AYPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLAPTDWEAWNL  139 (257)
T ss_pred             CcchHHH-HHHHHHHHhcccccchHHHHhhhhc--cCcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccCCCChhhhhH
Confidence            454 444 6667788888999999888887652  2334455666799999999999999999999888554 6789999


Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHHHHhCCC
Q 005487          585 LFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELGL  644 (694)
Q Consensus       585 l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  644 (694)
                      ++.+|-+.|+++.|...+.+++++.|+++.++.+++..|.-.|++++|..++......+.
T Consensus       140 lgaaldq~Gr~~~Ar~ay~qAl~L~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~  199 (257)
T COG5010         140 LGAALDQLGRFDEARRAYRQALELAPNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPA  199 (257)
T ss_pred             HHHHHHHccChhHHHHHHHHHHHhccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCC
Confidence            999999999999999999999999999999999999999999999999999998876654

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.65  E-value=1.3e-06  Score=81.78  Aligned_cols=183  Identities=15%  Similarity=0.041  Sum_probs=131.0

Q ss_pred             CCHHHHHHHHHHHcccCChHHHHHHHHHHHHhCCCC--ChhHHHHHHHHHHhcCChHHHHHHHhhCCC--CC-hH---HH
Q 005487          407 PDAVTFTSVLPACSQLAALEKGKEIHNHIIESKLET--NEIVMGALLDMYAKCGAVDEAFKVFNELPE--RD-LV---SW  478 (694)
Q Consensus       407 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~-~~---~~  478 (694)
                      .....+..+...+...|+++.|...++++.......  ....+..+..++...|++++|...++.+.+  |+ ..   ++
T Consensus        31 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~  110 (235)
T TIGR03302        31 WPAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAY  110 (235)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHH
Confidence            355677788888999999999999999998765321  124667789999999999999999999876  32 22   46


Q ss_pred             HHHHHHHHhc--------CCHHHHHHHHHHHHHcCCCCCH-hhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHH
Q 005487          479 TSMIAAYGSH--------GRALEALKLFGEMQQSNARPDS-ITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHY  549 (694)
Q Consensus       479 ~~l~~~~~~~--------~~~~~A~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~  549 (694)
                      ..+..++...        |+++.|.+.++++...  .|+. .....+.....    ..      ....         ...
T Consensus       111 ~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~~~~----~~------~~~~---------~~~  169 (235)
T TIGR03302       111 YLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR--YPNSEYAPDAKKRMDY----LR------NRLA---------GKE  169 (235)
T ss_pred             HHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH--CCCChhHHHHHHHHHH----HH------HHHH---------HHH
Confidence            6666677655        7899999999999986  4553 22222211100    00      0000         112


Q ss_pred             HHHHHHhhhcCCHHHHHHHHHhCCCCCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Q 005487          550 SCLIDLLGRAGRLQEAYGILQSTPEIRED----AGLLSTLFSACRLHRDIEMGEKIAKLLIEKDP  610 (694)
Q Consensus       550 ~~l~~~~~~~g~~~~A~~~~~~~~~~~p~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p  610 (694)
                      ..++..+.+.|++++|+..++++.+..|+    ...+..++.++...|++++|...++.+....|
T Consensus       170 ~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~~  234 (235)
T TIGR03302       170 LYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANYP  234 (235)
T ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            35677888999999999999987764443    46788888899999999999998888776655

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).

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.65  E-value=6.1e-06  Score=87.57  Aligned_cols=132  Identities=14%  Similarity=0.153  Sum_probs=112.1

Q ss_pred             CCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCC--CC-hHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHH
Q 005487          439 KLETNEIVMGALLDMYAKCGAVDEAFKVFNELPE--RD-LVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLA  515 (694)
Q Consensus       439 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~  515 (694)
                      .++.+...+..|..+..+.|.+++|..+++.+..  |+ ...+..++.++.+.+++++|+...++..... +.+......
T Consensus        81 ~~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~-p~~~~~~~~  159 (694)
T PRK15179         81 RYPHTELFQVLVARALEAAHRSDEGLAVWRGIHQRFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGG-SSSAREILL  159 (694)
T ss_pred             hccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcC-CCCHHHHHH
Confidence            4566788888999999999999999999999887  54 4477888999999999999999999999863 334567777


Q ss_pred             HHHHHHccCCHHHHHHHHHHhHHhcCCCCC-hHHHHHHHHHhhhcCCHHHHHHHHHhCCC
Q 005487          516 LLSACSHAGWVDEGGYYFNLMISEYNIQPR-NEHYSCLIDLLGRAGRLQEAYGILQSTPE  574 (694)
Q Consensus       516 l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  574 (694)
                      +..++.+.|++++|..+|+++..   -.|+ ...+..++.++...|+.++|...|+++.+
T Consensus       160 ~a~~l~~~g~~~~A~~~y~~~~~---~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~  216 (694)
T PRK15179        160 EAKSWDEIGQSEQADACFERLSR---QHPEFENGYVGWAQSLTRRGALWRARDVLQAGLD  216 (694)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHh---cCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            78889999999999999999984   2444 67888999999999999999999999875

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.64  E-value=8.4e-06  Score=78.68  Aligned_cols=149  Identities=17%  Similarity=0.044  Sum_probs=111.7

Q ss_pred             ChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH-hhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCC-hHHHHH
Q 005487          474 DLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDS-ITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPR-NEHYSC  551 (694)
Q Consensus       474 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~  551 (694)
                      ....+......+...|+++.|+..++.++..  .|+. .........+.+.++.++|.+.++++.   ...|+ ......
T Consensus       305 ~~aa~YG~A~~~~~~~~~d~A~~~l~~L~~~--~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal---~l~P~~~~l~~~  379 (484)
T COG4783         305 GLAAQYGRALQTYLAGQYDEALKLLQPLIAA--QPDNPYYLELAGDILLEANKAKEAIERLKKAL---ALDPNSPLLQLN  379 (484)
T ss_pred             chHHHHHHHHHHHHhcccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHH---hcCCCccHHHHH
Confidence            3445555556667778888999999888876  4554 444445557888889999999998888   44666 445567


Q ss_pred             HHHHhhhcCCHHHHHHHHHhCCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChH
Q 005487          552 LIDLLGRAGRLQEAYGILQSTPEIRE-DAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWD  630 (694)
Q Consensus       552 l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~  630 (694)
                      ++++|.+.|++.+|+.+++......| ++..|..|..+|...|+..+|...                 .+..|.-.|+|+
T Consensus       380 ~a~all~~g~~~eai~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~~A-----------------~AE~~~~~G~~~  442 (484)
T COG4783         380 LAQALLKGGKPQEAIRILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALLA-----------------RAEGYALAGRLE  442 (484)
T ss_pred             HHHHHHhcCChHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCchHHHHHH-----------------HHHHHHhCCCHH
Confidence            78888899999999988888766444 678888888888888888776554                 455677788999


Q ss_pred             HHHHHHHHHHhCCC
Q 005487          631 EVRKIRLKMKELGL  644 (694)
Q Consensus       631 ~A~~~~~~~~~~~~  644 (694)
                      +|+..+....++.-
T Consensus       443 ~A~~~l~~A~~~~~  456 (484)
T COG4783         443 QAIIFLMRASQQVK  456 (484)
T ss_pred             HHHHHHHHHHHhcc
Confidence            99988888876653

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.63  E-value=0.0011  Score=69.12  Aligned_cols=161  Identities=11%  Similarity=0.036  Sum_probs=101.9

Q ss_pred             HHHHHHHHHHhcCCHH---HHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHH
Q 005487          477 SWTSMIAAYGSHGRAL---EALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLI  553 (694)
Q Consensus       477 ~~~~l~~~~~~~~~~~---~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~  553 (694)
                      +.+.|+..+.+.++..   +|+-+++...... +.|..+-..+++.|.-.|-+..|...|+.+--+ .+.-|.-.| .+.
T Consensus       438 av~~Lid~~rktnd~~~l~eaI~LLE~glt~s-~hnf~~KLlLiriY~~lGa~p~a~~~y~tLdIK-~IQ~DTlgh-~~~  514 (932)
T KOG2053|consen  438 AVNHLIDLWRKTNDLTDLFEAITLLENGLTKS-PHNFQTKLLLIRIYSYLGAFPDAYELYKTLDIK-NIQTDTLGH-LIF  514 (932)
T ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHHHHHhhcC-CccHHHHHHHHHHHHHhcCChhHHHHHHhcchH-HhhhccchH-HHH
Confidence            4567888888888765   4566666666653 456777788889999999999999999988533 555554433 234


Q ss_pred             HHhhhcCCHHHHHHHHHhCCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-C---CccHHHHHHHHhhcCC
Q 005487          554 DLLGRAGRLQEAYGILQSTPEIRE-DAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPD-D---SSTYIVLSNMYASVKK  628 (694)
Q Consensus       554 ~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~-~---~~~~~~l~~~~~~~g~  628 (694)
                      ..+...|++..+...+....++-. +..-...++....+.|.+.+-.++..---.++-. .   ..+-......+...++
T Consensus       515 ~~~~t~g~~~~~s~~~~~~lkfy~~~~kE~~eyI~~AYr~g~ySkI~em~~fr~rL~~S~q~~a~~VE~~~l~ll~~~~~  594 (932)
T KOG2053|consen  515 RRAETSGRSSFASNTFNEHLKFYDSSLKETPEYIALAYRRGAYSKIPEMLAFRDRLMHSLQKWACRVENLQLSLLCNADR  594 (932)
T ss_pred             HHHHhcccchhHHHHHHHHHHHHhhhhhhhHHHHHHHHHcCchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCc
Confidence            566677888888888877655222 2222223334444778887776665443333211 1   1122234555677788


Q ss_pred             hHHHHHHHHHHH
Q 005487          629 WDEVRKIRLKMK  640 (694)
Q Consensus       629 ~~~A~~~~~~~~  640 (694)
                      .+.-...+.-|.
T Consensus       595 ~~q~~~~~~~~~  606 (932)
T KOG2053|consen  595 GTQLLKLLESMK  606 (932)
T ss_pred             HHHHHHHHhccc
Confidence            877777777665

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.61  E-value=5.7e-07  Score=75.69  Aligned_cols=103  Identities=18%  Similarity=0.202  Sum_probs=77.6

Q ss_pred             CCCCC-hHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHH
Q 005487          541 NIQPR-NEHYSCLIDLLGRAGRLQEAYGILQSTPEIRE-DAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIV  618 (694)
Q Consensus       541 ~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~  618 (694)
                      ...|+ ......++..+...|++++|.+.++.+....| +...|..++..+...|++++|...++++++.+|+++..+..
T Consensus        11 ~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~   90 (135)
T TIGR02552        11 GLDSEQLEQIYALAYNLYQQGRYDEALKLFQLLAAYDPYNSRYWLGLAACCQMLKEYEEAIDAYALAAALDPDDPRPYFH   90 (135)
T ss_pred             cCChhhHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCChHHHHH
Confidence            34454 34556677777778888888888877766445 45677777777878888888888888888888888888888


Q ss_pred             HHHHHhhcCChHHHHHHHHHHHhCC
Q 005487          619 LSNMYASVKKWDEVRKIRLKMKELG  643 (694)
Q Consensus       619 l~~~~~~~g~~~~A~~~~~~~~~~~  643 (694)
                      ++.+|...|++++|.+.+++..+..
T Consensus        91 la~~~~~~g~~~~A~~~~~~al~~~  115 (135)
T TIGR02552        91 AAECLLALGEPESALKALDLAIEIC  115 (135)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhc
Confidence            8888888888888888888776544

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=98.61  E-value=2e-05  Score=76.22  Aligned_cols=177  Identities=18%  Similarity=0.110  Sum_probs=130.3

Q ss_pred             ChHHHHHHHhhCCC------CChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHH
Q 005487          459 AVDEAFKVFNELPE------RDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYY  532 (694)
Q Consensus       459 ~~~~A~~~~~~~~~------~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~  532 (694)
                      ++.++...-+.++.      ++...+...+.+.........+...+-+..+   +-...........+...|.+++|+..
T Consensus       252 RIa~lr~ra~q~p~~~~~d~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~---~~~~aa~YG~A~~~~~~~~~d~A~~~  328 (484)
T COG4783         252 RIADLRNRAEQSPPYNKLDSPDFQLARARIRAKYEALPNQQAADLLAKRSK---RGGLAAQYGRALQTYLAGQYDEALKL  328 (484)
T ss_pred             HHHHHHHHHHhCCCCCCCCCccHHHHHHHHHHHhccccccchHHHHHHHhC---ccchHHHHHHHHHHHHhcccchHHHH
Confidence            44555555555554      4555566665554443333333333322222   11222333334456677999999999


Q ss_pred             HHHhHHhcCCCCC-hHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Q 005487          533 FNLMISEYNIQPR-NEHYSCLIDLLGRAGRLQEAYGILQSTPEIRED-AGLLSTLFSACRLHRDIEMGEKIAKLLIEKDP  610 (694)
Q Consensus       533 ~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p  610 (694)
                      ++.+.+.   .|+ +..+...++.+.+.|+.++|.+.++++....|+ ...+..++.++.+.|+..+|+..++..+..+|
T Consensus       329 l~~L~~~---~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~P~~~~l~~~~a~all~~g~~~eai~~L~~~~~~~p  405 (484)
T COG4783         329 LQPLIAA---QPDNPYYLELAGDILLEANKAKEAIERLKKALALDPNSPLLQLNLAQALLKGGKPQEAIRILNRYLFNDP  405 (484)
T ss_pred             HHHHHHh---CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHhcCChHHHHHHHHHHhhcCC
Confidence            9999843   565 445567789999999999999999999988887 56778899999999999999999999999999


Q ss_pred             CCCccHHHHHHHHhhcCChHHHHHHHHHHHh
Q 005487          611 DDSSTYIVLSNMYASVKKWDEVRKIRLKMKE  641 (694)
Q Consensus       611 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  641 (694)
                      +|+..|..|+.+|..+|+..+|....-+...
T Consensus       406 ~dp~~w~~LAqay~~~g~~~~a~~A~AE~~~  436 (484)
T COG4783         406 EDPNGWDLLAQAYAELGNRAEALLARAEGYA  436 (484)
T ss_pred             CCchHHHHHHHHHHHhCchHHHHHHHHHHHH
Confidence            9999999999999999999999888766543

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.58  E-value=9.7e-06  Score=71.09  Aligned_cols=170  Identities=14%  Similarity=0.110  Sum_probs=112.4

Q ss_pred             HHHHHHHHHhcCChHHHHHHHhhCCC--CCh-HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcc
Q 005487          447 MGALLDMYAKCGAVDEAFKVFNELPE--RDL-VSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHA  523 (694)
Q Consensus       447 ~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  523 (694)
                      +..++-+....|+.+-|...++.+..  |+. ..-..-...+-..|++++|+++++.+.+.+ +.|..++..=+...-..
T Consensus        55 ~EqV~IAAld~~~~~lAq~C~~~L~~~fp~S~RV~~lkam~lEa~~~~~~A~e~y~~lL~dd-pt~~v~~KRKlAilka~  133 (289)
T KOG3060|consen   55 YEQVFIAALDTGRDDLAQKCINQLRDRFPGSKRVGKLKAMLLEATGNYKEAIEYYESLLEDD-PTDTVIRKRKLAILKAQ  133 (289)
T ss_pred             HHHHHHHHHHhcchHHHHHHHHHHHHhCCCChhHHHHHHHHHHHhhchhhHHHHHHHHhccC-cchhHHHHHHHHHHHHc
Confidence            33444555566677777776666554  222 122222233445677888888888888764 44566666666666677


Q ss_pred             CCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCC-HHHHHHHHHHHHHc---CCHHHHH
Q 005487          524 GWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIRED-AGLLSTLFSACRLH---RDIEMGE  599 (694)
Q Consensus       524 g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~---~~~~~A~  599 (694)
                      |+.-+|++-+....+  .+..|.+.|..+.+.|...|++++|.-.++++.-.+|- +..+..++..+.-.   .++..|.
T Consensus       134 GK~l~aIk~ln~YL~--~F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll~~P~n~l~f~rlae~~Yt~gg~eN~~~ar  211 (289)
T KOG3060|consen  134 GKNLEAIKELNEYLD--KFMNDQEAWHELAEIYLSEGDFEKAAFCLEELLLIQPFNPLYFQRLAEVLYTQGGAENLELAR  211 (289)
T ss_pred             CCcHHHHHHHHHHHH--HhcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHH
Confidence            777788887777774  45667788888888888888888888888887656664 44555666554433   3777888


Q ss_pred             HHHHHHHhcCCCCCccHHHH
Q 005487          600 KIAKLLIEKDPDDSSTYIVL  619 (694)
Q Consensus       600 ~~~~~~~~~~p~~~~~~~~l  619 (694)
                      .++.++++++|.+...+.-+
T Consensus       212 kyy~~alkl~~~~~ral~GI  231 (289)
T KOG3060|consen  212 KYYERALKLNPKNLRALFGI  231 (289)
T ss_pred             HHHHHHHHhChHhHHHHHHH
Confidence            88888888888665554443

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.57  E-value=1.2e-05  Score=86.83  Aligned_cols=233  Identities=13%  Similarity=0.120  Sum_probs=178.6

Q ss_pred             CCCHHHHHHHHHHHcccCChHHHHHHHHHHHHh-CCCC---ChhHHHHHHHHHHhcCChHHHHHHHhhCCC-CCh-HHHH
Q 005487          406 KPDAVTFTSVLPACSQLAALEKGKEIHNHIIES-KLET---NEIVMGALLDMYAKCGAVDEAFKVFNELPE-RDL-VSWT  479 (694)
Q Consensus       406 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~-~~~~  479 (694)
                      +.....|...|.-....++.+.|+++.++++.. ++.-   -..+|.++++....-|.-+...++|+++.+ -|+ ..|.
T Consensus      1455 PNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqycd~~~V~~ 1534 (1710)
T KOG1070|consen 1455 PNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYCDAYTVHL 1534 (1710)
T ss_pred             CCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhcchHHHHH
Confidence            334567888888888999999999999988753 2221   245677888888888888999999999888 444 4788


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhc
Q 005487          480 SMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRA  559 (694)
Q Consensus       480 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  559 (694)
                      .|...|.+.+.+++|.++++.|.+. +.-....|...+..+.++++-+.|..++.++++...-.-........+.+-.+.
T Consensus      1535 ~L~~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLEFk~ 1613 (1710)
T KOG1070|consen 1535 KLLGIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLEFKY 1613 (1710)
T ss_pred             HHHHHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHhhc
Confidence            8999999999999999999999987 454567888889999999999999999999984321111244556667788899


Q ss_pred             CCHHHHHHHHHhCCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCCCccHH-HHHHHHhhcCChHHHHHH
Q 005487          560 GRLQEAYGILQSTPEIRE-DAGLLSTLFSACRLHRDIEMGEKIAKLLIEKD--PDDSSTYI-VLSNMYASVKKWDEVRKI  635 (694)
Q Consensus       560 g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~-~l~~~~~~~g~~~~A~~~  635 (694)
                      |+.+.+..+|+......| ..+.|+.++..-.++|+.+.++.+|++++.+.  |......+ .+...-...|+-+.++.+
T Consensus      1614 GDaeRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde~~vE~V 1693 (1710)
T KOG1070|consen 1614 GDAERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDEKNVEYV 1693 (1710)
T ss_pred             CCchhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCchhhHHHH
Confidence            999999999998776555 57899999999999999999999999999876  54444433 344444445666655555


Q ss_pred             HHHH
Q 005487          636 RLKM  639 (694)
Q Consensus       636 ~~~~  639 (694)
                      -.++
T Consensus      1694 KarA 1697 (1710)
T KOG1070|consen 1694 KARA 1697 (1710)
T ss_pred             HHHH
Confidence            4444

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.56  E-value=7.5e-06  Score=71.77  Aligned_cols=163  Identities=17%  Similarity=0.132  Sum_probs=131.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHH-HHHHHccCCHHHHHHHHHHhHHhcCCCCC-hHHHHHHHH
Q 005487          477 SWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLAL-LSACSHAGWVDEGGYYFNLMISEYNIQPR-NEHYSCLID  554 (694)
Q Consensus       477 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l-~~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~  554 (694)
                      .|..++-+....|+.+.|...++++... + |++.-...+ ..-+...|++++|+++++.++.+   .|+ ..++..-+-
T Consensus        54 l~EqV~IAAld~~~~~lAq~C~~~L~~~-f-p~S~RV~~lkam~lEa~~~~~~A~e~y~~lL~d---dpt~~v~~KRKlA  128 (289)
T KOG3060|consen   54 LYEQVFIAALDTGRDDLAQKCINQLRDR-F-PGSKRVGKLKAMLLEATGNYKEAIEYYESLLED---DPTDTVIRKRKLA  128 (289)
T ss_pred             HHHHHHHHHHHhcchHHHHHHHHHHHHh-C-CCChhHHHHHHHHHHHhhchhhHHHHHHHHhcc---CcchhHHHHHHHH
Confidence            4566677778889999999999999887 3 554333322 33466789999999999999943   454 456666666


Q ss_pred             HhhhcCCHHHHHHHHHhCCC-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcC---ChH
Q 005487          555 LLGRAGRLQEAYGILQSTPE-IREDAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVK---KWD  630 (694)
Q Consensus       555 ~~~~~g~~~~A~~~~~~~~~-~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g---~~~  630 (694)
                      +.-.+|+.-+|++-+....+ +..|...|..+...|...|++++|.-.+++++-..|.++..+..++++++-+|   +.+
T Consensus       129 ilka~GK~l~aIk~ln~YL~~F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll~~P~n~l~f~rlae~~Yt~gg~eN~~  208 (289)
T KOG3060|consen  129 ILKAQGKNLEAIKELNEYLDKFMNDQEAWHELAEIYLSEGDFEKAAFCLEELLLIQPFNPLYFQRLAEVLYTQGGAENLE  208 (289)
T ss_pred             HHHHcCCcHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHH
Confidence            77778888899988887665 66789999999999999999999999999999999999999999999988876   556


Q ss_pred             HHHHHHHHHHhCCC
Q 005487          631 EVRKIRLKMKELGL  644 (694)
Q Consensus       631 ~A~~~~~~~~~~~~  644 (694)
                      -|.+++.+..+...
T Consensus       209 ~arkyy~~alkl~~  222 (289)
T KOG3060|consen  209 LARKYYERALKLNP  222 (289)
T ss_pred             HHHHHHHHHHHhCh
Confidence            68888888776655

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.53  E-value=0.0001  Score=65.42  Aligned_cols=251  Identities=20%  Similarity=0.163  Sum_probs=129.7

Q ss_pred             HHHHhcCCHHHHHHHHhcCCC--CChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcccCChHHH
Q 005487          351 DLYFKCGRVSSAENVFEKMSK--TDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKG  428 (694)
Q Consensus       351 ~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a  428 (694)
                      +-+.-.|.+..++..-.....  .++..-.-+.++|...|.+...+.-   +.. |-.|....+..+.......++.+.-
T Consensus        16 Rn~fY~Gnyq~~ine~~~~~~~~~~~e~d~y~~raylAlg~~~~~~~e---I~~-~~~~~lqAvr~~a~~~~~e~~~~~~   91 (299)
T KOG3081|consen   16 RNYFYLGNYQQCINEAEKFSSSKTDVELDVYMYRAYLALGQYQIVISE---IKE-GKATPLQAVRLLAEYLELESNKKSI   91 (299)
T ss_pred             HHHHHhhHHHHHHHHHHhhccccchhHHHHHHHHHHHHcccccccccc---ccc-ccCChHHHHHHHHHHhhCcchhHHH
Confidence            344445666666554443332  2333334455666666665433221   111 2233444444444444444443333


Q ss_pred             H-HHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC
Q 005487          429 K-EIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPERDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNAR  507 (694)
Q Consensus       429 ~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~  507 (694)
                      . ++.+.+.......+......-+..|...|++++|++.......-...  ..=...+.+..+.+.|...+++|.+-   
T Consensus        92 ~~~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~~lE~~--Al~VqI~lk~~r~d~A~~~lk~mq~i---  166 (299)
T KOG3081|consen   92 LASLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGENLEAA--ALNVQILLKMHRFDLAEKELKKMQQI---  166 (299)
T ss_pred             HHHHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccchHHHH--HHHHHHHHHHHHHHHHHHHHHHHHcc---
Confidence            3 23333433333333333333445577777888887777763322222  22234455566777777777777763   


Q ss_pred             CCHhhHHHHHHHHHc----cCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCC-CHHHH
Q 005487          508 PDSITFLALLSACSH----AGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIRE-DAGLL  582 (694)
Q Consensus       508 p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~  582 (694)
                      .+..+.+.|..++.+    .+.+.+|.-+|+++-.  ...|++.+.+..+.+....|++++|..+++.+....+ ++.++
T Consensus       167 ded~tLtQLA~awv~la~ggek~qdAfyifeE~s~--k~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~dpetL  244 (299)
T KOG3081|consen  167 DEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSE--KTPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAKDPETL  244 (299)
T ss_pred             chHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhc--ccCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCCCHHHH
Confidence            355666666665543    2456667777777652  2456666666666666666777777776666554333 44555


Q ss_pred             HHHHHHHHHcC-CHHHHHHHHHHHHhcCCCC
Q 005487          583 STLFSACRLHR-DIEMGEKIAKLLIEKDPDD  612 (694)
Q Consensus       583 ~~l~~~~~~~~-~~~~A~~~~~~~~~~~p~~  612 (694)
                      ..++......| +.+.-.+.+.++....|.+
T Consensus       245 ~Nliv~a~~~Gkd~~~~~r~l~QLk~~~p~h  275 (299)
T KOG3081|consen  245 ANLIVLALHLGKDAEVTERNLSQLKLSHPEH  275 (299)
T ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHhcCCcc
Confidence            55544444444 3344445555555555554

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.45  E-value=1.9e-05  Score=84.56  Aligned_cols=218  Identities=12%  Similarity=0.116  Sum_probs=151.0

Q ss_pred             CCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHH-HHHHHHHcccCChHHHHHHHHHHHHhCCCCChhHHHH
Q 005487          371 KTDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTF-TSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGA  449 (694)
Q Consensus       371 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~-~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  449 (694)
                      ..+...+..|+..+...+++++|.++.+...+.  .|+...+ ..+...+.+.++...+..+                 .
T Consensus        28 p~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~--~P~~i~~yy~~G~l~~q~~~~~~~~lv-----------------~   88 (906)
T PRK14720         28 LSKFKELDDLIDAYKSENLTDEAKDICEEHLKE--HKKSISALYISGILSLSRRPLNDSNLL-----------------N   88 (906)
T ss_pred             cchHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CCcceehHHHHHHHHHhhcchhhhhhh-----------------h
Confidence            346678889999999999999999999977665  4554433 2333345555554444433                 2


Q ss_pred             HHHHHHhcCChHHHHHHHhhCCC--CChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHH
Q 005487          450 LLDMYAKCGAVDEAFKVFNELPE--RDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVD  527 (694)
Q Consensus       450 l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~  527 (694)
                      ++.......++.....+...+..  .+..++..++.+|-+.|+.++|..+|+++.+.. +-|+...+.+...+... +++
T Consensus        89 ~l~~~~~~~~~~~ve~~~~~i~~~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~  166 (906)
T PRK14720         89 LIDSFSQNLKWAIVEHICDKILLYGENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKE  166 (906)
T ss_pred             hhhhcccccchhHHHHHHHHHHhhhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHH
Confidence            22333333334333333333333  334477888999999999999999999999875 44678899999888888 999


Q ss_pred             HHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCCH---------------------HHHHHHH
Q 005487          528 EGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDA---------------------GLLSTLF  586 (694)
Q Consensus       528 ~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~---------------------~~~~~l~  586 (694)
                      +|.+++.++...                +...+++.++.++++++....|+.                     ..+.-+.
T Consensus       167 KA~~m~~KAV~~----------------~i~~kq~~~~~e~W~k~~~~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~  230 (906)
T PRK14720        167 KAITYLKKAIYR----------------FIKKKQYVGIEEIWSKLVHYNSDDFDFFLRIERKVLGHREFTRLVGLLEDLY  230 (906)
T ss_pred             HHHHHHHHHHHH----------------HHhhhcchHHHHHHHHHHhcCcccchHHHHHHHHHHhhhccchhHHHHHHHH
Confidence            999999888732                444456666666666665544431                     2233334


Q ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhh
Q 005487          587 SACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYAS  625 (694)
Q Consensus       587 ~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~  625 (694)
                      ..|...++++++..+++.+++.+|.|..+...++.+|..
T Consensus       231 ~~y~~~~~~~~~i~iLK~iL~~~~~n~~a~~~l~~~y~~  269 (906)
T PRK14720        231 EPYKALEDWDEVIYILKKILEHDNKNNKAREELIRFYKE  269 (906)
T ss_pred             HHHhhhhhhhHHHHHHHHHHhcCCcchhhHHHHHHHHHH
Confidence            556677899999999999999999999999999998874

>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi

Probab=98.44  E-value=3.2e-06  Score=82.69  Aligned_cols=125  Identities=18%  Similarity=0.127  Sum_probs=99.8

Q ss_pred             hhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCC-CHHHHHHHHHHH
Q 005487          511 ITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIRE-DAGLLSTLFSAC  589 (694)
Q Consensus       511 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~~  589 (694)
                      .....++..+...++++.|+.+++++.+.   .|+  ....+++++...++-.+|++++.+..+..| +...+...+..+
T Consensus       170 yLv~~Ll~~l~~t~~~~~ai~lle~L~~~---~pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~p~d~~LL~~Qa~fL  244 (395)
T PF09295_consen  170 YLVDTLLKYLSLTQRYDEAIELLEKLRER---DPE--VAVLLARVYLLMNEEVEAIRLLNEALKENPQDSELLNLQAEFL  244 (395)
T ss_pred             HHHHHHHHHHhhcccHHHHHHHHHHHHhc---CCc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            34455566667778888888888888732   354  344577888888888888888888776555 566777777788


Q ss_pred             HHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHHHH
Q 005487          590 RLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMK  640 (694)
Q Consensus       590 ~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  640 (694)
                      ...++++.|..+.+++++..|.+..+|..|+.+|...|++++|+-.+.-+.
T Consensus       245 l~k~~~~lAL~iAk~av~lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  245 LSKKKYELALEIAKKAVELSPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             HhcCCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            889999999999999999999999999999999999999999998887664

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=98.43  E-value=5.8e-06  Score=70.10  Aligned_cols=115  Identities=16%  Similarity=0.077  Sum_probs=53.7

Q ss_pred             cCCHHHHHHHHHHhHHhcCCCCC-hHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCCH----HHHHHHHHHHHHcCCHHH
Q 005487          523 AGWVDEGGYYFNLMISEYNIQPR-NEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDA----GLLSTLFSACRLHRDIEM  597 (694)
Q Consensus       523 ~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~----~~~~~l~~~~~~~~~~~~  597 (694)
                      .++...+...++.+.++++-.|- ......++..+...|++++|...|+.+....|++    .....++..+...|++++
T Consensus        24 ~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d~  103 (145)
T PF09976_consen   24 AGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYDE  103 (145)
T ss_pred             CCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHH
Confidence            34445555555555433211111 1122334455555555555555555544433332    122334444555555555


Q ss_pred             HHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHH
Q 005487          598 GEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLK  638 (694)
Q Consensus       598 A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  638 (694)
                      |+..++. +...+-.+..+..+|++|.+.|++++|...|++
T Consensus       104 Al~~L~~-~~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen  104 ALATLQQ-IPDEAFKALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHHHh-ccCcchHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            5555544 222233444555566666666666666666554

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.42  E-value=0.0025  Score=62.70  Aligned_cols=78  Identities=10%  Similarity=0.167  Sum_probs=57.0

Q ss_pred             CCChhhHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchhHHHHHHHhhHhcCChHHHHHHHhcCCC--CChhHHHHHHH
Q 005487          204 QPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVSDSYISSALVDMYGKCGCLEMAREVFEQTVL--KSVVAWNALIA  281 (694)
Q Consensus       204 ~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~  281 (694)
                      +-|..+|..|++-+... -.+++++.++++... ++..+..|..-+..-.+..+++..+++|.+...  -+...|...+.
T Consensus        17 P~di~sw~~lire~qt~-~~~~~R~~YEq~~~~-FP~s~r~W~~yi~~El~skdfe~VEkLF~RCLvkvLnlDLW~lYl~   94 (656)
T KOG1914|consen   17 PYDIDSWSQLIREAQTQ-PIDKVRETYEQLVNV-FPSSPRAWKLYIERELASKDFESVEKLFSRCLVKVLNLDLWKLYLS   94 (656)
T ss_pred             CccHHHHHHHHHHHccC-CHHHHHHHHHHHhcc-CCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhhHhHHHHHHH
Confidence            45677888888777655 788888888888765 455667788888888888888888888877543  25666666665


Q ss_pred             HH
Q 005487          282 GY  283 (694)
Q Consensus       282 ~~  283 (694)
                      .-
T Consensus        95 YV   96 (656)
T KOG1914|consen   95 YV   96 (656)
T ss_pred             HH
Confidence            43

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.42  E-value=6.7e-06  Score=69.14  Aligned_cols=116  Identities=14%  Similarity=0.025  Sum_probs=89.1

Q ss_pred             HHHHHHHcCCCCC-HhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHHHHHHHHhCCCC
Q 005487          497 LFGEMQQSNARPD-SITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEI  575 (694)
Q Consensus       497 ~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  575 (694)
                      .++++...  .|+ ......+...+...|++++|...++.+...  .+.+...+..++..+...|++++|...++++.+.
T Consensus         5 ~~~~~l~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~   80 (135)
T TIGR02552         5 TLKDLLGL--DSEQLEQIYALAYNLYQQGRYDEALKLFQLLAAY--DPYNSRYWLGLAACCQMLKEYEEAIDAYALAAAL   80 (135)
T ss_pred             hHHHHHcC--ChhhHHHHHHHHHHHHHcccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            45556654  443 455666777888889999999999888732  1334667888889999999999999999887765


Q ss_pred             CCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccH
Q 005487          576 RED-AGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTY  616 (694)
Q Consensus       576 ~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~  616 (694)
                      .|+ ...+..++..+...|++++|...++++++.+|++....
T Consensus        81 ~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~  122 (135)
T TIGR02552        81 DPDDPRPYFHAAECLLALGEPESALKALDLAIEICGENPEYS  122 (135)
T ss_pred             CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHH
Confidence            554 56777888888889999999999999999999876543

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.35  E-value=2.9e-06  Score=76.62  Aligned_cols=103  Identities=18%  Similarity=0.085  Sum_probs=77.3

Q ss_pred             HHHHHccCCHHHHHHHHHHhHHhcCCCCChHH-HHHHHHHhhhcCCHHHHHHHHHhCCCCCCC-HHHHHHHHHHHHHcCC
Q 005487          517 LSACSHAGWVDEGGYYFNLMISEYNIQPRNEH-YSCLIDLLGRAGRLQEAYGILQSTPEIRED-AGLLSTLFSACRLHRD  594 (694)
Q Consensus       517 ~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~-~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~  594 (694)
                      ..-+.+.+++.+|+..|.+++   .+.|+..+ |..-+.+|.+.|.++.|++-.+.+++++|. ...|..|+.+|...|+
T Consensus        88 GN~~m~~~~Y~eAv~kY~~AI---~l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~yskay~RLG~A~~~~gk  164 (304)
T KOG0553|consen   88 GNKLMKNKDYQEAVDKYTEAI---ELDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPHYSKAYGRLGLAYLALGK  164 (304)
T ss_pred             HHHHHHhhhHHHHHHHHHHHH---hcCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChHHHHHHHHHHHHHHccCc
Confidence            445667788888888888888   56666544 445577888888888888888888777776 4578888888888888


Q ss_pred             HHHHHHHHHHHHhcCCCCCccHHHHHHH
Q 005487          595 IEMGEKIAKLLIEKDPDDSSTYIVLSNM  622 (694)
Q Consensus       595 ~~~A~~~~~~~~~~~p~~~~~~~~l~~~  622 (694)
                      +++|++.|+++++++|++......|-++
T Consensus       165 ~~~A~~aykKaLeldP~Ne~~K~nL~~A  192 (304)
T KOG0553|consen  165 YEEAIEAYKKALELDPDNESYKSNLKIA  192 (304)
T ss_pred             HHHHHHHHHhhhccCCCcHHHHHHHHHH
Confidence            8888888888888888887555554443

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.34  E-value=3.8e-05  Score=65.13  Aligned_cols=127  Identities=17%  Similarity=0.128  Sum_probs=89.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC---HhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCCh--HHHHH
Q 005487          477 SWTSMIAAYGSHGRALEALKLFGEMQQSNARPD---SITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRN--EHYSC  551 (694)
Q Consensus       477 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~--~~~~~  551 (694)
                      .|..++..+ ..++...+...++.+.+.. +.+   ......+...+...|++++|...|+.+... ...|+.  .....
T Consensus        14 ~y~~~~~~~-~~~~~~~~~~~~~~l~~~~-~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~-~~d~~l~~~a~l~   90 (145)
T PF09976_consen   14 LYEQALQAL-QAGDPAKAEAAAEQLAKDY-PSSPYAALAALQLAKAAYEQGDYDEAKAALEKALAN-APDPELKPLARLR   90 (145)
T ss_pred             HHHHHHHHH-HCCCHHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh-CCCHHHHHHHHHH
Confidence            344455554 4788888888888888863 222   133444556788889999999999998843 222222  24456


Q ss_pred             HHHHhhhcCCHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 005487          552 LIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRDIEMGEKIAKLLI  606 (694)
Q Consensus       552 l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  606 (694)
                      ++.++...|++++|+..++........+..+...+.++...|++++|+..|++++
T Consensus        91 LA~~~~~~~~~d~Al~~L~~~~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~Al  145 (145)
T PF09976_consen   91 LARILLQQGQYDEALATLQQIPDEAFKALAAELLGDIYLAQGDYDEARAAYQKAL  145 (145)
T ss_pred             HHHHHHHcCCHHHHHHHHHhccCcchHHHHHHHHHHHHHHCCCHHHHHHHHHHhC
Confidence            7888889999999999998765434455667778888899999999999998864

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.33  E-value=6e-06  Score=67.69  Aligned_cols=96  Identities=13%  Similarity=0.031  Sum_probs=56.9

Q ss_pred             HHHHHHHHhhhcCCHHHHHHHHHhCCCCCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCC---CccHHHHH
Q 005487          548 HYSCLIDLLGRAGRLQEAYGILQSTPEIRED----AGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDD---SSTYIVLS  620 (694)
Q Consensus       548 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~---~~~~~~l~  620 (694)
                      ++..++..+.+.|++++|.+.++++....|+    ...+..++.++...|+++.|...+++++...|++   +.++..++
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            3445555566666666666666665543332    2344455566666666666666666666666554   34566666


Q ss_pred             HHHhhcCChHHHHHHHHHHHhCC
Q 005487          621 NMYASVKKWDEVRKIRLKMKELG  643 (694)
Q Consensus       621 ~~~~~~g~~~~A~~~~~~~~~~~  643 (694)
                      .++...|++++|.+.++++.+..
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~~  106 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIKRY  106 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHHHC
Confidence            66666666666666666665544

Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.31  E-value=0.00037  Score=61.99  Aligned_cols=224  Identities=12%  Similarity=0.084  Sum_probs=138.3

Q ss_pred             HHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHH-HHHHHHHcCCCCCHHHHHHHHHHHcccCChHH
Q 005487          349 LIDLYFKCGRVSSAENVFEKMSKTDVVYWNVMISGYVTVGDYFKALA-IYSDMKEVGAKPDAVTFTSVLPACSQLAALEK  427 (694)
Q Consensus       349 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~-~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~  427 (694)
                      +.++|...|.+.....-...-..+.......+......-++.++-+. +.+.+.......+......-...|...++++.
T Consensus        47 ~~raylAlg~~~~~~~eI~~~~~~~lqAvr~~a~~~~~e~~~~~~~~~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~de  126 (299)
T KOG3081|consen   47 MYRAYLALGQYQIVISEIKEGKATPLQAVRLLAEYLELESNKKSILASLYELVADSTDGSNLIDLLLAAIIYMHDGDFDE  126 (299)
T ss_pred             HHHHHHHcccccccccccccccCChHHHHHHHHHHhhCcchhHHHHHHHHHHHHhhccchhHHHHHHhhHHhhcCCChHH
Confidence            44555555655443333322222333333333333333444443333 33334333333333333333456778888888


Q ss_pred             HHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCC-CChHHHHHHHHHHHh----cCCHHHHHHHHHHHH
Q 005487          428 GKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPE-RDLVSWTSMIAAYGS----HGRALEALKLFGEMQ  502 (694)
Q Consensus       428 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~  502 (694)
                      |.+......      +......=+.++.+..+++-|...++.|.. .+..+.+.|..++.+    .+.+.+|.-+|++|.
T Consensus       127 Al~~~~~~~------~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~ided~tLtQLA~awv~la~ggek~qdAfyifeE~s  200 (299)
T KOG3081|consen  127 ALKALHLGE------NLEAAALNVQILLKMHRFDLAEKELKKMQQIDEDATLTQLAQAWVKLATGGEKIQDAFYIFEELS  200 (299)
T ss_pred             HHHHHhccc------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhccchhhhhHHHHHHHHh
Confidence            888776521      222222335567788889999999999988 555577777776654    356889999999999


Q ss_pred             HcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHHH-HHHHHhCCCCCCCHHH
Q 005487          503 QSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEA-YGILQSTPEIREDAGL  581 (694)
Q Consensus       503 ~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A-~~~~~~~~~~~p~~~~  581 (694)
                      ++ .+|++.+.+..+.++...|++++|..+++.++.+.  ..++++...++..-...|...++ .+.+.+.....|....
T Consensus       201 ~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd--~~dpetL~Nliv~a~~~Gkd~~~~~r~l~QLk~~~p~h~~  277 (299)
T KOG3081|consen  201 EK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKD--AKDPETLANLIVLALHLGKDAEVTERNLSQLKLSHPEHPF  277 (299)
T ss_pred             cc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhcc--CCCHHHHHHHHHHHHHhCCChHHHHHHHHHHHhcCCcchH
Confidence            86 58899999999999999999999999999998532  34466777777666667765444 3555555545555443

>PF12854 PPR_1: PPR repeat

Probab=98.30  E-value=8.1e-07  Score=52.69  Aligned_cols=33  Identities=21%  Similarity=0.393  Sum_probs=28.6

Q ss_pred             CCCCCchhhhHHHHHHhcCCChhHHHHHHhhCC
Q 005487           33 GLQNNIALCKSLINLYFSCQNYDYAMLVFKTID   65 (694)
Q Consensus        33 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~   65 (694)
                      |++||..+|+.||+.|++.|++++|.++|++|+
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~   34 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEMK   34 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence            778888899999999999999999988888874

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.29  E-value=4.7e-06  Score=75.32  Aligned_cols=123  Identities=13%  Similarity=0.065  Sum_probs=95.5

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCC-hHHHHHHHHHhhhcC
Q 005487          482 IAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPR-NEHYSCLIDLLGRAG  560 (694)
Q Consensus       482 ~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g  560 (694)
                      ..-+.+.++|.+|+..|.+.++.. +-|.+.|..-..+|.+.|.++.|++-.+..+   .+.|. ...|..|+.+|...|
T Consensus        88 GN~~m~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al---~iDp~yskay~RLG~A~~~~g  163 (304)
T KOG0553|consen   88 GNKLMKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESAL---SIDPHYSKAYGRLGLAYLALG  163 (304)
T ss_pred             HHHHHHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHH---hcChHHHHHHHHHHHHHHccC
Confidence            445778899999999999999963 4467888888999999999999999999888   56777 569999999999999


Q ss_pred             CHHHHHHHHHhCCCCCCCHHHHHHHH-HHHHHcCCHH---HHHHHHHHHHhc
Q 005487          561 RLQEAYGILQSTPEIREDAGLLSTLF-SACRLHRDIE---MGEKIAKLLIEK  608 (694)
Q Consensus       561 ~~~~A~~~~~~~~~~~p~~~~~~~l~-~~~~~~~~~~---~A~~~~~~~~~~  608 (694)
                      ++++|++.|+++.++.|+...|..=+ .+-...+...   .+...++.+-.+
T Consensus       164 k~~~A~~aykKaLeldP~Ne~~K~nL~~Ae~~l~e~~~~~~~~~~~d~~~~i  215 (304)
T KOG0553|consen  164 KYEEAIEAYKKALELDPDNESYKSNLKIAEQKLNEPKSSAQASGSFDMAGLI  215 (304)
T ss_pred             cHHHHHHHHHhhhccCCCcHHHHHHHHHHHHHhcCCCcccccccchhhhhhc
Confidence            99999999999999999877665433 3333333332   444444444333

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=98.29  E-value=3.7e-07  Score=68.96  Aligned_cols=79  Identities=16%  Similarity=0.214  Sum_probs=50.0

Q ss_pred             cCCHHHHHHHHHhCCCCCC---CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHH
Q 005487          559 AGRLQEAYGILQSTPEIRE---DAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKI  635 (694)
Q Consensus       559 ~g~~~~A~~~~~~~~~~~p---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~  635 (694)
                      .|+++.|+.+++++.+..|   +...+..++.++.+.|++++|..++++ .+.+|.++.....++.++.+.|++++|+++
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~~~~~~~~l~a~~~~~l~~y~eAi~~   80 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDPSNPDIHYLLARCLLKLGKYEEAIKA   80 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHHCHHHHHHHHHHHHHHTT-HHHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCCCCHHHHHHHHHHHHHhCCHHHHHHH
Confidence            3556666666666555333   234455566666777777777777766 666666666666777777777777777777


Q ss_pred             HHH
Q 005487          636 RLK  638 (694)
Q Consensus       636 ~~~  638 (694)
                      +++
T Consensus        81 l~~   83 (84)
T PF12895_consen   81 LEK   83 (84)
T ss_dssp             HHH
T ss_pred             Hhc
Confidence            765

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=98.28  E-value=1e-05  Score=79.89  Aligned_cols=103  Identities=14%  Similarity=0.066  Sum_probs=62.0

Q ss_pred             HHHHHccCCHHHHHHHHHHhHHhcCCCCC-hHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCC-HHHHHHHHHHHHHcCC
Q 005487          517 LSACSHAGWVDEGGYYFNLMISEYNIQPR-NEHYSCLIDLLGRAGRLQEAYGILQSTPEIRED-AGLLSTLFSACRLHRD  594 (694)
Q Consensus       517 ~~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~  594 (694)
                      ...+...|++++|+..|++++.   ..|+ ...|..++.+|.+.|++++|+..++++.+..|+ ...+..++.++...|+
T Consensus         9 a~~a~~~~~~~~Ai~~~~~Al~---~~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~~~~a~~~lg~~~~~lg~   85 (356)
T PLN03088          9 AKEAFVDDDFALAVDLYTQAID---LDPNNAELYADRAQANIKLGNFTEAVADANKAIELDPSLAKAYLRKGTACMKLEE   85 (356)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCC
Confidence            3445556666666666666662   2343 445556666666666666666666666655553 4455566666666666


Q ss_pred             HHHHHHHHHHHHhcCCCCCccHHHHHHH
Q 005487          595 IEMGEKIAKLLIEKDPDDSSTYIVLSNM  622 (694)
Q Consensus       595 ~~~A~~~~~~~~~~~p~~~~~~~~l~~~  622 (694)
                      +++|+..++++++++|+++.+...+..+
T Consensus        86 ~~eA~~~~~~al~l~P~~~~~~~~l~~~  113 (356)
T PLN03088         86 YQTAKAALEKGASLAPGDSRFTKLIKEC  113 (356)
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            6666666666666666666555554433

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=98.27  E-value=6.6e-06  Score=64.33  Aligned_cols=94  Identities=24%  Similarity=0.229  Sum_probs=77.7

Q ss_pred             HHHHHHHhhhcCCHHHHHHHHHhCCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcC
Q 005487          549 YSCLIDLLGRAGRLQEAYGILQSTPEIRED-AGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVK  627 (694)
Q Consensus       549 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  627 (694)
                      +..++..+...|++++|...++++.+..|+ ...+..++..+...|++++|...+++++...|.++..+..++.++...|
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKLG   82 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHHH
Confidence            456777788888888888888887765554 4567777888888899999999999999999988888999999999999


Q ss_pred             ChHHHHHHHHHHHhC
Q 005487          628 KWDEVRKIRLKMKEL  642 (694)
Q Consensus       628 ~~~~A~~~~~~~~~~  642 (694)
                      ++++|.+.+++....
T Consensus        83 ~~~~a~~~~~~~~~~   97 (100)
T cd00189          83 KYEEALEAYEKALEL   97 (100)
T ss_pred             hHHHHHHHHHHHHcc
Confidence            999999988877653

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.23  E-value=0.001  Score=71.80  Aligned_cols=153  Identities=11%  Similarity=0.102  Sum_probs=86.5

Q ss_pred             CHHHHHHHHHHHcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCCCChHHHHHHHHHHHh
Q 005487          408 DAVTFTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPERDLVSWTSMIAAYGS  487 (694)
Q Consensus       408 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~  487 (694)
                      +...+..+..+|.+.|+.+++..+|+++++.+ +.++.+.|.++..|... ++++|.+++.+.           +..+..
T Consensus       115 ~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~KA-----------V~~~i~  181 (906)
T PRK14720        115 NKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYLKKA-----------IYRFIK  181 (906)
T ss_pred             hhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHHHHH-----------HHHHHh
Confidence            33455666667777777777777777777766 55667777777777777 777777665543           233555


Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHHHHH
Q 005487          488 HGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYG  567 (694)
Q Consensus       488 ~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~  567 (694)
                      .+++..+.++|.++...  .|+.               ++.-.++.+.+....+..--..++..+...|-..+++++++.
T Consensus       182 ~kq~~~~~e~W~k~~~~--~~~d---------------~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~  244 (906)
T PRK14720        182 KKQYVGIEEIWSKLVHY--NSDD---------------FDFFLRIERKVLGHREFTRLVGLLEDLYEPYKALEDWDEVIY  244 (906)
T ss_pred             hhcchHHHHHHHHHHhc--Cccc---------------chHHHHHHHHHHhhhccchhHHHHHHHHHHHhhhhhhhHHHH
Confidence            66777777777777765  2321               122222223332222222223344445555666666666666


Q ss_pred             HHHhCCCCCCC-HHHHHHHHHHHH
Q 005487          568 ILQSTPEIRED-AGLLSTLFSACR  590 (694)
Q Consensus       568 ~~~~~~~~~p~-~~~~~~l~~~~~  590 (694)
                      +++.+.+.+|+ ......++..|.
T Consensus       245 iLK~iL~~~~~n~~a~~~l~~~y~  268 (906)
T PRK14720        245 ILKKILEHDNKNNKAREELIRFYK  268 (906)
T ss_pred             HHHHHHhcCCcchhhHHHHHHHHH
Confidence            66666665553 233444444443

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=98.23  E-value=2.6e-06  Score=61.54  Aligned_cols=65  Identities=22%  Similarity=0.188  Sum_probs=58.3

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcC-ChHHHHHHHHHHHhC
Q 005487          578 DAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVK-KWDEVRKIRLKMKEL  642 (694)
Q Consensus       578 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~  642 (694)
                      ++..|..++..+...|++++|+..++++++.+|+++.+|..++.+|...| ++++|++.+++..+.
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l   67 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKL   67 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHc
Confidence            45678888999999999999999999999999999999999999999999 799999999987653

...

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=98.23  E-value=7.4e-06  Score=74.67  Aligned_cols=107  Identities=13%  Similarity=0.106  Sum_probs=92.5

Q ss_pred             CCChHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCC-CHHHHHHHHHHHHHc---CCHHHHHHHHHHHHhcCCCCCccHHH
Q 005487          543 QPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIRE-DAGLLSTLFSACRLH---RDIEMGEKIAKLLIEKDPDDSSTYIV  618 (694)
Q Consensus       543 ~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~---~~~~~A~~~~~~~~~~~p~~~~~~~~  618 (694)
                      +-|.+.|..|+.+|...|+...|...|.++.++.| ++..+..++.++..+   .+..++..+++++++++|.|..+...
T Consensus       153 P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~iral~l  232 (287)
T COG4235         153 PGDAEGWDLLGRAYMALGRASDALLAYRNALRLAGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPANIRALSL  232 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHHHHHH
Confidence            34578999999999999999999999999988666 467777777765443   36889999999999999999999999


Q ss_pred             HHHHHhhcCChHHHHHHHHHHHhCCCccCCc
Q 005487          619 LSNMYASVKKWDEVRKIRLKMKELGLRKNPG  649 (694)
Q Consensus       619 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  649 (694)
                      |+..+..+|++.+|...|+.|.+.....+|.
T Consensus       233 LA~~afe~g~~~~A~~~Wq~lL~~lp~~~~r  263 (287)
T COG4235         233 LAFAAFEQGDYAEAAAAWQMLLDLLPADDPR  263 (287)
T ss_pred             HHHHHHHcccHHHHHHHHHHHHhcCCCCCch
Confidence            9999999999999999999999888755544

>PF12854 PPR_1: PPR repeat

Probab=98.22  E-value=2e-06  Score=51.04  Aligned_cols=32  Identities=31%  Similarity=0.480  Sum_probs=14.9

Q ss_pred             CCCCchhHHHHHHHhhHhcCChHHHHHHHhcC
Q 005487          237 GFVSDSYISSALVDMYGKCGCLEMAREVFEQT  268 (694)
Q Consensus       237 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  268 (694)
                      |+.||..+|+.|+.+|++.|++++|.++|++|
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            34444444444444444444444444444443

>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi

Probab=98.22  E-value=4.5e-05  Score=74.80  Aligned_cols=125  Identities=20%  Similarity=0.185  Sum_probs=102.3

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHhhCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCC
Q 005487          446 VMGALLDMYAKCGAVDEAFKVFNELPERDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGW  525 (694)
Q Consensus       446 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~  525 (694)
                      ....++..+...++++.|..+|+++.+.++.....+++.+...++-.+|++++.+.++.. +-+...+..-...|.+.++
T Consensus       171 Lv~~Ll~~l~~t~~~~~ai~lle~L~~~~pev~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl~k~~  249 (395)
T PF09295_consen  171 LVDTLLKYLSLTQRYDEAIELLEKLRERDPEVAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLLSKKK  249 (395)
T ss_pred             HHHHHHHHHhhcccHHHHHHHHHHHHhcCCcHHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCC
Confidence            344566667778889999999999888777677778888888889999999999998763 3456666666777889999


Q ss_pred             HHHHHHHHHHhHHhcCCCCC-hHHHHHHHHHhhhcCCHHHHHHHHHhCCC
Q 005487          526 VDEGGYYFNLMISEYNIQPR-NEHYSCLIDLLGRAGRLQEAYGILQSTPE  574 (694)
Q Consensus       526 ~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  574 (694)
                      ++.|+.+.+++.   ...|+ ..+|..|+.+|.+.|+++.|+..++.++-
T Consensus       250 ~~lAL~iAk~av---~lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~Pm  296 (395)
T PF09295_consen  250 YELALEIAKKAV---ELSPSEFETWYQLAECYIQLGDFENALLALNSCPM  296 (395)
T ss_pred             HHHHHHHHHHHH---HhCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCcC
Confidence            999999999998   55676 45899999999999999999999998884

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.20  E-value=2.1e-05  Score=64.36  Aligned_cols=105  Identities=13%  Similarity=0.077  Sum_probs=68.9

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCC-hHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCC----HHHHHHHH
Q 005487          512 TFLALLSACSHAGWVDEGGYYFNLMISEYNIQPR-NEHYSCLIDLLGRAGRLQEAYGILQSTPEIRED----AGLLSTLF  586 (694)
Q Consensus       512 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~----~~~~~~l~  586 (694)
                      ++..++..+...|++++|...++.+.....-.|. ...+..++.++.+.|++++|...++.+....|+    ...+..++
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            3445555666677777777777777643211111 235556777777777777777777776654443    34566777


Q ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCCCCccH
Q 005487          587 SACRLHRDIEMGEKIAKLLIEKDPDDSSTY  616 (694)
Q Consensus       587 ~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~  616 (694)
                      .++...|+.++|...++++++..|+++.+.
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~  113 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIKRYPGSSAAK  113 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHHHCcCChhHH
Confidence            777778888888888888888888765543

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.

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=98.20  E-value=5.1e-05  Score=71.48  Aligned_cols=157  Identities=11%  Similarity=0.032  Sum_probs=116.2

Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHH-------------H
Q 005487          483 AAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEH-------------Y  549 (694)
Q Consensus       483 ~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~-------------~  549 (694)
                      .++...|++++|...--...+.+ ..+......-..++.-.++.+.|...|++.+   .+.|+...             +
T Consensus       177 ~cl~~~~~~~~a~~ea~~ilkld-~~n~~al~vrg~~~yy~~~~~ka~~hf~qal---~ldpdh~~sk~~~~~~k~le~~  252 (486)
T KOG0550|consen  177 ECLAFLGDYDEAQSEAIDILKLD-ATNAEALYVRGLCLYYNDNADKAINHFQQAL---RLDPDHQKSKSASMMPKKLEVK  252 (486)
T ss_pred             hhhhhcccchhHHHHHHHHHhcc-cchhHHHHhcccccccccchHHHHHHHhhhh---ccChhhhhHHhHhhhHHHHHHH
Confidence            45667788888888877777653 2233333333345666788888999888887   55666321             1


Q ss_pred             HHHHHHhhhcCCHHHHHHHHHhCCCCCCCH-----HHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHh
Q 005487          550 SCLIDLLGRAGRLQEAYGILQSTPEIREDA-----GLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYA  624 (694)
Q Consensus       550 ~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~-----~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  624 (694)
                      ..-++-..+.|++..|.+.|.+++.+.|+.     ..|...+.+..+.|+.++|+...+.+++++|.-..+|...+.++.
T Consensus       253 k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD~syikall~ra~c~l  332 (486)
T KOG0550|consen  253 KERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKIDSSYIKALLRRANCHL  332 (486)
T ss_pred             HhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcCHHHHHHHHHHHHHHH
Confidence            222445668899999999999988877653     445566666778899999999999999999998889999999999


Q ss_pred             hcCChHHHHHHHHHHHhCC
Q 005487          625 SVKKWDEVRKIRLKMKELG  643 (694)
Q Consensus       625 ~~g~~~~A~~~~~~~~~~~  643 (694)
                      ..++|++|.+-+++..+..
T Consensus       333 ~le~~e~AV~d~~~a~q~~  351 (486)
T KOG0550|consen  333 ALEKWEEAVEDYEKAMQLE  351 (486)
T ss_pred             HHHHHHHHHHHHHHHHhhc
Confidence            9999999999988876544

>PRK15331 chaperone protein SicA; Provisional

Probab=98.18  E-value=2.4e-05  Score=64.83  Aligned_cols=101  Identities=13%  Similarity=0.079  Sum_probs=85.7

Q ss_pred             CCCCC-hHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHH
Q 005487          541 NIQPR-NEHYSCLIDLLGRAGRLQEAYGILQSTPEIRE-DAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIV  618 (694)
Q Consensus       541 ~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~  618 (694)
                      |+.++ .+.....+.-+..+|++++|..+|+-..-.+| +...|..|+.++...|++++|+..|..+..++++||.+...
T Consensus        31 gis~~~le~iY~~Ay~~y~~Gk~~eA~~~F~~L~~~d~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~dp~p~f~  110 (165)
T PRK15331         31 GIPQDMMDGLYAHAYEFYNQGRLDEAETFFRFLCIYDFYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKNDYRPVFF  110 (165)
T ss_pred             CCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCCCccch
Confidence            44444 23344556667789999999999998665454 56788899999999999999999999999999999999999


Q ss_pred             HHHHHhhcCChHHHHHHHHHHHh
Q 005487          619 LSNMYASVKKWDEVRKIRLKMKE  641 (694)
Q Consensus       619 l~~~~~~~g~~~~A~~~~~~~~~  641 (694)
                      .+.+|...|+.++|++.|+....
T Consensus       111 agqC~l~l~~~~~A~~~f~~a~~  133 (165)
T PRK15331        111 TGQCQLLMRKAAKARQCFELVNE  133 (165)
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHh
Confidence            99999999999999999998876

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=98.16  E-value=4.4e-06  Score=59.43  Aligned_cols=59  Identities=19%  Similarity=0.257  Sum_probs=44.5

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHHHHhCC
Q 005487          585 LFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELG  643 (694)
Q Consensus       585 l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  643 (694)
                      ++..+...|++++|+..++++++.+|+++.++..++.++...|++++|..+++++.+..
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~   61 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALELD   61 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            45566777888888888888888888888888888888888888888888887776544

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.14  E-value=0.017  Score=60.69  Aligned_cols=218  Identities=16%  Similarity=0.071  Sum_probs=132.9

Q ss_pred             hCCCChhhHhHHHHHHHHhC-CCCCchhhhHHHHHHhcCCChhHHHHHHhhCCC--CCchhhHHHHHHHHHccCChhHHH
Q 005487           14 TGSKSLKEGKIIHQKVVTLG-LQNNIALCKSLINLYFSCQNYDYAMLVFKTIDN--PLDLSLWNGLMASYTKNYMYITAL   90 (694)
Q Consensus        14 ~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~   90 (694)
                      ..++.++.|......+.+.. -.+...++..|.  ..+.|+.++|..+++....  +++..+...+-.+|.+.++.++|.
T Consensus        20 ld~~qfkkal~~~~kllkk~Pn~~~a~vLkaLs--l~r~gk~~ea~~~Le~~~~~~~~D~~tLq~l~~~y~d~~~~d~~~   97 (932)
T KOG2053|consen   20 LDSSQFKKALAKLGKLLKKHPNALYAKVLKALS--LFRLGKGDEALKLLEALYGLKGTDDLTLQFLQNVYRDLGKLDEAV   97 (932)
T ss_pred             hhhHHHHHHHHHHHHHHHHCCCcHHHHHHHHHH--HHHhcCchhHHHHHhhhccCCCCchHHHHHHHHHHHHHhhhhHHH
Confidence            34667888888777777664 122234444443  4578999999988888743  333337888888899999999999


Q ss_pred             HHHHHhhhCCCCCCCcccHHHHHHHhhCCCCchhHHHHHHHHHHHcCCCchhHHHHHHHhhhcC-CC---------hHHH
Q 005487           91 ELFDMLLQNPYLKPDSYTYPSVLKACGGLGSVGIGKMIHTHLIKTGFLLDVVIASSTAGMYAKC-NS---------FECA  160 (694)
Q Consensus        91 ~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g~---------~~~A  160 (694)
                      .+|+...+.   .|+......+..++.+.+++.+-.++--++.+. .+.++..+=+.++.+... ..         ..-|
T Consensus        98 ~~Ye~~~~~---~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~-~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA  173 (932)
T KOG2053|consen   98 HLYERANQK---YPSEELLYHLFMAYVREKSYKKQQKAALQLYKN-FPKRAYYFWSVISLILQSIFSENELLDPILLALA  173 (932)
T ss_pred             HHHHHHHhh---CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCcccchHHHHHHHHHHhccCCcccccchhHHHH
Confidence            999999876   566777788888888888777655555455443 333443333344433321 11         1223


Q ss_pred             HHHhccCCCCC--cccH---HHHHHHHHhCCChhHHHHHHH-HHHhCCCCCChhhHHHHHHHHhccCChhHHHHHHHHHH
Q 005487          161 VKMFDEMSERD--VASW---NTVISCYYQDGQAEKALELFK-KMRGSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFI  234 (694)
Q Consensus       161 ~~~~~~~~~~~--~~~~---~~li~~~~~~~~~~~a~~~~~-~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  234 (694)
                      .+.++.+.+.+  ..+-   ..-...+...|.+++|++++. ...+.-..-+...-+.-+..+...+++.+..++-.++.
T Consensus       174 ~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll  253 (932)
T KOG2053|consen  174 EKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRLL  253 (932)
T ss_pred             HHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHHH
Confidence            44444444322  1111   112233456778888888883 33332222333344455666777788888888888777


Q ss_pred             HhC
Q 005487          235 KDG  237 (694)
Q Consensus       235 ~~~  237 (694)
                      ..|
T Consensus       254 ~k~  256 (932)
T KOG2053|consen  254 EKG  256 (932)
T ss_pred             HhC
Confidence            776

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.12  E-value=2.4e-05  Score=68.69  Aligned_cols=94  Identities=13%  Similarity=0.092  Sum_probs=67.8

Q ss_pred             HHHHHHHHhhhcCCHHHHHHHHHhCCCCCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHH
Q 005487          548 HYSCLIDLLGRAGRLQEAYGILQSTPEIRED----AGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMY  623 (694)
Q Consensus       548 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~  623 (694)
                      .+..++..+...|++++|...++++.+..|+    ...+..++..+...|++++|...++++++..|+++..+..++.++
T Consensus        37 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~  116 (172)
T PRK02603         37 VYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPKQPSALNNIAVIY  116 (172)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHH
Confidence            5566677777777777777777776643332    346677777788888888888888888888888888888888888


Q ss_pred             hhcCC--------------hHHHHHHHHHHHh
Q 005487          624 ASVKK--------------WDEVRKIRLKMKE  641 (694)
Q Consensus       624 ~~~g~--------------~~~A~~~~~~~~~  641 (694)
                      ...|+              +++|.+.+++...
T Consensus       117 ~~~g~~~~a~~~~~~A~~~~~~A~~~~~~a~~  148 (172)
T PRK02603        117 HKRGEKAEEAGDQDEAEALFDKAAEYWKQAIR  148 (172)
T ss_pred             HHcCChHhHhhCHHHHHHHHHHHHHHHHHHHh
Confidence            77776              4556666655544

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=98.09  E-value=0.012  Score=56.87  Aligned_cols=119  Identities=19%  Similarity=0.156  Sum_probs=76.2

Q ss_pred             CChHHHHHHHhhCCC---CChHHHHHHHH----HHHh---cCCHHHHHHHHHHHHHcCCCCCH----hhHHHHHH--HHH
Q 005487          458 GAVDEAFKVFNELPE---RDLVSWTSMIA----AYGS---HGRALEALKLFGEMQQSNARPDS----ITFLALLS--ACS  521 (694)
Q Consensus       458 g~~~~A~~~~~~~~~---~~~~~~~~l~~----~~~~---~~~~~~A~~~~~~~~~~~~~p~~----~~~~~l~~--~~~  521 (694)
                      +.-+.|+.+++.+..   -|...-|....    .|.+   ......-+.+-+-+.+.|++|-.    ..-+.+..  -+.
T Consensus       394 ~~dekalnLLk~il~ft~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~~i~i~e~eian~LaDAEyLy  473 (549)
T PF07079_consen  394 QCDEKALNLLKLILQFTNYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEVGLTPITISEEEIANFLADAEYLY  473 (549)
T ss_pred             CccHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCcccccHHHHHHHHHHHHHHH
Confidence            337778888877765   34433333222    2221   12333444444455566776632    34444444  356


Q ss_pred             ccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCCHHHH
Q 005487          522 HAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAGLL  582 (694)
Q Consensus       522 ~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~  582 (694)
                      ..|++.++.-+-.-+.   .+.|++.+|..++-.+....++++|+.++...+   |+..++
T Consensus       474 sqgey~kc~~ys~WL~---~iaPS~~~~RLlGl~l~e~k~Y~eA~~~l~~LP---~n~~~~  528 (549)
T PF07079_consen  474 SQGEYHKCYLYSSWLT---KIAPSPQAYRLLGLCLMENKRYQEAWEYLQKLP---PNERMR  528 (549)
T ss_pred             hcccHHHHHHHHHHHH---HhCCcHHHHHHHHHHHHHHhhHHHHHHHHHhCC---CchhhH
Confidence            6789998877666665   678999999999999999999999999999876   454443

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=98.07  E-value=4.1e-05  Score=75.59  Aligned_cols=103  Identities=13%  Similarity=0.047  Sum_probs=86.0

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCC-hHHHHHHHHHhhh
Q 005487          480 SMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPR-NEHYSCLIDLLGR  558 (694)
Q Consensus       480 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~  558 (694)
                      ..+..+...|+++.|+..|++++... +.+...+..+..+|...|++++|+..+++++   .+.|+ ...|..++.+|..
T Consensus         7 ~~a~~a~~~~~~~~Ai~~~~~Al~~~-P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al---~l~P~~~~a~~~lg~~~~~   82 (356)
T PLN03088          7 DKAKEAFVDDDFALAVDLYTQAIDLD-PNNAELYADRAQANIKLGNFTEAVADANKAI---ELDPSLAKAYLRKGTACMK   82 (356)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH---HhCcCCHHHHHHHHHHHHH
Confidence            34566778899999999999999874 4457888888899999999999999999998   44565 6688899999999


Q ss_pred             cCCHHHHHHHHHhCCCCCCCHHHHHHHH
Q 005487          559 AGRLQEAYGILQSTPEIREDAGLLSTLF  586 (694)
Q Consensus       559 ~g~~~~A~~~~~~~~~~~p~~~~~~~l~  586 (694)
                      .|++++|+..|+++.+..|+.......+
T Consensus        83 lg~~~eA~~~~~~al~l~P~~~~~~~~l  110 (356)
T PLN03088         83 LEEYQTAKAALEKGASLAPGDSRFTKLI  110 (356)
T ss_pred             hCCHHHHHHHHHHHHHhCCCCHHHHHHH
Confidence            9999999999999988888755444443

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=98.06  E-value=3.2e-05  Score=67.68  Aligned_cols=94  Identities=9%  Similarity=-0.092  Sum_probs=75.6

Q ss_pred             hHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHH
Q 005487          546 NEHYSCLIDLLGRAGRLQEAYGILQSTPEIRED----AGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSN  621 (694)
Q Consensus       546 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~  621 (694)
                      ...+..++..+...|++++|+..++++....|+    ..++..++..+...|++++|+..++++++..|.....+..++.
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~~~~~~~~la~  114 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERNPFLPQALNNMAV  114 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHH
Confidence            456677788888889999999988887654443    2467888889999999999999999999999998888888888


Q ss_pred             HHh-------hcCChHHHHHHHHHH
Q 005487          622 MYA-------SVKKWDEVRKIRLKM  639 (694)
Q Consensus       622 ~~~-------~~g~~~~A~~~~~~~  639 (694)
                      ++.       ..|++++|+..+++.
T Consensus       115 i~~~~~~~~~~~g~~~~A~~~~~~a  139 (168)
T CHL00033        115 ICHYRGEQAIEQGDSEIAEAWFDQA  139 (168)
T ss_pred             HHHHhhHHHHHcccHHHHHHHHHHH
Confidence            888       788888666655543

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=98.05  E-value=1.3e-05  Score=57.03  Aligned_cols=63  Identities=17%  Similarity=0.131  Sum_probs=53.1

Q ss_pred             HHHHHhhhcCCHHHHHHHHHhCCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCC
Q 005487          551 CLIDLLGRAGRLQEAYGILQSTPEIRED-AGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDS  613 (694)
Q Consensus       551 ~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~  613 (694)
                      .++..+...|++++|.+.|+++.+..|+ ...|..++.++...|++++|...++++++.+|++|
T Consensus         2 ~~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~P~~p   65 (65)
T PF13432_consen    2 ALARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALELDPDNP   65 (65)
T ss_dssp             HHHHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-H
T ss_pred             hHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCC
Confidence            3577888999999999999998887775 56888889999999999999999999999999874

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=98.02  E-value=0.00019  Score=74.05  Aligned_cols=140  Identities=14%  Similarity=0.051  Sum_probs=90.6

Q ss_pred             CChHHHHHHHHHHHh--c---CCHHHHHHHHHHHHHcCCCCC-HhhHHHHHHHHHcc--------CCHHHHHHHHHHhHH
Q 005487          473 RDLVSWTSMIAAYGS--H---GRALEALKLFGEMQQSNARPD-SITFLALLSACSHA--------GWVDEGGYYFNLMIS  538 (694)
Q Consensus       473 ~~~~~~~~l~~~~~~--~---~~~~~A~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~--------g~~~~A~~~~~~~~~  538 (694)
                      .+..+|...+++...  .   ++...|..+|++.++.  .|+ ...+..+..++...        +++..+.+...+...
T Consensus       335 ~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~l--dP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a~a  412 (517)
T PRK10153        335 HQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKS--EPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNIVA  412 (517)
T ss_pred             CCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhhh
Confidence            455566666555332  2   2366788888888885  565 34455444433221        122333444443331


Q ss_pred             hcCCCCChHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCc
Q 005487          539 EYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSS  614 (694)
Q Consensus       539 ~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~  614 (694)
                      ......++..|..++-.....|++++|...++++....|+...|..++..+...|+.++|.+.+++++.++|.++.
T Consensus       413 l~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P~~pt  488 (517)
T PRK10153        413 LPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLEMSWLNYVLLGKVYELKGDNRLAADAYSTAFNLRPGENT  488 (517)
T ss_pred             cccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCch
Confidence            1112334566777777777778888888888888888888777888888888888888888888888888888764

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=98.02  E-value=0.00089  Score=56.04  Aligned_cols=151  Identities=12%  Similarity=-0.002  Sum_probs=102.2

Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHH
Q 005487          485 YGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQE  564 (694)
Q Consensus       485 ~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~  564 (694)
                      ..+.=|++...+-..+-..  ..|....-..|..+..+.|+..+|...|++.. ..-+.-|......++++....++..+
T Consensus        66 ~~q~ldP~R~~Rea~~~~~--~ApTvqnr~rLa~al~elGr~~EA~~hy~qal-sG~fA~d~a~lLglA~Aqfa~~~~A~  142 (251)
T COG4700          66 LQQKLDPERHLREATEELA--IAPTVQNRYRLANALAELGRYHEAVPHYQQAL-SGIFAHDAAMLLGLAQAQFAIQEFAA  142 (251)
T ss_pred             HHHhcChhHHHHHHHHHHh--hchhHHHHHHHHHHHHHhhhhhhhHHHHHHHh-ccccCCCHHHHHHHHHHHHhhccHHH
Confidence            3333344444433333333  25666666677777888888888888888876 32344556677777888888888888


Q ss_pred             HHHHHHhCCCCCCC---HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHHH
Q 005487          565 AYGILQSTPEIRED---AGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKM  639 (694)
Q Consensus       565 A~~~~~~~~~~~p~---~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  639 (694)
                      |...+++..+..|.   +.....++..+...|.++.|+..++.++..-| .+......+..+.++|+.++|..-+..+
T Consensus       143 a~~tLe~l~e~~pa~r~pd~~Ll~aR~laa~g~~a~Aesafe~a~~~yp-g~~ar~~Y~e~La~qgr~~ea~aq~~~v  219 (251)
T COG4700         143 AQQTLEDLMEYNPAFRSPDGHLLFARTLAAQGKYADAESAFEVAISYYP-GPQARIYYAEMLAKQGRLREANAQYVAV  219 (251)
T ss_pred             HHHHHHHHhhcCCccCCCCchHHHHHHHHhcCCchhHHHHHHHHHHhCC-CHHHHHHHHHHHHHhcchhHHHHHHHHH
Confidence            88888877664442   34455667778888888888888888888777 4566667777788888877776555444

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.01  E-value=0.00018  Score=63.09  Aligned_cols=128  Identities=16%  Similarity=0.207  Sum_probs=78.5

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC--HhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCC-hHHHHHH
Q 005487          476 VSWTSMIAAYGSHGRALEALKLFGEMQQSNARPD--SITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPR-NEHYSCL  552 (694)
Q Consensus       476 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l  552 (694)
                      ..+..+...+...|++++|...+++..+.+..+.  ...+..+...+...|++++|...++++..   ..|+ ...+..+
T Consensus        36 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~---~~p~~~~~~~~l  112 (172)
T PRK02603         36 FVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALE---LNPKQPSALNNI  112 (172)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH---hCcccHHHHHHH
Confidence            3566666667777777777777777765432221  24566666667777777777777776662   2343 4455556


Q ss_pred             HHHhhhcCCHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCC
Q 005487          553 IDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKK  628 (694)
Q Consensus       553 ~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  628 (694)
                      +.++...|+...+..-++.+.                   +.+++|.+.++++++.+|++   |..++..+...|+
T Consensus       113 g~~~~~~g~~~~a~~~~~~A~-------------------~~~~~A~~~~~~a~~~~p~~---~~~~~~~~~~~~~  166 (172)
T PRK02603        113 AVIYHKRGEKAEEAGDQDEAE-------------------ALFDKAAEYWKQAIRLAPNN---YIEAQNWLKTTGR  166 (172)
T ss_pred             HHHHHHcCChHhHhhCHHHHH-------------------HHHHHHHHHHHHHHhhCchh---HHHHHHHHHhcCc
Confidence            666666666555443333221                   23678899999999999887   5555555555443

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.94  E-value=9.5e-05  Score=61.63  Aligned_cols=112  Identities=18%  Similarity=0.174  Sum_probs=97.6

Q ss_pred             hHHhcCCCCChHHHHHHHHHhhhcCCHHHHHHHHHhCCC--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC--
Q 005487          536 MISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPE--IREDAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPD--  611 (694)
Q Consensus       536 ~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~--  611 (694)
                      +.++..+.|+...-..|+.++.+.|++.+|...|++...  +..|+..+..+..+....++...|...++++.+-+|.  
T Consensus        79 a~~~~~~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r  158 (251)
T COG4700          79 ATEELAIAPTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFR  158 (251)
T ss_pred             HHHHHhhchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccC
Confidence            333446678888888999999999999999999999775  5668888899999999999999999999999999985  


Q ss_pred             CCccHHHHHHHHhhcCChHHHHHHHHHHHhCCCccC
Q 005487          612 DSSTYIVLSNMYASVKKWDEVRKIRLKMKELGLRKN  647 (694)
Q Consensus       612 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~  647 (694)
                      .|.....++..|..+|++++|+..|+...+......
T Consensus       159 ~pd~~Ll~aR~laa~g~~a~Aesafe~a~~~ypg~~  194 (251)
T COG4700         159 SPDGHLLFARTLAAQGKYADAESAFEVAISYYPGPQ  194 (251)
T ss_pred             CCCchHHHHHHHHhcCCchhHHHHHHHHHHhCCCHH
Confidence            777889999999999999999999999988775443

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=97.91  E-value=0.022  Score=53.97  Aligned_cols=274  Identities=16%  Similarity=0.175  Sum_probs=177.3

Q ss_pred             cCCHHHHHHHHhcCC---CCChhHHHHHHH--HHHhcCChHHHHHHHHHHHHcCCCCCHH--HHHHHHHHHcccCChHHH
Q 005487          356 CGRVSSAENVFEKMS---KTDVVYWNVMIS--GYVTVGDYFKALAIYSDMKEVGAKPDAV--TFTSVLPACSQLAALEKG  428 (694)
Q Consensus       356 ~~~~~~A~~~~~~~~---~~~~~~~~~l~~--~~~~~~~~~~A~~~~~~m~~~g~~p~~~--~~~~ll~~~~~~~~~~~a  428 (694)
                      .|+-..|.++-.+..   ..|....-.++.  +-.-.|+++.|.+-|+.|...   |...  -...|.-..-+.|+.+.|
T Consensus        97 AGda~lARkmt~~~~~llssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~d---PEtRllGLRgLyleAqr~GareaA  173 (531)
T COG3898          97 AGDASLARKMTARASKLLSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLDD---PETRLLGLRGLYLEAQRLGAREAA  173 (531)
T ss_pred             cCchHHHHHHHHHHHhhhhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhcC---hHHHHHhHHHHHHHHHhcccHHHH
Confidence            455555555544332   233333333333  334568888899888888762   3222  123333334567888888


Q ss_pred             HHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCC-----CChH--HHHHHHHHH---HhcCCHHHHHHHH
Q 005487          429 KEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPE-----RDLV--SWTSMIAAY---GSHGRALEALKLF  498 (694)
Q Consensus       429 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~~--~~~~l~~~~---~~~~~~~~A~~~~  498 (694)
                      ..+-+..-..- +.-.....+.+...+..|+++.|+++++.-..     ++..  .-..|+.+-   .-..+...|...-
T Consensus       174 r~yAe~Aa~~A-p~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A  252 (531)
T COG3898         174 RHYAERAAEKA-PQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDA  252 (531)
T ss_pred             HHHHHHHHhhc-cCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHH
Confidence            88877775543 33456677888889999999999999986543     4433  111222221   1224567777777


Q ss_pred             HHHHHcCCCCCHh-hHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHHHHHHHHh---CCC
Q 005487          499 GEMQQSNARPDSI-TFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQS---TPE  574 (694)
Q Consensus       499 ~~~~~~~~~p~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~---~~~  574 (694)
                      .+..+  +.|+.. .-.....++.+.|+..++-.+++.+.   ...|.+..+.  ...+.+.|+.  ++.-+++   ..+
T Consensus       253 ~~a~K--L~pdlvPaav~AAralf~d~~~rKg~~ilE~aW---K~ePHP~ia~--lY~~ar~gdt--a~dRlkRa~~L~s  323 (531)
T COG3898         253 LEANK--LAPDLVPAAVVAARALFRDGNLRKGSKILETAW---KAEPHPDIAL--LYVRARSGDT--ALDRLKRAKKLES  323 (531)
T ss_pred             HHHhh--cCCccchHHHHHHHHHHhccchhhhhhHHHHHH---hcCCChHHHH--HHHHhcCCCc--HHHHHHHHHHHHh
Confidence            77766  477754 34444568999999999999999998   3466665543  2334455543  3333333   222


Q ss_pred             CCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhc-CChHHHHHHHHHHHhCC
Q 005487          575 IRED-AGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASV-KKWDEVRKIRLKMKELG  643 (694)
Q Consensus       575 ~~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~~  643 (694)
                      .+|+ .........+....|++..|..-.+.+....|. ..+|..++++-... |+-.++...+-+.....
T Consensus       324 lk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r~~pr-es~~lLlAdIeeAetGDqg~vR~wlAqav~AP  393 (531)
T COG3898         324 LKPNNAESSLAVAEAALDAGEFSAARAKAEAAAREAPR-ESAYLLLADIEEAETGDQGKVRQWLAQAVKAP  393 (531)
T ss_pred             cCccchHHHHHHHHHHHhccchHHHHHHHHHHhhhCch-hhHHHHHHHHHhhccCchHHHHHHHHHHhcCC
Confidence            4554 456667777788899999999999999999985 57888899987665 99999988888766544

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=97.91  E-value=2.3e-05  Score=47.40  Aligned_cols=35  Identities=40%  Similarity=0.711  Sum_probs=29.3

Q ss_pred             ccHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCCh
Q 005487          173 ASWNTVISCYYQDGQAEKALELFKKMRGSGFQPNS  207 (694)
Q Consensus       173 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~  207 (694)
                      .+||.+|.+|++.|++++|.++|.+|.+.|+.||.
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            36888888888888888888888888888888873

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.

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.90  E-value=4.3e-05  Score=55.86  Aligned_cols=59  Identities=17%  Similarity=0.195  Sum_probs=51.4

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHHHHhCCC
Q 005487          586 FSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELGL  644 (694)
Q Consensus       586 ~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  644 (694)
                      ...+...+++++|..+++++++.+|+++..+..+|.++...|++++|.+.+++..+...
T Consensus         2 ~~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p   60 (73)
T PF13371_consen    2 KQIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALELSP   60 (73)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCC
Confidence            35677889999999999999999999999999999999999999999999998876554

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.89  E-value=0.0016  Score=60.33  Aligned_cols=57  Identities=9%  Similarity=0.108  Sum_probs=47.5

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcCCCCCc---cHHHHHHHHhhcCChHHHHHHHHHHH
Q 005487          584 TLFSACRLHRDIEMGEKIAKLLIEKDPDDSS---TYIVLSNMYASVKKWDEVRKIRLKMK  640 (694)
Q Consensus       584 ~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~---~~~~l~~~~~~~g~~~~A~~~~~~~~  640 (694)
                      .++..|.+.|.+..|..-++.+++.-|+.+.   +...++.+|...|..++|.++...+.
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            4456688899999999999999998887544   56678889999999999999887664

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.88  E-value=5.9e-05  Score=70.90  Aligned_cols=130  Identities=12%  Similarity=0.024  Sum_probs=90.4

Q ss_pred             hhHHHHHHHHHccCCHHHHHHHHHHh---HHhcCCCCC-hHHHHHHHHHhhhcCCHHHHHHHHHhCCC----C---CCCH
Q 005487          511 ITFLALLSACSHAGWVDEGGYYFNLM---ISEYNIQPR-NEHYSCLIDLLGRAGRLQEAYGILQSTPE----I---REDA  579 (694)
Q Consensus       511 ~~~~~l~~~~~~~g~~~~A~~~~~~~---~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~---~p~~  579 (694)
                      ..|..|...|.-.|+++.|+...+.-   .+++|-... ...+..+++++.-.|+++.|.+.|+....    +   ....
T Consensus       196 Ra~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEA  275 (639)
T KOG1130|consen  196 RAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEA  275 (639)
T ss_pred             chhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHH
Confidence            34555666666678888888776542   223343322 34677888899999999999988886332    1   2233


Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhcC------CCCCccHHHHHHHHhhcCChHHHHHHHHHHH
Q 005487          580 GLLSTLFSACRLHRDIEMGEKIAKLLIEKD------PDDSSTYIVLSNMYASVKKWDEVRKIRLKMK  640 (694)
Q Consensus       580 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~------p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  640 (694)
                      ..-.+++.+|...+++++|+.+.++-+.+.      .....++..|+.++...|..++|+.+.+.-.
T Consensus       276 QscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl  342 (639)
T KOG1130|consen  276 QSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHL  342 (639)
T ss_pred             HHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence            445677788888888999999888766432      2356688889999999999999988776543

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.87  E-value=4.8e-05  Score=57.32  Aligned_cols=80  Identities=19%  Similarity=0.280  Sum_probs=40.1

Q ss_pred             cCCHHHHHHHHHHHHHcCCC-CCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCC-hHHHHHHHHHhhhcCCHHHH
Q 005487          488 HGRALEALKLFGEMQQSNAR-PDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPR-NEHYSCLIDLLGRAGRLQEA  565 (694)
Q Consensus       488 ~~~~~~A~~~~~~~~~~~~~-p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A  565 (694)
                      .|+++.|+.+++++.+.... |+...+..+..++.+.|++++|..+++. .   ...|+ ......++.++.+.|++++|
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~---~~~~~~~~~~~l~a~~~~~l~~y~eA   77 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-L---KLDPSNPDIHYLLARCLLKLGKYEEA   77 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-H---THHHCHHHHHHHHHHHHHHTT-HHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-h---CCCCCCHHHHHHHHHHHHHhCCHHHH
Confidence            35566666666666654211 1233344455566666666666666655 2   11222 23333445666666666666


Q ss_pred             HHHHHh
Q 005487          566 YGILQS  571 (694)
Q Consensus       566 ~~~~~~  571 (694)
                      ++.+++
T Consensus        78 i~~l~~   83 (84)
T PF12895_consen   78 IKALEK   83 (84)
T ss_dssp             HHHHHH
T ss_pred             HHHHhc
Confidence            666553

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=97.87  E-value=2.8e-05  Score=56.06  Aligned_cols=66  Identities=20%  Similarity=0.130  Sum_probs=55.4

Q ss_pred             ChHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCC-HHHHHHHHHHHHHcC-CHHHHHHHHHHHHhcCC
Q 005487          545 RNEHYSCLIDLLGRAGRLQEAYGILQSTPEIRED-AGLLSTLFSACRLHR-DIEMGEKIAKLLIEKDP  610 (694)
Q Consensus       545 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~~-~~~~A~~~~~~~~~~~p  610 (694)
                      ++..|..++..+...|++++|+..|+++.+..|+ ...|..++.++...| ++++|+..++++++++|
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l~P   69 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKLDP   69 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHcCc
Confidence            3567788888888999999999999888876675 567888888888888 79999999999999887

...

>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A

Probab=97.86  E-value=1.6e-05  Score=57.11  Aligned_cols=54  Identities=13%  Similarity=0.326  Sum_probs=45.7

Q ss_pred             HHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHHHHhCC
Q 005487          590 RLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELG  643 (694)
Q Consensus       590 ~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  643 (694)
                      ...|++++|+..++++++.+|+++.++..++.+|.+.|++++|.++++++....
T Consensus         2 l~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~   55 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRNPDNPEARLLLAQCYLKQGQYDEAEELLERLLKQD   55 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGG
T ss_pred             hhccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            467889999999999999999999999999999999999999999888766543

...

>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=97.84  E-value=0.00016  Score=56.24  Aligned_cols=93  Identities=22%  Similarity=0.192  Sum_probs=52.4

Q ss_pred             HHHHHHHccCCHHHHHHHHHHhHHhcCCCCC-hHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCC-HHHHHHHHHHHHHc
Q 005487          515 ALLSACSHAGWVDEGGYYFNLMISEYNIQPR-NEHYSCLIDLLGRAGRLQEAYGILQSTPEIRED-AGLLSTLFSACRLH  592 (694)
Q Consensus       515 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~  592 (694)
                      .+...+...|++++|...++.+.+   ..|+ ...+..++..+...|++++|.+.+++.....|. ...+..++..+...
T Consensus         5 ~~a~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (100)
T cd00189           5 NLGNLYYKLGDYDEALEYYEKALE---LDPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKL   81 (100)
T ss_pred             HHHHHHHHHhcHHHHHHHHHHHHh---cCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHH
Confidence            344445555566666666655552   1222 244555566666666666666666655443333 34555666666666


Q ss_pred             CCHHHHHHHHHHHHhcCC
Q 005487          593 RDIEMGEKIAKLLIEKDP  610 (694)
Q Consensus       593 ~~~~~A~~~~~~~~~~~p  610 (694)
                      |+++.|...++++++..|
T Consensus        82 ~~~~~a~~~~~~~~~~~~   99 (100)
T cd00189          82 GKYEEALEAYEKALELDP   99 (100)
T ss_pred             HhHHHHHHHHHHHHccCC
Confidence            677777777766666655

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.82  E-value=0.00033  Score=61.25  Aligned_cols=115  Identities=15%  Similarity=0.045  Sum_probs=55.5

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCC-ChHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCC-HHHHHHHHHHH
Q 005487          512 TFLALLSACSHAGWVDEGGYYFNLMISEYNIQP-RNEHYSCLIDLLGRAGRLQEAYGILQSTPEIRED-AGLLSTLFSAC  589 (694)
Q Consensus       512 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~~  589 (694)
                      .+..+...+...|++++|...|+.+.....-.+ ...++..++.++...|++++|+..++++.+..|+ ...+..++..+
T Consensus        37 ~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~~~~~~~~la~i~  116 (168)
T CHL00033         37 TYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERNPFLPQALNNMAVIC  116 (168)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHH
Confidence            334444444455555555555555542111001 1224555555555555555555555555544333 22333333333


Q ss_pred             H-------HcCCHH-------HHHHHHHHHHhcCCCCCccHHHHHHHHhhcCCh
Q 005487          590 R-------LHRDIE-------MGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKW  629 (694)
Q Consensus       590 ~-------~~~~~~-------~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  629 (694)
                      .       ..|+++       +|...+++++..+|++   +......+...|++
T Consensus       117 ~~~~~~~~~~g~~~~A~~~~~~a~~~~~~a~~~~p~~---~~~~~~~~~~~~~~  167 (168)
T CHL00033        117 HYRGEQAIEQGDSEIAEAWFDQAAEYWKQAIALAPGN---YIEAQNWLKITGRF  167 (168)
T ss_pred             HHhhHHHHHcccHHHHHHHHHHHHHHHHHHHHhCccc---HHHHHHHHHHhcCC
Confidence            3       455544       5666677777777754   23344444444443

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=97.82  E-value=9.9e-06  Score=47.98  Aligned_cols=34  Identities=26%  Similarity=0.450  Sum_probs=31.5

Q ss_pred             HHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHH
Q 005487          601 IAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRK  634 (694)
Q Consensus       601 ~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~  634 (694)
                      +++++++++|+++.+|..|+.+|...|++++|++
T Consensus         1 ~y~kAie~~P~n~~a~~nla~~~~~~g~~~~A~~   34 (34)
T PF13431_consen    1 CYKKAIELNPNNAEAYNNLANLYLNQGDYEEAIA   34 (34)
T ss_pred             ChHHHHHHCCCCHHHHHHHHHHHHHCcCHHhhcC
Confidence            3789999999999999999999999999999963

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.81  E-value=0.00061  Score=56.46  Aligned_cols=90  Identities=11%  Similarity=-0.001  Sum_probs=53.9

Q ss_pred             HHHHHHHhcCChHHHHHHHhhCCC---CChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCC
Q 005487          449 ALLDMYAKCGAVDEAFKVFNELPE---RDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGW  525 (694)
Q Consensus       449 ~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~  525 (694)
                      .+...+...|++++|.++|+.+..   .+..-|..|..++...|++++|+..|......+ +.|+..+-.+..++...|+
T Consensus        40 ~~A~~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~-~ddp~~~~~ag~c~L~lG~  118 (157)
T PRK15363         40 RYAMQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK-IDAPQAPWAAAECYLACDN  118 (157)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHHHHcCC
Confidence            444445566666666666665544   234456666666666666666666666666643 2345666666666666666


Q ss_pred             HHHHHHHHHHhHHh
Q 005487          526 VDEGGYYFNLMISE  539 (694)
Q Consensus       526 ~~~A~~~~~~~~~~  539 (694)
                      .+.|.+.|+..+..
T Consensus       119 ~~~A~~aF~~Ai~~  132 (157)
T PRK15363        119 VCYAIKALKAVVRI  132 (157)
T ss_pred             HHHHHHHHHHHHHH
Confidence            66666666666543

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=97.79  E-value=4.1e-05  Score=45.83  Aligned_cols=33  Identities=27%  Similarity=0.664  Sum_probs=24.4

Q ss_pred             ccHHHHHHHHHhCCChhHHHHHHHHHHhCCCCC
Q 005487          173 ASWNTVISCYYQDGQAEKALELFKKMRGSGFQP  205 (694)
Q Consensus       173 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~  205 (694)
                      .+|+.++.+|.+.|+++.|.++|+.|++.|++|
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            467777777777777777777777777777765

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.78  E-value=0.00074  Score=69.77  Aligned_cols=135  Identities=8%  Similarity=-0.001  Sum_probs=99.6

Q ss_pred             CCCCHhhHHHHHHHHH--ccC---CHHHHHHHHHHhHHhcCCCCCh-HHHHHHHHHhhhc--------CCHHHHHHHHHh
Q 005487          506 ARPDSITFLALLSACS--HAG---WVDEGGYYFNLMISEYNIQPRN-EHYSCLIDLLGRA--------GRLQEAYGILQS  571 (694)
Q Consensus       506 ~~p~~~~~~~l~~~~~--~~g---~~~~A~~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~--------g~~~~A~~~~~~  571 (694)
                      .+.|...|...+++..  ..+   ....|..+|+++.   ...|+- ..+..++.++...        ++.+.+.+..++
T Consensus       333 ~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai---~ldP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~  409 (517)
T PRK10153        333 LPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEIL---KSEPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDN  409 (517)
T ss_pred             CCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHH---HhCCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHH
Confidence            4567788888888643  333   3778999999998   557873 3555444433221        234566666666


Q ss_pred             CCC---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHHHHhCCC
Q 005487          572 TPE---IREDAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELGL  644 (694)
Q Consensus       572 ~~~---~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  644 (694)
                      ...   ...++..+..++......|++++|...++++++++| +...|..+|.++...|+.++|.+.+++.....+
T Consensus       410 a~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~p-s~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P  484 (517)
T PRK10153        410 IVALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLEM-SWLNYVLLGKVYELKGDNRLAADAYSTAFNLRP  484 (517)
T ss_pred             hhhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Confidence            443   233456777777777778999999999999999999 578999999999999999999999999876554

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.76  E-value=0.00017  Score=67.18  Aligned_cols=92  Identities=14%  Similarity=0.073  Sum_probs=41.4

Q ss_pred             HccCCHHHHHHHHHHhHHhcCCCCC-hHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCC----HHHHHHHHHHHHHcCCH
Q 005487          521 SHAGWVDEGGYYFNLMISEYNIQPR-NEHYSCLIDLLGRAGRLQEAYGILQSTPEIRED----AGLLSTLFSACRLHRDI  595 (694)
Q Consensus       521 ~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~----~~~~~~l~~~~~~~~~~  595 (694)
                      .+.|++++|+..|+.+++.+.-.+- +..+..++.+|...|++++|...|+++.+..|+    +..+..++.++...|+.
T Consensus       154 ~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~~~~~~g~~  233 (263)
T PRK10803        154 QDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGVIMQDKGDT  233 (263)
T ss_pred             HhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHHHHHHcCCH
Confidence            3345555555555555533211110 124444555555555555555555544432222    23333444444444555


Q ss_pred             HHHHHHHHHHHhcCCCC
Q 005487          596 EMGEKIAKLLIEKDPDD  612 (694)
Q Consensus       596 ~~A~~~~~~~~~~~p~~  612 (694)
                      ++|...++++++..|++
T Consensus       234 ~~A~~~~~~vi~~yP~s  250 (263)
T PRK10803        234 AKAKAVYQQVIKKYPGT  250 (263)
T ss_pred             HHHHHHHHHHHHHCcCC
Confidence            55555555555554443

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=97.76  E-value=5.6e-05  Score=45.62  Aligned_cols=33  Identities=33%  Similarity=0.635  Sum_probs=29.4

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCC
Q 005487          376 YWNVMISGYVTVGDYFKALAIYSDMKEVGAKPD  408 (694)
Q Consensus       376 ~~~~l~~~~~~~~~~~~A~~~~~~m~~~g~~p~  408 (694)
                      +|+.++.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            688899999999999999999999999888887

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.

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.75  E-value=0.00043  Score=55.30  Aligned_cols=90  Identities=17%  Similarity=0.076  Sum_probs=58.4

Q ss_pred             HHHHHhhhcCCHHHHHHHHHhCCCCCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC---CCccHHHHHHHH
Q 005487          551 CLIDLLGRAGRLQEAYGILQSTPEIRED----AGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPD---DSSTYIVLSNMY  623 (694)
Q Consensus       551 ~l~~~~~~~g~~~~A~~~~~~~~~~~p~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~---~~~~~~~l~~~~  623 (694)
                      .++.++...|+.++|+.+|++..+..++    ...+..++.++...|++++|..++++.+...|+   +......++.++
T Consensus         6 ~~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L   85 (120)
T PF12688_consen    6 ELAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALAL   85 (120)
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHH
Confidence            4555666667777777777765542222    234556666777777777777777777777666   555666667777


Q ss_pred             hhcCChHHHHHHHHHHH
Q 005487          624 ASVKKWDEVRKIRLKMK  640 (694)
Q Consensus       624 ~~~g~~~~A~~~~~~~~  640 (694)
                      ...|+.++|++.+-...
T Consensus        86 ~~~gr~~eAl~~~l~~l  102 (120)
T PF12688_consen   86 YNLGRPKEALEWLLEAL  102 (120)
T ss_pred             HHCCCHHHHHHHHHHHH
Confidence            77777777777665443

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.73  E-value=0.001  Score=63.31  Aligned_cols=136  Identities=13%  Similarity=0.144  Sum_probs=103.6

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHH-HHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHH
Q 005487          476 VSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSA-CSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLID  554 (694)
Q Consensus       476 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~-~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~  554 (694)
                      .+|-.++....+.+..+.|..+|.+..+.+ ..+...|...+.. +...++.+.|..+|+...+.+  ..+...|...++
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~f--~~~~~~~~~Y~~   78 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKKF--PSDPDFWLEYLD   78 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHHH--TT-HHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHC--CCCHHHHHHHHH
Confidence            467888888888888999999999998643 3345556555554 334577777999999999754  455667778889


Q ss_pred             HhhhcCCHHHHHHHHHhCCCCCCCH----HHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCc
Q 005487          555 LLGRAGRLQEAYGILQSTPEIREDA----GLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSS  614 (694)
Q Consensus       555 ~~~~~g~~~~A~~~~~~~~~~~p~~----~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~  614 (694)
                      .+.+.|+.+.|..+|+++...-+..    .+|...+..-...|+.+....+.+++.+..|++..
T Consensus        79 ~l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~~~~~~~  142 (280)
T PF05843_consen   79 FLIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEELFPEDNS  142 (280)
T ss_dssp             HHHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHTTTS-H
T ss_pred             HHHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhhhH
Confidence            9999999999999999987644443    48999999999999999999999999998887443

The Drosophila melanogaster suppressor of forked [Su(f)] protein shares homology with the Saccharomyces cerevisiae RNA14 protein and the 77 kDa subunit of Homo sapiens cleavage stimulation factor, which are proteins involved in mRNA 3' end formation. This suggests a role for Su(f) in mRNA 3' end formation in Drosophila. The su(f) gene produces three transcripts; two of them are polyadenylated at the end of the transcription unit, and one is a truncated transcript, polyadenylated in intron 4. It is thought that su(f) plays a role in the regulation of poly(A) site utilisation and the GU-rich sequence is important for this regulation to occur [].; GO: 0006397 mRNA processing, 0005634 nucleus; PDB: 2L9B_B 2OND_B 2OOE_A 4E85_B 4EBA_C 4E6H_A 2UY1_B.

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=97.73  E-value=0.00019  Score=68.13  Aligned_cols=85  Identities=14%  Similarity=0.126  Sum_probs=70.2

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHHHHhCCCccCCceeEEEECCEE
Q 005487          580 GLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELGLRKNPGCSWIEIGDRI  659 (694)
Q Consensus       580 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~  659 (694)
                      ..+..++..+.+.+++..|+...+++++.+|+|..+.+.-|.+|...|+++.|+..|+++++..                
T Consensus       258 ~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~----------------  321 (397)
T KOG0543|consen  258 ACHLNLAACYLKLKEYKEAIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKALKLE----------------  321 (397)
T ss_pred             HHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHHHHhC----------------
Confidence            4567788888899999999999999999999999999999999999999999999999988644                


Q ss_pred             EEEEeCCCCCCChHHHHHHHHHHHHHhhhcc
Q 005487          660 QPFFAEDKFYPQADMVYECLAILAGHMEKDE  690 (694)
Q Consensus       660 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  690 (694)
                                |...++..+|..+.+|+++|+
T Consensus       322 ----------P~Nka~~~el~~l~~k~~~~~  342 (397)
T KOG0543|consen  322 ----------PSNKAARAELIKLKQKIREYE  342 (397)
T ss_pred             ----------CCcHHHHHHHHHHHHHHHHHH
Confidence                      344566666777777776643

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=97.69  E-value=6.8e-05  Score=44.86  Aligned_cols=33  Identities=36%  Similarity=0.706  Sum_probs=26.2

Q ss_pred             hHHHHHHHHHHcCCCchHHHHHHHHHHHCCCCC
Q 005487          274 VAWNALIAGYSSRGDSKSCVKLFWRMNEEGIKP  306 (694)
Q Consensus       274 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p  306 (694)
                      .+|+.++.+|.+.|+++.|.++|+.|.+.|++|
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            467888888888888888888888888877776

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.64  E-value=0.068  Score=51.56  Aligned_cols=109  Identities=17%  Similarity=0.170  Sum_probs=76.4

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHhhCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCC
Q 005487          446 VMGALLDMYAKCGAVDEAFKVFNELPERDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGW  525 (694)
Q Consensus       446 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~  525 (694)
                      +.+..+.-+...|+...|.++-.+..-|+...|...+.+++..++|++-..+...      +-.+..|...+.+|.+.|+
T Consensus       179 Sl~~Ti~~li~~~~~k~A~kl~k~Fkv~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~~~~~  252 (319)
T PF04840_consen  179 SLNDTIRKLIEMGQEKQAEKLKKEFKVPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACLKYGN  252 (319)
T ss_pred             CHHHHHHHHHHCCCHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHHHCCC
Confidence            3444555666778888888888777778888888888888888888776654321      2245777788888888888


Q ss_pred             HHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHHHHHHHHh
Q 005487          526 VDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQS  571 (694)
Q Consensus       526 ~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~  571 (694)
                      ..+|..+..++.      +     ..-+..|.+.|++.+|.+.--+
T Consensus       253 ~~eA~~yI~k~~------~-----~~rv~~y~~~~~~~~A~~~A~~  287 (319)
T PF04840_consen  253 KKEASKYIPKIP------D-----EERVEMYLKCGDYKEAAQEAFK  287 (319)
T ss_pred             HHHHHHHHHhCC------h-----HHHHHHHHHCCCHHHHHHHHHH
Confidence            888887777632      1     3346677788888777665444

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

>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A

Probab=97.63  E-value=4.3e-05  Score=54.89  Aligned_cols=56  Identities=20%  Similarity=0.175  Sum_probs=32.3

Q ss_pred             ccCCHHHHHHHHHHhHHhcCCCC-ChHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCCHH
Q 005487          522 HAGWVDEGGYYFNLMISEYNIQP-RNEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAG  580 (694)
Q Consensus       522 ~~g~~~~A~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~  580 (694)
                      +.|++++|+.+|+.+...   .| +......++.+|.+.|++++|.++++++....|+..
T Consensus         3 ~~~~~~~A~~~~~~~l~~---~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~   59 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQR---NPDNPEARLLLAQCYLKQGQYDEAEELLERLLKQDPDNP   59 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHH---TTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGGTTHH
T ss_pred             hccCHHHHHHHHHHHHHH---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCHH
Confidence            456666666666666532   23 344555566666666666666666666665555533

...

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.61  E-value=0.00097  Score=62.17  Aligned_cols=91  Identities=19%  Similarity=0.245  Sum_probs=42.1

Q ss_pred             HhcCCHHHHHHHHHHHHHcCCCCCH----hhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCC-hHHHHHHHHHhhhcC
Q 005487          486 GSHGRALEALKLFGEMQQSNARPDS----ITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPR-NEHYSCLIDLLGRAG  560 (694)
Q Consensus       486 ~~~~~~~~A~~~~~~~~~~~~~p~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g  560 (694)
                      .+.|++++|...|+.+++.  .|+.    ..+..+..+|...|++++|...|+.+.+.+...|. ...+..++.++...|
T Consensus       154 ~~~~~y~~Ai~af~~fl~~--yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~~~~~~g  231 (263)
T PRK10803        154 QDKSRQDDAIVAFQNFVKK--YPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGVIMQDKG  231 (263)
T ss_pred             HhcCCHHHHHHHHHHHHHH--CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHHHHHHcC
Confidence            3345555555555555543  2322    34444444555555555555555555433222222 223444444555555


Q ss_pred             CHHHHHHHHHhCCCCCCC
Q 005487          561 RLQEAYGILQSTPEIRED  578 (694)
Q Consensus       561 ~~~~A~~~~~~~~~~~p~  578 (694)
                      +.++|...|+++.+..|+
T Consensus       232 ~~~~A~~~~~~vi~~yP~  249 (263)
T PRK10803        232 DTAKAKAVYQQVIKKYPG  249 (263)
T ss_pred             CHHHHHHHHHHHHHHCcC
Confidence            555555555554443343

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.58  E-value=0.086  Score=51.29  Aligned_cols=189  Identities=14%  Similarity=0.084  Sum_probs=104.5

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHhhCCC--CChHH-------HHHHHHHHH----hcCCHHHHHHHHHHHHHcCCCCCHh
Q 005487          445 IVMGALLDMYAKCGAVDEAFKVFNELPE--RDLVS-------WTSMIAAYG----SHGRALEALKLFGEMQQSNARPDSI  511 (694)
Q Consensus       445 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~-------~~~l~~~~~----~~~~~~~A~~~~~~~~~~~~~p~~~  511 (694)
                      .++..++....+.++...|.+.+.-+..  |+...       -..+-...+    ..-+...=+.+|+.....++.. ..
T Consensus       299 ~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~ldp~~svs~Kllls~~~lq~Iv~~DD~~~Tklr~yL~lwe~~qs~DiDr-qQ  377 (549)
T PF07079_consen  299 DRFGNLLSFKVKQVQTEEAKQYLALLKILDPRISVSEKLLLSPKVLQDIVCEDDESYTKLRDYLNLWEEIQSYDIDR-QQ  377 (549)
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHHhcCCcchhhhhhhcCHHHHHHHHhcchHHHHHHHHHHHHHHHHHhhcccH-HH
Confidence            3455555666666777777666654443  22110       011111111    1112233455666666653221 22


Q ss_pred             hHHHHHH---HHHccCC-HHHHHHHHHHhHHhcCCCCC-hHHHHH----HHHHhhhcC---CHHHH---HHHHHhCCCCC
Q 005487          512 TFLALLS---ACSHAGW-VDEGGYYFNLMISEYNIQPR-NEHYSC----LIDLLGRAG---RLQEA---YGILQSTPEIR  576 (694)
Q Consensus       512 ~~~~l~~---~~~~~g~-~~~A~~~~~~~~~~~~~~p~-~~~~~~----l~~~~~~~g---~~~~A---~~~~~~~~~~~  576 (694)
                      ....|+.   -+.+.|. -++|+++++.+.+   +.|. ...-+.    +=..|..+=   .+.+-   ...+++.- +.
T Consensus       378 Lvh~L~~~Ak~lW~~g~~dekalnLLk~il~---ft~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~g-l~  453 (549)
T PF07079_consen  378 LVHYLVFGAKHLWEIGQCDEKALNLLKLILQ---FTNYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEVG-LT  453 (549)
T ss_pred             HHHHHHHHHHHHHhcCCccHHHHHHHHHHHH---hccccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcC-CC
Confidence            2223332   4566666 7788899888873   3332 222111    112222111   11111   11111211 33


Q ss_pred             C----CHHHHHHHHHH--HHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHHH
Q 005487          577 E----DAGLLSTLFSA--CRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKM  639 (694)
Q Consensus       577 p----~~~~~~~l~~~--~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  639 (694)
                      |    +...-+.+..+  +..+|++.++.-.-.=+.+..| ++.+|..+|-++....++++|..++..+
T Consensus       454 ~i~i~e~eian~LaDAEyLysqgey~kc~~ys~WL~~iaP-S~~~~RLlGl~l~e~k~Y~eA~~~l~~L  521 (549)
T PF07079_consen  454 PITISEEEIANFLADAEYLYSQGEYHKCYLYSSWLTKIAP-SPQAYRLLGLCLMENKRYQEAWEYLQKL  521 (549)
T ss_pred             cccccHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCC-cHHHHHHHHHHHHHHhhHHHHHHHHHhC
Confidence            3    34456666665  5678999999998888889999 9999999999999999999999999864

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=97.57  E-value=0.011  Score=55.90  Aligned_cols=213  Identities=13%  Similarity=0.081  Sum_probs=127.7

Q ss_pred             cccCChHHHHHHHHHHHHhCCCCChhHHHHHHHH--HHhcCChHHHHHHHhhCCC-CChH--HHHHHHHHHHhcCCHHHH
Q 005487          420 SQLAALEKGKEIHNHIIESKLETNEIVMGALLDM--YAKCGAVDEAFKVFNELPE-RDLV--SWTSMIAAYGSHGRALEA  494 (694)
Q Consensus       420 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~g~~~~A~~~~~~~~~-~~~~--~~~~l~~~~~~~~~~~~A  494 (694)
                      .-.||-..|.+.-.+..+. +..|..-.-.++.+  -.-.|+++.|.+-|+.|.. |...  ....|.-.-.+.|+.+.|
T Consensus        95 agAGda~lARkmt~~~~~l-lssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~dPEtRllGLRgLyleAqr~GareaA  173 (531)
T COG3898          95 AGAGDASLARKMTARASKL-LSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLDDPETRLLGLRGLYLEAQRLGAREAA  173 (531)
T ss_pred             hccCchHHHHHHHHHHHhh-hhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhcChHHHHHhHHHHHHHHHhcccHHHH
Confidence            3467777777766654321 12222222223322  2346888888888888887 4332  334444445677888888


Q ss_pred             HHHHHHHHHcCCCCC-HhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHH--HHH--HHHhhh-cCCHHHHHHH
Q 005487          495 LKLFGEMQQSNARPD-SITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHY--SCL--IDLLGR-AGRLQEAYGI  568 (694)
Q Consensus       495 ~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~--~~l--~~~~~~-~g~~~~A~~~  568 (694)
                      ..+-++....  .|. .......+...+..|+|+.|+++.+.-....-+.++..--  ..|  ..+... .-+...|...
T Consensus       174 r~yAe~Aa~~--Ap~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~  251 (531)
T COG3898         174 RHYAERAAEK--APQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDD  251 (531)
T ss_pred             HHHHHHHHhh--ccCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHH
Confidence            8888877764  344 5677777888888888888888888777655566663211  111  111111 1246667776


Q ss_pred             HHhCCCCCCCH-HHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHHHH
Q 005487          569 LQSTPEIREDA-GLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMK  640 (694)
Q Consensus       569 ~~~~~~~~p~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  640 (694)
                      -.+..++.|+. ........++.+.|++.++-.+++.+.+..|. |.    +..+|....--|.++.-+++..
T Consensus       252 A~~a~KL~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~ePH-P~----ia~lY~~ar~gdta~dRlkRa~  319 (531)
T COG3898         252 ALEANKLAPDLVPAAVVAARALFRDGNLRKGSKILETAWKAEPH-PD----IALLYVRARSGDTALDRLKRAK  319 (531)
T ss_pred             HHHHhhcCCccchHHHHHHHHHHhccchhhhhhHHHHHHhcCCC-hH----HHHHHHHhcCCCcHHHHHHHHH
Confidence            66666677764 33444556777888888888888888887773 22    3334444433344555454443

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.56  E-value=0.022  Score=54.50  Aligned_cols=153  Identities=11%  Similarity=-0.009  Sum_probs=86.1

Q ss_pred             cccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCCCChH---------------HHHHHHHH
Q 005487          420 SQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPERDLV---------------SWTSMIAA  484 (694)
Q Consensus       420 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~---------------~~~~l~~~  484 (694)
                      ...++.+.|.++--.+.+.+ +.+......-..++--.++.+.|...|++.+..++.               .|..-..-
T Consensus       180 ~~~~~~~~a~~ea~~ilkld-~~n~~al~vrg~~~yy~~~~~ka~~hf~qal~ldpdh~~sk~~~~~~k~le~~k~~gN~  258 (486)
T KOG0550|consen  180 AFLGDYDEAQSEAIDILKLD-ATNAEALYVRGLCLYYNDNADKAINHFQQALRLDPDHQKSKSASMMPKKLEVKKERGND  258 (486)
T ss_pred             hhcccchhHHHHHHHHHhcc-cchhHHHHhcccccccccchHHHHHHHhhhhccChhhhhHHhHhhhHHHHHHHHhhhhh
Confidence            34555555555544444432 111111111122233445666666666665552221               12222333


Q ss_pred             HHhcCCHHHHHHHHHHHHHcC---CCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCC-hHHHHHHHHHhhhcC
Q 005487          485 YGSHGRALEALKLFGEMQQSN---ARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPR-NEHYSCLIDLLGRAG  560 (694)
Q Consensus       485 ~~~~~~~~~A~~~~~~~~~~~---~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g  560 (694)
                      ..+.|.+..|.+.|.+.+...   ..|+...|.....+..+.|+.++|+.-.+...   .+.|. ...|..-++++.-.+
T Consensus       259 ~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al---~iD~syikall~ra~c~l~le  335 (486)
T KOG0550|consen  259 AFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEAL---KIDSSYIKALLRRANCHLALE  335 (486)
T ss_pred             HhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhh---hcCHHHHHHHHHHHHHHHHHH
Confidence            556777888888887777642   23344556666667777788888887777776   44444 335555566777777


Q ss_pred             CHHHHHHHHHhCCCCC
Q 005487          561 RLQEAYGILQSTPEIR  576 (694)
Q Consensus       561 ~~~~A~~~~~~~~~~~  576 (694)
                      ++++|.+-++++.+..
T Consensus       336 ~~e~AV~d~~~a~q~~  351 (486)
T KOG0550|consen  336 KWEEAVEDYEKAMQLE  351 (486)
T ss_pred             HHHHHHHHHHHHHhhc
Confidence            8888888887766533

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.54  E-value=0.14  Score=52.54  Aligned_cols=150  Identities=9%  Similarity=0.109  Sum_probs=73.1

Q ss_pred             CChhHHHHHHHHHHHhCCCCchhHHHHHHHhhHhcCChHHHHHHHhcCCCCC-----hhHHHHHHHHHHcCCCchHHHHH
Q 005487          221 MDLDRGKEIHKEFIKDGFVSDSYISSALVDMYGKCGCLEMAREVFEQTVLKS-----VVAWNALIAGYSSRGDSKSCVKL  295 (694)
Q Consensus       221 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-----~~~~~~li~~~~~~~~~~~a~~~  295 (694)
                      |++++|++++-++-++.         .-+..+.+.|++-....+++.-...+     ..+|+.+...+.....|++|.+.
T Consensus       748 g~feeaek~yld~drrD---------LAielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~y  818 (1189)
T KOG2041|consen  748 GEFEEAEKLYLDADRRD---------LAIELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKY  818 (1189)
T ss_pred             cchhHhhhhhhccchhh---------hhHHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            56666666665554432         23445556666666666665432221     24566666666666666666666


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHhhccCChhhhHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCChh
Q 005487          296 FWRMNEEGIKPTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAENVFEKMSKTDVV  375 (694)
Q Consensus       296 ~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~  375 (694)
                      |..-...         ...+.++.+..+++..+.+-.     .++.+....-.+..++.+.|.-++|.+.|-+...|.  
T Consensus       819 Y~~~~~~---------e~~~ecly~le~f~~LE~la~-----~Lpe~s~llp~~a~mf~svGMC~qAV~a~Lr~s~pk--  882 (1189)
T KOG2041|consen  819 YSYCGDT---------ENQIECLYRLELFGELEVLAR-----TLPEDSELLPVMADMFTSVGMCDQAVEAYLRRSLPK--  882 (1189)
T ss_pred             HHhccch---------HhHHHHHHHHHhhhhHHHHHH-----hcCcccchHHHHHHHHHhhchHHHHHHHHHhccCcH--
Confidence            6543211         112223333323322222211     123344455556666666666666666554443332  


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHH
Q 005487          376 YWNVMISGYVTVGDYFKALAIYS  398 (694)
Q Consensus       376 ~~~~l~~~~~~~~~~~~A~~~~~  398 (694)
                         ..+..+...+++.+|.++-+
T Consensus       883 ---aAv~tCv~LnQW~~avelaq  902 (1189)
T KOG2041|consen  883 ---AAVHTCVELNQWGEAVELAQ  902 (1189)
T ss_pred             ---HHHHHHHHHHHHHHHHHHHH
Confidence               12334444555555555443

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.54  E-value=0.0018  Score=58.50  Aligned_cols=50  Identities=12%  Similarity=0.068  Sum_probs=38.3

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcCCCCCc---cHHHHHHHHhhcCChHHHH
Q 005487          584 TLFSACRLHRDIEMGEKIAKLLIEKDPDDSS---TYIVLSNMYASVKKWDEVR  633 (694)
Q Consensus       584 ~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~---~~~~l~~~~~~~g~~~~A~  633 (694)
                      .++..|.+.|.+..|..-++.+++.-|+.+.   +...++.+|.+.|..+.|.
T Consensus       146 ~ia~~Y~~~~~y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a~  198 (203)
T PF13525_consen  146 YIARFYYKRGKYKAAIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAAD  198 (203)
T ss_dssp             HHHHHHHCTT-HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHHH
Confidence            3456688899999999999999999998554   5666788899999888553

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.54  E-value=0.00022  Score=52.10  Aligned_cols=67  Identities=16%  Similarity=0.109  Sum_probs=53.6

Q ss_pred             HHHhhhcCCHHHHHHHHHhCCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHH
Q 005487          553 IDLLGRAGRLQEAYGILQSTPEIRED-AGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVL  619 (694)
Q Consensus       553 ~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l  619 (694)
                      ..+|.+.+++++|+++++.+.+..|+ ...|...+..+...|++++|.+.++++++..|+++......
T Consensus         2 ~~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p~~~~~~~~~   69 (73)
T PF13371_consen    2 KQIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALELSPDDPDARALR   69 (73)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCCCcHHHHHHH
Confidence            45678888999999999988887665 55677788888889999999999999999999776654443

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.54  E-value=0.0065  Score=58.20  Aligned_cols=26  Identities=23%  Similarity=0.401  Sum_probs=12.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHH
Q 005487          478 WTSMIAAYGSHGRALEALKLFGEMQQ  503 (694)
Q Consensus       478 ~~~l~~~~~~~~~~~~A~~~~~~~~~  503 (694)
                      +..++..+.+.|++++|.++|++...
T Consensus       158 ~~~~A~l~~~l~~y~~A~~~~e~~~~  183 (282)
T PF14938_consen  158 LLKAADLYARLGRYEEAIEIYEEVAK  183 (282)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            33444455555555555555555444

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.53  E-value=0.0028  Score=58.21  Aligned_cols=115  Identities=17%  Similarity=0.066  Sum_probs=86.5

Q ss_pred             HHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcC---CHHHHHHHHHhCC
Q 005487          497 LFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAG---RLQEAYGILQSTP  573 (694)
Q Consensus       497 ~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~  573 (694)
                      -++.-...+ +-|...|..|...|...|+.+.|...|.+..+-.  .+++..+..++.++..+.   ...++..+++++.
T Consensus       144 ~Le~~L~~n-P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~--g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al  220 (287)
T COG4235         144 RLETHLQQN-PGDAEGWDLLGRAYMALGRASDALLAYRNALRLA--GDNPEILLGLAEALYYQAGQQMTAKARALLRQAL  220 (287)
T ss_pred             HHHHHHHhC-CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHH
Confidence            334334432 4567899999999999999999999999988322  234556667777665433   4678899999988


Q ss_pred             CCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCc
Q 005487          574 EIRED-AGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSS  614 (694)
Q Consensus       574 ~~~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~  614 (694)
                      +.+|+ ......++..+...|++.+|...++.+++..|.+..
T Consensus       221 ~~D~~~iral~lLA~~afe~g~~~~A~~~Wq~lL~~lp~~~~  262 (287)
T COG4235         221 ALDPANIRALSLLAFAAFEQGDYAEAAAAWQMLLDLLPADDP  262 (287)
T ss_pred             hcCCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcCCCCCc
Confidence            87775 456777778899999999999999999999886543

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.53  E-value=0.0031  Score=60.36  Aligned_cols=158  Identities=16%  Similarity=0.154  Sum_probs=95.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHH----cCCCCC--HhhHHHHHHHHHcc-CCHHHHHHHHHHhHHhcCCCCC----h
Q 005487          478 WTSMIAAYGSHGRALEALKLFGEMQQ----SNARPD--SITFLALLSACSHA-GWVDEGGYYFNLMISEYNIQPR----N  546 (694)
Q Consensus       478 ~~~l~~~~~~~~~~~~A~~~~~~~~~----~~~~p~--~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~~~~~p~----~  546 (694)
                      |......|.+. ++++|+..+++...    .| .|+  ...+..+...|... |++++|++.|+++..-+.....    .
T Consensus        78 ~~~Aa~~~k~~-~~~~Ai~~~~~A~~~y~~~G-~~~~aA~~~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~  155 (282)
T PF14938_consen   78 YEEAANCYKKG-DPDEAIECYEKAIEIYREAG-RFSQAAKCLKELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAA  155 (282)
T ss_dssp             HHHHHHHHHHT-THHHHHHHHHHHHHHHHHCT--HHHHHHHHHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             HHHHHHHHHhh-CHHHHHHHHHHHHHHHHhcC-cHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHH
Confidence            33444444443 77777777766553    23 333  24566667778888 8999999999988753322222    3


Q ss_pred             HHHHHHHHHhhhcCCHHHHHHHHHhCCCC--C-C----CH-HHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcc---
Q 005487          547 EHYSCLIDLLGRAGRLQEAYGILQSTPEI--R-E----DA-GLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSST---  615 (694)
Q Consensus       547 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~-p----~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~---  615 (694)
                      ..+..++..+.+.|++++|+++|+++...  . +    +. ..+...+..+...||...|...+++....+|.-..+   
T Consensus       156 ~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~  235 (282)
T PF14938_consen  156 ECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREY  235 (282)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHH
Confidence            46677889999999999999999985431  1 1    11 123334445667899999999999999998864443   


Q ss_pred             --HHHHHHHHhhc--CChHHHHHHHH
Q 005487          616 --YIVLSNMYASV--KKWDEVRKIRL  637 (694)
Q Consensus       616 --~~~l~~~~~~~--g~~~~A~~~~~  637 (694)
                        ...|+.++-..  ..+.+|+.-|+
T Consensus       236 ~~~~~l~~A~~~~D~e~f~~av~~~d  261 (282)
T PF14938_consen  236 KFLEDLLEAYEEGDVEAFTEAVAEYD  261 (282)
T ss_dssp             HHHHHHHHHHHTT-CCCHHHHCHHHT
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHc
Confidence              23344444332  34444544444

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=97.45  E-value=0.00018  Score=45.88  Aligned_cols=42  Identities=21%  Similarity=0.303  Sum_probs=37.6

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHH
Q 005487          580 GLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSN  621 (694)
Q Consensus       580 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~  621 (694)
                      ..|..++..+...|++++|+..++++++.+|+|+.++..|+.
T Consensus         2 ~~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~~~~a~~~La~   43 (44)
T PF13428_consen    2 AAWLALARAYRRLGQPDEAERLLRRALALDPDDPEAWRALAQ   43 (44)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCHHHHHHhhh
Confidence            457788899999999999999999999999999999988875

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=97.43  E-value=0.00059  Score=66.65  Aligned_cols=65  Identities=9%  Similarity=-0.089  Sum_probs=46.7

Q ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcc---HHHHHHHHhhcCChHHHHHHHHHHHhC
Q 005487          578 DAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSST---YIVLSNMYASVKKWDEVRKIRLKMKEL  642 (694)
Q Consensus       578 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~---~~~l~~~~~~~g~~~~A~~~~~~~~~~  642 (694)
                      +...+..++.++...|++++|+..++++++++|+++.+   |++++.+|..+|+.++|++.++++.+.
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            35667777777777777777777777777777777643   777777777777777777777776664

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.43  E-value=0.0016  Score=64.44  Aligned_cols=118  Identities=8%  Similarity=0.092  Sum_probs=93.5

Q ss_pred             CCchhHHHHHHHhhhcCCChHHHHHHhccCCC-C-----CcccHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCChhhHH
Q 005487          138 LLDVVIASSTAGMYAKCNSFECAVKMFDEMSE-R-----DVASWNTVISCYYQDGQAEKALELFKKMRGSGFQPNSVTLT  211 (694)
Q Consensus       138 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~-----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~  211 (694)
                      +.+......+++.+....+++.+..++-+.+. +     -+.+..++++.|...|..+.++.++..=...|+-||..|++
T Consensus        63 ~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n  142 (429)
T PF10037_consen   63 PVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFN  142 (429)
T ss_pred             CCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHH
Confidence            34444555566666667777778777776654 1     23456799999999999999999999999999999999999


Q ss_pred             HHHHHHhccCChhHHHHHHHHHHHhCCCCchhHHHHHHHhhHhc
Q 005487          212 TVISSCARLMDLDRGKEIHKEFIKDGFVSDSYISSALVDMYGKC  255 (694)
Q Consensus       212 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  255 (694)
                      .+|..+.+.|++..|.++...|..++...+..|+..-+.+|.+.
T Consensus       143 ~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  143 LLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            99999999999999999999999888777777776666655544

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=97.41  E-value=0.00023  Score=41.41  Aligned_cols=29  Identities=48%  Similarity=0.800  Sum_probs=21.3

Q ss_pred             cHHHHHHHHHhCCChhHHHHHHHHHHhCC
Q 005487          174 SWNTVISCYYQDGQAEKALELFKKMRGSG  202 (694)
Q Consensus       174 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~  202 (694)
                      +||.++.+|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            57777777777777777777777777665

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.

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.41  E-value=0.0013  Score=62.73  Aligned_cols=132  Identities=11%  Similarity=0.094  Sum_probs=103.3

Q ss_pred             hhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhh-cCCHHHHHHHHHhCCC-CCCCHHHHHHHHHH
Q 005487          511 ITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGR-AGRLQEAYGILQSTPE-IREDAGLLSTLFSA  588 (694)
Q Consensus       511 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~-~g~~~~A~~~~~~~~~-~~p~~~~~~~l~~~  588 (694)
                      .+|..++....+.+..+.|..+|.++.+.  -..+..+|...+..-.+ .++.+.|..+|+.+.+ +..+...|...+..
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~--~~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~f~~~~~~~~~Y~~~   79 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKD--KRCTYHVYVAYALMEYYCNKDPKRARKIFERGLKKFPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCC--CCS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcC--CCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHH
Confidence            46778888888888899999999999832  12345567666666444 5677779999999776 55677899999999


Q ss_pred             HHHcCCHHHHHHHHHHHHhcCCCCC---ccHHHHHHHHhhcCChHHHHHHHHHHHhCCC
Q 005487          589 CRLHRDIEMGEKIAKLLIEKDPDDS---STYIVLSNMYASVKKWDEVRKIRLKMKELGL  644 (694)
Q Consensus       589 ~~~~~~~~~A~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  644 (694)
                      +...++.+.|..+|++++..-|.+.   ..|...+..-.+.|+.+.+.++.+++.+.-.
T Consensus        80 l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~~~  138 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEELFP  138 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHTT
T ss_pred             HHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhh
Confidence            9999999999999999998877654   5788899989999999999999988876543

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.

>PRK11906 transcriptional regulator; Provisional

Probab=97.38  E-value=0.0026  Score=62.36  Aligned_cols=146  Identities=10%  Similarity=0.073  Sum_probs=96.1

Q ss_pred             CHHHHHHHHHHHHHc-CCCCC-HhhHHHHHHHHHcc---------CCHHHHHHHHHHhHHhcCCCC-ChHHHHHHHHHhh
Q 005487          490 RALEALKLFGEMQQS-NARPD-SITFLALLSACSHA---------GWVDEGGYYFNLMISEYNIQP-RNEHYSCLIDLLG  557 (694)
Q Consensus       490 ~~~~A~~~~~~~~~~-~~~p~-~~~~~~l~~~~~~~---------g~~~~A~~~~~~~~~~~~~~p-~~~~~~~l~~~~~  557 (694)
                      ..+.|+.+|.+.... .+.|+ ...|..+..++...         ....+|.++-++..   .+.| |+.....++.++.
T Consensus       273 ~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAv---eld~~Da~a~~~~g~~~~  349 (458)
T PRK11906        273 SIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVS---DITTVDGKILAIMGLITG  349 (458)
T ss_pred             HHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHH---hcCCCCHHHHHHHHHHHH
Confidence            456788888888821 24565 46666666654432         23445556666665   3444 3556677777777


Q ss_pred             hcCCHHHHHHHHHhCCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHH-HhhcCChHHHHHH
Q 005487          558 RAGRLQEAYGILQSTPEIRED-AGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNM-YASVKKWDEVRKI  635 (694)
Q Consensus       558 ~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~-~~~~g~~~~A~~~  635 (694)
                      -.|+++.|..+|+++....|+ ...|...+..+...|+.++|.+.++++++++|.-..+-..-.++ .+-....++|+++
T Consensus       350 ~~~~~~~a~~~f~rA~~L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~~~~~~~~~~~~~~~~~~~~~~~~~  429 (458)
T PRK11906        350 LSGQAKVSHILFEQAKIHSTDIASLYYYRALVHFHNEKIEEARICIDKSLQLEPRRRKAVVIKECVDMYVPNPLKNNIKL  429 (458)
T ss_pred             hhcchhhHHHHHHHHhhcCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCchhhHHHHHHHHHHHHcCCchhhhHHH
Confidence            788888888888888877776 45677777777788888888888888888888755544333333 3333446677776


Q ss_pred             HHH
Q 005487          636 RLK  638 (694)
Q Consensus       636 ~~~  638 (694)
                      +-+
T Consensus       430 ~~~  432 (458)
T PRK11906        430 YYK  432 (458)
T ss_pred             Hhh
Confidence            653

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.37  E-value=0.054  Score=54.82  Aligned_cols=270  Identities=14%  Similarity=0.048  Sum_probs=134.5

Q ss_pred             CCchhhhHHHHHHhcCCChhHHHHHHhhCCCCC-chhhHHHHHHHHHccCChhHHHHHHHHhhhCCCCCCCcccHHHHHH
Q 005487           36 NNIALCKSLINLYFSCQNYDYAMLVFKTIDNPL-DLSLWNGLMASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLK  114 (694)
Q Consensus        36 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~  114 (694)
                      +-...+..-+--|...|.+++|...    .-+. +..-|..|...-...=+++-|.+.|.+.+..+        |..   
T Consensus       554 ~~evp~~~~m~q~Ieag~f~ea~~i----aclgVv~~DW~~LA~~ALeAL~f~~ARkAY~rVRdl~--------~L~---  618 (1081)
T KOG1538|consen  554 AVEVPQSAPMYQYIERGLFKEAYQI----ACLGVTDTDWRELAMEALEALDFETARKAYIRVRDLR--------YLE---  618 (1081)
T ss_pred             cccccccccchhhhhccchhhhhcc----cccceecchHHHHHHHHHhhhhhHHHHHHHHHHhccH--------HHH---
Confidence            3334444455556666666666542    2221 11135555554445555555555555554320        111   


Q ss_pred             HhhCCCCchhHHHHHHHHHHHcCCCchhHHHHHHHhhhcCCChHHHHHHhccCCCCCcccHHHHHHHHHhCCChhHHHHH
Q 005487          115 ACGGLGSVGIGKMIHTHLIKTGFLLDVVIASSTAGMYAKCNSFECAVKMFDEMSERDVASWNTVISCYYQDGQAEKALEL  194 (694)
Q Consensus       115 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~  194 (694)
                                ...-++.+.+.|..|+...   +...++-.|.+.+|-++|.+                  .|...+|+++
T Consensus       619 ----------li~EL~~~k~rge~P~~iL---lA~~~Ay~gKF~EAAklFk~------------------~G~enRAlEm  667 (1081)
T KOG1538|consen  619 ----------LISELEERKKRGETPNDLL---LADVFAYQGKFHEAAKLFKR------------------SGHENRALEM  667 (1081)
T ss_pred             ----------HHHHHHHHHhcCCCchHHH---HHHHHHhhhhHHHHHHHHHH------------------cCchhhHHHH
Confidence                      1223455666676666543   34456777888888887654                  5666667777


Q ss_pred             HHHHHhCCCCCChhhHHHHHHHHhccCChhHHHHHHHHHHHhCCCCchhHHHHHHHhhHhcCChHHHHHHHhcCCCCChh
Q 005487          195 FKKMRGSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVSDSYISSALVDMYGKCGCLEMAREVFEQTVLKSVV  274 (694)
Q Consensus       195 ~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  274 (694)
                      |..|+-.          -...-+...|+.++-..+.++-.+.  ..+..--.....++...|+.++|..+.-        
T Consensus       668 yTDlRMF----------D~aQE~~~~g~~~eKKmL~RKRA~W--Ar~~kePkaAAEmLiSaGe~~KAi~i~~--------  727 (1081)
T KOG1538|consen  668 YTDLRMF----------DYAQEFLGSGDPKEKKMLIRKRADW--ARNIKEPKAAAEMLISAGEHVKAIEICG--------  727 (1081)
T ss_pred             HHHHHHH----------HHHHHHhhcCChHHHHHHHHHHHHH--hhhcCCcHHHHHHhhcccchhhhhhhhh--------
Confidence            7766531          1223333444444443333322111  1111111234455666777777655432        


Q ss_pred             HHHHHHHHHHcCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHHhhccCChhhhHHHHHHHHHhcCCCchhHHHHHHHHHH
Q 005487          275 AWNALIAGYSSRGDSKSCVKLFWRMNEEGIKPTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYF  354 (694)
Q Consensus       275 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  354 (694)
                                ..|=.+-+.++-+++-    ..+..+...+..-+-+...+..|.++|..|-..         ..++....
T Consensus       728 ----------d~gW~d~lidI~rkld----~~ere~l~~~a~ylk~l~~~gLAaeIF~k~gD~---------ksiVqlHv  784 (1081)
T KOG1538|consen  728 ----------DHGWVDMLIDIARKLD----KAEREPLLLCATYLKKLDSPGLAAEIFLKMGDL---------KSLVQLHV  784 (1081)
T ss_pred             ----------cccHHHHHHHHHhhcc----hhhhhHHHHHHHHHhhccccchHHHHHHHhccH---------HHHhhhee
Confidence                      2222222333322221    123344444444455566666777777665332         34667777


Q ss_pred             hcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHH
Q 005487          355 KCGRVSSAENVFEKMSKTDVVYWNVMISGYVTVGDYFKAL  394 (694)
Q Consensus       355 ~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~  394 (694)
                      ..+++++|.++-++.++--...|....+-++...++++|.
T Consensus       785 e~~~W~eAFalAe~hPe~~~dVy~pyaqwLAE~DrFeEAq  824 (1081)
T KOG1538|consen  785 ETQRWDEAFALAEKHPEFKDDVYMPYAQWLAENDRFEEAQ  824 (1081)
T ss_pred             ecccchHhHhhhhhCccccccccchHHHHhhhhhhHHHHH
Confidence            7888888888888777533333333333333444444443

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.36  E-value=0.0074  Score=48.31  Aligned_cols=95  Identities=21%  Similarity=0.156  Sum_probs=65.3

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCC--HhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCC-ChHHHHHHHHH
Q 005487          479 TSMIAAYGSHGRALEALKLFGEMQQSNARPD--SITFLALLSACSHAGWVDEGGYYFNLMISEYNIQP-RNEHYSCLIDL  555 (694)
Q Consensus       479 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p-~~~~~~~l~~~  555 (694)
                      ..+..++-..|+.++|+.+|++....|+...  ...+..+...+...|++++|..+++.....+.-.+ +......++-+
T Consensus         5 ~~~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~   84 (120)
T PF12688_consen    5 YELAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALA   84 (120)
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHH
Confidence            3456677788888888888888888876544  34666777788888888888888888875432111 12233334567


Q ss_pred             hhhcCCHHHHHHHHHhCC
Q 005487          556 LGRAGRLQEAYGILQSTP  573 (694)
Q Consensus       556 ~~~~g~~~~A~~~~~~~~  573 (694)
                      +...|+.++|++.+-...
T Consensus        85 L~~~gr~~eAl~~~l~~l  102 (120)
T PF12688_consen   85 LYNLGRPKEALEWLLEAL  102 (120)
T ss_pred             HHHCCCHHHHHHHHHHHH
Confidence            778888888887776543

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.36  E-value=0.019  Score=57.88  Aligned_cols=267  Identities=15%  Similarity=0.187  Sum_probs=142.0

Q ss_pred             cccHHHHHHHHHhCCChhHHHHHH---------HHHHhCCCCCChhhHHHHHHHHhccCChhHH--HHHHHHHHHhCCCC
Q 005487          172 VASWNTVISCYYQDGQAEKALELF---------KKMRGSGFQPNSVTLTTVISSCARLMDLDRG--KEIHKEFIKDGFVS  240 (694)
Q Consensus       172 ~~~~~~li~~~~~~~~~~~a~~~~---------~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a--~~~~~~~~~~~~~~  240 (694)
                      ...+.+-+..|...|.+++|.++-         +.+...  ..+...++..-.+|.+.++..--  ..-++++.++|-.|
T Consensus       556 evp~~~~m~q~Ieag~f~ea~~iaclgVv~~DW~~LA~~--ALeAL~f~~ARkAY~rVRdl~~L~li~EL~~~k~rge~P  633 (1081)
T KOG1538|consen  556 EVPQSAPMYQYIERGLFKEAYQIACLGVTDTDWRELAME--ALEALDFETARKAYIRVRDLRYLELISELEERKKRGETP  633 (1081)
T ss_pred             cccccccchhhhhccchhhhhcccccceecchHHHHHHH--HHhhhhhHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCc
Confidence            344555566777788887776541         111111  12333445555566665554432  33356677778777


Q ss_pred             chhHHHHHHHhhHhcCChHHHHHHHhcCCCCChhHHHHHHHHHHcCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHHhhc
Q 005487          241 DSYISSALVDMYGKCGCLEMAREVFEQTVLKSVVAWNALIAGYSSRGDSKSCVKLFWRMNEEGIKPTLTTISSVLMSCSR  320 (694)
Q Consensus       241 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~  320 (694)
                      +...   +...++-.|++.+|-++|.+                  .|.-..|+++|.+|+--          ...+-+..
T Consensus       634 ~~iL---lA~~~Ay~gKF~EAAklFk~------------------~G~enRAlEmyTDlRMF----------D~aQE~~~  682 (1081)
T KOG1538|consen  634 NDLL---LADVFAYQGKFHEAAKLFKR------------------SGHENRALEMYTDLRMF----------DYAQEFLG  682 (1081)
T ss_pred             hHHH---HHHHHHhhhhHHHHHHHHHH------------------cCchhhHHHHHHHHHHH----------HHHHHHhh
Confidence            7653   45667788999999887764                  56666666666665421          11222334


Q ss_pred             cCChhhhHHHHHHHHHhcCCCchhHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHH
Q 005487          321 SGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAENVFEKMSKTDVVYWNVMISGYVTVGDYFKALAIYSDM  400 (694)
Q Consensus       321 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~m  400 (694)
                      .|..++-..+...-.+..  .+..--.+...++...|+.++|..+.                  ..+|-.+-++++-+++
T Consensus       683 ~g~~~eKKmL~RKRA~WA--r~~kePkaAAEmLiSaGe~~KAi~i~------------------~d~gW~d~lidI~rkl  742 (1081)
T KOG1538|consen  683 SGDPKEKKMLIRKRADWA--RNIKEPKAAAEMLISAGEHVKAIEIC------------------GDHGWVDMLIDIARKL  742 (1081)
T ss_pred             cCChHHHHHHHHHHHHHh--hhcCCcHHHHHHhhcccchhhhhhhh------------------hcccHHHHHHHHHhhc
Confidence            444443333332221111  01111122334445555555555442                  2223333333333322


Q ss_pred             HHcCCCCCHHHHHHHHHHHcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCC--CChH--
Q 005487          401 KEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPE--RDLV--  476 (694)
Q Consensus       401 ~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~--  476 (694)
                      -.    .+..+...+..-+-+...+..|-++|..+-..         ..++++....++|.+|..+-+..++  +|+.  
T Consensus       743 d~----~ere~l~~~a~ylk~l~~~gLAaeIF~k~gD~---------ksiVqlHve~~~W~eAFalAe~hPe~~~dVy~p  809 (1081)
T KOG1538|consen  743 DK----AEREPLLLCATYLKKLDSPGLAAEIFLKMGDL---------KSLVQLHVETQRWDEAFALAEKHPEFKDDVYMP  809 (1081)
T ss_pred             ch----hhhhHHHHHHHHHhhccccchHHHHHHHhccH---------HHHhhheeecccchHhHhhhhhCccccccccch
Confidence            21    23334444444445566666777777766432         2567777778888888888777776  3332  


Q ss_pred             ---------HHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 005487          477 ---------SWTSMIAAYGSHGRALEALKLFGEMQQS  504 (694)
Q Consensus       477 ---------~~~~l~~~~~~~~~~~~A~~~~~~~~~~  504 (694)
                               -+...=.+|.+.|+..+|..+++++...
T Consensus       810 yaqwLAE~DrFeEAqkAfhkAGr~~EA~~vLeQLtnn  846 (1081)
T KOG1538|consen  810 YAQWLAENDRFEEAQKAFHKAGRQREAVQVLEQLTNN  846 (1081)
T ss_pred             HHHHhhhhhhHHHHHHHHHHhcchHHHHHHHHHhhhh
Confidence                     1222335677778888888888877654

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.30  E-value=0.0026  Score=48.77  Aligned_cols=79  Identities=11%  Similarity=0.187  Sum_probs=65.4

Q ss_pred             HHHHHHHHhCCChhHHHHHHHHHHhCCC-CCChhhHHHHHHHHhccC--------ChhHHHHHHHHHHHhCCCCchhHHH
Q 005487          176 NTVISCYYQDGQAEKALELFKKMRGSGF-QPNSVTLTTVISSCARLM--------DLDRGKEIHKEFIKDGFVSDSYISS  246 (694)
Q Consensus       176 ~~li~~~~~~~~~~~a~~~~~~m~~~~~-~~~~~~~~~ll~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~~~  246 (694)
                      ...|..+...+++.....+|+.++..|+ .|+..+|+.++.+.++..        .+.....+++.|+..++.|+..+|+
T Consensus        29 i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYn  108 (120)
T PF08579_consen   29 IDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYN  108 (120)
T ss_pred             HHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHH
Confidence            3455566677999999999999999999 899999999999887653        2445678899999999999999999


Q ss_pred             HHHHhhHh
Q 005487          247 ALVDMYGK  254 (694)
Q Consensus       247 ~l~~~~~~  254 (694)
                      .++..+.+
T Consensus       109 ivl~~Llk  116 (120)
T PF08579_consen  109 IVLGSLLK  116 (120)
T ss_pred             HHHHHHHH
Confidence            99887654

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 [, , ].

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=97.27  E-value=0.0064  Score=49.54  Aligned_cols=97  Identities=12%  Similarity=-0.026  Sum_probs=66.0

Q ss_pred             HHHHHHHHhhhcCCHHHHHHHHHhCCCCCC----CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcc---HHHHH
Q 005487          548 HYSCLIDLLGRAGRLQEAYGILQSTPEIRE----DAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSST---YIVLS  620 (694)
Q Consensus       548 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p----~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~---~~~l~  620 (694)
                      .+..-+....+.|++++|.+.|+.+...-|    ....-..++.++...++++.|...+++.++++|.++.+   +...|
T Consensus        12 ~ly~~a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~g   91 (142)
T PF13512_consen   12 ELYQEAQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRG   91 (142)
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHH
Confidence            344455666677788888877777665333    23455677778888888888888888888888876663   44455


Q ss_pred             HHHhhcCC---------------hHHHHHHHHHHHhCCC
Q 005487          621 NMYASVKK---------------WDEVRKIRLKMKELGL  644 (694)
Q Consensus       621 ~~~~~~g~---------------~~~A~~~~~~~~~~~~  644 (694)
                      -++..+..               ..+|...|+.+....+
T Consensus        92 L~~~~~~~~~~~~~~~~drD~~~~~~A~~~f~~lv~~yP  130 (142)
T PF13512_consen   92 LSYYEQDEGSLQSFFRSDRDPTPARQAFRDFEQLVRRYP  130 (142)
T ss_pred             HHHHHHhhhHHhhhcccccCcHHHHHHHHHHHHHHHHCc
Confidence            55666554               6677777777776554

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.24  E-value=0.14  Score=47.45  Aligned_cols=59  Identities=12%  Similarity=0.109  Sum_probs=37.9

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHHcCCCCCHH-H---HHHHHHHHcccCChHHHHHHHHHHHHhC
Q 005487          379 VMISGYVTVGDYFKALAIYSDMKEVGAKPDAV-T---FTSVLPACSQLAALEKGKEIHNHIIESK  439 (694)
Q Consensus       379 ~l~~~~~~~~~~~~A~~~~~~m~~~g~~p~~~-~---~~~ll~~~~~~~~~~~a~~~~~~~~~~~  439 (694)
                      .....+...|++++|...|+++...  .|+.. .   ...+..++.+.++++.|...+++.++..
T Consensus        37 ~~A~~~~~~g~y~~Ai~~f~~l~~~--yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~   99 (243)
T PRK10866         37 ATAQQKLQDGNWKQAITQLEALDNR--YPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLN   99 (243)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC
Confidence            3445556678888888888888775  23322 1   1344556677777777777777776654

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.22  E-value=0.00043  Score=40.20  Aligned_cols=30  Identities=37%  Similarity=0.716  Sum_probs=22.4

Q ss_pred             HHHHHHHHHHcCCCchHHHHHHHHHHHCCC
Q 005487          275 AWNALIAGYSSRGDSKSCVKLFWRMNEEGI  304 (694)
Q Consensus       275 ~~~~li~~~~~~~~~~~a~~~~~~m~~~g~  304 (694)
                      +|+.++++|++.|++++|.++|++|.+.|+
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            577777777777777777777777777653

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.

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.21  E-value=0.0058  Score=54.42  Aligned_cols=133  Identities=11%  Similarity=0.020  Sum_probs=67.2

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcC----CCCChHHHHHHHH
Q 005487          479 TSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYN----IQPRNEHYSCLID  554 (694)
Q Consensus       479 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~----~~p~~~~~~~l~~  554 (694)
                      +.++..+.-.|.+.-.+..+.+.++...+-++.....+++.-.+.|+.+.|..+|+...+..+    +.-..........
T Consensus       181 y~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a~  260 (366)
T KOG2796|consen  181 YSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSAF  260 (366)
T ss_pred             HHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhhh
Confidence            344445555566666666666666654333455566666666666666666666665543222    1111222223333


Q ss_pred             HhhhcCCHHHHHHHHHhCCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC
Q 005487          555 LLGRAGRLQEAYGILQSTPEIRE-DAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPD  611 (694)
Q Consensus       555 ~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~  611 (694)
                      .+.-++++.+|...+.+++..+| ++...+.-+-...-.|+...|+..++.+++..|.
T Consensus       261 i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~~P~  318 (366)
T KOG2796|consen  261 LHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQQDPR  318 (366)
T ss_pred             heecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhccCCc
Confidence            44445555555555555554333 2333333333333345555555555555555554

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.19  E-value=0.03  Score=54.39  Aligned_cols=160  Identities=21%  Similarity=0.129  Sum_probs=83.6

Q ss_pred             HHHHHHhcCChHHHHHHHhhCCC-C------ChHHHHHHHHHHHh---cCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHH
Q 005487          450 LLDMYAKCGAVDEAFKVFNELPE-R------DLVSWTSMIAAYGS---HGRALEALKLFGEMQQSNARPDSITFLALLSA  519 (694)
Q Consensus       450 l~~~~~~~g~~~~A~~~~~~~~~-~------~~~~~~~l~~~~~~---~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~  519 (694)
                      ++-.|-...+++..+++.+.+.. |      .+..-...+-++.+   .|+.++|+.++..+....-.+++.++..+.+.
T Consensus       147 lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL~GRI  226 (374)
T PF13281_consen  147 LLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGLLGRI  226 (374)
T ss_pred             HHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHHHHHH
Confidence            33344455555555555555444 1      11122223334444   56666666666664443335555565555554


Q ss_pred             HHc---------cCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHH----HHHHH---HhCC----CCCCCH
Q 005487          520 CSH---------AGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQE----AYGIL---QSTP----EIREDA  579 (694)
Q Consensus       520 ~~~---------~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~----A~~~~---~~~~----~~~p~~  579 (694)
                      |-.         ....++|+..|.+.-   .+.|+..+--.++.++.-.|...+    ..++-   ....    ...+..
T Consensus       227 yKD~~~~s~~~d~~~ldkAi~~Y~kgF---e~~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~~~~  303 (374)
T PF13281_consen  227 YKDLFLESNFTDRESLDKAIEWYRKGF---EIEPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLEKMQ  303 (374)
T ss_pred             HHHHHHHcCccchHHHHHHHHHHHHHH---cCCccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhccccccc
Confidence            321         123667777777655   455654433333444444443221    11211   1100    023333


Q ss_pred             H--HHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCC
Q 005487          580 G--LLSTLFSACRLHRDIEMGEKIAKLLIEKDPDD  612 (694)
Q Consensus       580 ~--~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~  612 (694)
                      .  .+.+++.++.-.||+++|.+.+++++++.|+.
T Consensus       304 dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~~~~  338 (374)
T PF13281_consen  304 DYWDVATLLEASVLAGDYEKAIQAAEKAFKLKPPA  338 (374)
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCcc
Confidence            3  34577888888999999999999999987653

>PRK11906 transcriptional regulator; Provisional

Probab=97.18  E-value=0.032  Score=55.05  Aligned_cols=141  Identities=11%  Similarity=0.051  Sum_probs=80.8

Q ss_pred             ChHHHHHHHhhCC---CCC---hHHHHHHHHHHHhc---------CCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcc
Q 005487          459 AVDEAFKVFNELP---ERD---LVSWTSMIAAYGSH---------GRALEALKLFGEMQQSNARPDSITFLALLSACSHA  523 (694)
Q Consensus       459 ~~~~A~~~~~~~~---~~~---~~~~~~l~~~~~~~---------~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  523 (694)
                      ..+.|..+|.+..   ..|   ...|..+..++...         .+..+|.+..++..+.+ +.|+.....+..+....
T Consensus       273 ~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAveld-~~Da~a~~~~g~~~~~~  351 (458)
T PRK11906        273 SIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSDIT-TVDGKILAIMGLITGLS  351 (458)
T ss_pred             HHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHhh
Confidence            3456677777666   322   23444444333221         23445666666666654 44566666666666666


Q ss_pred             CCHHHHHHHHHHhHHhcCCCCC-hHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCCH---HHHHHHHHHHHHcCCHHHHH
Q 005487          524 GWVDEGGYYFNLMISEYNIQPR-NEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDA---GLLSTLFSACRLHRDIEMGE  599 (694)
Q Consensus       524 g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~---~~~~~l~~~~~~~~~~~~A~  599 (694)
                      ++++.|...|+++.   .+.|+ ...|...+....-.|+.++|.+.++++.+..|.-   .+....+..|. ..-.+.|+
T Consensus       352 ~~~~~a~~~f~rA~---~L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~~~~~~~~~~~~~~~-~~~~~~~~  427 (458)
T PRK11906        352 GQAKVSHILFEQAK---IHSTDIASLYYYRALVHFHNEKIEEARICIDKSLQLEPRRRKAVVIKECVDMYV-PNPLKNNI  427 (458)
T ss_pred             cchhhHHHHHHHHh---hcCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCchhhHHHHHHHHHHHHc-CCchhhhH
Confidence            67777777777776   55666 3456666666667777777777777766666643   22222232333 33455555


Q ss_pred             HHHHH
Q 005487          600 KIAKL  604 (694)
Q Consensus       600 ~~~~~  604 (694)
                      .++-+
T Consensus       428 ~~~~~  432 (458)
T PRK11906        428 KLYYK  432 (458)
T ss_pred             HHHhh
Confidence            55544

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=97.17  E-value=0.35  Score=49.20  Aligned_cols=182  Identities=19%  Similarity=0.159  Sum_probs=123.1

Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHhhCCCCC---hHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHH
Q 005487          443 NEIVMGALLDMYAKCGAVDEAFKVFNELPERD---LVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSA  519 (694)
Q Consensus       443 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~  519 (694)
                      ....|...+.--.+.|+.+...-+|+...-|-   ...|-..++-....|+.+.|..++....+--++..+.+...-..-
T Consensus       296 ql~nw~~yLdf~i~~g~~~~~~~l~ercli~cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k~~~~i~L~~a~f  375 (577)
T KOG1258|consen  296 QLKNWRYYLDFEITLGDFSRVFILFERCLIPCALYDEFWIKYARWMESSGDVSLANNVLARACKIHVKKTPIIHLLEARF  375 (577)
T ss_pred             HHHHHHHHhhhhhhcccHHHHHHHHHHHHhHHhhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCCCCcHHHHHHHHH
Confidence            34566667777778888888888888877632   235555555555568888888888777665433333333333334


Q ss_pred             HHccCCHHHHHHHHHHhHHhcCCCCChH-HHHHHHHHhhhcCCHHHHH---HHHHhCCCCCCCHHHHHHH----HHH-HH
Q 005487          520 CSHAGWVDEGGYYFNLMISEYNIQPRNE-HYSCLIDLLGRAGRLQEAY---GILQSTPEIREDAGLLSTL----FSA-CR  590 (694)
Q Consensus       520 ~~~~g~~~~A~~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~g~~~~A~---~~~~~~~~~~p~~~~~~~l----~~~-~~  590 (694)
                      +...|+++.|..+++.+..+.   |+.. .-..-+....+.|..+.+.   +++........+..+...+    .+. +.
T Consensus       376 ~e~~~n~~~A~~~lq~i~~e~---pg~v~~~l~~~~~e~r~~~~~~~~~~~~l~s~~~~~~~~~~i~~~l~~~~~r~~~~  452 (577)
T KOG1258|consen  376 EESNGNFDDAKVILQRIESEY---PGLVEVVLRKINWERRKGNLEDANYKNELYSSIYEGKENNGILEKLYVKFARLRYK  452 (577)
T ss_pred             HHhhccHHHHHHHHHHHHhhC---CchhhhHHHHHhHHHHhcchhhhhHHHHHHHHhcccccCcchhHHHHHHHHHHHHH
Confidence            556689999999999998543   6533 3334456677888888888   6666555444443333322    222 34


Q ss_pred             HcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcC
Q 005487          591 LHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVK  627 (694)
Q Consensus       591 ~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  627 (694)
                      -.++.+.|..++.++.+..|++...|..+.+....++
T Consensus       453 i~~d~~~a~~~l~~~~~~~~~~k~~~~~~~~~~~~~~  489 (577)
T KOG1258|consen  453 IREDADLARIILLEANDILPDCKVLYLELIRFELIQP  489 (577)
T ss_pred             HhcCHHHHHHHHHHhhhcCCccHHHHHHHHHHHHhCC
Confidence            4689999999999999999999999999988877765

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.15  E-value=0.01  Score=58.80  Aligned_cols=119  Identities=15%  Similarity=0.127  Sum_probs=79.6

Q ss_pred             CCCCHHHHHHHHHHHcccCChHHHHHHHHHHHHh--CCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCC----CChHHH
Q 005487          405 AKPDAVTFTSVLPACSQLAALEKGKEIHNHIIES--KLETNEIVMGALLDMYAKCGAVDEAFKVFNELPE----RDLVSW  478 (694)
Q Consensus       405 ~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~~~~  478 (694)
                      .+.+...+..++..+....+++.+..++-+....  ....-..+..++++.|...|..+.++.+++.=..    ||..++
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            3456666677777777777777777776666543  2222334445777777777777777777766544    777777


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHcc
Q 005487          479 TSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHA  523 (694)
Q Consensus       479 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  523 (694)
                      +.|+..+.+.|++..|.++...|...+...++.|+...+.+|.+-
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            777777777777777777777777666556666665555555443

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 [].

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.12  E-value=0.0058  Score=46.90  Aligned_cols=78  Identities=18%  Similarity=0.202  Sum_probs=64.3

Q ss_pred             HHHHHHHcCCCchHHHHHHHHHHHCCC-CCCHHHHHHHHHHhhccC--------ChhhhHHHHHHHHHhcCCCchhHHHH
Q 005487          278 ALIAGYSSRGDSKSCVKLFWRMNEEGI-KPTLTTISSVLMSCSRSG--------QLKHGKVMHGYIIRNKIQGDVFINSS  348 (694)
Q Consensus       278 ~li~~~~~~~~~~~a~~~~~~m~~~g~-~p~~~~~~~ll~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~~~~  348 (694)
                      ..|..+...+++.....+|+.+++.|+ .|+..+|+.++.+.++..        .+-....+++.|...+++|+..+|+.
T Consensus        30 ~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etYni  109 (120)
T PF08579_consen   30 DNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETYNI  109 (120)
T ss_pred             HHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHHHH
Confidence            345556667999999999999999999 999999999999877653        24456778889999999999999999


Q ss_pred             HHHHHHh
Q 005487          349 LIDLYFK  355 (694)
Q Consensus       349 l~~~~~~  355 (694)
                      ++..+.+
T Consensus       110 vl~~Llk  116 (120)
T PF08579_consen  110 VLGSLLK  116 (120)
T ss_pred             HHHHHHH
Confidence            8887765

Rpm2 is a protein subunit of the yeast mitochondrial RNase P. It has the ability to act as a transcriptional activator in the nucleus, where it plays a role in defining the steady-state levels of mRNAs for some nucleus-encoded mitochondrial components. Rpm2p is also involved in maturation of Rpm1 and in translation of mitochondrial mRNAs [, , ].

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=97.11  E-value=0.24  Score=46.17  Aligned_cols=196  Identities=20%  Similarity=0.192  Sum_probs=120.5

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHhhCCC-----CChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHH
Q 005487          444 EIVMGALLDMYAKCGAVDEAFKVFNELPE-----RDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLS  518 (694)
Q Consensus       444 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~  518 (694)
                      ..........+...+.+..+...+.....     .....+......+...+++..+...+.........+ .........
T Consensus        59 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~  137 (291)
T COG0457          59 AGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDP-DLAEALLAL  137 (291)
T ss_pred             hHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCc-chHHHHHHH
Confidence            34445555566666666666666655431     333455556666666667777777777776643222 122222222


Q ss_pred             -HHHccCCHHHHHHHHHHhHHhcCCCC----ChHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCC--HHHHHHHHHHHHH
Q 005487          519 -ACSHAGWVDEGGYYFNLMISEYNIQP----RNEHYSCLIDLLGRAGRLQEAYGILQSTPEIRED--AGLLSTLFSACRL  591 (694)
Q Consensus       519 -~~~~~g~~~~A~~~~~~~~~~~~~~p----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~--~~~~~~l~~~~~~  591 (694)
                       .+...|+++.|...+.....   ..|    ....+......+...++.+.|...+.+.....++  ...+..+...+..
T Consensus       138 ~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~  214 (291)
T COG0457         138 GALYELGDYEEALELYEKALE---LDPELNELAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEALLNLGLLYLK  214 (291)
T ss_pred             HHHHHcCCHHHHHHHHHHHHh---cCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhCcccchHHHHHhhHHHHH
Confidence             56677777777777777752   222    2233344444466677777777777776664444  4556666667777


Q ss_pred             cCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHHHHhCC
Q 005487          592 HRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELG  643 (694)
Q Consensus       592 ~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  643 (694)
                      .++++.|...+..++...|.....+..++..+...|.++++...+.+.....
T Consensus       215 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  266 (291)
T COG0457         215 LGKYEEALEYYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKALELD  266 (291)
T ss_pred             cccHHHHHHHHHHHHhhCcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            7777888888888877777655566666666666667777777777665444

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.10  E-value=0.47  Score=49.47  Aligned_cols=112  Identities=18%  Similarity=0.201  Sum_probs=75.1

Q ss_pred             ChhHHHHHHHHHHhcCChHHHHHHHhhCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHc
Q 005487          443 NEIVMGALLDMYAKCGAVDEAFKVFNELPERDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSH  522 (694)
Q Consensus       443 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~  522 (694)
                      ...+.+--+.-+...|+-.+|.++-.+..-||-..|-.-+.+++..+++++-.++-+..      -.+..|.....+|.+
T Consensus       683 ~dlSl~dTv~~li~~g~~k~a~ql~~~FkipdKr~~wLk~~aLa~~~kweeLekfAksk------ksPIGy~PFVe~c~~  756 (829)
T KOG2280|consen  683 VDLSLHDTVTTLILIGQNKRAEQLKSDFKIPDKRLWWLKLTALADIKKWEELEKFAKSK------KSPIGYLPFVEACLK  756 (829)
T ss_pred             ccCcHHHHHHHHHHccchHHHHHHHHhcCCcchhhHHHHHHHHHhhhhHHHHHHHHhcc------CCCCCchhHHHHHHh
Confidence            33444455555667788888888888887788887777778888888876644433322      225667777788888


Q ss_pred             cCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHHHHHHHH
Q 005487          523 AGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQ  570 (694)
Q Consensus       523 ~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~  570 (694)
                      .|+.++|.+++.+..   +..       ..+.+|.+.|++.+|.++--
T Consensus       757 ~~n~~EA~KYiprv~---~l~-------ekv~ay~~~~~~~eAad~A~  794 (829)
T KOG2280|consen  757 QGNKDEAKKYIPRVG---GLQ-------EKVKAYLRVGDVKEAADLAA  794 (829)
T ss_pred             cccHHHHhhhhhccC---ChH-------HHHHHHHHhccHHHHHHHHH
Confidence            888888888776553   211       35667777777777765443

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.10  E-value=0.078  Score=47.56  Aligned_cols=134  Identities=14%  Similarity=0.169  Sum_probs=99.3

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcccCChHHHHHHHHHHHHh-----CCCCChhHHHH
Q 005487          375 VYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIES-----KLETNEIVMGA  449 (694)
Q Consensus       375 ~~~~~l~~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----~~~~~~~~~~~  449 (694)
                      ...+.++..+...|.+.-.+..+++.++...+.++.....+.+...+.||.+.|...++...+.     +......+...
T Consensus       178 ~Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n  257 (366)
T KOG2796|consen  178 RVMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMN  257 (366)
T ss_pred             HHHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhh
Confidence            3455677777788889889999999988766667888888888888999999999999977653     22333333444


Q ss_pred             HHHHHHhcCChHHHHHHHhhCCC---CChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH
Q 005487          450 LLDMYAKCGAVDEAFKVFNELPE---RDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDS  510 (694)
Q Consensus       450 l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~  510 (694)
                      ....|.-++++..|...+++++.   .++...|.-.-+..-.|+..+|++.++.|...  .|.+
T Consensus       258 ~a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~--~P~~  319 (366)
T KOG2796|consen  258 SAFLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQQ--DPRH  319 (366)
T ss_pred             hhhheecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhcc--CCcc
Confidence            44556677888888888888876   44556666666666778899999999999886  4444

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=97.01  E-value=0.00097  Score=49.36  Aligned_cols=60  Identities=13%  Similarity=0.111  Sum_probs=39.8

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhcC----CC---CCccHHHHHHHHhhcCChHHHHHHHHHHH
Q 005487          581 LLSTLFSACRLHRDIEMGEKIAKLLIEKD----PD---DSSTYIVLSNMYASVKKWDEVRKIRLKMK  640 (694)
Q Consensus       581 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~----p~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  640 (694)
                      ++..++..+...|++++|+..+++++++.    ++   -..++..+|.++...|++++|++++++..
T Consensus         7 ~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al   73 (78)
T PF13424_consen    7 AYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKAL   73 (78)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            45566666666677777777776666431    11   24467778888888888888888887764

...

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.00  E-value=0.63  Score=49.26  Aligned_cols=121  Identities=13%  Similarity=0.063  Sum_probs=67.8

Q ss_pred             hhhHHHHHHhcCCChhHHHHHHhhCCCCCch--hhHHHHHHHHHccCChhHHHHHHHHhhhCCCCCCCcccHHHHHHHhh
Q 005487           40 LCKSLINLYFSCQNYDYAMLVFKTIDNPLDL--SLWNGLMASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACG  117 (694)
Q Consensus        40 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~  117 (694)
                      ..-.-+....+..-++-|..+-+.-..+...  +....-..-+.+.|++++|...|-+-...  +.|..     ++.-+.
T Consensus       336 ~le~kL~iL~kK~ly~~Ai~LAk~~~~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~--le~s~-----Vi~kfL  408 (933)
T KOG2114|consen  336 DLETKLDILFKKNLYKVAINLAKSQHLDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF--LEPSE-----VIKKFL  408 (933)
T ss_pred             cHHHHHHHHHHhhhHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc--CChHH-----HHHHhc
Confidence            3445566666777777777766654433222  01112223345678888887777766543  33322     344444


Q ss_pred             CCCCchhHHHHHHHHHHHcCCCchhHHHHHHHhhhcCCChHHHHHHhccCC
Q 005487          118 GLGSVGIGKMIHTHLIKTGFLLDVVIASSTAGMYAKCNSFECAVKMFDEMS  168 (694)
Q Consensus       118 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  168 (694)
                      .......--.+++.+.+.|+... ..-..|+.+|.+.++.++-.+..+...
T Consensus       409 daq~IknLt~YLe~L~~~gla~~-dhttlLLncYiKlkd~~kL~efI~~~~  458 (933)
T KOG2114|consen  409 DAQRIKNLTSYLEALHKKGLANS-DHTTLLLNCYIKLKDVEKLTEFISKCD  458 (933)
T ss_pred             CHHHHHHHHHHHHHHHHcccccc-hhHHHHHHHHHHhcchHHHHHHHhcCC
Confidence            44445555566666666665433 333456667777777777666666555

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.97  E-value=0.0076  Score=57.69  Aligned_cols=97  Identities=11%  Similarity=0.070  Sum_probs=78.8

Q ss_pred             HHHHHHHHHhhhcCCHHHHHHHHHhCCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhh
Q 005487          547 EHYSCLIDLLGRAGRLQEAYGILQSTPEIRE-DAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYAS  625 (694)
Q Consensus       547 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~  625 (694)
                      .++..++-++.+.+++.+|+..-++..+.+| +...+..-+.++...|+++.|+..|++++++.|+|..+...|+.+-.+
T Consensus       258 ~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~P~Nka~~~el~~l~~k  337 (397)
T KOG0543|consen  258 ACHLNLAACYLKLKEYKEAIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKALKLEPSNKAARAELIKLKQK  337 (397)
T ss_pred             HHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHH
Confidence            3566788889999999999999988887665 456777778889999999999999999999999998888888888777


Q ss_pred             cCChHHH-HHHHHHHHhCC
Q 005487          626 VKKWDEV-RKIRLKMKELG  643 (694)
Q Consensus       626 ~g~~~~A-~~~~~~~~~~~  643 (694)
                      ..++.+. .++|..|-..-
T Consensus       338 ~~~~~~kekk~y~~mF~k~  356 (397)
T KOG0543|consen  338 IREYEEKEKKMYANMFAKL  356 (397)
T ss_pred             HHHHHHHHHHHHHHHhhcc
Confidence            7666555 67788875433

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=96.93  E-value=0.35  Score=45.06  Aligned_cols=198  Identities=21%  Similarity=0.163  Sum_probs=136.3

Q ss_pred             HHHHHHHHHHHcccCChHHHHHHHHHHHHh-CCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCC--CCh-HHHHHHHH-
Q 005487          409 AVTFTSVLPACSQLAALEKGKEIHNHIIES-KLETNEIVMGALLDMYAKCGAVDEAFKVFNELPE--RDL-VSWTSMIA-  483 (694)
Q Consensus       409 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~-~~~~~l~~-  483 (694)
                      ..........+...++...+...+...... ........+......+...+++..+...+.....  ++. ........ 
T Consensus        59 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  138 (291)
T COG0457          59 AGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDPDLAEALLALG  138 (291)
T ss_pred             hHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCcchHHHHHHHH
Confidence            344455555556666666666666555442 2234445555566666677777777777776665  222 22333333 


Q ss_pred             HHHhcCCHHHHHHHHHHHHHcCCCC----CHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCC--hHHHHHHHHHhh
Q 005487          484 AYGSHGRALEALKLFGEMQQSNARP----DSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPR--NEHYSCLIDLLG  557 (694)
Q Consensus       484 ~~~~~~~~~~A~~~~~~~~~~~~~p----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~--~~~~~~l~~~~~  557 (694)
                      .+...|+++.|...+++....  .|    ....+......+...++.+.+...+.....   ..++  ...+..+...+.
T Consensus       139 ~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~~~~~~~~~~  213 (291)
T COG0457         139 ALYELGDYEEALELYEKALEL--DPELNELAEALLALGALLEALGRYEEALELLEKALK---LNPDDDAEALLNLGLLYL  213 (291)
T ss_pred             HHHHcCCHHHHHHHHHHHHhc--CCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHh---hCcccchHHHHHhhHHHH
Confidence            788889999999999998663  33    234444444456778899999999999883   3343  567888889999


Q ss_pred             hcCCHHHHHHHHHhCCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC
Q 005487          558 RAGRLQEAYGILQSTPEIRED-AGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPD  611 (694)
Q Consensus       558 ~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~  611 (694)
                      ..++++.|...+.......|+ ...+......+...++.+.+...+++.++..|.
T Consensus       214 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  268 (291)
T COG0457         214 KLGKYEEALEYYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKALELDPD  268 (291)
T ss_pred             HcccHHHHHHHHHHHHhhCcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHhCcc
Confidence            999999999999998876665 445555555555777899999999999999887

>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=96.86  E-value=0.017  Score=49.10  Aligned_cols=60  Identities=20%  Similarity=0.221  Sum_probs=51.8

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHHHH
Q 005487          581 LLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMK  640 (694)
Q Consensus       581 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  640 (694)
                      .+..++..+...|+++.|...+++++..+|-+...|..++.+|...|+..+|.++++++.
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~  123 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALDPYDEEAYRLLMRALAAQGRRAEALRVYERYR  123 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHH
Confidence            456667778889999999999999999999999999999999999999999999998873

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=96.85  E-value=0.26  Score=44.51  Aligned_cols=60  Identities=12%  Similarity=0.076  Sum_probs=34.4

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHHcCCC--CCHHHHHHHHHHHcccCChHHHHHHHHHHHHhC
Q 005487          380 MISGYVTVGDYFKALAIYSDMKEVGAK--PDAVTFTSVLPACSQLAALEKGKEIHNHIIESK  439 (694)
Q Consensus       380 l~~~~~~~~~~~~A~~~~~~m~~~g~~--p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  439 (694)
                      ....+...|++.+|+..|+.+......  --......++.++.+.|+++.|...++.+++.-
T Consensus        11 ~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~y   72 (203)
T PF13525_consen   11 KALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLY   72 (203)
T ss_dssp             HHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            344556677777777777777765211  112334455566667777777777777766543

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.83  E-value=0.015  Score=52.99  Aligned_cols=86  Identities=23%  Similarity=0.317  Sum_probs=42.2

Q ss_pred             hcCCHHHHHHHHHHHHHcCCCCC----HhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCC-hHHHHHHHHHhhhcCC
Q 005487          487 SHGRALEALKLFGEMQQSNARPD----SITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPR-NEHYSCLIDLLGRAGR  561 (694)
Q Consensus       487 ~~~~~~~A~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~  561 (694)
                      ..|++..|...|...++..  |+    +..+..|..++...|++++|..+|..+.+.++-.|. ++.+..|+....+.|+
T Consensus       153 ksgdy~~A~~~F~~fi~~Y--P~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~~  230 (262)
T COG1729         153 KSGDYAEAEQAFQAFIKKY--PNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLGN  230 (262)
T ss_pred             HcCCHHHHHHHHHHHHHcC--CCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhcC
Confidence            3344555555555555542  22    134445555555555555555555555544433333 2344444555555555


Q ss_pred             HHHHHHHHHhCCC
Q 005487          562 LQEAYGILQSTPE  574 (694)
Q Consensus       562 ~~~A~~~~~~~~~  574 (694)
                      .++|...|+++.+
T Consensus       231 ~d~A~atl~qv~k  243 (262)
T COG1729         231 TDEACATLQQVIK  243 (262)
T ss_pred             HHHHHHHHHHHHH
Confidence            5555554444443

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.78  E-value=0.012  Score=53.61  Aligned_cols=105  Identities=16%  Similarity=0.121  Sum_probs=78.6

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCC-ChHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCC----CHHHHHHHH
Q 005487          512 TFLALLSACSHAGWVDEGGYYFNLMISEYNIQP-RNEHYSCLIDLLGRAGRLQEAYGILQSTPEIRE----DAGLLSTLF  586 (694)
Q Consensus       512 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p----~~~~~~~l~  586 (694)
                      .|+..+ .+.+.|++..|...|...++.+.-.+ .+..+..|++.+..+|++++|...|..+.+..|    .+..+..++
T Consensus       144 ~Y~~A~-~~~ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg  222 (262)
T COG1729         144 LYNAAL-DLYKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLG  222 (262)
T ss_pred             HHHHHH-HHHHcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHH
Confidence            344333 35667889999999999886543222 245677889999999999999988887665333    357788888


Q ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCCCCccHH
Q 005487          587 SACRLHRDIEMGEKIAKLLIEKDPDDSSTYI  617 (694)
Q Consensus       587 ~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~  617 (694)
                      .+..+.|+.++|...++++++..|+.+.+-.
T Consensus       223 ~~~~~l~~~d~A~atl~qv~k~YP~t~aA~~  253 (262)
T COG1729         223 VSLGRLGNTDEACATLQQVIKRYPGTDAAKL  253 (262)
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHCCCCHHHHH
Confidence            8888899999999999999999998766543

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=96.78  E-value=0.6  Score=45.60  Aligned_cols=74  Identities=15%  Similarity=0.214  Sum_probs=35.4

Q ss_pred             HHHHHHHHhCCCCCchhhhHHHHHHhcCCChhHHHHHHhhCCCC--CchhhHHHHHHHHHccCChhHHHHHHHHhhhC
Q 005487           24 IIHQKVVTLGLQNNIALCKSLINLYFSCQNYDYAMLVFKTIDNP--LDLSLWNGLMASYTKNYMYITALELFDMLLQN   99 (694)
Q Consensus        24 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~   99 (694)
                      ++.+++.++  |-|+..|..|++-|.-+|.+++-+++++++..|  -...+|..-+++-.-..++..+..+|.+.+..
T Consensus        30 rLRerIkdN--PtnI~S~fqLiq~~~tq~s~~~~re~yeq~~~pfp~~~~aw~ly~s~ELA~~df~svE~lf~rCL~k  105 (660)
T COG5107          30 RLRERIKDN--PTNILSYFQLIQYLETQESMDAEREMYEQLSSPFPIMEHAWRLYMSGELARKDFRSVESLFGRCLKK  105 (660)
T ss_pred             HHHHHhhcC--chhHHHHHHHHHHHhhhhhHHHHHHHHHHhcCCCccccHHHHHHhcchhhhhhHHHHHHHHHHHHhh
Confidence            344444333  344555555555555555555555555555332  11224444444444445555555555555443

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=96.77  E-value=0.032  Score=45.60  Aligned_cols=120  Identities=16%  Similarity=0.074  Sum_probs=62.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC---CHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHH
Q 005487          478 WTSMIAAYGSHGRALEALKLFGEMQQSNARP---DSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLID  554 (694)
Q Consensus       478 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~  554 (694)
                      +..-.....+.|++++|.+.|+.+...- +.   ....-..++.++.+.+++++|...+++.++-+...|++. |.....
T Consensus        13 ly~~a~~~l~~~~Y~~A~~~le~L~~ry-P~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vd-Ya~Y~~   90 (142)
T PF13512_consen   13 LYQEAQEALQKGNYEEAIKQLEALDTRY-PFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVD-YAYYMR   90 (142)
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHhcC-CCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCcc-HHHHHH
Confidence            3334444556677777777777766651 21   224455566666777777777777777664433333322 222222


Q ss_pred             HhhhcCCHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcc
Q 005487          555 LLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSST  615 (694)
Q Consensus       555 ~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~  615 (694)
                      ++..-...+   ..+..+...+.             ..+....|...|+++++.-|++..+
T Consensus        91 gL~~~~~~~---~~~~~~~~~dr-------------D~~~~~~A~~~f~~lv~~yP~S~ya  135 (142)
T PF13512_consen   91 GLSYYEQDE---GSLQSFFRSDR-------------DPTPARQAFRDFEQLVRRYPNSEYA  135 (142)
T ss_pred             HHHHHHHhh---hHHhhhccccc-------------CcHHHHHHHHHHHHHHHHCcCChhH
Confidence            222211111   11111111111             1233668899999999999987543

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=96.77  E-value=0.79  Score=46.80  Aligned_cols=126  Identities=11%  Similarity=0.118  Sum_probs=90.8

Q ss_pred             hHHHHHHHHHccCChhHHHHHHHHhhhCCCCCCCcccHHHHHHHhhCCCCchhHHHHHHHHHHHcCCCchhHHHHHHHhh
Q 005487           72 LWNGLMASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLGSVGIGKMIHTHLIKTGFLLDVVIASSTAGMY  151 (694)
Q Consensus        72 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  151 (694)
                      .|..|+.--.+....+.+...+..++..  .|.-.--|.....--.+.|..+.+.++|++.+.. ++.+...|......+
T Consensus        47 ~wt~li~~~~~~~~~~~~r~~y~~fL~k--yPl~~gyW~kfA~~E~klg~~~~s~~Vfergv~a-ip~SvdlW~~Y~~f~  123 (577)
T KOG1258|consen   47 AWTTLIQENDSIEDVDALREVYDIFLSK--YPLCYGYWKKFADYEYKLGNAENSVKVFERGVQA-IPLSVDLWLSYLAFL  123 (577)
T ss_pred             chHHHHhccCchhHHHHHHHHHHHHHhh--CccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHh-hhhHHHHHHHHHHHH
Confidence            5666776555555557777778888755  2332334455555556788888899999988764 677777777776644


Q ss_pred             -hcCCChHHHHHHhccCCC------CCcccHHHHHHHHHhCCChhHHHHHHHHHHh
Q 005487          152 -AKCNSFECAVKMFDEMSE------RDVASWNTVISCYYQDGQAEKALELFKKMRG  200 (694)
Q Consensus       152 -~~~g~~~~A~~~~~~~~~------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  200 (694)
                       ...|+.+...+.|+....      .+...|...|..-...+++.....+|+..++
T Consensus       124 ~n~~~d~~~lr~~fe~A~~~vG~dF~S~~lWdkyie~en~qks~k~v~~iyeRile  179 (577)
T KOG1258|consen  124 KNNNGDPETLRDLFERAKSYVGLDFLSDPLWDKYIEFENGQKSWKRVANIYERILE  179 (577)
T ss_pred             hccCCCHHHHHHHHHHHHHhcccchhccHHHHHHHHHHhccccHHHHHHHHHHHHh
Confidence             355788888888887654      4666788888888889999999999999887

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=96.74  E-value=0.013  Score=46.06  Aligned_cols=93  Identities=19%  Similarity=0.138  Sum_probs=73.2

Q ss_pred             HHHHhhhcCCHHHHHHHHHhCCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCc----cHHHHHHHHhhc
Q 005487          552 LIDLLGRAGRLQEAYGILQSTPEIRE-DAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSS----TYIVLSNMYASV  626 (694)
Q Consensus       552 l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~----~~~~l~~~~~~~  626 (694)
                      -+-++...|+++.|++.|.+....-| .+..|+.-..+++-+|+.++|..-+++++++..+...    +|...+.+|...
T Consensus        49 ~~valaE~g~Ld~AlE~F~qal~l~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~  128 (175)
T KOG4555|consen   49 KAIALAEAGDLDGALELFGQALCLAPERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLL  128 (175)
T ss_pred             HHHHHHhccchHHHHHHHHHHHHhcccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHh
Confidence            35567788899999998888776554 5778888888888899999999999999988644322    466678888888


Q ss_pred             CChHHHHHHHHHHHhCCC
Q 005487          627 KKWDEVRKIRLKMKELGL  644 (694)
Q Consensus       627 g~~~~A~~~~~~~~~~~~  644 (694)
                      |+-+.|..-|+...+.|-
T Consensus       129 g~dd~AR~DFe~AA~LGS  146 (175)
T KOG4555|consen  129 GNDDAARADFEAAAQLGS  146 (175)
T ss_pred             CchHHHHHhHHHHHHhCC
Confidence            999999988888877664

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=96.73  E-value=0.9  Score=46.97  Aligned_cols=125  Identities=12%  Similarity=0.133  Sum_probs=57.8

Q ss_pred             CCChHHHHHHhccCCCCCcccHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCC----hhhHHHHHHHHhccCChhHHHHH
Q 005487          154 CNSFECAVKMFDEMSERDVASWNTVISCYYQDGQAEKALELFKKMRGSGFQPN----SVTLTTVISSCARLMDLDRGKEI  229 (694)
Q Consensus       154 ~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~----~~~~~~ll~~~~~~~~~~~a~~~  229 (694)
                      .|++++|++++-++..+|.     .|..+.+.|+|-.+.++++.-   |-..|    ...++.+...++....++.|.+.
T Consensus       747 ~g~feeaek~yld~drrDL-----Aielr~klgDwfrV~qL~r~g---~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~y  818 (1189)
T KOG2041|consen  747 YGEFEEAEKLYLDADRRDL-----AIELRKKLGDWFRVYQLIRNG---GSDDDDEGKEDAFRNIGETFAEMMEWEEAAKY  818 (1189)
T ss_pred             hcchhHhhhhhhccchhhh-----hHHHHHhhhhHHHHHHHHHcc---CCCcchHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3566666666655555443     234444555555444443321   10111    22455555555555555555555


Q ss_pred             HHHHHHhCCCCchhHHHHHHHhhHhcCChHHHHHHHhcCCCCChhHHHHHHHHHHcCCCchHHHHHH
Q 005487          230 HKEFIKDGFVSDSYISSALVDMYGKCGCLEMAREVFEQTVLKSVVAWNALIAGYSSRGDSKSCVKLF  296 (694)
Q Consensus       230 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~  296 (694)
                      +......         ...+.++.+..++++-+.+-+.+++ +....-.+...+.+.|.-++|.+.+
T Consensus       819 Y~~~~~~---------e~~~ecly~le~f~~LE~la~~Lpe-~s~llp~~a~mf~svGMC~qAV~a~  875 (1189)
T KOG2041|consen  819 YSYCGDT---------ENQIECLYRLELFGELEVLARTLPE-DSELLPVMADMFTSVGMCDQAVEAY  875 (1189)
T ss_pred             HHhccch---------HhHHHHHHHHHhhhhHHHHHHhcCc-ccchHHHHHHHHHhhchHHHHHHHH
Confidence            5432211         1234455555555554444444433 2233344455555555555555544

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.71  E-value=0.0085  Score=58.82  Aligned_cols=63  Identities=11%  Similarity=0.077  Sum_probs=41.8

Q ss_pred             hHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCCHH----HHHHHHHHHHHcCCHHHHHHHHHHHHhc
Q 005487          546 NEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAG----LLSTLFSACRLHRDIEMGEKIAKLLIEK  608 (694)
Q Consensus       546 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~----~~~~l~~~~~~~~~~~~A~~~~~~~~~~  608 (694)
                      ...+..++.+|.+.|++++|+..++++.++.|+..    .|..++.+|...|++++|++.+++++++
T Consensus        75 a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         75 AEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            44566666667777777777777776666666532    3666666676777777777777777765

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=96.69  E-value=0.38  Score=43.68  Aligned_cols=59  Identities=15%  Similarity=0.089  Sum_probs=45.9

Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcc---HHHHHHHHhhcCChHHHHHHHHHHHhC
Q 005487          584 TLFSACRLHRDIEMGEKIAKLLIEKDPDDSST---YIVLSNMYASVKKWDEVRKIRLKMKEL  642 (694)
Q Consensus       584 ~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~---~~~l~~~~~~~g~~~~A~~~~~~~~~~  642 (694)
                      .++..|.+.|.+..|..-++.+++.-|+-+.+   +..+..+|...|-.++|.+.-+-+...
T Consensus       172 ~IaryY~kr~~~~AA~nR~~~v~e~y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~N  233 (254)
T COG4105         172 AIARYYLKRGAYVAAINRFEEVLENYPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGAN  233 (254)
T ss_pred             HHHHHHHHhcChHHHHHHHHHHHhccccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHhc
Confidence            44567888999999999999999887765554   555667799999999998887766543

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=96.66  E-value=0.0044  Score=45.76  Aligned_cols=61  Identities=20%  Similarity=0.225  Sum_probs=33.7

Q ss_pred             HHHHHHHHhhhcCCHHHHHHHHHhCCC----CCCC----HHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Q 005487          548 HYSCLIDLLGRAGRLQEAYGILQSTPE----IRED----AGLLSTLFSACRLHRDIEMGEKIAKLLIEK  608 (694)
Q Consensus       548 ~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~p~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  608 (694)
                      ++..++.+|...|++++|+..++++.+    ..++    ..++..++.++...|++++|++.+++++++
T Consensus         7 ~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~i   75 (78)
T PF13424_consen    7 AYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALDI   75 (78)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            445555555555555555555554332    1111    234556666677777777777777776653

...

>PRK15331 chaperone protein SicA; Provisional

Probab=96.59  E-value=0.048  Score=45.71  Aligned_cols=91  Identities=9%  Similarity=-0.023  Sum_probs=58.0

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhc
Q 005487          480 SMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRA  559 (694)
Q Consensus       480 ~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  559 (694)
                      ....-+...|++++|..+|+-+...+ .-|..-+..|..++-..+++++|+..|.....- . .-|+..+...+.++...
T Consensus        42 ~~Ay~~y~~Gk~~eA~~~F~~L~~~d-~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l-~-~~dp~p~f~agqC~l~l  118 (165)
T PRK15331         42 AHAYEFYNQGRLDEAETFFRFLCIYD-FYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTL-L-KNDYRPVFFTGQCQLLM  118 (165)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc-c-cCCCCccchHHHHHHHh
Confidence            34444556677777777777776653 334555666666666777777777777766521 1 22344455567777777


Q ss_pred             CCHHHHHHHHHhCC
Q 005487          560 GRLQEAYGILQSTP  573 (694)
Q Consensus       560 g~~~~A~~~~~~~~  573 (694)
                      |+.+.|+..|+.+.
T Consensus       119 ~~~~~A~~~f~~a~  132 (165)
T PRK15331        119 RKAAKARQCFELVN  132 (165)
T ss_pred             CCHHHHHHHHHHHH
Confidence            77777777777766

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.56  E-value=1.3  Score=46.51  Aligned_cols=113  Identities=10%  Similarity=0.029  Sum_probs=87.4

Q ss_pred             CHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCCHHHHHHHHHH
Q 005487          509 DSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSA  588 (694)
Q Consensus       509 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~  588 (694)
                      ...+.+.-+.-+...|+..+|.++-.+..     -||...|..-+.++...+++++-.++-++..    .+.-|.-+..+
T Consensus       683 ~dlSl~dTv~~li~~g~~k~a~ql~~~Fk-----ipdKr~~wLk~~aLa~~~kweeLekfAkskk----sPIGy~PFVe~  753 (829)
T KOG2280|consen  683 VDLSLHDTVTTLILIGQNKRAEQLKSDFK-----IPDKRLWWLKLTALADIKKWEELEKFAKSKK----SPIGYLPFVEA  753 (829)
T ss_pred             ccCcHHHHHHHHHHccchHHHHHHHHhcC-----CcchhhHHHHHHHHHhhhhHHHHHHHHhccC----CCCCchhHHHH
Confidence            34456666667788899999988888775     5888888888999999999998877777655    24556677889


Q ss_pred             HHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHH
Q 005487          589 CRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLK  638 (694)
Q Consensus       589 ~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  638 (694)
                      |.+.|+.++|..++-++-.        +.....+|.+.|++.+|.+.--+
T Consensus       754 c~~~~n~~EA~KYiprv~~--------l~ekv~ay~~~~~~~eAad~A~~  795 (829)
T KOG2280|consen  754 CLKQGNKDEAKKYIPRVGG--------LQEKVKAYLRVGDVKEAADLAAE  795 (829)
T ss_pred             HHhcccHHHHhhhhhccCC--------hHHHHHHHHHhccHHHHHHHHHH
Confidence            9999999999988877532        12678899999999999876543

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=96.55  E-value=0.82  Score=44.25  Aligned_cols=105  Identities=18%  Similarity=0.301  Sum_probs=68.2

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcccCCh
Q 005487          346 NSSLIDLYFKCGRVSSAENVFEKMSKTDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAAL  425 (694)
Q Consensus       346 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~  425 (694)
                      .+..+.-+...|+...|.++-.+..-|+-..|-..+.+++..++|++...+-..      +-.+..|..++.+|...|+.
T Consensus       180 l~~Ti~~li~~~~~k~A~kl~k~Fkv~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~~~~~~  253 (319)
T PF04840_consen  180 LNDTIRKLIEMGQEKQAEKLKKEFKVPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACLKYGNK  253 (319)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHHHCCCH
Confidence            334455566677777777777777777777777778888888887766654321      12345667777777777777


Q ss_pred             HHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHH
Q 005487          426 EKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKV  466 (694)
Q Consensus       426 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  466 (694)
                      ..|..+...+     +     +..-+.+|.++|++.+|.+.
T Consensus       254 ~eA~~yI~k~-----~-----~~~rv~~y~~~~~~~~A~~~  284 (319)
T PF04840_consen  254 KEASKYIPKI-----P-----DEERVEMYLKCGDYKEAAQE  284 (319)
T ss_pred             HHHHHHHHhC-----C-----hHHHHHHHHHCCCHHHHHHH
Confidence            7776666552     1     13456667777777776543

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

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=96.48  E-value=0.024  Score=53.13  Aligned_cols=47  Identities=13%  Similarity=0.109  Sum_probs=23.1

Q ss_pred             HHhcCChHHHHHHHHHHHHc--CCCCCHHHHHHHHHHHcccCChHHHHH
Q 005487          384 YVTVGDYFKALAIYSDMKEV--GAKPDAVTFTSVLPACSQLAALEKGKE  430 (694)
Q Consensus       384 ~~~~~~~~~A~~~~~~m~~~--g~~p~~~~~~~ll~~~~~~~~~~~a~~  430 (694)
                      +....+.++|+..|.+-...  .......++..+..+.+..|.++++..
T Consensus        16 Ly~s~~~~~al~~w~~~L~~l~~~~~Rf~~lG~l~~a~s~~g~y~~mL~   64 (518)
T KOG1941|consen   16 LYQSNQTEKALQVWTKVLEKLSDLMGRFRVLGCLVTAHSEMGRYKEMLK   64 (518)
T ss_pred             HhcCchHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhhHHHHHHHH
Confidence            33456667777666665442  011122344444555555555555443

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=96.46  E-value=0.022  Score=49.80  Aligned_cols=88  Identities=15%  Similarity=0.297  Sum_probs=62.5

Q ss_pred             CCcccHHHHHHHHHh-----CCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccC----------------ChhHHHH
Q 005487          170 RDVASWNTVISCYYQ-----DGQAEKALELFKKMRGSGFQPNSVTLTTVISSCARLM----------------DLDRGKE  228 (694)
Q Consensus       170 ~~~~~~~~li~~~~~-----~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~----------------~~~~a~~  228 (694)
                      .+..+|..++..|.+     .|..+=....+..|.+.|+.-|..+|+.|+..+=+..                +-+-|.+
T Consensus        45 k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~i~  124 (228)
T PF06239_consen   45 KDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECAID  124 (228)
T ss_pred             ccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHHHH
Confidence            556666666666654     3556666667777888888888888888887765421                3455778


Q ss_pred             HHHHHHHhCCCCchhHHHHHHHhhHhcCC
Q 005487          229 IHKEFIKDGFVSDSYISSALVDMYGKCGC  257 (694)
Q Consensus       229 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  257 (694)
                      ++++|...|+-||..++..+++.+.+.+.
T Consensus       125 lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  125 LLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             HHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence            88888888888888888888887765543

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>KOG2396 consensus HAT (Half-A-TPR) repeat-containing protein [General function prediction only]

Probab=96.42  E-value=1.2  Score=44.48  Aligned_cols=80  Identities=15%  Similarity=0.088  Sum_probs=59.7

Q ss_pred             hHHHHHHHHhhhCCCCCCCcccHHHHHHHhhCCCCchhHHHHHHHHHHHc-CCCchhHHHHHHHhhhcCCChHHHHHHhc
Q 005487           87 ITALELFDMLLQNPYLKPDSYTYPSVLKACGGLGSVGIGKMIHTHLIKTG-FLLDVVIASSTAGMYAKCNSFECAVKMFD  165 (694)
Q Consensus        87 ~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  165 (694)
                      .+...+|+.....  ++.|...|...+..|.+.+.+.+...+|..|+... ..|+..++.+.-. |-..-+++.|+.+|.
T Consensus        88 ~rIv~lyr~at~r--f~~D~~lW~~yi~f~kk~~~~~~v~ki~~~~l~~Hp~~~dLWI~aA~we-fe~n~ni~saRalfl  164 (568)
T KOG2396|consen   88 NRIVFLYRRATNR--FNGDVKLWLSYIAFCKKKKTYGEVKKIFAAMLAKHPNNPDLWIYAAKWE-FEINLNIESARALFL  164 (568)
T ss_pred             HHHHHHHHHHHHh--cCCCHHHHHHHHHHHHHhcchhHHHHHHHHHHHhCCCCchhHHhhhhhH-HhhccchHHHHHHHH
Confidence            4667788888776  67799999999999999998999999999998753 3455555544332 334445899999988


Q ss_pred             cCCC
Q 005487          166 EMSE  169 (694)
Q Consensus       166 ~~~~  169 (694)
                      +..+
T Consensus       165 rgLR  168 (568)
T KOG2396|consen  165 RGLR  168 (568)
T ss_pred             HHhh
Confidence            8765

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=96.40  E-value=0.048  Score=52.08  Aligned_cols=127  Identities=15%  Similarity=0.098  Sum_probs=66.0

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHH----HcCCC-CCHHHHHHHHHHHcccCChHHHHHHHHHHHH----hCC-CCChh
Q 005487          376 YWNVMISGYVTVGDYFKALAIYSDMK----EVGAK-PDAVTFTSVLPACSQLAALEKGKEIHNHIIE----SKL-ETNEI  445 (694)
Q Consensus       376 ~~~~l~~~~~~~~~~~~A~~~~~~m~----~~g~~-p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~----~~~-~~~~~  445 (694)
                      +|..+...|--.|+++.|+..-+.-.    +-|-+ .....+..+..++.-.|+++.|.+.|+....    .|- .....
T Consensus       197 a~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEAQ  276 (639)
T KOG1130|consen  197 AYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEAQ  276 (639)
T ss_pred             hhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHHH
Confidence            34444445555566666655433321    11211 1223445555566666666666666665432    221 12334


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHhhCCC---------CChHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 005487          446 VMGALLDMYAKCGAVDEAFKVFNELPE---------RDLVSWTSMIAAYGSHGRALEALKLFGEMQ  502 (694)
Q Consensus       446 ~~~~l~~~~~~~g~~~~A~~~~~~~~~---------~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  502 (694)
                      ...+|...|.-..+++.|+.++.+-..         -...++-+|..+|...|..++|+.+.+.-.
T Consensus       277 scYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl  342 (639)
T KOG1130|consen  277 SCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHL  342 (639)
T ss_pred             HHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHH
Confidence            455566666666666666666654332         123355566667777777777766665544

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.34  E-value=0.35  Score=43.14  Aligned_cols=142  Identities=13%  Similarity=0.074  Sum_probs=72.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCC----ChHHHHHHH
Q 005487          478 WTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQP----RNEHYSCLI  553 (694)
Q Consensus       478 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p----~~~~~~~l~  553 (694)
                      ++.-...|...|.++.|-..+++.-+.                .+..++++|+++|++...-.....    -.+.+..+.
T Consensus        94 ~eKAs~lY~E~GspdtAAmaleKAak~----------------lenv~Pd~AlqlYqralavve~~dr~~ma~el~gk~s  157 (308)
T KOG1585|consen   94 YEKASELYVECGSPDTAAMALEKAAKA----------------LENVKPDDALQLYQRALAVVEEDDRDQMAFELYGKCS  157 (308)
T ss_pred             HHHHHHHHHHhCCcchHHHHHHHHHHH----------------hhcCCHHHHHHHHHHHHHHHhccchHHHHHHHHHHhh
Confidence            344445555556555555555444321                122344555555554432111111    123444556


Q ss_pred             HHhhhcCCHHHHHHHHHhCCC------CCCCH-HHHHHHHHHHHHcCCHHHHHHHHHHHHhc----CCCCCccHHHHHHH
Q 005487          554 DLLGRAGRLQEAYGILQSTPE------IREDA-GLLSTLFSACRLHRDIEMGEKIAKLLIEK----DPDDSSTYIVLSNM  622 (694)
Q Consensus       554 ~~~~~~g~~~~A~~~~~~~~~------~~p~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~----~p~~~~~~~~l~~~  622 (694)
                      +.|.+..++++|-..+.+-..      .-++. ..+...+..+.-..|+..|+..++..-+.    .|++..+..+|...
T Consensus       158 r~lVrl~kf~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~a  237 (308)
T KOG1585|consen  158 RVLVRLEKFTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTA  237 (308)
T ss_pred             hHhhhhHHhhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHH
Confidence            677777777766655554321      11221 22344444555566788888877775543    35566666666655


Q ss_pred             HhhcCChHHHHHHH
Q 005487          623 YASVKKWDEVRKIR  636 (694)
Q Consensus       623 ~~~~g~~~~A~~~~  636 (694)
                      | ..|+.+++.+++
T Consensus       238 y-d~gD~E~~~kvl  250 (308)
T KOG1585|consen  238 Y-DEGDIEEIKKVL  250 (308)
T ss_pred             h-ccCCHHHHHHHH
Confidence            4 456666665443

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=96.33  E-value=0.033  Score=48.74  Aligned_cols=90  Identities=13%  Similarity=0.161  Sum_probs=64.9

Q ss_pred             CCCChhHHHHHHHHHHc-----CCCchHHHHHHHHHHHCCCCCCHHHHHHHHHHhhcc----------------CChhhh
Q 005487          269 VLKSVVAWNALIAGYSS-----RGDSKSCVKLFWRMNEEGIKPTLTTISSVLMSCSRS----------------GQLKHG  327 (694)
Q Consensus       269 ~~~~~~~~~~li~~~~~-----~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~~~~----------------~~~~~a  327 (694)
                      ...+..+|..+++.|.+     .|..+=....++.|.+-|+.-|..+|+.|++.+=+.                .+-+-+
T Consensus        43 ~~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~  122 (228)
T PF06239_consen   43 QAKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECA  122 (228)
T ss_pred             ccccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHH
Confidence            34455666666666653     466777777888888888888888888888876542                134557


Q ss_pred             HHHHHHHHHhcCCCchhHHHHHHHHHHhcCC
Q 005487          328 KVMHGYIIRNKIQGDVFINSSLIDLYFKCGR  358 (694)
Q Consensus       328 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  358 (694)
                      .+++++|...|+-||..++..+++.+.+.+.
T Consensus       123 i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  123 IDLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             HHHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence            7888888888888888888888777766654

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=96.29  E-value=0.24  Score=49.17  Aligned_cols=105  Identities=13%  Similarity=0.066  Sum_probs=73.1

Q ss_pred             HhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHHHHHHHHhCCCC-CCCH--HHHHHHH
Q 005487          510 SITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEI-REDA--GLLSTLF  586 (694)
Q Consensus       510 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~--~~~~~l~  586 (694)
                      ...-..+..++.+.|+.++|++.++++.++............|+.++...+.+.++..++.+...+ -|..  ..|...+
T Consensus       259 ~y~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSAti~YTaAL  338 (539)
T PF04184_consen  259 VYAKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSATICYTAAL  338 (539)
T ss_pred             hhhHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchHHHHHHHHH
Confidence            344455677888999999999999999865432223447788999999999999999999997643 2333  2344444


Q ss_pred             HHHHHcCC---------------HHHHHHHHHHHHhcCCCCCc
Q 005487          587 SACRLHRD---------------IEMGEKIAKLLIEKDPDDSS  614 (694)
Q Consensus       587 ~~~~~~~~---------------~~~A~~~~~~~~~~~p~~~~  614 (694)
                      ...+..++               -..|.+.+.++++.||.-|.
T Consensus       339 LkaRav~d~fs~e~a~rRGls~ae~~aveAi~RAvefNPHVp~  381 (539)
T PF04184_consen  339 LKARAVGDKFSPEAASRRGLSPAEMNAVEAIHRAVEFNPHVPK  381 (539)
T ss_pred             HHHHhhccccCchhhhhcCCChhHHHHHHHHHHHHHhCCCCch
Confidence            33333333               13467889999999987554

The molecular function of this protein is uncertain.

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=96.24  E-value=0.2  Score=46.27  Aligned_cols=120  Identities=17%  Similarity=0.127  Sum_probs=78.1

Q ss_pred             HHHccCCHHHHHHHHHHhHHhcCCCCC-hHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCCHHHHH--HHHHHHHHcCCH
Q 005487          519 ACSHAGWVDEGGYYFNLMISEYNIQPR-NEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLS--TLFSACRLHRDI  595 (694)
Q Consensus       519 ~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~--~l~~~~~~~~~~  595 (694)
                      .....|++.+|...|+.....   .|. ...-..++++|...|+.+.|..++..++....+.....  .-+..+.+..+.
T Consensus       143 ~~~~~e~~~~a~~~~~~al~~---~~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~  219 (304)
T COG3118         143 ELIEAEDFGEAAPLLKQALQA---APENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAAT  219 (304)
T ss_pred             hhhhccchhhHHHHHHHHHHh---CcccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcC
Confidence            456677888888888877732   232 44556778888888888888888888774333222211  222333333333


Q ss_pred             HHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHHHHhC
Q 005487          596 EMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKEL  642 (694)
Q Consensus       596 ~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  642 (694)
                      .+. ..+++.+..+|+|...-..|+..+...|+.++|.+.+=.+..+
T Consensus       220 ~~~-~~l~~~~aadPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~  265 (304)
T COG3118         220 PEI-QDLQRRLAADPDDVEAALALADQLHLVGRNEAALEHLLALLRR  265 (304)
T ss_pred             CCH-HHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            322 2344556678888888889999999999999998877665544

>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=96.22  E-value=0.059  Score=45.68  Aligned_cols=72  Identities=21%  Similarity=0.200  Sum_probs=52.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHH----hcCCCCChHHH
Q 005487          477 SWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMIS----EYNIQPRNEHY  549 (694)
Q Consensus       477 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~~~p~~~~~  549 (694)
                      ....++..+...|+++.|..+.+.+.... +.|...+..++.++...|+..+|.+.|+.+.+    +.|+.|++.+-
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~  139 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETR  139 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHH
Confidence            45557777888999999999999999874 45678899999999999999999998887633    56888887654

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=96.20  E-value=0.014  Score=34.48  Aligned_cols=33  Identities=18%  Similarity=0.064  Sum_probs=24.8

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCC
Q 005487          580 GLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDD  612 (694)
Q Consensus       580 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~  612 (694)
                      ..|..++..+...|++++|++.++++++++|+|
T Consensus         2 ~~~~~lg~~~~~~~~~~~A~~~~~~al~l~p~~   34 (34)
T PF07719_consen    2 EAWYYLGQAYYQLGNYEEAIEYFEKALELDPNN   34 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTTS
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHHCcCC
Confidence            356677777888888888888888888888864

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 ....

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=96.16  E-value=0.035  Score=47.45  Aligned_cols=92  Identities=21%  Similarity=0.097  Sum_probs=66.0

Q ss_pred             HHHhhhcCCHHHHHHHHHhCCCCCC-C-----HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhc
Q 005487          553 IDLLGRAGRLQEAYGILQSTPEIRE-D-----AGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASV  626 (694)
Q Consensus       553 ~~~~~~~g~~~~A~~~~~~~~~~~p-~-----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~  626 (694)
                      ++-+...|++++|..-|..+...-| .     ...|..-+.+..+.+..+.|+....++++++|....+....+.+|.+.
T Consensus       102 GN~~F~ngdyeeA~skY~~Ale~cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pty~kAl~RRAeayek~  181 (271)
T KOG4234|consen  102 GNELFKNGDYEEANSKYQEALESCPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPTYEKALERRAEAYEKM  181 (271)
T ss_pred             HHHhhhcccHHHHHHHHHHHHHhCccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCchhHHHHHHHHHHHHhh
Confidence            4455666777777777776655222 2     223444455667778888888888888888888888888888888888


Q ss_pred             CChHHHHHHHHHHHhCCC
Q 005487          627 KKWDEVRKIRLKMKELGL  644 (694)
Q Consensus       627 g~~~~A~~~~~~~~~~~~  644 (694)
                      .++++|++-++++.+..+
T Consensus       182 ek~eealeDyKki~E~dP  199 (271)
T KOG4234|consen  182 EKYEEALEDYKKILESDP  199 (271)
T ss_pred             hhHHHHHHHHHHHHHhCc
Confidence            888888888888776543

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.12  E-value=0.4  Score=41.34  Aligned_cols=116  Identities=13%  Similarity=0.021  Sum_probs=75.5

Q ss_pred             HHHHHHHHHHHcCCCCCHhhH--HHHHHHHHccCCHHHHHHHHHHhHHhcCCCCCh----HHHHHHHHHhhhcCCHHHHH
Q 005487          493 EALKLFGEMQQSNARPDSITF--LALLSACSHAGWVDEGGYYFNLMISEYNIQPRN----EHYSCLIDLLGRAGRLQEAY  566 (694)
Q Consensus       493 ~A~~~~~~~~~~~~~p~~~~~--~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~----~~~~~l~~~~~~~g~~~~A~  566 (694)
                      +.....+++...........+  ..+...+...|++++|..-++....   .+.|.    ..-..|++.....|++|+|+
T Consensus        70 ~~~~~~ekf~~~n~~t~Ya~laaL~lAk~~ve~~~~d~A~aqL~~~l~---~t~De~lk~l~~lRLArvq~q~~k~D~AL  146 (207)
T COG2976          70 KSIAAAEKFVQANGKTIYAVLAALELAKAEVEANNLDKAEAQLKQALA---QTKDENLKALAALRLARVQLQQKKADAAL  146 (207)
T ss_pred             hhHHHHHHHHhhccccHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHc---cchhHHHHHHHHHHHHHHHHHhhhHHHHH
Confidence            555666666664212122222  2234467888999999999887762   22221    12235678888999999999


Q ss_pred             HHHHhCCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC
Q 005487          567 GILQSTPEIREDAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPD  611 (694)
Q Consensus       567 ~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~  611 (694)
                      ..++......-.+.....-+.++...|+.++|+..|+++++.++.
T Consensus       147 ~~L~t~~~~~w~~~~~elrGDill~kg~k~~Ar~ay~kAl~~~~s  191 (207)
T COG2976         147 KTLDTIKEESWAAIVAELRGDILLAKGDKQEARAAYEKALESDAS  191 (207)
T ss_pred             HHHhccccccHHHHHHHHhhhHHHHcCchHHHHHHHHHHHHccCC
Confidence            999887622212333445567788889999999999999888743

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.10  E-value=0.17  Score=47.12  Aligned_cols=159  Identities=12%  Similarity=-0.000  Sum_probs=71.7

Q ss_pred             cCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHHH----HHHHHhhhcCCHH
Q 005487          488 HGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYS----CLIDLLGRAGRLQ  563 (694)
Q Consensus       488 ~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~----~l~~~~~~~g~~~  563 (694)
                      .|+..+|...++++.+. .+.|...+...=.+|...|+.+.-...++++..+  ..|+.+.|.    .++..+...|-++
T Consensus       116 ~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~--wn~dlp~~sYv~GmyaFgL~E~g~y~  192 (491)
T KOG2610|consen  116 RGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK--WNADLPCYSYVHGMYAFGLEECGIYD  192 (491)
T ss_pred             cccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccc--cCCCCcHHHHHHHHHHhhHHHhccch
Confidence            34455555555555543 2334444444444555555555555555555422  123332222    2233444555555


Q ss_pred             HHHHHHHhCCCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC----CCccHHHHHHHHhhcCChHHHHHHHHH
Q 005487          564 EAYGILQSTPEIRED-AGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPD----DSSTYIVLSNMYASVKKWDEVRKIRLK  638 (694)
Q Consensus       564 ~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~----~~~~~~~l~~~~~~~g~~~~A~~~~~~  638 (694)
                      +|.+.-+++.+++|. .-........+...|+..++.++.++.-..-..    -..-|-..+-.+...+.++.|+++|++
T Consensus       193 dAEk~A~ralqiN~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD~  272 (491)
T KOG2610|consen  193 DAEKQADRALQINRFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIYDR  272 (491)
T ss_pred             hHHHHHHhhccCCCcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHHHH
Confidence            555555555544442 223334444444555555555555543211110    011233344445555566666666555


Q ss_pred             HHhCCCccCCc
Q 005487          639 MKELGLRKNPG  649 (694)
Q Consensus       639 ~~~~~~~~~~~  649 (694)
                      -+-..+.++.+
T Consensus       273 ei~k~l~k~Da  283 (491)
T KOG2610|consen  273 EIWKRLEKDDA  283 (491)
T ss_pred             HHHHHhhccch
Confidence            44344444433

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=96.06  E-value=0.55  Score=43.46  Aligned_cols=174  Identities=14%  Similarity=0.051  Sum_probs=110.9

Q ss_pred             HHHHHHhhCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcC
Q 005487          462 EAFKVFNELPERDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYN  541 (694)
Q Consensus       462 ~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  541 (694)
                      ...++++....+....-..-.......|++..|..+|....... +-+......++.+|...|+.+.|..++..+-.+..
T Consensus       121 qlr~~ld~~~~~~~e~~~~~~~~~~~~e~~~~a~~~~~~al~~~-~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~  199 (304)
T COG3118         121 QLRQFLDKVLPAEEEEALAEAKELIEAEDFGEAAPLLKQALQAA-PENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQ  199 (304)
T ss_pred             HHHHHHHHhcChHHHHHHHHhhhhhhccchhhHHHHHHHHHHhC-cccchHHHHHHHHHHHcCChHHHHHHHHhCcccch
Confidence            33444444444322222223345667788888888888888763 33456777788888999999999888887642210


Q ss_pred             CCCChHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCCCccHHHH
Q 005487          542 IQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRDIEMGEKIAKLLIEKD--PDDSSTYIVL  619 (694)
Q Consensus       542 ~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~l  619 (694)
                       .........-+..+.+.....+...+-++..+.+.|...-..++..+...|+.+.|.+.+-..++.+  -+|..+...+
T Consensus       200 -~~~~~~l~a~i~ll~qaa~~~~~~~l~~~~aadPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~l  278 (304)
T COG3118         200 -DKAAHGLQAQIELLEQAAATPEIQDLQRRLAADPDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARKTL  278 (304)
T ss_pred             -hhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHHHH
Confidence             1111122233455556555555555555555333366777788888888999999999888888765  3477788888


Q ss_pred             HHHHhhcCChHHHHHHHH
Q 005487          620 SNMYASVKKWDEVRKIRL  637 (694)
Q Consensus       620 ~~~~~~~g~~~~A~~~~~  637 (694)
                      ..++...|..+.+.-.++
T Consensus       279 le~f~~~g~~Dp~~~~~R  296 (304)
T COG3118         279 LELFEAFGPADPLVLAYR  296 (304)
T ss_pred             HHHHHhcCCCCHHHHHHH
Confidence            888888875555443333

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.04  E-value=0.43  Score=46.58  Aligned_cols=168  Identities=13%  Similarity=0.014  Sum_probs=108.7

Q ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC---CCCCHhhHHHHHHHHHc---cCCHHHHHHHHHHhHHhcCCCCChHH
Q 005487          475 LVSWTSMIAAYGSHGRALEALKLFGEMQQSN---ARPDSITFLALLSACSH---AGWVDEGGYYFNLMISEYNIQPRNEH  548 (694)
Q Consensus       475 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~---~~p~~~~~~~l~~~~~~---~g~~~~A~~~~~~~~~~~~~~p~~~~  548 (694)
                      +.....++-+|....+++.-+++++.+...-   +......-...+-++.+   .|+.++|++++..+... .-.+++++
T Consensus       141 ~div~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~-~~~~~~d~  219 (374)
T PF13281_consen  141 PDIVINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLES-DENPDPDT  219 (374)
T ss_pred             hhHHHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhc-cCCCChHH
Confidence            3344567778999999999999999998751   11122223334446667   89999999999996533 55678888


Q ss_pred             HHHHHHHhhh---------cCCHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHcCC-HH---HHHHHH---HH-HHhcC--
Q 005487          549 YSCLIDLLGR---------AGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRD-IE---MGEKIA---KL-LIEKD--  609 (694)
Q Consensus       549 ~~~l~~~~~~---------~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~~~-~~---~A~~~~---~~-~~~~~--  609 (694)
                      |..+++.|-.         ...+++|+..|.+.-+.+|+...--+++..+...|. .+   +...+.   .. ..+.+  
T Consensus       220 ~gL~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~  299 (374)
T PF13281_consen  220 LGLLGRIYKDLFLESNFTDRESLDKAIEWYRKGFEIEPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSL  299 (374)
T ss_pred             HHHHHHHHHHHHHHcCccchHHHHHHHHHHHHHHcCCccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhccc
Confidence            9888877642         235789999999988777765433333333333332 22   112211   11 11111  


Q ss_pred             --CCCCccHHHHHHHHhhcCChHHHHHHHHHHHhCC
Q 005487          610 --PDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELG  643 (694)
Q Consensus       610 --p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  643 (694)
                        -.+-..+-.++.+..-.|+.++|.+..++|....
T Consensus       300 ~~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~  335 (374)
T PF13281_consen  300 EKMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKLK  335 (374)
T ss_pred             cccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcC
Confidence              1243445567888888999999999999998653

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=95.95  E-value=0.016  Score=34.34  Aligned_cols=32  Identities=25%  Similarity=0.122  Sum_probs=24.0

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC
Q 005487          580 GLLSTLFSACRLHRDIEMGEKIAKLLIEKDPD  611 (694)
Q Consensus       580 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~  611 (694)
                      ..|..++..+...|++++|+..++++++++|+
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~   33 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALELDPD   33 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHCcC
Confidence            35667777788888888888888888888875

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 ....

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=95.93  E-value=0.38  Score=49.70  Aligned_cols=116  Identities=14%  Similarity=0.072  Sum_probs=69.1

Q ss_pred             cCCHHHHHHHHHHhHHhcCCCCChHHHH-HHHHHhhhcCCHHHHHHHHHhCCCCCC-----CHHHHHHHHHHHHHcCCHH
Q 005487          523 AGWVDEGGYYFNLMISEYNIQPRNEHYS-CLIDLLGRAGRLQEAYGILQSTPEIRE-----DAGLLSTLFSACRLHRDIE  596 (694)
Q Consensus       523 ~g~~~~A~~~~~~~~~~~~~~p~~~~~~-~l~~~~~~~g~~~~A~~~~~~~~~~~p-----~~~~~~~l~~~~~~~~~~~  596 (694)
                      ....+.|.++++.+.+.   -|+...|. .-++.+...|++++|++.++++...+.     ....+..++..+....+++
T Consensus       246 ~~~~~~a~~lL~~~~~~---yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~  322 (468)
T PF10300_consen  246 DVPLEEAEELLEEMLKR---YPNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWE  322 (468)
T ss_pred             CCCHHHHHHHHHHHHHh---CCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHH
Confidence            34566677777777632   35544432 335666667777777777776553221     2234455666667777777


Q ss_pred             HHHHHHHHHHhcCCCCCccHHH-HHHHHhhcCCh-------HHHHHHHHHHHh
Q 005487          597 MGEKIAKLLIEKDPDDSSTYIV-LSNMYASVKKW-------DEVRKIRLKMKE  641 (694)
Q Consensus       597 ~A~~~~~~~~~~~p~~~~~~~~-l~~~~~~~g~~-------~~A~~~~~~~~~  641 (694)
                      +|...+.++.+.+.-+...|.. .+-++...|+.       ++|.+++++...
T Consensus       323 ~A~~~f~~L~~~s~WSka~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  323 EAAEYFLRLLKESKWSKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HHHHHHHHHHhccccHHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHHH
Confidence            7777777777765544444433 33345566766       777777766643

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.

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=95.76  E-value=0.018  Score=53.45  Aligned_cols=103  Identities=10%  Similarity=-0.030  Sum_probs=72.8

Q ss_pred             HHHHHHHccCCHHHHHHHHHHhHHhcCCCC-ChHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCC-HHHHHHHHHHHHHc
Q 005487          515 ALLSACSHAGWVDEGGYYFNLMISEYNIQP-RNEHYSCLIDLLGRAGRLQEAYGILQSTPEIRED-AGLLSTLFSACRLH  592 (694)
Q Consensus       515 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~  592 (694)
                      .-..-|.++|.+++|+.+|....   .+.| ++.++..-+.+|.+..++..|..--+.+..+... ...|..-+.+-...
T Consensus       102 E~GN~yFKQgKy~EAIDCYs~~i---a~~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd~~Y~KAYSRR~~AR~~L  178 (536)
T KOG4648|consen  102 ERGNTYFKQGKYEEAIDCYSTAI---AVYPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALDKLYVKAYSRRMQARESL  178 (536)
T ss_pred             HhhhhhhhccchhHHHHHhhhhh---ccCCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHHHH
Confidence            34567889999999999998877   5567 6667777788898888888776665555432221 22344444555567


Q ss_pred             CCHHHHHHHHHHHHhcCCCCCccHHHHH
Q 005487          593 RDIEMGEKIAKLLIEKDPDDSSTYIVLS  620 (694)
Q Consensus       593 ~~~~~A~~~~~~~~~~~p~~~~~~~~l~  620 (694)
                      |+..+|..-++.++++.|++.+.--.++
T Consensus       179 g~~~EAKkD~E~vL~LEP~~~ELkK~~a  206 (536)
T KOG4648|consen  179 GNNMEAKKDCETVLALEPKNIELKKSLA  206 (536)
T ss_pred             hhHHHHHHhHHHHHhhCcccHHHHHHHH
Confidence            8899999999999999998644433333

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=95.72  E-value=0.82  Score=36.54  Aligned_cols=141  Identities=11%  Similarity=0.099  Sum_probs=82.0

Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHH
Q 005487          485 YGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQE  564 (694)
Q Consensus       485 ~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~  564 (694)
                      +.-.|..++..++..+....   .+..-++.++--....-+-+-..+.++.+-+-+.+.|              .|++..
T Consensus        12 ~ildG~V~qGveii~k~v~S---sni~E~NWvICNiiDaa~C~yvv~~LdsIGkiFDis~--------------C~NlKr   74 (161)
T PF09205_consen   12 RILDGDVKQGVEIIEKTVNS---SNIKEYNWVICNIIDAADCDYVVETLDSIGKIFDISK--------------CGNLKR   74 (161)
T ss_dssp             HHHTT-HHHHHHHHHHHHHH---S-HHHHTHHHHHHHHH--HHHHHHHHHHHGGGS-GGG---------------S-THH
T ss_pred             HHHhchHHHHHHHHHHHcCc---CCccccceeeeecchhhchhHHHHHHHHHhhhcCchh--------------hcchHH
Confidence            34567888888888888774   3555566665555555555556666666543322222              233333


Q ss_pred             HHHHHHhCCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHHHHhCCC
Q 005487          565 AYGILQSTPEIREDAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELGL  644 (694)
Q Consensus       565 A~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  644 (694)
                      ....+-.+   ..+.......+.....+|..++-..++..+.+.+..+|+....++.+|.+.|+..++.++++++-+.|+
T Consensus        75 Vi~C~~~~---n~~se~vD~ALd~lv~~~kkDqLdki~~~l~kn~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~  151 (161)
T PF09205_consen   75 VIECYAKR---NKLSEYVDLALDILVKQGKKDQLDKIYNELKKNEEINPEFLVKIANAYKKLGNTREANELLKEACEKGL  151 (161)
T ss_dssp             HHHHHHHT---T---HHHHHHHHHHHHTT-HHHHHHHHHHH-----S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-
T ss_pred             HHHHHHHh---cchHHHHHHHHHHHHHhccHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhch
Confidence            33333222   223445556667777888888888888888776666888888999999999999999999998888886


Q ss_pred             c
Q 005487          645 R  645 (694)
Q Consensus       645 ~  645 (694)
                      +
T Consensus       152 k  152 (161)
T PF09205_consen  152 K  152 (161)
T ss_dssp             H
T ss_pred             H
Confidence            3

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=95.60  E-value=0.041  Score=43.39  Aligned_cols=59  Identities=15%  Similarity=-0.017  Sum_probs=53.1

Q ss_pred             HHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHHHHhCCC
Q 005487          586 FSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELGL  644 (694)
Q Consensus       586 ~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  644 (694)
                      +.+....|+.+.|++.|.+++.+-|..+++|++.+.++.-+|+.++|++-+++..+...
T Consensus        50 ~valaE~g~Ld~AlE~F~qal~l~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag  108 (175)
T KOG4555|consen   50 AIALAEAGDLDGALELFGQALCLAPERASAYNNRAQALRLQGDDEEALDDLNKALELAG  108 (175)
T ss_pred             HHHHHhccchHHHHHHHHHHHHhcccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcC
Confidence            34567789999999999999999999999999999999999999999999998765543

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=95.60  E-value=0.42  Score=49.40  Aligned_cols=158  Identities=16%  Similarity=0.123  Sum_probs=90.1

Q ss_pred             HHHHHHHhcCChHHHHHHHhhCCC-CCh---------HHHHHHHHHHHh----cCCHHHHHHHHHHHHHcCCCCCHhhHH
Q 005487          449 ALLDMYAKCGAVDEAFKVFNELPE-RDL---------VSWTSMIAAYGS----HGRALEALKLFGEMQQSNARPDSITFL  514 (694)
Q Consensus       449 ~l~~~~~~~g~~~~A~~~~~~~~~-~~~---------~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~~~p~~~~~~  514 (694)
                      .++...+-.|+-+.+++.+....+ .+.         ..|+..+..+..    ..+.+.|.++++.+.+.  .|+...|.
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            344444445555555555544433 111         123333333332    34567788888888875  56665554


Q ss_pred             HH-HHHHHccCCHHHHHHHHHHhHHhcCCCCC--hHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCC-CHHHHHHHHHHH-
Q 005487          515 AL-LSACSHAGWVDEGGYYFNLMISEYNIQPR--NEHYSCLIDLLGRAGRLQEAYGILQSTPEIRE-DAGLLSTLFSAC-  589 (694)
Q Consensus       515 ~l-~~~~~~~g~~~~A~~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~~-  589 (694)
                      .. .+.+...|++++|++.|+.......--|.  .-.+.-++..+.-.+++++|...+..+.+... +..+|..+..+| 
T Consensus       271 ~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s~WSka~Y~Y~~a~c~  350 (468)
T PF10300_consen  271 FFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKESKWSKAFYAYLAAACL  350 (468)
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhccccHHHHHHHHHHHHH
Confidence            44 34567778888888888865521111111  22455667777888888888888888775333 234444444443 


Q ss_pred             HHcCCH-------HHHHHHHHHHHhc
Q 005487          590 RLHRDI-------EMGEKIAKLLIEK  608 (694)
Q Consensus       590 ~~~~~~-------~~A~~~~~~~~~~  608 (694)
                      ...++.       ++|.+.+.++-..
T Consensus       351 ~~l~~~~~~~~~~~~a~~l~~~vp~l  376 (468)
T PF10300_consen  351 LMLGREEEAKEHKKEAEELFRKVPKL  376 (468)
T ss_pred             HhhccchhhhhhHHHHHHHHHHHHHH
Confidence            345666       6777777766543

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.

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=95.54  E-value=1.6  Score=43.55  Aligned_cols=147  Identities=14%  Similarity=0.016  Sum_probs=86.2

Q ss_pred             CChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCC---CHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCC--hH
Q 005487          473 RDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARP---DSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPR--NE  547 (694)
Q Consensus       473 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~--~~  547 (694)
                      ....+|..++..+.+.|+++.|...+.++...+..+   .+.....-+..+...|+..+|+..++...+. .+...  ..
T Consensus       144 ~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~~-~~~~~~~~~  222 (352)
T PF02259_consen  144 ELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLKC-RLSKNIDSI  222 (352)
T ss_pred             HHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHHH-Hhhhccccc
Confidence            344578888888889999999998888887753222   3344445566677788888888888887741 11111  11


Q ss_pred             HHHHHHHHhhhcCCHHHHHHHHHhC--CCC--CCCHHHHHHHHHHHHHc------CCHHHHHHHHHHHHhcCCCCCccHH
Q 005487          548 HYSCLIDLLGRAGRLQEAYGILQST--PEI--REDAGLLSTLFSACRLH------RDIEMGEKIAKLLIEKDPDDSSTYI  617 (694)
Q Consensus       548 ~~~~l~~~~~~~g~~~~A~~~~~~~--~~~--~p~~~~~~~l~~~~~~~------~~~~~A~~~~~~~~~~~p~~~~~~~  617 (694)
                      ....+...+..  .    ......-  ...  ..-...+..++..+...      ++.+.+...++.+.+..|....+|.
T Consensus       223 ~~~~~~~~~~~--~----~~~~~~~~~~~~~~~~~a~~~l~~a~w~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~k~~~  296 (352)
T PF02259_consen  223 SNAELKSGLLE--S----LEVISSTNLDKESKELKAKAFLLLAKWLDELYSKLSSESSDEILKYYKEATKLDPSWEKAWH  296 (352)
T ss_pred             cHHHHhhcccc--c----cccccccchhhhhHHHHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHHHhChhHHHHHH
Confidence            11111111000  0    0000000  000  00112333444444444      7899999999999999999989999


Q ss_pred             HHHHHHhhc
Q 005487          618 VLSNMYASV  626 (694)
Q Consensus       618 ~l~~~~~~~  626 (694)
                      .++..+.+.
T Consensus       297 ~~a~~~~~~  305 (352)
T PF02259_consen  297 SWALFNDKL  305 (352)
T ss_pred             HHHHHHHHH
Confidence            888876654

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.45  E-value=0.92  Score=37.99  Aligned_cols=125  Identities=7%  Similarity=0.022  Sum_probs=69.6

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhh
Q 005487          479 TSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGR  558 (694)
Q Consensus       479 ~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~  558 (694)
                      ..++..+...+.+.....+++.+...+ ..+...++.++..|++.+ ..+...+++.       .++.......++.+.+
T Consensus        11 ~~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~~-~~~ll~~l~~-------~~~~yd~~~~~~~c~~   81 (140)
T smart00299       11 SEVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKYD-PQKEIERLDN-------KSNHYDIEKVGKLCEK   81 (140)
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHHC-HHHHHHHHHh-------ccccCCHHHHHHHHHH
Confidence            345556666667777777777777665 345566666776666543 3333344431       1122223345666666


Q ss_pred             cCCHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHc-CCHHHHHHHHHHHHhcCCCCCccHHHHHHHHh
Q 005487          559 AGRLQEAYGILQSTPEIREDAGLLSTLFSACRLH-RDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYA  624 (694)
Q Consensus       559 ~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~-~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  624 (694)
                      .+.++++.-++.++.       .+...+..+..+ ++++.|.+++.+     +.++..|..++..+.
T Consensus        82 ~~l~~~~~~l~~k~~-------~~~~Al~~~l~~~~d~~~a~~~~~~-----~~~~~lw~~~~~~~l  136 (140)
T smart00299       82 AKLYEEAVELYKKDG-------NFKDAIVTLIEHLGNYEKAIEYFVK-----QNNPELWAEVLKALL  136 (140)
T ss_pred             cCcHHHHHHHHHhhc-------CHHHHHHHHHHcccCHHHHHHHHHh-----CCCHHHHHHHHHHHH
Confidence            677777777776654       122233333333 677777777665     235556666665544

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=95.43  E-value=0.93  Score=39.74  Aligned_cols=29  Identities=24%  Similarity=0.260  Sum_probs=20.1

Q ss_pred             ccHHHHHHHHhhcCChHHHHHHHHHHHhC
Q 005487          614 STYIVLSNMYASVKKWDEVRKIRLKMKEL  642 (694)
Q Consensus       614 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  642 (694)
                      ++|..|+..+...|+.++|..+|+.....
T Consensus       238 EtyFYL~K~~l~~G~~~~A~~LfKLaian  266 (297)
T COG4785         238 ETYFYLGKYYLSLGDLDEATALFKLAVAN  266 (297)
T ss_pred             HHHHHHHHHHhccccHHHHHHHHHHHHHH
Confidence            35677777777777777777777765543

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=95.32  E-value=3.2  Score=40.83  Aligned_cols=429  Identities=9%  Similarity=0.024  Sum_probs=219.4

Q ss_pred             hHHHHHHhhCC-CCCchhhHHHHHHHHHccCChhHHHHHHHHhhhCCCCCCCcccHHHHHHHhhCCCCchhHHHHHHHHH
Q 005487           55 DYAMLVFKTID-NPLDLSLWNGLMASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLGSVGIGKMIHTHLI  133 (694)
Q Consensus        55 ~~a~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  133 (694)
                      .+-+++=++++ +|....+|..|+.-+..+|.+++..+++++|...  ++.-..+|...+.+-...+++...+.+|.+.+
T Consensus        26 ~D~lrLRerIkdNPtnI~S~fqLiq~~~tq~s~~~~re~yeq~~~p--fp~~~~aw~ly~s~ELA~~df~svE~lf~rCL  103 (660)
T COG5107          26 GDELRLRERIKDNPTNILSYFQLIQYLETQESMDAEREMYEQLSSP--FPIMEHAWRLYMSGELARKDFRSVESLFGRCL  103 (660)
T ss_pred             chHHHHHHHhhcCchhHHHHHHHHHHHhhhhhHHHHHHHHHHhcCC--CccccHHHHHHhcchhhhhhHHHHHHHHHHHH
Confidence            34445556665 4766669999999999999999999999999865  66667788888888888899999999999998


Q ss_pred             HHcCCCchhHHHHHHHhhhcCC-----C-hHHHHHHhccCC-----C-CCcccHHHHHHHHH---------hCCChhHHH
Q 005487          134 KTGFLLDVVIASSTAGMYAKCN-----S-FECAVKMFDEMS-----E-RDVASWNTVISCYY---------QDGQAEKAL  192 (694)
Q Consensus       134 ~~~~~~~~~~~~~l~~~~~~~g-----~-~~~A~~~~~~~~-----~-~~~~~~~~li~~~~---------~~~~~~~a~  192 (694)
                      ...+.  ...|...+.--.+.+     + -....+.|+-..     + .+...|+..+..+-         ++.+++...
T Consensus       104 ~k~l~--ldLW~lYl~YIRr~n~~~tGq~r~~i~~ayefv~~~~~~e~~s~~~W~ey~~fle~~~~~~kwEeQqrid~iR  181 (660)
T COG5107         104 KKSLN--LDLWMLYLEYIRRVNNLITGQKRFKIYEAYEFVLGCAIFEPQSENYWDEYGLFLEYIEELGKWEEQQRIDKIR  181 (660)
T ss_pred             hhhcc--HhHHHHHHHHHHhhCcccccchhhhhHHHHHHHHhcccccccccchHHHHHHHHHhccccccHHHHHHHHHHH
Confidence            87655  444554444222221     1 111112222222     1 34445665554332         233445566


Q ss_pred             HHHHHHHhCCCCCChhhH------HHHHH-HHhc------cCChhHHHHHHHHHHHh--CCC----CchhHHHH------
Q 005487          193 ELFKKMRGSGFQPNSVTL------TTVIS-SCAR------LMDLDRGKEIHKEFIKD--GFV----SDSYISSA------  247 (694)
Q Consensus       193 ~~~~~m~~~~~~~~~~~~------~~ll~-~~~~------~~~~~~a~~~~~~~~~~--~~~----~~~~~~~~------  247 (694)
                      +.|..|...-+.-=...|      ..=+. +-++      ..-+-.|.+.++++...  |+.    .+..+++.      
T Consensus       182 ~~Y~ral~tP~~nleklW~dy~~fE~e~N~~TarKfvge~sp~ym~ar~~yqe~~nlt~Gl~v~~~~~~Rt~nK~~r~s~  261 (660)
T COG5107         182 NGYMRALQTPMGNLEKLWKDYENFELELNKITARKFVGETSPIYMSARQRYQEIQNLTRGLSVKNPINLRTANKAARTSD  261 (660)
T ss_pred             HHHHHHHcCccccHHHHHHHHHHHHHHHHHHHHHHHhcccCHHHHHHHHHHHHHHHHhccccccCchhhhhhcccccccc
Confidence            666666553111001111      11111 1111      11234566666666532  321    12222222      


Q ss_pred             -----HHHhhHh-----cCChH--HHHHHHhcCCC---CChhHHHHHHHHHHcCCCchHHHHHHHHHHHCCCCCCHHHHH
Q 005487          248 -----LVDMYGK-----CGCLE--MAREVFEQTVL---KSVVAWNALIAGYSSRGDSKSCVKLFWRMNEEGIKPTLTTIS  312 (694)
Q Consensus       248 -----l~~~~~~-----~g~~~--~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~  312 (694)
                           .|..-..     .|+.-  ...-+++....   -....|-..-..+...++-+.|+.....-...  .|+...+ 
T Consensus       262 S~WlNwIkwE~en~l~L~~~~~~qRi~y~~~q~~~y~~~~~evw~dys~Y~~~isd~q~al~tv~rg~~~--spsL~~~-  338 (660)
T COG5107         262 SNWLNWIKWEMENGLKLGGRPHEQRIHYIHNQILDYFYYAEEVWFDYSEYLIGISDKQKALKTVERGIEM--SPSLTMF-  338 (660)
T ss_pred             chhhhHhhHhhcCCcccCCCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHhhccHHHHHHHHHHhcccC--CCchhee-
Confidence                 2221111     12221  22223333321   24455555555666778888888776554332  3331111 


Q ss_pred             HHHHHhhccCChhhhHHHHHHHHHhcCCCchhHHHHHHHHHHh---------cCCHHHHHHHHhcCCCCChhHHHHHHHH
Q 005487          313 SVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFK---------CGRVSSAENVFEKMSKTDVVYWNVMISG  383 (694)
Q Consensus       313 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~---------~~~~~~A~~~~~~~~~~~~~~~~~l~~~  383 (694)
                       +-..+.-..+.+.+...|+.....           |.+-|.+         .|+++.-.+++-.-...-...|...+..
T Consensus       339 -lse~yel~nd~e~v~~~fdk~~q~-----------L~r~ys~~~s~~~s~~D~N~e~~~Ell~kr~~k~t~v~C~~~N~  406 (660)
T COG5107         339 -LSEYYELVNDEEAVYGCFDKCTQD-----------LKRKYSMGESESASKVDNNFEYSKELLLKRINKLTFVFCVHLNY  406 (660)
T ss_pred             -HHHHHhhcccHHHHhhhHHHHHHH-----------HHHHHhhhhhhhhccccCCccccHHHHHHHHhhhhhHHHHHHHH
Confidence             112222233333333333322111           1111110         1112111111111111223445556666


Q ss_pred             HHhcCChHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHH
Q 005487          384 YVTVGDYFKALAIYSDMKEVG-AKPDAVTFTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDE  462 (694)
Q Consensus       384 ~~~~~~~~~A~~~~~~m~~~g-~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  462 (694)
                      ..+..-.+.|..+|-+..+.| +.++...+++++.-++ .|+...|..+|+.-...- +.+.......+..+...++-+.
T Consensus       407 v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~f-~d~~~y~~kyl~fLi~inde~n  484 (660)
T COG5107         407 VLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLKF-PDSTLYKEKYLLFLIRINDEEN  484 (660)
T ss_pred             HHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHhC-CCchHHHHHHHHHHHHhCcHHH
Confidence            666666777777777777776 4555566666665443 466666666666543332 2223333345555666777777


Q ss_pred             HHHHHhhCCC---CC--hHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 005487          463 AFKVFNELPE---RD--LVSWTSMIAAYGSHGRALEALKLFGEMQQS  504 (694)
Q Consensus       463 A~~~~~~~~~---~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  504 (694)
                      |..+|+....   .+  ...|..++.--...|+...+..+-++|...
T Consensus       485 araLFetsv~r~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~  531 (660)
T COG5107         485 ARALFETSVERLEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFREL  531 (660)
T ss_pred             HHHHHHHhHHHHHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHH
Confidence            7777775443   12  235666666666667777776666666653

>PRK11619 lytic murein transglycosylase; Provisional

Probab=95.25  E-value=5.5  Score=43.04  Aligned_cols=116  Identities=10%  Similarity=-0.048  Sum_probs=57.4

Q ss_pred             cCCHHHHHHHHHHHHHcC-CCCCH--hhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHH
Q 005487          488 HGRALEALKLFGEMQQSN-ARPDS--ITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQE  564 (694)
Q Consensus       488 ~~~~~~A~~~~~~~~~~~-~~p~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~  564 (694)
                      ..+.+.|...+....... +.+..  .....+.......+..+++...++...   ....+......-+....+.++++.
T Consensus       254 r~d~~~A~~~~~~~~~~~~~~~~~~~~~~~~lA~~~a~~~~~~~a~~w~~~~~---~~~~~~~~~e~r~r~Al~~~dw~~  330 (644)
T PRK11619        254 RQDAENARLMIPSLVRAQKLNEDQRQELRDIVAWRLMGNDVTDEQAKWRDDVI---MRSQSTSLLERRVRMALGTGDRRG  330 (644)
T ss_pred             HhCHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhccCCHHHHHHHHhcc---cccCCcHHHHHHHHHHHHccCHHH
Confidence            345677777777664432 22221  222233222222222455555555443   112233444444555557777777


Q ss_pred             HHHHHHhCCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Q 005487          565 AYGILQSTPEIRE-DAGLLSTLFSACRLHRDIEMGEKIAKLLI  606 (694)
Q Consensus       565 A~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  606 (694)
                      +...+..|+.... ......=++.++...|+.++|...|+++.
T Consensus       331 ~~~~i~~L~~~~~~~~rw~YW~aRa~~~~g~~~~A~~~~~~~a  373 (644)
T PRK11619        331 LNTWLARLPMEAKEKDEWRYWQADLLLEQGRKAEAEEILRQLM  373 (644)
T ss_pred             HHHHHHhcCHhhccCHhhHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            7777777654211 22222223444455677777777777764

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=95.17  E-value=0.31  Score=41.95  Aligned_cols=124  Identities=15%  Similarity=0.125  Sum_probs=76.6

Q ss_pred             HHccCCHHHHHHHHHHhHHhcCCCCC---hHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCCH-HHHHHHHHHHHHcCCH
Q 005487          520 CSHAGWVDEGGYYFNLMISEYNIQPR---NEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDA-GLLSTLFSACRLHRDI  595 (694)
Q Consensus       520 ~~~~g~~~~A~~~~~~~~~~~~~~p~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~-~~~~~l~~~~~~~~~~  595 (694)
                      +...|++++|..-|..++....-.+.   ...|..-+.++.+.+.++.|+.--.+++++.|.. ..+..-+.+|.+...+
T Consensus       105 ~F~ngdyeeA~skY~~Ale~cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pty~kAl~RRAeayek~ek~  184 (271)
T KOG4234|consen  105 LFKNGDYEEANSKYQEALESCPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPTYEKALERRAEAYEKMEKY  184 (271)
T ss_pred             hhhcccHHHHHHHHHHHHHhCccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCchhHHHHHHHHHHHHhhhhH
Confidence            45567777777777666632111111   1234455667777888888887777777666643 3344445567777888


Q ss_pred             HHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHH--HHHHHHHhCC
Q 005487          596 EMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVR--KIRLKMKELG  643 (694)
Q Consensus       596 ~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~--~~~~~~~~~~  643 (694)
                      +.|++-|+++++.+|....+....+++--......+..  +++.++.+.|
T Consensus       185 eealeDyKki~E~dPs~~ear~~i~rl~~~i~ernEkmKee~m~kLKdlG  234 (271)
T KOG4234|consen  185 EEALEDYKKILESDPSRREAREAIARLPPKINERNEKMKEEMMEKLKDLG  234 (271)
T ss_pred             HHHHHHHHHHHHhCcchHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHhh
Confidence            88888888988888877666666655544444444433  3455555544

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=95.11  E-value=0.19  Score=43.79  Aligned_cols=91  Identities=19%  Similarity=0.195  Sum_probs=51.9

Q ss_pred             HHccCCHHHHHHHHHHhHHhcCCCCC-hHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCCHH-HHHHHHHHHHHcCCHHH
Q 005487          520 CSHAGWVDEGGYYFNLMISEYNIQPR-NEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAG-LLSTLFSACRLHRDIEM  597 (694)
Q Consensus       520 ~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~-~~~~l~~~~~~~~~~~~  597 (694)
                      |-..|-++-|.-=|.+..   .+.|+ +.+|+.++--+...|+++.|.+.|+...+.+|... ....-+.++.--|++..
T Consensus        75 YDSlGL~~LAR~DftQaL---ai~P~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi~~YY~gR~~L  151 (297)
T COG4785          75 YDSLGLRALARNDFSQAL---AIRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALYYGGRYKL  151 (297)
T ss_pred             hhhhhHHHHHhhhhhhhh---hcCCCcHHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhccceeeeecCchHh
Confidence            444455555555555554   45565 44666666666667777777777776666655432 22222223333566666


Q ss_pred             HHHHHHHHHhcCCCCC
Q 005487          598 GEKIAKLLIEKDPDDS  613 (694)
Q Consensus       598 A~~~~~~~~~~~p~~~  613 (694)
                      |.+-+.+--+.+|+||
T Consensus       152 Aq~d~~~fYQ~D~~DP  167 (297)
T COG4785         152 AQDDLLAFYQDDPNDP  167 (297)
T ss_pred             hHHHHHHHHhcCCCCh
Confidence            6666666666666653

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=95.10  E-value=0.3  Score=46.14  Aligned_cols=220  Identities=11%  Similarity=0.114  Sum_probs=132.6

Q ss_pred             HhcCCHHHHHHHHhcCCCC------ChhHHHHHHHHHHhcCChHHHHHHHHHHHHc--CCCCCH---HHHHHHHHHHccc
Q 005487          354 FKCGRVSSAENVFEKMSKT------DVVYWNVMISGYVTVGDYFKALAIYSDMKEV--GAKPDA---VTFTSVLPACSQL  422 (694)
Q Consensus       354 ~~~~~~~~A~~~~~~~~~~------~~~~~~~l~~~~~~~~~~~~A~~~~~~m~~~--g~~p~~---~~~~~ll~~~~~~  422 (694)
                      ....+.++|+..+.+....      ...++..+..+..+.|.+++++..--.-...  ......   ..|..+.+++.+.
T Consensus        17 y~s~~~~~al~~w~~~L~~l~~~~~Rf~~lG~l~~a~s~~g~y~~mL~~a~sqi~~a~~~~ds~~~~ea~lnlar~~e~l   96 (518)
T KOG1941|consen   17 YQSNQTEKALQVWTKVLEKLSDLMGRFRVLGCLVTAHSEMGRYKEMLKFAVSQIDTARELEDSDFLLEAYLNLARSNEKL   96 (518)
T ss_pred             hcCchHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3456777777777655432      1234555666777777777765542221111  011111   2333444444444


Q ss_pred             CChHHHHHHHHHHHHh-CCCC---ChhHHHHHHHHHHhcCChHHHHHHHhhCCC-----CC----hHHHHHHHHHHHhcC
Q 005487          423 AALEKGKEIHNHIIES-KLET---NEIVMGALLDMYAKCGAVDEAFKVFNELPE-----RD----LVSWTSMIAAYGSHG  489 (694)
Q Consensus       423 ~~~~~a~~~~~~~~~~-~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~l~~~~~~~~  489 (694)
                      .++.+++.+-+.-... |..+   .......+..++...+.++++++.|+...+     .|    ...+-.|...|.+..
T Consensus        97 ~~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~  176 (518)
T KOG1941|consen   97 CEFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLK  176 (518)
T ss_pred             HHhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHH
Confidence            4555555554443321 2112   223445577778888889999998887655     22    236788889999999


Q ss_pred             CHHHHHHHHHHHHHc----CCCCCHhh-----HHHHHHHHHccCCHHHHHHHHHHhHHh---cCCCCC-hHHHHHHHHHh
Q 005487          490 RALEALKLFGEMQQS----NARPDSIT-----FLALLSACSHAGWVDEGGYYFNLMISE---YNIQPR-NEHYSCLIDLL  556 (694)
Q Consensus       490 ~~~~A~~~~~~~~~~----~~~p~~~~-----~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~~p~-~~~~~~l~~~~  556 (694)
                      |+++|.-+..+..+.    ++..-...     ...|.-++...|.+.+|.+..++..+-   +|-.|. ......++++|
T Consensus       177 D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIy  256 (518)
T KOG1941|consen  177 DYEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIY  256 (518)
T ss_pred             hhhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHH
Confidence            999999887766542    22211222     333444778889999999888887542   232222 23455788999


Q ss_pred             hhcCCHHHHHHHHHhCC
Q 005487          557 GRAGRLQEAYGILQSTP  573 (694)
Q Consensus       557 ~~~g~~~~A~~~~~~~~  573 (694)
                      -..|+.|.|+.-|+.+.
T Consensus       257 R~~gd~e~af~rYe~Am  273 (518)
T KOG1941|consen  257 RSRGDLERAFRRYEQAM  273 (518)
T ss_pred             HhcccHhHHHHHHHHHH
Confidence            99999999999888876

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=94.98  E-value=0.67  Score=47.15  Aligned_cols=154  Identities=16%  Similarity=0.072  Sum_probs=80.8

Q ss_pred             HHhcCChHHHHHHHh--hCCC-CChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHH
Q 005487          454 YAKCGAVDEAFKVFN--ELPE-RDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGG  530 (694)
Q Consensus       454 ~~~~g~~~~A~~~~~--~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~  530 (694)
                      ..-.++++++.+...  .+.. -.....+.++.-+.+.|.++.|+.+.+.-..            -.....+.|+++.|.
T Consensus       271 av~~~d~~~v~~~i~~~~ll~~i~~~~~~~i~~fL~~~G~~e~AL~~~~D~~~------------rFeLAl~lg~L~~A~  338 (443)
T PF04053_consen  271 AVLRGDFEEVLRMIAASNLLPNIPKDQGQSIARFLEKKGYPELALQFVTDPDH------------RFELALQLGNLDIAL  338 (443)
T ss_dssp             HHHTT-HHH-----HHHHTGGG--HHHHHHHHHHHHHTT-HHHHHHHSS-HHH------------HHHHHHHCT-HHHHH
T ss_pred             HHHcCChhhhhhhhhhhhhcccCChhHHHHHHHHHHHCCCHHHHHhhcCChHH------------HhHHHHhcCCHHHHH
Confidence            344566666544443  2221 1233456666666677777777665433221            123344566777666


Q ss_pred             HHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Q 005487          531 YYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDP  610 (694)
Q Consensus       531 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p  610 (694)
                      ++.+.       .++...|..|++...++|+++-|.+.+++..       -+..+.-.|...|+.+.-..+.+.+...+-
T Consensus       339 ~~a~~-------~~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~-------d~~~L~lLy~~~g~~~~L~kl~~~a~~~~~  404 (443)
T PF04053_consen  339 EIAKE-------LDDPEKWKQLGDEALRQGNIELAEECYQKAK-------DFSGLLLLYSSTGDREKLSKLAKIAEERGD  404 (443)
T ss_dssp             HHCCC-------CSTHHHHHHHHHHHHHTTBHHHHHHHHHHCT--------HHHHHHHHHHCT-HHHHHHHHHHHHHTT-
T ss_pred             HHHHh-------cCcHHHHHHHHHHHHHcCCHHHHHHHHHhhc-------CccccHHHHHHhCCHHHHHHHHHHHHHccC
Confidence            55432       2355577777777777777777777777765       345555566666777666666666554332


Q ss_pred             CCCccHHHHHHHHhhcCChHHHHHHHHH
Q 005487          611 DDSSTYIVLSNMYASVKKWDEVRKIRLK  638 (694)
Q Consensus       611 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~  638 (694)
                           +.....++.-.|+.++..+++.+
T Consensus       405 -----~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  405 -----INIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             -----HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             -----HHHHHHHHHHcCCHHHHHHHHHH
Confidence                 33444455556777777666653

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=94.96  E-value=0.46  Score=38.55  Aligned_cols=49  Identities=16%  Similarity=0.239  Sum_probs=29.3

Q ss_pred             CCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHH
Q 005487          506 ARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLID  554 (694)
Q Consensus       506 ~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~  554 (694)
                      +.|+..++..++.+|+..|++..|.++.+...+.++++-+...|..|.+
T Consensus        48 l~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~   96 (126)
T PF12921_consen   48 LYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLE   96 (126)
T ss_pred             CCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            3455666666666666666666666666666666665555555555443

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=94.93  E-value=0.041  Score=34.93  Aligned_cols=37  Identities=19%  Similarity=0.236  Sum_probs=22.2

Q ss_pred             HHHHHHHHhhhcCCHHHHHHHHHhCCCCCCC-HHHHHH
Q 005487          548 HYSCLIDLLGRAGRLQEAYGILQSTPEIRED-AGLLST  584 (694)
Q Consensus       548 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~  584 (694)
                      ++..++..|.+.|++++|.++++++.+..|+ ...|..
T Consensus         3 ~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~~~~a~~~   40 (44)
T PF13428_consen    3 AWLALARAYRRLGQPDEAERLLRRALALDPDDPEAWRA   40 (44)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCHHHHHH
Confidence            4555666666667777777776666665554 334433

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=94.91  E-value=0.96  Score=38.00  Aligned_cols=90  Identities=14%  Similarity=0.077  Sum_probs=60.4

Q ss_pred             HHHHccCCHHHHHHHHHHhHHhcCCCCChHHH-HHHHHHhhhcCCHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHcCCHH
Q 005487          518 SACSHAGWVDEGGYYFNLMISEYNIQPRNEHY-SCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRDIE  596 (694)
Q Consensus       518 ~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~-~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~  596 (694)
                      ..-...++.+++..++..+.   -+.|..... ..-+..+...|++.+|+.+++++.+..|....-..++..|.....-.
T Consensus        18 ~~al~~~~~~D~e~lL~ALr---vLRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~~~~p~~kALlA~CL~~~~D~   94 (160)
T PF09613_consen   18 SVALRLGDPDDAEALLDALR---VLRPEFPELDLFDGWLHIVRGDWDDALRLLRELEERAPGFPYAKALLALCLYALGDP   94 (160)
T ss_pred             HHHHccCChHHHHHHHHHHH---HhCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccCCCChHHHHHHHHHHHHcCCh
Confidence            34456678888888888887   556764433 33466778889999999999988776676666667777666544434


Q ss_pred             HHHHHHHHHHhcCC
Q 005487          597 MGEKIAKLLIEKDP  610 (694)
Q Consensus       597 ~A~~~~~~~~~~~p  610 (694)
                      .-....+.+++..|
T Consensus        95 ~Wr~~A~evle~~~  108 (160)
T PF09613_consen   95 SWRRYADEVLESGA  108 (160)
T ss_pred             HHHHHHHHHHhcCC
Confidence            44555555555554

>PRK09687 putative lyase; Provisional

Probab=94.91  E-value=3.6  Score=39.16  Aligned_cols=232  Identities=11%  Similarity=-0.009  Sum_probs=96.9

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhcCCCCChhHHHHHHHHHHhcCCh----HHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 005487          342 DVFINSSLIDLYFKCGRVSSAENVFEKMSKTDVVYWNVMISGYVTVGDY----FKALAIYSDMKEVGAKPDAVTFTSVLP  417 (694)
Q Consensus       342 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~----~~A~~~~~~m~~~g~~p~~~~~~~ll~  417 (694)
                      +..+....+..+...|..+-...+..-+..+|+..-...+.++.+.|+.    .++...+..+...  .|+...-...+.
T Consensus        36 d~~vR~~A~~aL~~~~~~~~~~~l~~ll~~~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~~--D~d~~VR~~A~~  113 (280)
T PRK09687         36 NSLKRISSIRVLQLRGGQDVFRLAIELCSSKNPIERDIGADILSQLGMAKRCQDNVFNILNNLALE--DKSACVRASAIN  113 (280)
T ss_pred             CHHHHHHHHHHHHhcCcchHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHhc--CCCHHHHHHHHH
Confidence            3334444444444444433222222222334444444455555555542    3455555554332  234333333333


Q ss_pred             HHcccCChH--HHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCCCChHHHHHHHHHHHhcC-CHHHH
Q 005487          418 ACSQLAALE--KGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPERDLVSWTSMIAAYGSHG-RALEA  494 (694)
Q Consensus       418 ~~~~~~~~~--~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~A  494 (694)
                      ++...+...  ........+...-..++..+-...+.++++.++.+....+...+..+|...-...+.++...+ +...+
T Consensus       114 aLG~~~~~~~~~~~~a~~~l~~~~~D~~~~VR~~a~~aLg~~~~~~ai~~L~~~L~d~~~~VR~~A~~aLg~~~~~~~~~  193 (280)
T PRK09687        114 ATGHRCKKNPLYSPKIVEQSQITAFDKSTNVRFAVAFALSVINDEAAIPLLINLLKDPNGDVRNWAAFALNSNKYDNPDI  193 (280)
T ss_pred             HHhcccccccccchHHHHHHHHHhhCCCHHHHHHHHHHHhccCCHHHHHHHHHHhcCCCHHHHHHHHHHHhcCCCCCHHH
Confidence            333322110  001111111111112344444455556666555333222333333344444444444444432 13344


Q ss_pred             HHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHHHHHHHHhCCC
Q 005487          495 LKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPE  574 (694)
Q Consensus       495 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  574 (694)
                      ...+..+..   .+|..+-...+.++.+.|+ ..++..+-...+.    ++  .....+.++...|.. +|+..+..+.+
T Consensus       194 ~~~L~~~L~---D~~~~VR~~A~~aLg~~~~-~~av~~Li~~L~~----~~--~~~~a~~ALg~ig~~-~a~p~L~~l~~  262 (280)
T PRK09687        194 REAFVAMLQ---DKNEEIRIEAIIGLALRKD-KRVLSVLIKELKK----GT--VGDLIIEAAGELGDK-TLLPVLDTLLY  262 (280)
T ss_pred             HHHHHHHhc---CCChHHHHHHHHHHHccCC-hhHHHHHHHHHcC----Cc--hHHHHHHHHHhcCCH-hHHHHHHHHHh
Confidence            555555443   3455555555555655555 3344444333311    11  122344555555553 45555555554


Q ss_pred             CCCCHHHHHHHH
Q 005487          575 IREDAGLLSTLF  586 (694)
Q Consensus       575 ~~p~~~~~~~l~  586 (694)
                      ..||..+.....
T Consensus       263 ~~~d~~v~~~a~  274 (280)
T PRK09687        263 KFDDNEIITKAI  274 (280)
T ss_pred             hCCChhHHHHHH
Confidence            344544443333

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=94.69  E-value=5.4  Score=40.12  Aligned_cols=162  Identities=14%  Similarity=0.106  Sum_probs=105.1

Q ss_pred             CCCHHHHHHHHHHHcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCC---CChHHHHHHH
Q 005487          406 KPDAVTFTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPE---RDLVSWTSMI  482 (694)
Q Consensus       406 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~  482 (694)
                      ..|.....+++..+.......-+..+..++...|  .+...+..++++|... ..+.-..+|+++.+   .|.+.-..|+
T Consensus        63 ~l~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~dfnDvv~~ReLa  139 (711)
T COG1747          63 LLDDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEYDFNDVVIGRELA  139 (711)
T ss_pred             cccchHHHHHHHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcchhHHHHHHHH
Confidence            4466667777777777777777777777777655  3555666777777777 55666677775554   4444444455


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCCH------hhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHh
Q 005487          483 AAYGSHGRALEALKLFGEMQQSNARPDS------ITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLL  556 (694)
Q Consensus       483 ~~~~~~~~~~~A~~~~~~~~~~~~~p~~------~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~  556 (694)
                      ..|-+ ++.+.+..+|.++...- -|..      ..|..+..  .-..+.+....+..++.++.|...-...+..+..-|
T Consensus       140 ~~yEk-ik~sk~a~~f~Ka~yrf-I~~~q~~~i~evWeKL~~--~i~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Y  215 (711)
T COG1747         140 DKYEK-IKKSKAAEFFGKALYRF-IPRRQNAAIKEVWEKLPE--LIGDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKY  215 (711)
T ss_pred             HHHHH-hchhhHHHHHHHHHHHh-cchhhhhhHHHHHHHHHH--hccccHHHHHHHHHHHHHhhccchHHHHHHHHHHHh
Confidence            55544 77777777777776652 2311      22333322  113567777777777776666555555666777778


Q ss_pred             hhcCCHHHHHHHHHhCCC
Q 005487          557 GRAGRLQEAYGILQSTPE  574 (694)
Q Consensus       557 ~~~g~~~~A~~~~~~~~~  574 (694)
                      ....++++|++++..+.+
T Consensus       216 s~~eN~~eai~Ilk~il~  233 (711)
T COG1747         216 SENENWTEAIRILKHILE  233 (711)
T ss_pred             ccccCHHHHHHHHHHHhh
Confidence            888888888888887775

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=94.46  E-value=2.2  Score=43.57  Aligned_cols=130  Identities=12%  Similarity=0.027  Sum_probs=73.7

Q ss_pred             HHHcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCCCChHHHHHHHHHHHhcCCHHHHHH
Q 005487          417 PACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPERDLVSWTSMIAAYGSHGRALEALK  496 (694)
Q Consensus       417 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  496 (694)
                      ......++++.+.+..+.-.-. ...+....+.++.-+.+.|.++.|+.+-+.     +   ..-+....+.|+.+.|.+
T Consensus       269 k~av~~~d~~~v~~~i~~~~ll-~~i~~~~~~~i~~fL~~~G~~e~AL~~~~D-----~---~~rFeLAl~lg~L~~A~~  339 (443)
T PF04053_consen  269 KTAVLRGDFEEVLRMIAASNLL-PNIPKDQGQSIARFLEKKGYPELALQFVTD-----P---DHRFELALQLGNLDIALE  339 (443)
T ss_dssp             HHHHHTT-HHH-----HHHHTG-GG--HHHHHHHHHHHHHTT-HHHHHHHSS------H---HHHHHHHHHCT-HHHHHH
T ss_pred             HHHHHcCChhhhhhhhhhhhhc-ccCChhHHHHHHHHHHHCCCHHHHHhhcCC-----h---HHHhHHHHhcCCHHHHHH
Confidence            3344567777766655311100 011244567777778888888888776443     2   223455567788877776


Q ss_pred             HHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHHHHHHHHh
Q 005487          497 LFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQS  571 (694)
Q Consensus       497 ~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~  571 (694)
                      +.++      .++...|..|......+|+++-|.+.|.+..          -+..|.-.|.-.|+.+.-.++.+.
T Consensus       340 ~a~~------~~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~----------d~~~L~lLy~~~g~~~~L~kl~~~  398 (443)
T PF04053_consen  340 IAKE------LDDPEKWKQLGDEALRQGNIELAEECYQKAK----------DFSGLLLLYSSTGDREKLSKLAKI  398 (443)
T ss_dssp             HCCC------CSTHHHHHHHHHHHHHTTBHHHHHHHHHHCT-----------HHHHHHHHHHCT-HHHHHHHHHH
T ss_pred             HHHh------cCcHHHHHHHHHHHHHcCCHHHHHHHHHhhc----------CccccHHHHHHhCCHHHHHHHHHH
Confidence            5433      2366788888888888888888888887765          145566677777776655444443

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.

>KOG2062 consensus 26S proteasome regulatory complex, subunit RPN2/PSMD1 [Posttranslational modification, protein turnover, chaperones]

Probab=94.39  E-value=8  Score=40.83  Aligned_cols=39  Identities=18%  Similarity=0.074  Sum_probs=27.9

Q ss_pred             HHHHccCChhHHHHHHHHhhhCCCCCCCcccHHHHHHHh
Q 005487           78 ASYTKNYMYITALELFDMLLQNPYLKPDSYTYPSVLKAC  116 (694)
Q Consensus        78 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~  116 (694)
                      ..|..-|.+++|+++.-.......+.++.....+++.-|
T Consensus        67 KVyy~Lgeye~Al~yAL~ag~~F~Vd~~S~y~etivak~  105 (929)
T KOG2062|consen   67 KVYYYLGEYEDALEYALRAGDDFDVDENSDYVETIVAKC  105 (929)
T ss_pred             HHHHHHHHHHHHHHHHHcCCccccccCccchhhHHHHHH
Confidence            568888999999998777654445666777766666544

>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A

Probab=94.30  E-value=0.092  Score=30.93  Aligned_cols=31  Identities=19%  Similarity=0.100  Sum_probs=21.6

Q ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC
Q 005487          581 LLSTLFSACRLHRDIEMGEKIAKLLIEKDPD  611 (694)
Q Consensus       581 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~  611 (694)
                      +|..++..+...|++++|...++++++++|+
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~~~~~   33 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEKALELNPD   33 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            4556666677777777777777777777664

...

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.16  E-value=0.5  Score=44.21  Aligned_cols=118  Identities=10%  Similarity=-0.040  Sum_probs=93.5

Q ss_pred             HccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHHHHHHHHhCCC-CCCCHHHHH----HHHHHHHHcCCH
Q 005487          521 SHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPE-IREDAGLLS----TLFSACRLHRDI  595 (694)
Q Consensus       521 ~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~p~~~~~~----~l~~~~~~~~~~  595 (694)
                      ...|+..+|-..|++++++  .+.|.-.+...-+++.-.|+.+.-...++++.- ..++.+.+.    .+.-.+...|-+
T Consensus       114 ~~~g~~h~a~~~wdklL~d--~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~wn~dlp~~sYv~GmyaFgL~E~g~y  191 (491)
T KOG2610|consen  114 WGRGKHHEAAIEWDKLLDD--YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIY  191 (491)
T ss_pred             hccccccHHHHHHHHHHHh--CchhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccc
Confidence            4568889999999999854  344555666667788888999988888888653 356654333    233345678999


Q ss_pred             HHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHHHH
Q 005487          596 EMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMK  640 (694)
Q Consensus       596 ~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  640 (694)
                      ++|+....+++++||.|..+...++.++.-.|+..++.+...+-.
T Consensus       192 ~dAEk~A~ralqiN~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~te  236 (491)
T KOG2610|consen  192 DDAEKQADRALQINRFDCWASHAKAHVLEMNGRHKEGKEFMYKTE  236 (491)
T ss_pred             hhHHHHHHhhccCCCcchHHHHHHHHHHHhcchhhhHHHHHHhcc
Confidence            999999999999999999999999999999999999999887643

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=94.16  E-value=0.084  Score=31.68  Aligned_cols=26  Identities=8%  Similarity=0.110  Sum_probs=20.4

Q ss_pred             cHHHHHHHHhhcCChHHHHHHHHHHH
Q 005487          615 TYIVLSNMYASVKKWDEVRKIRLKMK  640 (694)
Q Consensus       615 ~~~~l~~~~~~~g~~~~A~~~~~~~~  640 (694)
                      +|..|+.+|.+.|+|++|++++++..
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL   26 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQAL   26 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            36788889999999999999888844

>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=94.07  E-value=0.68  Score=37.59  Aligned_cols=51  Identities=12%  Similarity=0.186  Sum_probs=34.5

Q ss_pred             CCCCChHHHHHHHHHhhhcCCHHHHHHHHHhCCC---CCCCHHHHHHHHHHHHH
Q 005487          541 NIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPE---IREDAGLLSTLFSACRL  591 (694)
Q Consensus       541 ~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~p~~~~~~~l~~~~~~  591 (694)
                      ...|+..+..+++.+|+..|++..|+++++...+   ++-+..+|..|+..+..
T Consensus        47 pl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~v  100 (126)
T PF12921_consen   47 PLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAYV  100 (126)
T ss_pred             CCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHH
Confidence            4567777777777777777788887777776544   34456677777665444

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=93.90  E-value=1.5  Score=36.94  Aligned_cols=129  Identities=9%  Similarity=0.027  Sum_probs=77.7

Q ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHh-hHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHH--
Q 005487          475 LVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSI-TFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSC--  551 (694)
Q Consensus       475 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~--  551 (694)
                      ...|..-+. +.+.+..++|+.-|..+.+.|...-+. ....+.....+.|+...|+..|+++-+.   .|.+.....  
T Consensus        59 gd~flaAL~-lA~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~d---t~~P~~~rd~A  134 (221)
T COG4649          59 GDAFLAALK-LAQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAAD---TSIPQIGRDLA  134 (221)
T ss_pred             hHHHHHHHH-HHHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhcc---CCCcchhhHHH
Confidence            334444433 456678888888888888876432221 2222233566778888888888888743   333333222  


Q ss_pred             ---HHHHhhhcCCHHHHHHHHHhCCC-CCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Q 005487          552 ---LIDLLGRAGRLQEAYGILQSTPE-IRE-DAGLLSTLFSACRLHRDIEMGEKIAKLLIE  607 (694)
Q Consensus       552 ---l~~~~~~~g~~~~A~~~~~~~~~-~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  607 (694)
                         -+.++...|-+++.....+.+.. ..| ....-..|+.+..+.|++.+|...|+.+..
T Consensus       135 Rlraa~lLvD~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~  195 (221)
T COG4649         135 RLRAAYLLVDNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAN  195 (221)
T ss_pred             HHHHHHHHhccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHc
Confidence               24456677888777777766553 122 123344566666777888888887777664

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=93.87  E-value=0.4  Score=39.36  Aligned_cols=55  Identities=11%  Similarity=-0.001  Sum_probs=42.7

Q ss_pred             HHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHHHHhCCC
Q 005487          590 RLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELGL  644 (694)
Q Consensus       590 ~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  644 (694)
                      ...++.++++.++..+.-+.|+.+..-..-++++...|+|++|.++++.+.+.+.
T Consensus        21 L~~~d~~D~e~lLdALrvLrP~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~~~   75 (153)
T TIGR02561        21 LRSADPYDAQAMLDALRVLRPNLKELDMFDGWLLIARGNYDEAARILRELLSSAG   75 (153)
T ss_pred             HhcCCHHHHHHHHHHHHHhCCCccccchhHHHHHHHcCCHHHHHHHHHhhhccCC
Confidence            3467788888888888888888888888888888888888888888887766553

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PRK10941 hypothetical protein; Provisional

Probab=93.70  E-value=0.5  Score=44.25  Aligned_cols=83  Identities=17%  Similarity=0.115  Sum_probs=68.6

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHHHHhCCCccCCceeEEEECCEEEE
Q 005487          582 LSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELGLRKNPGCSWIEIGDRIQP  661 (694)
Q Consensus       582 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  661 (694)
                      ...+-.++.+.++++.|..+.+.++.+.|+++.-+...|-+|.+.|.+..|..-++...+.-+                 
T Consensus       184 l~nLK~~~~~~~~~~~AL~~~e~ll~l~P~dp~e~RDRGll~~qL~c~~~A~~DL~~fl~~~P-----------------  246 (269)
T PRK10941        184 LDTLKAALMEEKQMELALRASEALLQFDPEDPYEIRDRGLIYAQLDCEHVALSDLSYFVEQCP-----------------  246 (269)
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHHHhCC-----------------
Confidence            456677888999999999999999999999999999999999999999999999998876553                 


Q ss_pred             EEeCCCCCCChHHHHHHHHHHHHHhh
Q 005487          662 FFAEDKFYPQADMVYECLAILAGHME  687 (694)
Q Consensus       662 ~~~~~~~~~~~~~~~~~~~~~~~~~~  687 (694)
                            .=|.+..+..+|.++.++..
T Consensus       247 ------~dp~a~~ik~ql~~l~~~~~  266 (269)
T PRK10941        247 ------EDPISEMIRAQIHSIEQKQI  266 (269)
T ss_pred             ------CchhHHHHHHHHHHHhhcCc
Confidence                  23455666667777766543

>PRK11619 lytic murein transglycosylase; Provisional

Probab=93.59  E-value=13  Score=40.32  Aligned_cols=247  Identities=11%  Similarity=-0.067  Sum_probs=120.1

Q ss_pred             cCChHHHHHHHHHHHHcC-CCCCHH--HHHHHHHHHcccCChHHHHHHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHH
Q 005487          387 VGDYFKALAIYSDMKEVG-AKPDAV--TFTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEA  463 (694)
Q Consensus       387 ~~~~~~A~~~~~~m~~~g-~~p~~~--~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  463 (694)
                      ..+.+.|..++....... ..+...  ....+.......+..+.+...++......  .+......-+..-.+.++++.+
T Consensus       254 r~d~~~A~~~~~~~~~~~~~~~~~~~~~~~~lA~~~a~~~~~~~a~~w~~~~~~~~--~~~~~~e~r~r~Al~~~dw~~~  331 (644)
T PRK11619        254 RQDAENARLMIPSLVRAQKLNEDQRQELRDIVAWRLMGNDVTDEQAKWRDDVIMRS--QSTSLLERRVRMALGTGDRRGL  331 (644)
T ss_pred             HhCHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhccCCHHHHHHHHhccccc--CCcHHHHHHHHHHHHccCHHHH
Confidence            345577777777664432 222211  12222222222211344444444332211  2333344444444567777777


Q ss_pred             HHHHhhCCC---CChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHH-HHHHHHhHHh
Q 005487          464 FKVFNELPE---RDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEG-GYYFNLMISE  539 (694)
Q Consensus       464 ~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A-~~~~~~~~~~  539 (694)
                      ...+..|..   ....-..=+.+++...|+.++|..+|+++..   ..   +|..++.+ .+.|..-.. ......-...
T Consensus       332 ~~~i~~L~~~~~~~~rw~YW~aRa~~~~g~~~~A~~~~~~~a~---~~---~fYG~LAa-~~Lg~~~~~~~~~~~~~~~~  404 (644)
T PRK11619        332 NTWLARLPMEAKEKDEWRYWQADLLLEQGRKAEAEEILRQLMQ---QR---GFYPMVAA-QRLGEEYPLKIDKAPKPDSA  404 (644)
T ss_pred             HHHHHhcCHhhccCHhhHHHHHHHHHHcCCHHHHHHHHHHHhc---CC---CcHHHHHH-HHcCCCCCCCCCCCCchhhh
Confidence            777777654   2222333456666667777777777777633   11   22222221 111211000 0000000000


Q ss_pred             cCCCCChHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC---CCCCccH
Q 005487          540 YNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRDIEMGEKIAKLLIEKD---PDDSSTY  616 (694)
Q Consensus       540 ~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~---p~~~~~~  616 (694)
                        + +. ..-..-+..+...|+...|...+..+... .+......+.......|.++.++....+....+   -..|..|
T Consensus       405 --~-~~-~~~~~ra~~L~~~g~~~~a~~ew~~~~~~-~~~~~~~~la~~A~~~g~~~~ai~~~~~~~~~~~~~~rfp~~~  479 (644)
T PRK11619        405 --L-TQ-GPEMARVRELMYWNMDNTARSEWANLVAS-RSKTEQAQLARYAFNQQWWDLSVQATIAGKLWDHLEERFPLAW  479 (644)
T ss_pred             --h-cc-ChHHHHHHHHHHCCCHHHHHHHHHHHHhc-CCHHHHHHHHHHHHHCCCHHHHHHHHhhchhHHHHHHhCCcch
Confidence              0 00 01123355667789999999888877643 455556666666777888888887776543321   1234456


Q ss_pred             HHHHHHHhhcCChHHHHHHHHHHHhCCCccC
Q 005487          617 IVLSNMYASVKKWDEVRKIRLKMKELGLRKN  647 (694)
Q Consensus       617 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~  647 (694)
                      ......+.+.-..+.++-.---..+.+..+.
T Consensus       480 ~~~~~~~a~~~~v~~~lv~ai~rqES~f~p~  510 (644)
T PRK11619        480 NDEFRRYTSGKGIPQSYAMAIARQESAWNPK  510 (644)
T ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHhcCCCCC
Confidence            6666666666666666543333334554443

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=93.58  E-value=1.5  Score=43.89  Aligned_cols=150  Identities=13%  Similarity=0.106  Sum_probs=84.1

Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCCH-hhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHH
Q 005487          485 YGSHGRALEALKLFGEMQQSNARPDS-ITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQ  563 (694)
Q Consensus       485 ~~~~~~~~~A~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~  563 (694)
                      .-+..++..-++.-+++.+.  .||- ..|..|.  -.......++.+++++..+...     ..+.. .......|..-
T Consensus       178 AWRERnp~aRIkaA~eALei--~pdCAdAYILLA--EEeA~Ti~Eae~l~rqAvkAgE-----~~lg~-s~~~~~~g~~~  247 (539)
T PF04184_consen  178 AWRERNPQARIKAAKEALEI--NPDCADAYILLA--EEEASTIVEAEELLRQAVKAGE-----ASLGK-SQFLQHHGHFW  247 (539)
T ss_pred             HHhcCCHHHHHHHHHHHHHh--hhhhhHHHhhcc--cccccCHHHHHHHHHHHHHHHH-----Hhhch-hhhhhcccchh
Confidence            33455666666666666663  4553 3333332  2334567888888888764211     00000 00000111110


Q ss_pred             HHHHHHHhCCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC--CCccHHHHHHHHhhcCChHHHHHHHHHHHh
Q 005487          564 EAYGILQSTPEIREDAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPD--DSSTYIVLSNMYASVKKWDEVRKIRLKMKE  641 (694)
Q Consensus       564 ~A~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  641 (694)
                         +.+.+ ....+-..+-..++..+.+.|+.++|+..++.+++..|.  +-.++.+|+..+...+.+.++..++.+--+
T Consensus       248 ---e~~~~-Rdt~~~~y~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdD  323 (539)
T PF04184_consen  248 ---EAWHR-RDTNVLVYAKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDD  323 (539)
T ss_pred             ---hhhhc-cccchhhhhHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhcc
Confidence               00000 001222333455666777888888888888888887765  455788888888888888888888887655


Q ss_pred             CCCccCC
Q 005487          642 LGLRKNP  648 (694)
Q Consensus       642 ~~~~~~~  648 (694)
                      ....+..
T Consensus       324 i~lpkSA  330 (539)
T PF04184_consen  324 ISLPKSA  330 (539)
T ss_pred             ccCCchH
Confidence            4444443

The molecular function of this protein is uncertain.

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=93.54  E-value=0.47  Score=39.80  Aligned_cols=72  Identities=15%  Similarity=0.073  Sum_probs=35.7

Q ss_pred             hhcCCHHHHHHHHHhCCCCCCCHHHHH-HHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCC
Q 005487          557 GRAGRLQEAYGILQSTPEIREDAGLLS-TLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKK  628 (694)
Q Consensus       557 ~~~g~~~~A~~~~~~~~~~~p~~~~~~-~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  628 (694)
                      .+.++.+++..++..+....|...... .-+..+...|++.+|+.+++.+.+..|..+..--.++.++...|+
T Consensus        21 l~~~~~~D~e~lL~ALrvLRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~~~~p~~kALlA~CL~~~~D   93 (160)
T PF09613_consen   21 LRLGDPDDAEALLDALRVLRPEFPELDLFDGWLHIVRGDWDDALRLLRELEERAPGFPYAKALLALCLYALGD   93 (160)
T ss_pred             HccCChHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccCCCChHHHHHHHHHHHHcCC
Confidence            344555555555555544455433322 223334455555555555555555555544444445544444444

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=93.52  E-value=3.9  Score=34.17  Aligned_cols=41  Identities=12%  Similarity=0.020  Sum_probs=17.0

Q ss_pred             HHHHhhCCCCchhHHHHHHHHHHHcCCCchhHHHHHHHhhhc
Q 005487          112 VLKACGGLGSVGIGKMIHTHLIKTGFLLDVVIASSTAGMYAK  153 (694)
Q Consensus       112 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  153 (694)
                      ++..+...+.......+++.+...+ +.+...++.++..|++
T Consensus        13 vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~   53 (140)
T smart00299       13 VVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAK   53 (140)
T ss_pred             HHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHH
Confidence            3333333344444444444444433 2333344444444443

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=93.50  E-value=0.14  Score=30.67  Aligned_cols=27  Identities=19%  Similarity=0.094  Sum_probs=19.4

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhc
Q 005487          582 LSTLFSACRLHRDIEMGEKIAKLLIEK  608 (694)
Q Consensus       582 ~~~l~~~~~~~~~~~~A~~~~~~~~~~  608 (694)
                      |..++..|...|++++|++++++++.+
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~aL~l   28 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQALAL   28 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            567777888888888888888885543

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=93.36  E-value=0.57  Score=42.76  Aligned_cols=97  Identities=15%  Similarity=0.264  Sum_probs=71.1

Q ss_pred             HHHhccCC--CCCcccHHHHHHHHHhC-----CChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccC------------
Q 005487          161 VKMFDEMS--ERDVASWNTVISCYYQD-----GQAEKALELFKKMRGSGFQPNSVTLTTVISSCARLM------------  221 (694)
Q Consensus       161 ~~~~~~~~--~~~~~~~~~li~~~~~~-----~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~------------  221 (694)
                      +..|..+.  ++|..+|-..+..+...     +..+=....+..|.+.|+.-|..+|+.|+..+-+..            
T Consensus        54 e~~F~aa~~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~  133 (406)
T KOG3941|consen   54 EKQFEAAEPEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFL  133 (406)
T ss_pred             hhhhhccCcccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHh
Confidence            34455554  46777777777766543     556666777888899999999999999988765432            


Q ss_pred             ----ChhHHHHHHHHHHHhCCCCchhHHHHHHHhhHhcCC
Q 005487          222 ----DLDRGKEIHKEFIKDGFVSDSYISSALVDMYGKCGC  257 (694)
Q Consensus       222 ----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  257 (694)
                          +-.-+..++++|..+|+.||..+-..|++++.+.+-
T Consensus       134 HYP~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~  173 (406)
T KOG3941|consen  134 HYPQQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNF  173 (406)
T ss_pred             hCchhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhccccc
Confidence                233467788888888998988888888888877664

>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=93.31  E-value=3.6  Score=33.09  Aligned_cols=135  Identities=12%  Similarity=0.117  Sum_probs=73.1

Q ss_pred             HhcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcccCChHHHHHHHHHHHHh-CCCCChhHHHHHHHHHHhcCChHHH
Q 005487          385 VTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIES-KLETNEIVMGALLDMYAKCGAVDEA  463 (694)
Q Consensus       385 ~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A  463 (694)
                      .-.|..++..++..+...+   .+..-++.++--....-+-+...+.++.+-+. ++.+ -.-...++.+|...|...  
T Consensus        13 ildG~V~qGveii~k~v~S---sni~E~NWvICNiiDaa~C~yvv~~LdsIGkiFDis~-C~NlKrVi~C~~~~n~~s--   86 (161)
T PF09205_consen   13 ILDGDVKQGVEIIEKTVNS---SNIKEYNWVICNIIDAADCDYVVETLDSIGKIFDISK-CGNLKRVIECYAKRNKLS--   86 (161)
T ss_dssp             HHTT-HHHHHHHHHHHHHH---S-HHHHTHHHHHHHHH--HHHHHHHHHHHGGGS-GGG--S-THHHHHHHHHTT-----
T ss_pred             HHhchHHHHHHHHHHHcCc---CCccccceeeeecchhhchhHHHHHHHHHhhhcCchh-hcchHHHHHHHHHhcchH--
Confidence            3457777777777777664   34444555554444444444455555444221 1111 011223444554444332  


Q ss_pred             HHHHhhCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHH
Q 005487          464 FKVFNELPERDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMIS  538 (694)
Q Consensus       464 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  538 (694)
                                  ......+..+..+|+-+.-.+++..+.+.+ .+++.....+..+|.+.|+..++.+++.++-+
T Consensus        87 ------------e~vD~ALd~lv~~~kkDqLdki~~~l~kn~-~~~p~~L~kia~Ay~klg~~r~~~ell~~ACe  148 (161)
T PF09205_consen   87 ------------EYVDLALDILVKQGKKDQLDKIYNELKKNE-EINPEFLVKIANAYKKLGNTREANELLKEACE  148 (161)
T ss_dssp             ------------HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             ------------HHHHHHHHHHHHhccHHHHHHHHHHHhhcc-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHH
Confidence                        233445667778888888888888887643 77888888888888888988888888888873

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>KOG4642 consensus Chaperone-dependent E3 ubiquitin protein ligase (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]

Probab=93.26  E-value=0.14  Score=45.30  Aligned_cols=80  Identities=15%  Similarity=0.103  Sum_probs=35.8

Q ss_pred             CCHHHHHHHHHhCCCCCCCH-HHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHH
Q 005487          560 GRLQEAYGILQSTPEIREDA-GLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLK  638 (694)
Q Consensus       560 g~~~~A~~~~~~~~~~~p~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  638 (694)
                      .+++.|+..|.++....|.. ..|..=+..+.+.++++.+..--.+++++.|+....++.|+..+.....+++|+..+++
T Consensus        24 k~y~~ai~~y~raI~~nP~~~~Y~tnralchlk~~~~~~v~~dcrralql~~N~vk~h~flg~~~l~s~~~~eaI~~Lqr  103 (284)
T KOG4642|consen   24 KRYDDAIDCYSRAICINPTVASYYTNRALCHLKLKHWEPVEEDCRRALQLDPNLVKAHYFLGQWLLQSKGYDEAIKVLQR  103 (284)
T ss_pred             hhhchHHHHHHHHHhcCCCcchhhhhHHHHHHHhhhhhhhhhhHHHHHhcChHHHHHHHHHHHHHHhhccccHHHHHHHH
Confidence            33444444444444344433 22233333333444444444444444444444444444444444444444554444444


Q ss_pred             H
Q 005487          639 M  639 (694)
Q Consensus       639 ~  639 (694)
                      .
T Consensus       104 a  104 (284)
T KOG4642|consen  104 A  104 (284)
T ss_pred             H
Confidence            4

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=93.24  E-value=6.6  Score=35.96  Aligned_cols=58  Identities=9%  Similarity=0.041  Sum_probs=34.1

Q ss_pred             HHHHhcCChHHHHHHHHHHHHcCC--CCCHHHHHHHHHHHcccCChHHHHHHHHHHHHhC
Q 005487          382 SGYVTVGDYFKALAIYSDMKEVGA--KPDAVTFTSVLPACSQLAALEKGKEIHNHIIESK  439 (694)
Q Consensus       382 ~~~~~~~~~~~A~~~~~~m~~~g~--~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  439 (694)
                      ..-.+.|++++|.+.|+.+.....  +-...+...++-++.+.++++.|....++....-
T Consensus        42 ~~~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~ly  101 (254)
T COG4105          42 LTELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLY  101 (254)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhC
Confidence            334566777777777777765421  1123444455556666667777766666665543

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=93.06  E-value=0.099  Score=30.84  Aligned_cols=32  Identities=31%  Similarity=0.519  Sum_probs=21.5

Q ss_pred             HHHHHHhCCCCCchhhhHHHHHHhcCCChhHHH
Q 005487           26 HQKVVTLGLQNNIALCKSLINLYFSCQNYDYAM   58 (694)
Q Consensus        26 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~   58 (694)
                      +++.++.. |.+..+|+.+..+|...|++++|+
T Consensus         2 y~kAie~~-P~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    2 YKKAIELN-PNNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             hHHHHHHC-CCCHHHHHHHHHHHHHCcCHHhhc
Confidence            45556665 666677777777777777777664

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=93.03  E-value=5.4  Score=37.00  Aligned_cols=58  Identities=10%  Similarity=-0.064  Sum_probs=51.7

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHHHH
Q 005487          583 STLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMK  640 (694)
Q Consensus       583 ~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  640 (694)
                      ......|..+|.+.+|.++.++++.++|-+...+..|..+|...|+--.|.+-++++.
T Consensus       283 gkva~~yle~g~~neAi~l~qr~ltldpL~e~~nk~lm~~la~~gD~is~~khyerya  340 (361)
T COG3947         283 GKVARAYLEAGKPNEAIQLHQRALTLDPLSEQDNKGLMASLATLGDEISAIKHYERYA  340 (361)
T ss_pred             HHHHHHHHHcCChHHHHHHHHHHhhcChhhhHHHHHHHHHHHHhccchhhhhHHHHHH
Confidence            3445678889999999999999999999999999999999999999888888877763

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=92.92  E-value=8.9  Score=36.63  Aligned_cols=59  Identities=12%  Similarity=0.106  Sum_probs=28.2

Q ss_pred             HHHHHHHHHHhcCChH---HHHHHHhhCCC--CC-hHHHHHHHHHHHhcCCHHHHHHHHHHHHHc
Q 005487          446 VMGALLDMYAKCGAVD---EAFKVFNELPE--RD-LVSWTSMIAAYGSHGRALEALKLFGEMQQS  504 (694)
Q Consensus       446 ~~~~l~~~~~~~g~~~---~A~~~~~~~~~--~~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  504 (694)
                      ++..++.+|...+..+   +|..+++.+..  ++ +..+..-+..+.+.++.+.+.+.+.+|+..
T Consensus        86 iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~  150 (278)
T PF08631_consen   86 ILRLLANAYLEWDTYESVEKALNALRLLESEYGNKPEVFLLKLEILLKSFDEEEYEEILMRMIRS  150 (278)
T ss_pred             HHHHHHHHHHcCCChHHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHhccCChhHHHHHHHHHHHh
Confidence            3444555555554433   23333333322  22 233333444444456666666666666654

It is also involved in sporulation [].

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=92.72  E-value=17  Score=39.27  Aligned_cols=115  Identities=17%  Similarity=0.208  Sum_probs=63.6

Q ss_pred             HHHhhhcCCChHHHHHHhccCCCCCccc----HHHHHHHHHhCCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCC
Q 005487          147 TAGMYAKCNSFECAVKMFDEMSERDVAS----WNTVISCYYQDGQAEKALELFKKMRGSGFQPNSVTLTTVISSCARLMD  222 (694)
Q Consensus       147 l~~~~~~~g~~~~A~~~~~~~~~~~~~~----~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~  222 (694)
                      -+.++.+...++-|+.+-+.-.. +...    .....+.+.+.|++++|..-|-+-... +.|.     .++.-+.....
T Consensus       340 kL~iL~kK~ly~~Ai~LAk~~~~-d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~s-----~Vi~kfLdaq~  412 (933)
T KOG2114|consen  340 KLDILFKKNLYKVAINLAKSQHL-DEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEPS-----EVIKKFLDAQR  412 (933)
T ss_pred             HHHHHHHhhhHHHHHHHHHhcCC-CHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CChH-----HHHHHhcCHHH
Confidence            34445555666666666554332 1111    222334455678888887777665543 2222     23344444444


Q ss_pred             hhHHHHHHHHHHHhCCCCchhHHHHHHHhhHhcCChHHHHHHHhcCC
Q 005487          223 LDRGKEIHKEFIKDGFVSDSYISSALVDMYGKCGCLEMAREVFEQTV  269 (694)
Q Consensus       223 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  269 (694)
                      ...--.+++.+.+.|+.. ..-...|+.+|.+.++.++-.++.+...
T Consensus       413 IknLt~YLe~L~~~gla~-~dhttlLLncYiKlkd~~kL~efI~~~~  458 (933)
T KOG2114|consen  413 IKNLTSYLEALHKKGLAN-SDHTTLLLNCYIKLKDVEKLTEFISKCD  458 (933)
T ss_pred             HHHHHHHHHHHHHccccc-chhHHHHHHHHHHhcchHHHHHHHhcCC
Confidence            445555667777776443 3334567777777777777776666554

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=92.71  E-value=0.13  Score=30.17  Aligned_cols=30  Identities=20%  Similarity=0.285  Sum_probs=25.5

Q ss_pred             ccHHHHHHHHhhcCChHHHHHHHHHHHhCC
Q 005487          614 STYIVLSNMYASVKKWDEVRKIRLKMKELG  643 (694)
Q Consensus       614 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  643 (694)
                      .+|..+|.++...|++++|++.+++..+..
T Consensus         2 ~~~~~lg~~~~~~~~~~~A~~~~~~al~l~   31 (34)
T PF07719_consen    2 EAWYYLGQAYYQLGNYEEAIEYFEKALELD   31 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHHC
Confidence            468899999999999999999999987644

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 ....

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=92.47  E-value=7.7  Score=34.79  Aligned_cols=101  Identities=13%  Similarity=0.083  Sum_probs=58.2

Q ss_pred             CCHHHHHHHHHHhHHhcCCCCC----hHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCC--HHHHH-----HHHHHHHHc
Q 005487          524 GWVDEGGYYFNLMISEYNIQPR----NEHYSCLIDLLGRAGRLQEAYGILQSTPEIRED--AGLLS-----TLFSACRLH  592 (694)
Q Consensus       524 g~~~~A~~~~~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~--~~~~~-----~l~~~~~~~  592 (694)
                      .+++.|+..|+..-.-+.....    ...+..++..-...+++.+|+++|+++.....+  ..-|.     .-...|.-.
T Consensus       128 ~d~ekaI~~YE~Aae~yk~ees~ssANKC~lKvA~yaa~leqY~~Ai~iyeqva~~s~~n~LLKys~KdyflkAgLChl~  207 (288)
T KOG1586|consen  128 QDFEKAIAHYEQAAEYYKGEESVSSANKCLLKVAQYAAQLEQYSKAIDIYEQVARSSLDNNLLKYSAKDYFLKAGLCHLC  207 (288)
T ss_pred             HHHHHHHHHHHHHHHHHcchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccchHHHhHHHHHHHHHHHHhHh
Confidence            4566666666665432221111    223444556666788999999999986642222  22221     112234444


Q ss_pred             -CCHHHHHHHHHHHHhcCCCCCcc--HHHHHHHHh
Q 005487          593 -RDIEMGEKIAKLLIEKDPDDSST--YIVLSNMYA  624 (694)
Q Consensus       593 -~~~~~A~~~~~~~~~~~p~~~~~--~~~l~~~~~  624 (694)
                       .|.-.+...+++-.+++|.-..+  +..|-.++.
T Consensus       208 ~~D~v~a~~ALeky~~~dP~F~dsREckflk~L~~  242 (288)
T KOG1586|consen  208 KADEVNAQRALEKYQELDPAFTDSRECKFLKDLLD  242 (288)
T ss_pred             cccHHHHHHHHHHHHhcCCcccccHHHHHHHHHHH
Confidence             78888899999999999974443  444444443

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=92.42  E-value=0.78  Score=41.90  Aligned_cols=97  Identities=9%  Similarity=0.051  Sum_probs=67.1

Q ss_pred             HHHHhhCC--CCCchhhHHHHHHHHHc-----cCChhHHHHHHHHhhhCCCCCCCcccHHHHHHHhhCCC----------
Q 005487           58 MLVFKTID--NPLDLSLWNGLMASYTK-----NYMYITALELFDMLLQNPYLKPDSYTYPSVLKACGGLG----------  120 (694)
Q Consensus        58 ~~~~~~~~--~~~~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~----------  120 (694)
                      ++.|..++  +++.. +|-..+..+.+     ++..+=....++.|.+- |+.-|..+|+.|+..+-+..          
T Consensus        54 e~~F~aa~~~~RdK~-sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~ey-GVerDl~vYk~LlnvfPKgkfiP~nvfQ~~  131 (406)
T KOG3941|consen   54 EKQFEAAEPEKRDKD-SFLAAVATFKEKSVRGRTHVEFIYTALKYMKEY-GVERDLDVYKGLLNVFPKGKFIPQNVFQKV  131 (406)
T ss_pred             hhhhhccCcccccHH-HHHHHHHHHHHhhhcccchHHHHHHHHHHHHHh-cchhhHHHHHHHHHhCcccccccHHHHHHH
Confidence            45555554  34544 77777777754     35566666677788887 88889999999988775443          


Q ss_pred             ------CchhHHHHHHHHHHHcCCCchhHHHHHHHhhhcCCC
Q 005487          121 ------SVGIGKMIHTHLIKTGFLLDVVIASSTAGMYAKCNS  156 (694)
Q Consensus       121 ------~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  156 (694)
                            .-+-+.+++++|...|+.||..+-..+++++.+.+-
T Consensus       132 F~HYP~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~  173 (406)
T KOG3941|consen  132 FLHYPQQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNF  173 (406)
T ss_pred             HhhCchhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhccccc
Confidence                  224466777777777777777777777777776653

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=92.33  E-value=0.34  Score=45.34  Aligned_cols=98  Identities=13%  Similarity=0.060  Sum_probs=76.0

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCC-CHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCC-ChHHHHHHHHHhhh
Q 005487          481 MIAAYGSHGRALEALKLFGEMQQSNARP-DSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQP-RNEHYSCLIDLLGR  558 (694)
Q Consensus       481 l~~~~~~~~~~~~A~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p-~~~~~~~l~~~~~~  558 (694)
                      -..-|.++|.+++|+..|.+.+..  .| |++++..-..+|.+...+..|..-...++.   +.. -...|..-+.+-..
T Consensus       103 ~GN~yFKQgKy~EAIDCYs~~ia~--~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~Aia---Ld~~Y~KAYSRR~~AR~~  177 (536)
T KOG4648|consen  103 RGNTYFKQGKYEEAIDCYSTAIAV--YPHNPVYHINRALAYLKQKSFAQAEEDCEAAIA---LDKLYVKAYSRRMQARES  177 (536)
T ss_pred             hhhhhhhccchhHHHHHhhhhhcc--CCCCccchhhHHHHHHHHHHHHHHHHhHHHHHH---hhHHHHHHHHHHHHHHHH
Confidence            345799999999999999999885  56 899999999999999999998888877762   211 14456666666666


Q ss_pred             cCCHHHHHHHHHhCCCCCCCHHHHH
Q 005487          559 AGRLQEAYGILQSTPEIREDAGLLS  583 (694)
Q Consensus       559 ~g~~~~A~~~~~~~~~~~p~~~~~~  583 (694)
                      .|..++|.+-++.+.++.|+..-+.
T Consensus       178 Lg~~~EAKkD~E~vL~LEP~~~ELk  202 (536)
T KOG4648|consen  178 LGNNMEAKKDCETVLALEPKNIELK  202 (536)
T ss_pred             HhhHHHHHHhHHHHHhhCcccHHHH
Confidence            7888888888888888888854433

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=92.29  E-value=3  Score=34.49  Aligned_cols=97  Identities=12%  Similarity=0.015  Sum_probs=55.7

Q ss_pred             ccCCHHHHHHHHHHhHHhcCCCCChH-HHHHHHHHhhhcCCHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHc-CCHHHHH
Q 005487          522 HAGWVDEGGYYFNLMISEYNIQPRNE-HYSCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLH-RDIEMGE  599 (694)
Q Consensus       522 ~~g~~~~A~~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~-~~~~~A~  599 (694)
                      ..++.+++..+++.+.   -+.|+.. .-..-+..+...|++++|+.++++..+..+....-..+...|... ||.    
T Consensus        22 ~~~d~~D~e~lLdALr---vLrP~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~~~~~p~~kAL~A~CL~al~Dp----   94 (153)
T TIGR02561        22 RSADPYDAQAMLDALR---VLRPNLKELDMFDGWLLIARGNYDEAARILRELLSSAGAPPYGKALLALCLNAKGDA----   94 (153)
T ss_pred             hcCCHHHHHHHHHHHH---HhCCCccccchhHHHHHHHcCCHHHHHHHHHhhhccCCCchHHHHHHHHHHHhcCCh----
Confidence            3677777777777776   4556533 222335666777888888888888775555544444454444332 222    


Q ss_pred             HHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHHHH
Q 005487          600 KIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMK  640 (694)
Q Consensus       600 ~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  640 (694)
                                     .|...+......|.-.+++.+.+.+.
T Consensus        95 ---------------~Wr~~A~~~le~~~~~~a~~Lv~al~  120 (153)
T TIGR02561        95 ---------------EWHVHADEVLARDADADAVALVRALL  120 (153)
T ss_pred             ---------------HHHHHHHHHHHhCCCHhHHHHHHHHh
Confidence                           24444444445555555555555554

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=92.09  E-value=0.18  Score=29.66  Aligned_cols=30  Identities=23%  Similarity=0.369  Sum_probs=25.7

Q ss_pred             ccHHHHHHHHhhcCChHHHHHHHHHHHhCC
Q 005487          614 STYIVLSNMYASVKKWDEVRKIRLKMKELG  643 (694)
Q Consensus       614 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  643 (694)
                      .+|..+|.+|...|++++|++.+++..+..
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~   31 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALELD   31 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHC
Confidence            468899999999999999999999987654

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 ....

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=92.00  E-value=0.35  Score=28.06  Aligned_cols=27  Identities=22%  Similarity=0.201  Sum_probs=12.9

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCC
Q 005487          585 LFSACRLHRDIEMGEKIAKLLIEKDPD  611 (694)
Q Consensus       585 l~~~~~~~~~~~~A~~~~~~~~~~~p~  611 (694)
                      ++.++...|++++|.+.++++++..|+
T Consensus         6 ~a~~~~~~g~~~~A~~~~~~~~~~~P~   32 (33)
T PF13174_consen    6 LARCYYKLGDYDEAIEYFQRLIKRYPD   32 (33)
T ss_dssp             HHHHHHHHCHHHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHccCHHHHHHHHHHHHHHCcC
Confidence            334444445555555555555544443

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=91.96  E-value=2  Score=40.25  Aligned_cols=79  Identities=18%  Similarity=0.200  Sum_probs=57.0

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHH----hcCCCCChHHHHH
Q 005487          476 VSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMIS----EYNIQPRNEHYSC  551 (694)
Q Consensus       476 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~~~p~~~~~~~  551 (694)
                      .++..++..+...|+.+.+...++++.... +-+...|..++.+|.+.|+...|+..|+.+.+    +.|+.|.+.+...
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            356667777788888888888888888764 45677888888888888888888888877653    4567777665544


Q ss_pred             HHHH
Q 005487          552 LIDL  555 (694)
Q Consensus       552 l~~~  555 (694)
                      ....
T Consensus       233 y~~~  236 (280)
T COG3629         233 YEEI  236 (280)
T ss_pred             HHHH
Confidence            4443

>KOG0890 consensus Protein kinase of the PI-3 kinase family involved in mitotic growth, DNA repair and meiotic recombination [Signal transduction mechanisms; Chromatin structure and dynamics; Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=91.86  E-value=39  Score=41.51  Aligned_cols=109  Identities=13%  Similarity=-0.040  Sum_probs=74.4

Q ss_pred             HhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHHHHHHHHhCCC-CCCC--------HH
Q 005487          510 SITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPE-IRED--------AG  580 (694)
Q Consensus       510 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~p~--------~~  580 (694)
                      ..+|....+....+|.++.|...+-++.+. +   -+..+.-.+..+...|+...|+.++++..+ ..|+        +.
T Consensus      1670 ge~wLqsAriaR~aG~~q~A~nall~A~e~-r---~~~i~~E~AK~lW~~gd~~~Al~~Lq~~l~~~~~~~~~~~~~~p~ 1745 (2382)
T KOG0890|consen 1670 GECWLQSARIARLAGHLQRAQNALLNAKES-R---LPEIVLERAKLLWQTGDELNALSVLQEILSKNFPDLHTPYTDTPQ 1745 (2382)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHhhhhc-c---cchHHHHHHHHHHhhccHHHHHHHHHHHHHhhcccccCCccccch
Confidence            367888888889999999998887777622 2   344566778899999999999999998553 1111        11


Q ss_pred             -----HHH---HHH-HHHHHcCC--HHHHHHHHHHHHhcCCCCCccHHHHHHH
Q 005487          581 -----LLS---TLF-SACRLHRD--IEMGEKIAKLLIEKDPDDSSTYIVLSNM  622 (694)
Q Consensus       581 -----~~~---~l~-~~~~~~~~--~~~A~~~~~~~~~~~p~~~~~~~~l~~~  622 (694)
                           ...   .+. ......++  ...-...|+.+.+..|.....|+.+|.-
T Consensus      1746 ~~n~~i~~~~~L~~~~~~~es~n~~s~~ilk~Y~~~~ail~ewe~~hy~l~~y 1798 (2382)
T KOG0890|consen 1746 SVNLLIFKKAKLKITKYLEESGNFESKDILKYYHDAKAILPEWEDKHYHLGKY 1798 (2382)
T ss_pred             hhhhhhhhhHHHHHHHHHHHhcchhHHHHHHHHHHHHHHcccccCceeeHHHH
Confidence                 111   111 11222344  4466778899999999888888888744

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=91.80  E-value=8.2  Score=33.64  Aligned_cols=93  Identities=14%  Similarity=-0.026  Sum_probs=67.0

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCCCH----hhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHh
Q 005487          481 MIAAYGSHGRALEALKLFGEMQQSNARPDS----ITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLL  556 (694)
Q Consensus       481 l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~  556 (694)
                      +...+...+++++|...++.....  +.|.    ..-..|.+.....|.+|+|...++...   +-.........-++++
T Consensus        95 lAk~~ve~~~~d~A~aqL~~~l~~--t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~---~~~w~~~~~elrGDil  169 (207)
T COG2976          95 LAKAEVEANNLDKAEAQLKQALAQ--TKDENLKALAALRLARVQLQQKKADAALKTLDTIK---EESWAAIVAELRGDIL  169 (207)
T ss_pred             HHHHHHhhccHHHHHHHHHHHHcc--chhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhccc---cccHHHHHHHHhhhHH
Confidence            456678889999999999988864  2222    233445567888999999999998776   2222333445568999


Q ss_pred             hhcCCHHHHHHHHHhCCCCCCC
Q 005487          557 GRAGRLQEAYGILQSTPEIRED  578 (694)
Q Consensus       557 ~~~g~~~~A~~~~~~~~~~~p~  578 (694)
                      ...|+.++|+.-|+++.+..++
T Consensus       170 l~kg~k~~Ar~ay~kAl~~~~s  191 (207)
T COG2976         170 LAKGDKQEARAAYEKALESDAS  191 (207)
T ss_pred             HHcCchHHHHHHHHHHHHccCC
Confidence            9999999999999988754343

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=91.74  E-value=7.5  Score=33.04  Aligned_cols=120  Identities=16%  Similarity=0.165  Sum_probs=69.8

Q ss_pred             HHhcCChHHHHHHHhhCCCCChHHHHH-----HHHHHHhcCCHHHHHHHHHHHHHcCCCCCHh-hHHHH--HHHHHccCC
Q 005487          454 YAKCGAVDEAFKVFNELPERDLVSWTS-----MIAAYGSHGRALEALKLFGEMQQSNARPDSI-TFLAL--LSACSHAGW  525 (694)
Q Consensus       454 ~~~~g~~~~A~~~~~~~~~~~~~~~~~-----l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~-~~~~l--~~~~~~~g~  525 (694)
                      +.+.+..++|+.-|..+.+.+...|-.     ........|+...|...|.++-.....|-.. -...|  ...+...|.
T Consensus        68 lA~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlraa~lLvD~gs  147 (221)
T COG4649          68 LAQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLRAAYLLVDNGS  147 (221)
T ss_pred             HHHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHHHHHHHhcccc
Confidence            456677777877777777644333332     2344567777778888887776643233221 11122  123566777


Q ss_pred             HHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHHHHHHHHhCCC
Q 005487          526 VDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPE  574 (694)
Q Consensus       526 ~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  574 (694)
                      +++...-.+.+..+ +.+-....-..|+-+-.+.|++.+|.+.|..+..
T Consensus       148 y~dV~srvepLa~d-~n~mR~sArEALglAa~kagd~a~A~~~F~qia~  195 (221)
T COG4649         148 YDDVSSRVEPLAGD-GNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAN  195 (221)
T ss_pred             HHHHHHHhhhccCC-CChhHHHHHHHHhHHHHhccchHHHHHHHHHHHc
Confidence            77777766666421 1111223345666677777888888887777654

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=91.72  E-value=0.16  Score=42.90  Aligned_cols=85  Identities=20%  Similarity=0.207  Sum_probs=61.0

Q ss_pred             HHHHhhCCCChhhHhHHHHHHHHhCCCCCchhhhHHHHHHhcCCChhHHHHHHhhCCCCCchhhHHHHHHHHHccCChhH
Q 005487            9 LLRTCTGSKSLKEGKIIHQKVVTLGLQNNIALCKSLINLYFSCQNYDYAMLVFKTIDNPLDLSLWNGLMASYTKNYMYIT   88 (694)
Q Consensus         9 ~l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~   88 (694)
                      +...+.+.+.++....+++.+++.+...+..+.+.++..|++.+..+...++++....-    -...++..+.+.|.++.
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~~~y----d~~~~~~~c~~~~l~~~   88 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTSNNY----DLDKALRLCEKHGLYEE   88 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSSSSS-----CTHHHHHHHTTTSHHH
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHccccccc----CHHHHHHHHHhcchHHH
Confidence            45566677888888888888888776777888888888888888888888888754442    22356666777777777


Q ss_pred             HHHHHHHhh
Q 005487           89 ALELFDMLL   97 (694)
Q Consensus        89 a~~~~~~~~   97 (694)
                      +.-++..+.
T Consensus        89 a~~Ly~~~~   97 (143)
T PF00637_consen   89 AVYLYSKLG   97 (143)
T ss_dssp             HHHHHHCCT
T ss_pred             HHHHHHHcc
Confidence            777777653

These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. Clathrin is a trimer composed of three heavy chains and three light chains, each monomer projecting outwards like a leg; this three-legged structure is known as a triskelion [, ]. The heavy chains form the legs, their N-terminal beta-propeller regions extending outwards, while their C-terminal alpha-alpha-superhelical regions form the central hub of the triskelion. Peptide motifs can bind between the beta-propeller blades. The light chains appear to have a regulatory role, and may help orient the assembly and disassembly of clathrin coats as they interact with hsc70 uncoating ATPase []. Clathrin triskelia self-polymerise into a curved lattice by twisting individual legs together. The clathrin lattice forms around a vesicle as it buds from the TGN, plasma membrane or endosomes, acting to stabilise the vesicle and facilitate the budding process []. The multiple blades created when the triskelia polymerise are involved in multiple protein interactions, enabling the recruitment of different cargo adaptors and membrane attachment proteins []. This entry represents the 7-fold alpha-alpha-superhelical ARM-type repeat found at the C-terminal of clathrin heavy chains and in VPS (vacuolar protein sorting-associated) proteins. In clathrin heavy chains, the C-terminal 7-fold ARM-type repeats interact to form the central hub of the triskelion. VPS proteins are required for vacuolar assembly and vacuolar traffick, and contain one clathrin-type repeat []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport; PDB: 3LVH_A 3LVG_C 1B89_A 3QIL_L.

>KOG0376 consensus Serine-threonine phosphatase 2A, catalytic subunit [General function prediction only]

Probab=91.67  E-value=0.19  Score=49.66  Aligned_cols=99  Identities=9%  Similarity=-0.027  Sum_probs=57.0

Q ss_pred             HHHHccCCHHHHHHHHHHhHHhcCCCCChHHH-HHHHHHhhhcCCHHHHHHHHHhCCCCCCCH-HHHHHHHHHHHHcCCH
Q 005487          518 SACSHAGWVDEGGYYFNLMISEYNIQPRNEHY-SCLIDLLGRAGRLQEAYGILQSTPEIREDA-GLLSTLFSACRLHRDI  595 (694)
Q Consensus       518 ~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~-~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~-~~~~~l~~~~~~~~~~  595 (694)
                      ..+...+.++.|+.++.+++   .+.|+-..| ..-..++.+.+++-.|+.=..++++..|.. ..|..=+.++...+.+
T Consensus        12 n~~l~~~~fd~avdlysKaI---~ldpnca~~~anRa~a~lK~e~~~~Al~Da~kaie~dP~~~K~Y~rrg~a~m~l~~~   88 (476)
T KOG0376|consen   12 NEALKDKVFDVAVDLYSKAI---ELDPNCAIYFANRALAHLKVESFGGALHDALKAIELDPTYIKAYVRRGTAVMALGEF   88 (476)
T ss_pred             hhhcccchHHHHHHHHHHHH---hcCCcceeeechhhhhheeechhhhHHHHHHhhhhcCchhhheeeeccHHHHhHHHH
Confidence            34455566677777777666   445654333 223456666666666666666665555543 2344444555566666


Q ss_pred             HHHHHHHHHHHhcCCCCCccHHHH
Q 005487          596 EMGEKIAKLLIEKDPDDSSTYIVL  619 (694)
Q Consensus       596 ~~A~~~~~~~~~~~p~~~~~~~~l  619 (694)
                      .+|...+++...+.|+++.+-..+
T Consensus        89 ~~A~~~l~~~~~l~Pnd~~~~r~~  112 (476)
T KOG0376|consen   89 KKALLDLEKVKKLAPNDPDATRKI  112 (476)
T ss_pred             HHHHHHHHHhhhcCcCcHHHHHHH
Confidence            677777777766666665544433

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.60  E-value=5  Score=36.20  Aligned_cols=170  Identities=10%  Similarity=0.038  Sum_probs=86.4

Q ss_pred             HHHHHHHhcCChHHHHHHHhhCCC--CChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCH
Q 005487          449 ALLDMYAKCGAVDEAFKVFNELPE--RDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWV  526 (694)
Q Consensus       449 ~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~  526 (694)
                      .-..+|-..++++.|...+.+..+  .+..+|-.      ....++.|.-+.+++.+.  +--...|......|.+.|..
T Consensus        36 kAAvafRnAk~feKakdcLlkA~~~yEnnrslfh------AAKayEqaamLake~~kl--sEvvdl~eKAs~lY~E~Gsp  107 (308)
T KOG1585|consen   36 KAAVAFRNAKKFEKAKDCLLKASKGYENNRSLFH------AAKAYEQAAMLAKELSKL--SEVVDLYEKASELYVECGSP  107 (308)
T ss_pred             HHHHHHHhhccHHHHHHHHHHHHHHHHhcccHHH------HHHHHHHHHHHHHHHHHh--HHHHHHHHHHHHHHHHhCCc
Confidence            334455555666666555544432  11111111      112344455555555542  11223444555567777777


Q ss_pred             HHHHHHHHHhHHhc-CCCCCh--HHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Q 005487          527 DEGGYYFNLMISEY-NIQPRN--EHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRDIEMGEKIAK  603 (694)
Q Consensus       527 ~~A~~~~~~~~~~~-~~~p~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~  603 (694)
                      +.|-..++++-+-. +..|+.  ..|..-.......++...|.+             .+......+.+.+.+++|-..+.
T Consensus       108 dtAAmaleKAak~lenv~Pd~AlqlYqralavve~~dr~~ma~e-------------l~gk~sr~lVrl~kf~Eaa~a~l  174 (308)
T KOG1585|consen  108 DTAAMALEKAAKALENVKPDDALQLYQRALAVVEEDDRDQMAFE-------------LYGKCSRVLVRLEKFTEAATAFL  174 (308)
T ss_pred             chHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHhccchHHHHHH-------------HHHHhhhHhhhhHHhhHHHHHHH
Confidence            77776666653211 233331  123222333333333333333             34444566677777777777776


Q ss_pred             HHHhcC------CCCCccHHHHHHHHhhcCChHHHHHHHHHH
Q 005487          604 LLIEKD------PDDSSTYIVLSNMYASVKKWDEVRKIRLKM  639 (694)
Q Consensus       604 ~~~~~~------p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  639 (694)
                      +-....      |..-..+...+-+|....++..|.+.++.-
T Consensus       175 Ke~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~  216 (308)
T KOG1585|consen  175 KEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDC  216 (308)
T ss_pred             HhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcch
Confidence            654322      333334666666777788999998888753

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=91.50  E-value=12  Score=37.31  Aligned_cols=70  Identities=11%  Similarity=0.102  Sum_probs=58.0

Q ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC----CCccHHHHHHHHhhcCChHHHHHHHHHHHhCCCcc
Q 005487          577 EDAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPD----DSSTYIVLSNMYASVKKWDEVRKIRLKMKELGLRK  646 (694)
Q Consensus       577 p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  646 (694)
                      .....|..++..+++.|.++.|...+.++...++.    .+.+...-+..+...|+..+|...++......+.+
T Consensus       144 ~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~~~~~~  217 (352)
T PF02259_consen  144 ELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLKCRLSK  217 (352)
T ss_pred             HHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhh
Confidence            34567899999999999999999999999986632    56677778999999999999999999887744433

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PF07721 TPR_4: Tetratricopeptide repeat; InterPro: IPR011717 This entry includes tetratricopeptide-like repeats not detected by the IPR001440 from INTERPRO, IPR013105 from INTERPRO and IPR011716 from INTERPRO models

Probab=91.37  E-value=0.25  Score=26.96  Aligned_cols=24  Identities=13%  Similarity=0.126  Sum_probs=19.6

Q ss_pred             ccHHHHHHHHhhcCChHHHHHHHH
Q 005487          614 STYIVLSNMYASVKKWDEVRKIRL  637 (694)
Q Consensus       614 ~~~~~l~~~~~~~g~~~~A~~~~~  637 (694)
                      .+...++.++...|++++|+.+++
T Consensus         2 ~a~~~la~~~~~~G~~~eA~~~l~   25 (26)
T PF07721_consen    2 RARLALARALLAQGDPDEAERLLR   25 (26)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHh
Confidence            456778888999999999988775

The tetratricopeptide repeat (TPR) motif is a protein-protein interaction module found in multiple copies in a number of functionally different proteins that facilitates specific interactions with a partner protein(s) [].; GO: 0042802 identical protein binding

>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=91.05  E-value=0.37  Score=41.06  Aligned_cols=85  Identities=12%  Similarity=0.118  Sum_probs=39.0

Q ss_pred             HHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCC----------HHHHHHHHHhCCCCCCCH-HHHHHHHHHHHHcC-
Q 005487          526 VDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGR----------LQEAYGILQSTPEIREDA-GLLSTLFSACRLHR-  593 (694)
Q Consensus       526 ~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~----------~~~A~~~~~~~~~~~p~~-~~~~~l~~~~~~~~-  593 (694)
                      ++.|.+..+.....  -+.|...+...+.++....+          +++|+.-|+++..+.|+. ..+..++.++..++ 
T Consensus         7 FE~ark~aea~y~~--nP~DadnL~~WG~ALLELAqfk~g~es~~miedAisK~eeAL~I~P~~hdAlw~lGnA~ts~A~   84 (186)
T PF06552_consen    7 FEHARKKAEAAYAK--NPLDADNLTNWGGALLELAQFKQGPESKKMIEDAISKFEEALKINPNKHDALWCLGNAYTSLAF   84 (186)
T ss_dssp             HHHHHHHHHHHHHH---TT-HHHHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHHHHHHHH-TT-HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh--CcHhHHHHHHHHHHHHHHHhccCcchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHh
Confidence            45555555554322  13345555555555544322          233444444444455653 45555555554322 


Q ss_pred             ---C-------HHHHHHHHHHHHhcCCCC
Q 005487          594 ---D-------IEMGEKIAKLLIEKDPDD  612 (694)
Q Consensus       594 ---~-------~~~A~~~~~~~~~~~p~~  612 (694)
                         +       +++|...|+++...+|+|
T Consensus        85 l~~d~~~A~~~F~kA~~~FqkAv~~~P~n  113 (186)
T PF06552_consen   85 LTPDTAEAEEYFEKATEYFQKAVDEDPNN  113 (186)
T ss_dssp             H---HHHHHHHHHHHHHHHHHHHHH-TT-
T ss_pred             hcCChHHHHHHHHHHHHHHHHHHhcCCCc
Confidence               1       455555666666666665

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.

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=90.84  E-value=4.1  Score=35.63  Aligned_cols=97  Identities=14%  Similarity=0.036  Sum_probs=55.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCH--hhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHHH----
Q 005487          477 SWTSMIAAYGSHGRALEALKLFGEMQQSNARPDS--ITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYS----  550 (694)
Q Consensus       477 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~----  550 (694)
                      .+..++..|.+.|+.+.|++.+.++.+....+..  ..+..+++.....+++..+.....++........+...-+    
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk~  117 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLKV  117 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHHH
Confidence            4566677777777777777777777765433332  4455666666677777777777766653211111111111    


Q ss_pred             HHHHHhhhcCCHHHHHHHHHhCC
Q 005487          551 CLIDLLGRAGRLQEAYGILQSTP  573 (694)
Q Consensus       551 ~l~~~~~~~g~~~~A~~~~~~~~  573 (694)
                      .-+-.+...+++.+|-+.|-...
T Consensus       118 ~~gL~~l~~r~f~~AA~~fl~~~  140 (177)
T PF10602_consen  118 YEGLANLAQRDFKEAAELFLDSL  140 (177)
T ss_pred             HHHHHHHHhchHHHHHHHHHccC
Confidence            11233445677777777776654

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.

>KOG1308 consensus Hsp70-interacting protein Hip/Transient component of progesterone receptor complexes and an Hsp70-binding protein [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=90.72  E-value=0.23  Score=46.63  Aligned_cols=89  Identities=16%  Similarity=0.165  Sum_probs=76.1

Q ss_pred             hcCCHHHHHHHHHhCCCCCCCH-HHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHH
Q 005487          558 RAGRLQEAYGILQSTPEIREDA-GLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIR  636 (694)
Q Consensus       558 ~~g~~~~A~~~~~~~~~~~p~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~  636 (694)
                      ..|.+++|++.+..++...|.. .++..-..++.+.+....|+.-+..+++++|+...-|-.-+.+..-.|+|++|.+.+
T Consensus       126 n~G~~~~ai~~~t~ai~lnp~~a~l~~kr~sv~lkl~kp~~airD~d~A~ein~Dsa~~ykfrg~A~rllg~~e~aa~dl  205 (377)
T KOG1308|consen  126 NDGEFDTAIELFTSAIELNPPLAILYAKRASVFLKLKKPNAAIRDCDFAIEINPDSAKGYKFRGYAERLLGNWEEAAHDL  205 (377)
T ss_pred             cCcchhhhhcccccccccCCchhhhcccccceeeeccCCchhhhhhhhhhccCcccccccchhhHHHHHhhchHHHHHHH
Confidence            4578999999999888776654 455666677888899999999999999999999999999999999999999999999


Q ss_pred             HHHHhCCCcc
Q 005487          637 LKMKELGLRK  646 (694)
Q Consensus       637 ~~~~~~~~~~  646 (694)
                      ....+.+...
T Consensus       206 ~~a~kld~dE  215 (377)
T KOG1308|consen  206 ALACKLDYDE  215 (377)
T ss_pred             HHHHhccccH
Confidence            9988777644

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=90.68  E-value=0.3  Score=28.31  Aligned_cols=30  Identities=13%  Similarity=0.126  Sum_probs=26.3

Q ss_pred             cHHHHHHHHhhcCChHHHHHHHHHHHhCCC
Q 005487          615 TYIVLSNMYASVKKWDEVRKIRLKMKELGL  644 (694)
Q Consensus       615 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  644 (694)
                      ++..++.++.+.|++++|.+.++++.+..+
T Consensus         2 a~~~~a~~~~~~g~~~~A~~~~~~~~~~~P   31 (33)
T PF13174_consen    2 ALYRLARCYYKLGDYDEAIEYFQRLIKRYP   31 (33)
T ss_dssp             HHHHHHHHHHHHCHHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHHCc
Confidence            467899999999999999999999987654

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=90.66  E-value=3.6  Score=40.78  Aligned_cols=124  Identities=13%  Similarity=0.108  Sum_probs=62.9

Q ss_pred             HHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHH
Q 005487          485 YGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQE  564 (694)
Q Consensus       485 ~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~  564 (694)
                      -...|+...|.+-+....... +-++.........+...|+++.+...+....+  -+.....+..++++...+.|++++
T Consensus       299 ~~~~gd~~aas~~~~~~lr~~-~~~p~~i~l~~~i~~~lg~ye~~~~~~s~~~~--~~~s~~~~~~~~~r~~~~l~r~~~  375 (831)
T PRK15180        299 QLADGDIIAASQQLFAALRNQ-QQDPVLIQLRSVIFSHLGYYEQAYQDISDVEK--IIGTTDSTLRCRLRSLHGLARWRE  375 (831)
T ss_pred             HhhccCHHHHHHHHHHHHHhC-CCCchhhHHHHHHHHHhhhHHHHHHHhhchhh--hhcCCchHHHHHHHhhhchhhHHH
Confidence            334566655554444443321 11222222222234556666666666665542  222334455566666666666666


Q ss_pred             HHHHHHhCCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC
Q 005487          565 AYGILQSTPEIRE-DAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPD  611 (694)
Q Consensus       565 A~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~  611 (694)
                      |...-+-|...+. ++.+....+......|-++++.-.+++++.++|+
T Consensus       376 a~s~a~~~l~~eie~~ei~~iaa~sa~~l~~~d~~~~~wk~~~~~~~~  423 (831)
T PRK15180        376 ALSTAEMMLSNEIEDEEVLTVAAGSADALQLFDKSYHYWKRVLLLNPE  423 (831)
T ss_pred             HHHHHHHHhccccCChhheeeecccHHHHhHHHHHHHHHHHHhccCCh
Confidence            6666666554222 3333333344444556666666666666666654

>KOG0551 consensus Hsp90 co-chaperone CNS1 (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]

Probab=90.61  E-value=1.2  Score=41.99  Aligned_cols=93  Identities=13%  Similarity=0.051  Sum_probs=76.5

Q ss_pred             HHHHHHHHHhhhcCCHHHHHHHHHhCCC---CCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHH
Q 005487          547 EHYSCLIDLLGRAGRLQEAYGILQSTPE---IRED--AGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSN  621 (694)
Q Consensus       547 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~p~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~  621 (694)
                      ..|.-=++-|.+..++..|...|.+..+   ..|+  ...|..-+.+....||+..|+.-..+++..+|.+..+|..=+.
T Consensus        82 en~KeeGN~~fK~Kryk~A~~~Yt~Glk~kc~D~dlnavLY~NRAAa~~~l~NyRs~l~Dcs~al~~~P~h~Ka~~R~Ak  161 (390)
T KOG0551|consen   82 ENYKEEGNEYFKEKRYKDAVESYTEGLKKKCADPDLNAVLYTNRAAAQLYLGNYRSALNDCSAALKLKPTHLKAYIRGAK  161 (390)
T ss_pred             HHHHHHhHHHHHhhhHHHHHHHHHHHHhhcCCCccHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHhcCcchhhhhhhhhH
Confidence            3555667888999999999999998665   3343  3456666666677899999999999999999999999999999


Q ss_pred             HHhhcCChHHHHHHHHHH
Q 005487          622 MYASVKKWDEVRKIRLKM  639 (694)
Q Consensus       622 ~~~~~g~~~~A~~~~~~~  639 (694)
                      ++....++++|....+..
T Consensus       162 c~~eLe~~~~a~nw~ee~  179 (390)
T KOG0551|consen  162 CLLELERFAEAVNWCEEG  179 (390)
T ss_pred             HHHHHHHHHHHHHHHhhh
Confidence            999999988888777654

>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=90.44  E-value=17  Score=34.77  Aligned_cols=98  Identities=8%  Similarity=0.003  Sum_probs=46.1

Q ss_pred             HHHHHHHHHcccCChHHHH---HHHHHHHHhCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCC-C--ChHHHHHHHHH
Q 005487          411 TFTSVLPACSQLAALEKGK---EIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPE-R--DLVSWTSMIAA  484 (694)
Q Consensus       411 ~~~~ll~~~~~~~~~~~a~---~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~--~~~~~~~l~~~  484 (694)
                      ++..++.++...+..+...   .+++.+.. ..+..+.++..-+..+.+.++.+++.+.+..|.. .  ....+...+..
T Consensus        86 iL~~La~~~l~~~~~~~~~ka~~~l~~l~~-e~~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~~~~e~~~~~~l~~  164 (278)
T PF08631_consen   86 ILRLLANAYLEWDTYESVEKALNALRLLES-EYGNKPEVFLLKLEILLKSFDEEEYEEILMRMIRSVDHSESNFDSILHH  164 (278)
T ss_pred             HHHHHHHHHHcCCChHHHHHHHHHHHHHHH-hCCCCcHHHHHHHHHHhccCChhHHHHHHHHHHHhcccccchHHHHHHH
Confidence            4445556666655544433   33333322 2222344444445555556777777777766655 1  12233333333


Q ss_pred             H---HhcCCHHHHHHHHHHHHHcCCCCCH
Q 005487          485 Y---GSHGRALEALKLFGEMQQSNARPDS  510 (694)
Q Consensus       485 ~---~~~~~~~~A~~~~~~~~~~~~~p~~  510 (694)
                      +   .. .....|...+..+....+.|..
T Consensus       165 i~~l~~-~~~~~a~~~ld~~l~~r~~~~~  192 (278)
T PF08631_consen  165 IKQLAE-KSPELAAFCLDYLLLNRFKSSE  192 (278)
T ss_pred             HHHHHh-hCcHHHHHHHHHHHHHHhCCCh
Confidence            2   22 2234555555555544344443

It is also involved in sporulation [].

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=90.34  E-value=1.2  Score=41.53  Aligned_cols=58  Identities=21%  Similarity=0.188  Sum_probs=33.1

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHHHH
Q 005487          583 STLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMK  640 (694)
Q Consensus       583 ~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  640 (694)
                      ..++..+...|+++.+.+.+++.+..+|-+...|..+..+|.+.|+...|+..++.+.
T Consensus       157 ~~lae~~~~~~~~~~~~~~l~~Li~~dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~  214 (280)
T COG3629         157 TKLAEALIACGRADAVIEHLERLIELDPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLK  214 (280)
T ss_pred             HHHHHHHHhcccHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCchHHHHHHHHHH
Confidence            3444445555555555666666666666555566666666666666666655555543

>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=90.32  E-value=11  Score=32.36  Aligned_cols=56  Identities=13%  Similarity=0.087  Sum_probs=31.3

Q ss_pred             HHHHHhhHhcCChHHHHHHHhcCCCCChhHHHHHHHHHHcCCCchHHHHHHHHHHH
Q 005487          246 SALVDMYGKCGCLEMAREVFEQTVLKSVVAWNALIAGYSSRGDSKSCVKLFWRMNE  301 (694)
Q Consensus       246 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  301 (694)
                      ..+++.+...|++-+|.++.++....+......++.+..+.++..--..+++-..+
T Consensus        93 ~~iievLL~~g~vl~ALr~ar~~~~~~~~~~~~fLeAA~~~~D~~lf~~V~~ff~~  148 (167)
T PF07035_consen   93 EEIIEVLLSKGQVLEALRYARQYHKVDSVPARKFLEAAANSNDDQLFYAVFRFFEE  148 (167)
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHcCCcccCCHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            34555666677777777777665444444445555555555555554444444443

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=90.03  E-value=30  Score=36.99  Aligned_cols=245  Identities=13%  Similarity=0.079  Sum_probs=129.9

Q ss_pred             hcCChHHHHHHHHHHHH-------cCCCCCHHHHHHHHHHHccc----C-ChHHHHHHHHHHHHhCCCCChhHHHHHHHH
Q 005487          386 TVGDYFKALAIYSDMKE-------VGAKPDAVTFTSVLPACSQL----A-ALEKGKEIHNHIIESKLETNEIVMGALLDM  453 (694)
Q Consensus       386 ~~~~~~~A~~~~~~m~~-------~g~~p~~~~~~~ll~~~~~~----~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  453 (694)
                      ...+.+.|+..|+...+       .|   .......+..+|.+.    . +.+.|..++......|. |+....  +..+
T Consensus       261 ~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g~~~~~~d~~~A~~~~~~aA~~g~-~~a~~~--lg~~  334 (552)
T KOG1550|consen  261 VTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQGLGVEKIDYEKALKLYTKAAELGN-PDAQYL--LGVL  334 (552)
T ss_pred             ccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcCCCCccccHHHHHHHHHHHHhcCC-chHHHH--HHHH
Confidence            34455566666655544       33   222333444444432    2 55667777777666663 333332  2233


Q ss_pred             HHh---cCChHHHHHHHhhCCC-CChHHHHHHHHHHH----hcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCC
Q 005487          454 YAK---CGAVDEAFKVFNELPE-RDLVSWTSMIAAYG----SHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGW  525 (694)
Q Consensus       454 ~~~---~g~~~~A~~~~~~~~~-~~~~~~~~l~~~~~----~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~  525 (694)
                      +..   ..+...|.++|..... -++.++-.+...|.    ...+...|..++.+..+.| .|-.......+..+.. +.
T Consensus       335 ~~~g~~~~d~~~A~~yy~~Aa~~G~~~A~~~la~~y~~G~gv~r~~~~A~~~~k~aA~~g-~~~A~~~~~~~~~~g~-~~  412 (552)
T KOG1550|consen  335 YETGTKERDYRRAFEYYSLAAKAGHILAIYRLALCYELGLGVERNLELAFAYYKKAAEKG-NPSAAYLLGAFYEYGV-GR  412 (552)
T ss_pred             HHcCCccccHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCcCCCHHHHHHHHHHHHHcc-ChhhHHHHHHHHHHcc-cc
Confidence            322   2356677777776665 33333333333332    2346778888888888876 3332222233333333 66


Q ss_pred             HHHHHHHHHHhHHhcCCCCChHHHHHHHHH---hhh----cCCHHHHHHHHHhCCCCCCCHHHHHHHHHHHHH----cCC
Q 005487          526 VDEGGYYFNLMISEYNIQPRNEHYSCLIDL---LGR----AGRLQEAYGILQSTPEIREDAGLLSTLFSACRL----HRD  594 (694)
Q Consensus       526 ~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~---~~~----~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~----~~~  594 (694)
                      ++.+...+..+. ..+..-....-..+...   ...    ..+.+.+...+.+.. .+-+......+...+..    ..+
T Consensus       413 ~~~~~~~~~~~a-~~g~~~~q~~a~~l~~~~~~~~~~~~~~~~~~~~~~~~~~a~-~~g~~~a~~~lgd~y~~g~g~~~d  490 (552)
T KOG1550|consen  413 YDTALALYLYLA-ELGYEVAQSNAAYLLDQSEEDLFSRGVISTLERAFSLYSRAA-AQGNADAILKLGDYYYYGLGTGRD  490 (552)
T ss_pred             ccHHHHHHHHHH-HhhhhHHhhHHHHHHHhccccccccccccchhHHHHHHHHHH-hccCHHHHhhhcceeeecCCCCCC
Confidence            666655555544 22322111111111111   111    225566777777665 44455555566655433    347


Q ss_pred             HHHHHHHHHHHHhcCCCCCccHHHHHHHHhhc-C--ChHHHHHHHHHHHhCC
Q 005487          595 IEMGEKIAKLLIEKDPDDSSTYIVLSNMYASV-K--KWDEVRKIRLKMKELG  643 (694)
Q Consensus       595 ~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~-g--~~~~A~~~~~~~~~~~  643 (694)
                      .+.|...+.++....   +....+++.++... |  .+..|.+++++....+
T Consensus       491 ~~~a~~~y~~a~~~~---~~~~~nlg~~~e~g~g~~~~~~a~~~~~~~~~~~  539 (552)
T KOG1550|consen  491 PEKAAAQYARASEQG---AQALFNLGYMHEHGEGIKVLHLAKRYYDQASEED  539 (552)
T ss_pred             hHHHHHHHHHHHHhh---hHHHhhhhhHHhcCcCcchhHHHHHHHHHHHhcC
Confidence            888888888888776   77888888887764 1  2678888888776544

>KOG4507 consensus Uncharacterized conserved protein, contains TPR repeats [Function unknown]

Probab=90.02  E-value=1  Score=45.72  Aligned_cols=103  Identities=14%  Similarity=0.022  Sum_probs=74.3

Q ss_pred             HHHccCCHHHHHHHHHHhHHhcCCCCCh--HHHHHHHHHhhhcCCHHHHHHHHHhCCCC-CCCHHHHHHHHHHHHHcCCH
Q 005487          519 ACSHAGWVDEGGYYFNLMISEYNIQPRN--EHYSCLIDLLGRAGRLQEAYGILQSTPEI-REDAGLLSTLFSACRLHRDI  595 (694)
Q Consensus       519 ~~~~~g~~~~A~~~~~~~~~~~~~~p~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~l~~~~~~~~~~  595 (694)
                      .....|+...|...+..+.   ...|..  .....|++.+.+.|...+|-.++.+...+ ...+.++..++.++....+.
T Consensus       616 ywr~~gn~~~a~~cl~~a~---~~~p~~~~v~~v~la~~~~~~~~~~da~~~l~q~l~~~~sepl~~~~~g~~~l~l~~i  692 (886)
T KOG4507|consen  616 YWRAVGNSTFAIACLQRAL---NLAPLQQDVPLVNLANLLIHYGLHLDATKLLLQALAINSSEPLTFLSLGNAYLALKNI  692 (886)
T ss_pred             eeeecCCcHHHHHHHHHHh---ccChhhhcccHHHHHHHHHHhhhhccHHHHHHHHHhhcccCchHHHhcchhHHHHhhh
Confidence            3445688888888887776   444542  24556778888888888888888776553 33456667778888888888


Q ss_pred             HHHHHHHHHHHhcCCCCCccHHHHHHHHh
Q 005487          596 EMGEKIAKLLIEKDPDDSSTYIVLSNMYA  624 (694)
Q Consensus       596 ~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  624 (694)
                      ++|++.++.+++++|+++..-..|..+-+
T Consensus       693 ~~a~~~~~~a~~~~~~~~~~~~~l~~i~c  721 (886)
T KOG4507|consen  693 SGALEAFRQALKLTTKCPECENSLKLIRC  721 (886)
T ss_pred             HHHHHHHHHHHhcCCCChhhHHHHHHHHH
Confidence            88888888888888888887776665543

>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A

Probab=89.85  E-value=0.54  Score=27.51  Aligned_cols=29  Identities=24%  Similarity=0.385  Sum_probs=25.7

Q ss_pred             ccHHHHHHHHhhcCChHHHHHHHHHHHhC
Q 005487          614 STYIVLSNMYASVKKWDEVRKIRLKMKEL  642 (694)
Q Consensus       614 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  642 (694)
                      .+|..++.+|...|++++|.+.+++..+.
T Consensus         2 ~~~~~lg~~y~~~~~~~~A~~~~~~a~~~   30 (34)
T PF13181_consen    2 EAYYNLGKIYEQLGDYEEALEYFEKALEL   30 (34)
T ss_dssp             HHHHHHHHHHHHTTSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            46889999999999999999999987653

...

>PF14853 Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repeat; PDB: 1IYG_A 1PC2_A 1NZN_A 3UUX_C 1Y8M_A 2PQR_A 2PQN_A 3O48_A

Probab=89.78  E-value=1  Score=29.83  Aligned_cols=36  Identities=19%  Similarity=0.205  Sum_probs=26.8

Q ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHH
Q 005487          582 LSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYI  617 (694)
Q Consensus       582 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~  617 (694)
                      +..++.++.+.|++++|....+.+++.+|+|..+-.
T Consensus         4 lY~lAig~ykl~~Y~~A~~~~~~lL~~eP~N~Qa~~   39 (53)
T PF14853_consen    4 LYYLAIGHYKLGEYEKARRYCDALLEIEPDNRQAQS   39 (53)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHHTTS-HHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHhhCCCcHHHHH
Confidence            345667788899999999999999999998765543

>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed

Probab=89.53  E-value=7.6  Score=34.17  Aligned_cols=78  Identities=17%  Similarity=0.179  Sum_probs=56.3

Q ss_pred             HhhhcCCHHHHHHHHHhCCC-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC----CCccHHHHHHHHhhcCCh
Q 005487          555 LLGRAGRLQEAYGILQSTPE-IREDAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPD----DSSTYIVLSNMYASVKKW  629 (694)
Q Consensus       555 ~~~~~g~~~~A~~~~~~~~~-~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~----~~~~~~~l~~~~~~~g~~  629 (694)
                      .+.+.|+ ++|.+.|-.+.. -.-+...+...+..+....|.++++.++-+++++.+.    |+..+..|+.++.+.|++
T Consensus       116 ~Wsr~~d-~~A~~~fL~~E~~~~l~t~elq~aLAtyY~krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~  194 (203)
T PF11207_consen  116 HWSRFGD-QEALRRFLQLEGTPELETAELQYALATYYTKRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNY  194 (203)
T ss_pred             HhhccCc-HHHHHHHHHHcCCCCCCCHHHHHHHHHHHHccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcch
Confidence            4455566 566666666553 2223344445555566688999999999999988643    688899999999999999


Q ss_pred             HHHH
Q 005487          630 DEVR  633 (694)
Q Consensus       630 ~~A~  633 (694)
                      +.|.
T Consensus       195 e~AY  198 (203)
T PF11207_consen  195 EQAY  198 (203)
T ss_pred             hhhh
Confidence            9885

>KOG3364 consensus Membrane protein involved in organellar division [Cell wall/membrane/envelope biogenesis]

Probab=89.33  E-value=4.6  Score=32.65  Aligned_cols=72  Identities=17%  Similarity=0.128  Sum_probs=47.2

Q ss_pred             CCChHHHHHHHHHhhhcCCH---HHHHHHHHhCCC-CCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCc
Q 005487          543 QPRNEHYSCLIDLLGRAGRL---QEAYGILQSTPE-IRED--AGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSS  614 (694)
Q Consensus       543 ~p~~~~~~~l~~~~~~~g~~---~~A~~~~~~~~~-~~p~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~  614 (694)
                      .++..+-..++.++.+..+.   .+-+.++++..+ ..|+  -..+..+.-++.+.|++++++.+...+++..|+|..
T Consensus        29 ~~s~~s~f~lAwaLV~S~~~~dv~~GI~iLe~l~~~~~~~~rRe~lyYLAvg~yRlkeY~~s~~yvd~ll~~e~~n~Q  106 (149)
T KOG3364|consen   29 DVSKQSQFNLAWALVRSRDTEDVQEGIVILEDLLKSAHPERRRECLYYLAVGHYRLKEYSKSLRYVDALLETEPNNRQ  106 (149)
T ss_pred             cchHHHHHHHHHHHHcccchHHHHHhHHHHHHHhhhcCcccchhhhhhhHHHHHHHhhHHHHHHHHHHHHhhCCCcHH
Confidence            56666666677777766544   445667777664 3332  245556666777788888888888888877777643

>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=89.24  E-value=13  Score=31.83  Aligned_cols=39  Identities=10%  Similarity=0.209  Sum_probs=23.1

Q ss_pred             HHHHHHHHhCCCCchhHHHHHHHhhHhcCChHHHHHHHh
Q 005487          228 EIHKEFIKDGFVSDSYISSALVDMYGKCGCLEMAREVFE  266 (694)
Q Consensus       228 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  266 (694)
                      +.++.+.+.+++|+...+..+++.+.+.|++..-..++.
T Consensus        15 EYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~qllq   53 (167)
T PF07035_consen   15 EYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLHQLLQ   53 (167)
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHh
Confidence            344455556666666666666666666666555444443

>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=88.97  E-value=1.1  Score=38.20  Aligned_cols=49  Identities=14%  Similarity=0.217  Sum_probs=26.2

Q ss_pred             CCCCC-hHHHHHHHHHhhhcCC-----------HHHHHHHHHhCCCCCCCHHHHHHHHHHH
Q 005487          541 NIQPR-NEHYSCLIDLLGRAGR-----------LQEAYGILQSTPEIREDAGLLSTLFSAC  589 (694)
Q Consensus       541 ~~~p~-~~~~~~l~~~~~~~g~-----------~~~A~~~~~~~~~~~p~~~~~~~l~~~~  589 (694)
                      .+.|+ ..++.+++.+|...+.           +++|...|+++...+|+...|+.-+...
T Consensus        63 ~I~P~~hdAlw~lGnA~ts~A~l~~d~~~A~~~F~kA~~~FqkAv~~~P~ne~Y~ksLe~~  123 (186)
T PF06552_consen   63 KINPNKHDALWCLGNAYTSLAFLTPDTAEAEEYFEKATEYFQKAVDEDPNNELYRKSLEMA  123 (186)
T ss_dssp             HH-TT-HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHH-TT-HHHHHHHHHH
T ss_pred             hcCCchHHHHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHhcCCCcHHHHHHHHHH
Confidence            45666 3466677776665432           3455555555555677776666554443

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.

>PF14561 TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S_A 3QDN_B

Probab=88.86  E-value=1.1  Score=33.89  Aligned_cols=45  Identities=13%  Similarity=0.203  Sum_probs=29.1

Q ss_pred             HHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHHHHhCC
Q 005487          599 EKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELG  643 (694)
Q Consensus       599 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  643 (694)
                      ...+++.++.+|+|......++..+...|++++|++.+-.+.+..
T Consensus         8 ~~al~~~~a~~P~D~~ar~~lA~~~~~~g~~e~Al~~Ll~~v~~d   52 (90)
T PF14561_consen    8 IAALEAALAANPDDLDARYALADALLAAGDYEEALDQLLELVRRD   52 (90)
T ss_dssp             HHHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHCC-
T ss_pred             HHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            445666667777777777777777777777777777766665544

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=88.77  E-value=39  Score=36.63  Aligned_cols=17  Identities=12%  Similarity=0.194  Sum_probs=13.2

Q ss_pred             HhhcCChHHHHHHHHHH
Q 005487          623 YASVKKWDEVRKIRLKM  639 (694)
Q Consensus       623 ~~~~g~~~~A~~~~~~~  639 (694)
                      +...|+|++|++.++++
T Consensus       515 ~~~~g~~~~AL~~i~~L  531 (613)
T PF04097_consen  515 LYHAGQYEQALDIIEKL  531 (613)
T ss_dssp             HHHTT-HHHHHHHHHHT
T ss_pred             HHHcCCHHHHHHHHHhC
Confidence            67789999998888865

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.

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=88.72  E-value=30  Score=35.20  Aligned_cols=193  Identities=10%  Similarity=0.109  Sum_probs=132.5

Q ss_pred             CCChhHHHHHHHHHHhcCChHHHHHHHhhCCC--CChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHH
Q 005487          441 ETNEIVMGALLDMYAKCGAVDEAFKVFNELPE--RDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLS  518 (694)
Q Consensus       441 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~  518 (694)
                      +.+.....+++..++.+-.+.-...+..++..  .+-..+..++.+|... ..+.-..+|+++.+..  -|...+..-+.
T Consensus        63 ~l~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~e~kmal~el~q~y~en-~n~~l~~lWer~ve~d--fnDvv~~ReLa  139 (711)
T COG1747          63 LLDDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYGESKMALLELLQCYKEN-GNEQLYSLWERLVEYD--FNDVVIGRELA  139 (711)
T ss_pred             cccchHHHHHHHHhccchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhc-CchhhHHHHHHHHHhc--chhHHHHHHHH
Confidence            44555666788888888888877778777776  6667899999999988 6688899999999863  44444444444


Q ss_pred             HHHccCCHHHHHHHHHHhHHhcCCCCC------hHHHHHHHHHhhhcCCHHHHHHHHHhCCC---CCCCHHHHHHHHHHH
Q 005487          519 ACSHAGWVDEGGYYFNLMISEYNIQPR------NEHYSCLIDLLGRAGRLQEAYGILQSTPE---IREDAGLLSTLFSAC  589 (694)
Q Consensus       519 ~~~~~g~~~~A~~~~~~~~~~~~~~p~------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~p~~~~~~~l~~~~  589 (694)
                      .+...++...+..+|.++.-  .+-|.      .+.|..+...-  ..+.|.-+.+..++..   ...-...+..+..-|
T Consensus       140 ~~yEkik~sk~a~~f~Ka~y--rfI~~~q~~~i~evWeKL~~~i--~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Y  215 (711)
T COG1747         140 DKYEKIKKSKAAEFFGKALY--RFIPRRQNAAIKEVWEKLPELI--GDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKY  215 (711)
T ss_pred             HHHHHhchhhHHHHHHHHHH--HhcchhhhhhHHHHHHHHHHhc--cccHHHHHHHHHHHHHhhccchHHHHHHHHHHHh
Confidence            44555899999999998873  23332      23454444322  3456666666666543   112234445555667


Q ss_pred             HHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhh--------------------cCChHHHHHHHHHHH
Q 005487          590 RLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYAS--------------------VKKWDEVRKIRLKMK  640 (694)
Q Consensus       590 ~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~--------------------~g~~~~A~~~~~~~~  640 (694)
                      ....|+++|++.+...++.+..|..+...++.-+..                    ..++-+++--|++..
T Consensus       216 s~~eN~~eai~Ilk~il~~d~k~~~ar~~~i~~lRd~y~~~~~~e~yl~~s~i~~~~rnf~~~l~dFek~m  286 (711)
T COG1747         216 SENENWTEAIRILKHILEHDEKDVWARKEIIENLRDKYRGHSQLEEYLKISNISQSGRNFFEALNDFEKLM  286 (711)
T ss_pred             ccccCHHHHHHHHHHHhhhcchhhhHHHHHHHHHHHHhccchhHHHHHHhcchhhccccHHHHHHHHHHHh
Confidence            778899999999999999988888877777766555                    445666666666653

>smart00028 TPR Tetratricopeptide repeats

Probab=88.36  E-value=1  Score=25.38  Aligned_cols=28  Identities=21%  Similarity=0.100  Sum_probs=13.8

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhcCC
Q 005487          583 STLFSACRLHRDIEMGEKIAKLLIEKDP  610 (694)
Q Consensus       583 ~~l~~~~~~~~~~~~A~~~~~~~~~~~p  610 (694)
                      ..++..+...|+++.|...++++++..|
T Consensus         5 ~~~a~~~~~~~~~~~a~~~~~~~~~~~~   32 (34)
T smart00028        5 YNLGNAYLKLGDYDEALEYYEKALELDP   32 (34)
T ss_pred             HHHHHHHHHHhhHHHHHHHHHHHHccCC
Confidence            3444444445555555555555554444

Repeats present in 4 or more copies in proteins. Contain a minimum of 34 amino acids each and self-associate via a "knobs and holes" mechanism.

>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=88.23  E-value=10  Score=33.16  Aligned_cols=62  Identities=15%  Similarity=0.182  Sum_probs=38.5

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHcccCChHHHHHHHHHHHH
Q 005487          376 YWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDA--VTFTSVLPACSQLAALEKGKEIHNHIIE  437 (694)
Q Consensus       376 ~~~~l~~~~~~~~~~~~A~~~~~~m~~~g~~p~~--~~~~~ll~~~~~~~~~~~a~~~~~~~~~  437 (694)
                      .+..+...|.+.|+.+.|++.|.++.+....+..  ..+..++..+.-.+++..+.....++..
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~  101 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAES  101 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            4556667777777777777777776665433322  3345556666666777776666665543

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.

>KOG2396 consensus HAT (Half-A-TPR) repeat-containing protein [General function prediction only]

Probab=88.07  E-value=32  Score=34.88  Aligned_cols=241  Identities=12%  Similarity=0.104  Sum_probs=130.0

Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHcccC------ChHHHHHHHHHHHHh-CCC-CChhHHHHHHHHHHhcCChH-H
Q 005487          392 KALAIYSDMKEVGAKPDAVTFTSVLPACSQLA------ALEKGKEIHNHIIES-KLE-TNEIVMGALLDMYAKCGAVD-E  462 (694)
Q Consensus       392 ~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~------~~~~a~~~~~~~~~~-~~~-~~~~~~~~l~~~~~~~g~~~-~  462 (694)
                      ....+|++....  -|+...+...|..|...-      .......+++..... +.. .....|..+.-++....... -
T Consensus       300 ~~~~v~ee~v~~--l~t~sm~e~YI~~~lE~~~~~r~~~I~h~~~~~~~~~~~~~l~~~~~~~ys~~~l~~~t~~~~r~~  377 (568)
T KOG2396|consen  300 RCCAVYEEAVKT--LPTESMWECYITFCLERFTFLRGKRILHTMCVFRKAHELKLLSECLYKQYSVLLLCLNTLNEAREV  377 (568)
T ss_pred             HHHHHHHHHHHH--hhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHhccchHhHH
Confidence            344566655543  455555655665554322      233344445544332 222 23445555555555554433 3


Q ss_pred             HHHHHhhCCCCChHHHHHHHHHHHhc-CCHHHHH-HHHHHHHHcCCCCCHhhHHHHHHHHHccCC-HHHH-H-HHHHHhH
Q 005487          463 AFKVFNELPERDLVSWTSMIAAYGSH-GRALEAL-KLFGEMQQSNARPDSITFLALLSACSHAGW-VDEG-G-YYFNLMI  537 (694)
Q Consensus       463 A~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~A~-~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~-~~~A-~-~~~~~~~  537 (694)
                      |..+..+....+...|..-+....+. .+++--. +++......-..+-...++...     .|+ .+.. . .++..+.
T Consensus       378 a~~l~~e~f~~s~k~~~~kl~~~~~s~sD~q~~f~~l~n~~r~~~~s~~~~~w~s~~-----~~dsl~~~~~~~Ii~a~~  452 (568)
T KOG2396|consen  378 AVKLTTELFRDSGKMWQLKLQVLIESKSDFQMLFEELFNHLRKQVCSELLISWASAS-----EGDSLQEDTLDLIISALL  452 (568)
T ss_pred             HHHhhHHHhcchHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHhcchhHHHHHHHh-----hccchhHHHHHHHHHHHH
Confidence            34444455556666666655555432 2222111 1222222211111122232222     222 2211 1 1222222


Q ss_pred             HhcCCCCChHHH-HHHHHHhhhcCCHHHHHHHHHhCCCCCC-CHHHHHHHHHHH--HHcCCHHHHHHHHHHHHhcCCCCC
Q 005487          538 SEYNIQPRNEHY-SCLIDLLGRAGRLQEAYGILQSTPEIRE-DAGLLSTLFSAC--RLHRDIEMGEKIAKLLIEKDPDDS  613 (694)
Q Consensus       538 ~~~~~~p~~~~~-~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~~--~~~~~~~~A~~~~~~~~~~~p~~~  613 (694)
                       . -..|+..++ ..+.+.+.+.|-.++|...+.+....+| +...+..++..-  ...-+..-+..+++.++.-...++
T Consensus       453 -s-~~~~~~~tl~s~~l~~~~e~~~~~~ark~y~~l~~lpp~sl~l~r~miq~e~~~~sc~l~~~r~~yd~a~~~fg~d~  530 (568)
T KOG2396|consen  453 -S-VIGADSVTLKSKYLDWAYESGGYKKARKVYKSLQELPPFSLDLFRKMIQFEKEQESCNLANIREYYDRALREFGADS  530 (568)
T ss_pred             -H-hcCCceeehhHHHHHHHHHhcchHHHHHHHHHHHhCCCccHHHHHHHHHHHhhHhhcCchHHHHHHHHHHHHhCCCh
Confidence             2 224554443 5677888888999999999998877665 445666555432  223348888999999988777888


Q ss_pred             ccHHHHHHHHhhcCChHHHHHHHHHHHh
Q 005487          614 STYIVLSNMYASVKKWDEVRKIRLKMKE  641 (694)
Q Consensus       614 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~  641 (694)
                      ..|......-...|..+.+-.++.++.+
T Consensus       531 ~lw~~y~~~e~~~g~~en~~~~~~ra~k  558 (568)
T KOG2396|consen  531 DLWMDYMKEELPLGRPENCGQIYWRAMK  558 (568)
T ss_pred             HHHHHHHHhhccCCCcccccHHHHHHHH
Confidence            9999888888888998888887776543

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=87.85  E-value=0.87  Score=28.15  Aligned_cols=27  Identities=19%  Similarity=0.267  Sum_probs=21.8

Q ss_pred             cHHHHHHHHhhcCChHHHHHHHHHHHh
Q 005487          615 TYIVLSNMYASVKKWDEVRKIRLKMKE  641 (694)
Q Consensus       615 ~~~~l~~~~~~~g~~~~A~~~~~~~~~  641 (694)
                      ++.+|+.+|...|++++|++++++...
T Consensus         4 ~~~~la~~~~~~g~~~~A~~~~~~al~   30 (42)
T PF13374_consen    4 ALNNLANAYRAQGRYEEALELLEEALE   30 (42)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence            567889999999999999999888754

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=87.47  E-value=4.5  Score=41.47  Aligned_cols=101  Identities=17%  Similarity=0.134  Sum_probs=63.3

Q ss_pred             hhcCCChHHHHHHhccCCCCCcccHHHHHHHHHhCCChhHHHHHHHHHHhCCCCCChhhHHHHHHHHhccCChhHHHHHH
Q 005487          151 YAKCNSFECAVKMFDEMSERDVASWNTVISCYYQDGQAEKALELFKKMRGSGFQPNSVTLTTVISSCARLMDLDRGKEIH  230 (694)
Q Consensus       151 ~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~  230 (694)
                      ..+.|+++.|.++..+..  +..-|..|..+....+++..|.+.|.....         |..|+-.+...|+.+....+-
T Consensus       647 al~lgrl~iA~~la~e~~--s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~~la  715 (794)
T KOG0276|consen  647 ALKLGRLDIAFDLAVEAN--SEVKWRQLGDAALSAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGLAVLA  715 (794)
T ss_pred             hhhcCcHHHHHHHHHhhc--chHHHHHHHHHHhhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHHHHHH
Confidence            345666666666654433  455677777777777787777777776554         345566666667666666666


Q ss_pred             HHHHHhCCCCchhHHHHHHHhhHhcCChHHHHHHHhcC
Q 005487          231 KEFIKDGFVSDSYISSALVDMYGKCGCLEMAREVFEQT  268 (694)
Q Consensus       231 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  268 (694)
                      ....+.| ..|.     -.-+|...|+++++.+++.+-
T Consensus       716 ~~~~~~g-~~N~-----AF~~~~l~g~~~~C~~lLi~t  747 (794)
T KOG0276|consen  716 SLAKKQG-KNNL-----AFLAYFLSGDYEECLELLIST  747 (794)
T ss_pred             HHHHhhc-ccch-----HHHHHHHcCCHHHHHHHHHhc
Confidence            6666665 2222     223455678888888877654

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=87.24  E-value=51  Score=36.22  Aligned_cols=217  Identities=17%  Similarity=0.065  Sum_probs=117.2

Q ss_pred             HcccCChHHHHHHHHHHHHhCCCCChh-------HHHHH-HHHHHhcCChHHHHHHHhhCCC--------CChHHHHHHH
Q 005487          419 CSQLAALEKGKEIHNHIIESKLETNEI-------VMGAL-LDMYAKCGAVDEAFKVFNELPE--------RDLVSWTSMI  482 (694)
Q Consensus       419 ~~~~~~~~~a~~~~~~~~~~~~~~~~~-------~~~~l-~~~~~~~g~~~~A~~~~~~~~~--------~~~~~~~~l~  482 (694)
                      ......+.+|..+..++...-..|+..       .++.+ .......|+++.|.++-+....        .....+..+.
T Consensus       425 ~~s~~r~~ea~~li~~l~~~l~~~~~~~~~~l~ae~~aL~a~val~~~~~e~a~~lar~al~~L~~~~~~~r~~~~sv~~  504 (894)
T COG2909         425 LASQHRLAEAETLIARLEHFLKAPMHSRQGDLLAEFQALRAQVALNRGDPEEAEDLARLALVQLPEAAYRSRIVALSVLG  504 (894)
T ss_pred             HHHccChHHHHHHHHHHHHHhCcCcccchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhcccccchhhhhhhhhhh
Confidence            345677788888777775432222111       22222 1223456888888887765543        3455677778


Q ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCCHhh---HHHH--HHHHHccCC--HHHHHHHHHHhHHhcCCC-CC----hHHHH
Q 005487          483 AAYGSHGRALEALKLFGEMQQSNARPDSIT---FLAL--LSACSHAGW--VDEGGYYFNLMISEYNIQ-PR----NEHYS  550 (694)
Q Consensus       483 ~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~---~~~l--~~~~~~~g~--~~~A~~~~~~~~~~~~~~-p~----~~~~~  550 (694)
                      .+..-.|++++|..+.++..+..-.-+...   +..+  ...+..+|.  +.+....|.......... |.    ..+..
T Consensus       505 ~a~~~~G~~~~Al~~~~~a~~~a~~~~~~~l~~~~~~~~s~il~~qGq~~~a~~~~~~~~~~~q~l~q~~~~~f~~~~r~  584 (894)
T COG2909         505 EAAHIRGELTQALALMQQAEQMARQHDVYHLALWSLLQQSEILEAQGQVARAEQEKAFNLIREQHLEQKPRHEFLVRIRA  584 (894)
T ss_pred             HHHHHhchHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHH
Confidence            888888999999988877665421223322   2222  224666773  344444454443322211 21    22333


Q ss_pred             HHHHHhhhcCCHHHHHHHHHhCC----CCCCCH--H--HHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCC-Ccc-HHH--
Q 005487          551 CLIDLLGRAGRLQEAYGILQSTP----EIREDA--G--LLSTLFSACRLHRDIEMGEKIAKLLIEKDPDD-SST-YIV--  618 (694)
Q Consensus       551 ~l~~~~~~~g~~~~A~~~~~~~~----~~~p~~--~--~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~-~~~-~~~--  618 (694)
                      .+..++.+   ++.+..-.....    ...|.+  .  .+..++......|+.++|...+..+..+--+. +.+ |..  
T Consensus       585 ~ll~~~~r---~~~~~~ear~~~~~~~~~~~~~~~~~~~~~~LA~l~~~~Gdl~~A~~~l~~~~~l~~~~~~~~~~~a~~  661 (894)
T COG2909         585 QLLRAWLR---LDLAEAEARLGIEVGSVYTPQPLLSRLALSMLAELEFLRGDLDKALAQLDELERLLLNGQYHVDYLAAA  661 (894)
T ss_pred             HHHHHHHH---HhhhhHHhhhcchhhhhcccchhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcCCCCCchHHHHH
Confidence            44444444   333333333222    233332  1  12356677788999999999998887654322 222 211  


Q ss_pred             -H--HHHHhhcCChHHHHHHHHH
Q 005487          619 -L--SNMYASVKKWDEVRKIRLK  638 (694)
Q Consensus       619 -l--~~~~~~~g~~~~A~~~~~~  638 (694)
                       .  ...-..+|+.++|.....+
T Consensus       662 ~~v~~~lwl~qg~~~~a~~~l~~  684 (894)
T COG2909         662 YKVKLILWLAQGDKELAAEWLLK  684 (894)
T ss_pred             HHhhHHHhcccCCHHHHHHHHHh
Confidence             1  2224456888888777765

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=87.21  E-value=8.8  Score=36.83  Aligned_cols=61  Identities=15%  Similarity=0.223  Sum_probs=32.4

Q ss_pred             hHHHHHHHHHHhCCCCCChh-hH-HHHHHHHhccCC--hhHHHHHHHHHHHhCCCCchhHHHHHH
Q 005487          189 EKALELFKKMRGSGFQPNSV-TL-TTVISSCARLMD--LDRGKEIHKEFIKDGFVSDSYISSALV  249 (694)
Q Consensus       189 ~~a~~~~~~m~~~~~~~~~~-~~-~~ll~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~l~  249 (694)
                      +.+..+|+.+.+.|+..+.. -+ ..++..+....+  ...+.++++.+.+.|+++....|..+.
T Consensus       160 ~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lG  224 (297)
T PF13170_consen  160 ERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLG  224 (297)
T ss_pred             HHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHH
Confidence            45566667777666655433 22 222222222222  235666777777777766665555443

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=86.60  E-value=49  Score=35.39  Aligned_cols=245  Identities=13%  Similarity=0.102  Sum_probs=137.7

Q ss_pred             hHHHHHHHHHHHHcCCCCCHHHH-HHHHHH-HcccCChHHHHHHHHHHHH-------hCCCCChhHHHHHHHHHHhcC--
Q 005487          390 YFKALAIYSDMKEVGAKPDAVTF-TSVLPA-CSQLAALEKGKEIHNHIIE-------SKLETNEIVMGALLDMYAKCG--  458 (694)
Q Consensus       390 ~~~A~~~~~~m~~~g~~p~~~~~-~~ll~~-~~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~l~~~~~~~g--  458 (694)
                      ...|..+++...+.|..-..... .....+ .....|.+.|..+++.+.+       .+   .......+..+|.+..  
T Consensus       228 ~~~a~~~~~~~a~~g~~~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g~~~  304 (552)
T KOG1550|consen  228 LSEAFKYYREAAKLGHSEAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQGLGV  304 (552)
T ss_pred             hhHHHHHHHHHHhhcchHHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcCCCC
Confidence            45677788777776522111111 112222 4567899999999998876       44   3334556777777643  


Q ss_pred             ---ChHHHHHHHhhCCC-CChHHHHHHHHHHHhc---CCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHH--HccCCHHHH
Q 005487          459 ---AVDEAFKVFNELPE-RDLVSWTSMIAAYGSH---GRALEALKLFGEMQQSNARPDSITFLALLSAC--SHAGWVDEG  529 (694)
Q Consensus       459 ---~~~~A~~~~~~~~~-~~~~~~~~l~~~~~~~---~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~--~~~g~~~~A  529 (694)
                         +.+.|..++..... .++.....+...+...   .+...|.++|....+.|. +.......++...  .-..+...|
T Consensus       305 ~~~d~~~A~~~~~~aA~~g~~~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~-~~A~~~la~~y~~G~gv~r~~~~A  383 (552)
T KOG1550|consen  305 EKIDYEKALKLYTKAAELGNPDAQYLLGVLYETGTKERDYRRAFEYYSLAAKAGH-ILAIYRLALCYELGLGVERNLELA  383 (552)
T ss_pred             ccccHHHHHHHHHHHHhcCCchHHHHHHHHHHcCCccccHHHHHHHHHHHHHcCC-hHHHHHHHHHHHhCCCcCCCHHHH
Confidence               66779998887766 4444444444444433   467899999999999883 3322222222111  123478899


Q ss_pred             HHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCC-HHHHHHHH---H-HHHH----cCCHHHHHH
Q 005487          530 GYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIRED-AGLLSTLF---S-ACRL----HRDIEMGEK  600 (694)
Q Consensus       530 ~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~---~-~~~~----~~~~~~A~~  600 (694)
                      ..++++.... + .|...--......+.. ++++.+.-.+..+.+..-. ...-...+   . ....    ..+...+..
T Consensus       384 ~~~~k~aA~~-g-~~~A~~~~~~~~~~g~-~~~~~~~~~~~~~a~~g~~~~q~~a~~l~~~~~~~~~~~~~~~~~~~~~~  460 (552)
T KOG1550|consen  384 FAYYKKAAEK-G-NPSAAYLLGAFYEYGV-GRYDTALALYLYLAELGYEVAQSNAAYLLDQSEEDLFSRGVISTLERAFS  460 (552)
T ss_pred             HHHHHHHHHc-c-ChhhHHHHHHHHHHcc-ccccHHHHHHHHHHHhhhhHHhhHHHHHHHhccccccccccccchhHHHH
Confidence            9999998743 4 3332221222333333 6666666555544331111 11111111   0 0001    124556666


Q ss_pred             HHHHHHhcCCCCCccHHHHHHHHhhc----CChHHHHHHHHHHHhCC
Q 005487          601 IAKLLIEKDPDDSSTYIVLSNMYASV----KKWDEVRKIRLKMKELG  643 (694)
Q Consensus       601 ~~~~~~~~~p~~~~~~~~l~~~~~~~----g~~~~A~~~~~~~~~~~  643 (694)
                      .+.++...  .++.+...|++.|...    .+.+.|...+.....++
T Consensus       461 ~~~~a~~~--g~~~a~~~lgd~y~~g~g~~~d~~~a~~~y~~a~~~~  505 (552)
T KOG1550|consen  461 LYSRAAAQ--GNADAILKLGDYYYYGLGTGRDPEKAAAQYARASEQG  505 (552)
T ss_pred             HHHHHHhc--cCHHHHhhhcceeeecCCCCCChHHHHHHHHHHHHhh
Confidence            66665543  3566777888887765    35788888887776666

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=86.59  E-value=1.4  Score=27.69  Aligned_cols=27  Identities=19%  Similarity=0.321  Sum_probs=23.0

Q ss_pred             HHHHHHHhhcCChHHHHHHHHHHHhCC
Q 005487          617 IVLSNMYASVKKWDEVRKIRLKMKELG  643 (694)
Q Consensus       617 ~~l~~~~~~~g~~~~A~~~~~~~~~~~  643 (694)
                      ..|+.+|...|+.+.|.++++++...|
T Consensus         3 LdLA~ayie~Gd~e~Ar~lL~evl~~~   29 (44)
T TIGR03504         3 LDLARAYIEMGDLEGARELLEEVIEEG   29 (44)
T ss_pred             hHHHHHHHHcCChHHHHHHHHHHHHcC
Confidence            568899999999999999999887654

This protein is found at the extreme C-terminus of FimV from Pseudomonas aeruginosa, and of TspA of Neisseria meningitidis. Disruption of the former blocks twitching motility from type IV pili; Semmler, et al. suggest a role in peptidoglycan layer remodelling required by type IV fimbrial systems.

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=86.24  E-value=7  Score=36.67  Aligned_cols=99  Identities=14%  Similarity=0.123  Sum_probs=61.5

Q ss_pred             CCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCC-CChH-----HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhh
Q 005487          439 KLETNEIVMGALLDMYAKCGAVDEAFKVFNELPE-RDLV-----SWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSIT  512 (694)
Q Consensus       439 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~-----~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~  512 (694)
                      |.+.+..+...++..-....+++.+...+-++.. |+..     +-...++.+. .=++++++.++..=++-|+-||..+
T Consensus        59 g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~~irlll-ky~pq~~i~~l~npIqYGiF~dqf~  137 (418)
T KOG4570|consen   59 GLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIHTWIRLLL-KYDPQKAIYTLVNPIQYGIFPDQFT  137 (418)
T ss_pred             CCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHHHHHHHHH-ccChHHHHHHHhCcchhccccchhh
Confidence            4444444455555555556677777776666554 2211     1112222222 2366778888777778888888888


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHhHH
Q 005487          513 FLALLSACSHAGWVDEGGYYFNLMIS  538 (694)
Q Consensus       513 ~~~l~~~~~~~g~~~~A~~~~~~~~~  538 (694)
                      ++.++..+.+.+++.+|.++.-.|..
T Consensus       138 ~c~l~D~flk~~n~~~aa~vvt~~~~  163 (418)
T KOG4570|consen  138 FCLLMDSFLKKENYKDAASVVTEVMM  163 (418)
T ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            88888888888888888777666653

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=86.01  E-value=69  Score=36.52  Aligned_cols=116  Identities=16%  Similarity=0.053  Sum_probs=69.1

Q ss_pred             HHHHHHHHHhcCChHHHHHHHhhCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCH
Q 005487          447 MGALLDMYAKCGAVDEAFKVFNELPERDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWV  526 (694)
Q Consensus       447 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~  526 (694)
                      |.-..+.-.+.|.+.+|+.++..-.+.-...|.+.+.-+.....+++|.-.|+..=+.         ...+.+|...|+|
T Consensus       911 ~~e~~n~I~kh~Ly~~aL~ly~~~~e~~k~i~~~ya~hL~~~~~~~~Aal~Ye~~Gkl---------ekAl~a~~~~~dW  981 (1265)
T KOG1920|consen  911 FPECKNYIKKHGLYDEALALYKPDSEKQKVIYEAYADHLREELMSDEAALMYERCGKL---------EKALKAYKECGDW  981 (1265)
T ss_pred             cHHHHHHHHhcccchhhhheeccCHHHHHHHHHHHHHHHHHhccccHHHHHHHHhccH---------HHHHHHHHHhccH
Confidence            3344444456666666666554333333345555556666667777777776654331         2346677778888


Q ss_pred             HHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHHHHHHHHhCC
Q 005487          527 DEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTP  573 (694)
Q Consensus       527 ~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  573 (694)
                      .+|..+..++..  +-.--..+-..|+..+..++++-+|-+++.+..
T Consensus       982 r~~l~~a~ql~~--~~de~~~~a~~L~s~L~e~~kh~eAa~il~e~~ 1026 (1265)
T KOG1920|consen  982 REALSLAAQLSE--GKDELVILAEELVSRLVEQRKHYEAAKILLEYL 1026 (1265)
T ss_pred             HHHHHHHHhhcC--CHHHHHHHHHHHHHHHHHcccchhHHHHHHHHh
Confidence            888887776641  111112233567777778888888888777765

>KOG0545 consensus Aryl-hydrocarbon receptor-interacting protein [Posttranslational modification, protein turnover, chaperones]

Probab=85.74  E-value=4.9  Score=36.18  Aligned_cols=59  Identities=14%  Similarity=0.069  Sum_probs=46.2

Q ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHHHHhCC
Q 005487          585 LFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELG  643 (694)
Q Consensus       585 l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  643 (694)
                      +...+...|++-++++.....+...|.|..+|+..+.+....=+.++|..-|.++....
T Consensus       236 y~QC~L~~~e~yevleh~seiL~~~~~nvKA~frRakAhaa~Wn~~eA~~D~~~vL~ld  294 (329)
T KOG0545|consen  236 YCQCLLKKEEYYEVLEHCSEILRHHPGNVKAYFRRAKAHAAVWNEAEAKADLQKVLELD  294 (329)
T ss_pred             HHHHHhhHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHhhcCHHHHHHHHHHHHhcC
Confidence            33444557888888888888888888888888888888888888888888777776543

>KOG0890 consensus Protein kinase of the PI-3 kinase family involved in mitotic growth, DNA repair and meiotic recombination [Signal transduction mechanisms; Chromatin structure and dynamics; Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=85.66  E-value=1e+02  Score=38.22  Aligned_cols=63  Identities=5%  Similarity=-0.098  Sum_probs=50.2

Q ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHHHHhCC
Q 005487          579 AGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELG  643 (694)
Q Consensus       579 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  643 (694)
                      ...|...+..++..|.++.|...+-++.+..  -+.++...+..+...|+-..|+.++++-.+..
T Consensus      1670 ge~wLqsAriaR~aG~~q~A~nall~A~e~r--~~~i~~E~AK~lW~~gd~~~Al~~Lq~~l~~~ 1732 (2382)
T KOG0890|consen 1670 GECWLQSARIARLAGHLQRAQNALLNAKESR--LPEIVLERAKLLWQTGDELNALSVLQEILSKN 1732 (2382)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHhhhhcc--cchHHHHHHHHHHhhccHHHHHHHHHHHHHhh
Confidence            4578888888888888888888888887776  45678888888888888888888888766444

>PRK09687 putative lyase; Provisional

Probab=85.56  E-value=34  Score=32.63  Aligned_cols=73  Identities=14%  Similarity=0.028  Sum_probs=37.5

Q ss_pred             CChhHHHHHHHHHHhcCChHHHHHHHhhCCC-CChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHH
Q 005487          442 TNEIVMGALLDMYAKCGAVDEAFKVFNELPE-RDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSAC  520 (694)
Q Consensus       442 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~  520 (694)
                      ++..+-...+.++++.|+.+ |...+-.... ++  .....+.++...|+. +|+..+.++...  .||...-...+.+|
T Consensus       204 ~~~~VR~~A~~aLg~~~~~~-av~~Li~~L~~~~--~~~~a~~ALg~ig~~-~a~p~L~~l~~~--~~d~~v~~~a~~a~  277 (280)
T PRK09687        204 KNEEIRIEAIIGLALRKDKR-VLSVLIKELKKGT--VGDLIIEAAGELGDK-TLLPVLDTLLYK--FDDNEIITKAIDKL  277 (280)
T ss_pred             CChHHHHHHHHHHHccCChh-HHHHHHHHHcCCc--hHHHHHHHHHhcCCH-hHHHHHHHHHhh--CCChhHHHHHHHHH
Confidence            34455555666666666643 3333333332 33  223455666666664 566666666654  34554444444443

>PF04910 Tcf25: Transcriptional repressor TCF25; InterPro: IPR006994 This entry appears to represent a novel family of basic helix-loop-helix (bHLH) proteins that control differentiation and development of a variety of organs [, ]

Probab=85.23  E-value=15  Score=36.51  Aligned_cols=56  Identities=13%  Similarity=0.045  Sum_probs=32.0

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHH-HccCCHHHHHHHHHHhH
Q 005487          482 IAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSAC-SHAGWVDEGGYYFNLMI  537 (694)
Q Consensus       482 ~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~-~~~g~~~~A~~~~~~~~  537 (694)
                      +..+.+.|-+..|+++.+-+...+..-|+.....+|..| .+.++++--+.+.+...
T Consensus       110 i~~L~~RG~~rTAlE~~KlLlsLdp~~DP~g~ll~ID~~ALrs~~y~~Li~~~~~~~  166 (360)
T PF04910_consen  110 IQSLGRRGCWRTALEWCKLLLSLDPDEDPLGVLLFIDYYALRSRQYQWLIDFSESPL  166 (360)
T ss_pred             HHHHHhcCcHHHHHHHHHHHHhcCCCCCcchhHHHHHHHHHhcCCHHHHHHHHHhHh
Confidence            445666677777777777666654222444444444433 45566666666666554

Human Nulp1 (Q2MK75 from SWISSPROT) is a basic helix-loop-helix protein expressed broadly during early embryonic organogenesis. Over expression of human Nulp1 in COS-7 cells inhibits the transcriptional activity of serum response factor (SRF), suggesting that Nulp1 may act as a novel bHLH transcriptional repressor in the SRF signalling pathway to mediate cellular functions [].

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=85.10  E-value=14  Score=38.10  Aligned_cols=149  Identities=17%  Similarity=0.084  Sum_probs=85.7

Q ss_pred             hcCChHHHHHHHhhCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHH
Q 005487          456 KCGAVDEAFKVFNELPERDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNL  535 (694)
Q Consensus       456 ~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~  535 (694)
                      -.|+++.|..++-.++++   ..+.++..+.++|-.++|+++         .+|+.-.   .....+.|+++.|..+..+
T Consensus       598 mrrd~~~a~~vLp~I~k~---~rt~va~Fle~~g~~e~AL~~---------s~D~d~r---Felal~lgrl~iA~~la~e  662 (794)
T KOG0276|consen  598 LRRDLEVADGVLPTIPKE---IRTKVAHFLESQGMKEQALEL---------STDPDQR---FELALKLGRLDIAFDLAVE  662 (794)
T ss_pred             hhccccccccccccCchh---hhhhHHhHhhhccchHhhhhc---------CCChhhh---hhhhhhcCcHHHHHHHHHh
Confidence            456777776665555532   233445555566666665543         2332211   1223456777777766654


Q ss_pred             hHHhcCCCCChHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcc
Q 005487          536 MISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSST  615 (694)
Q Consensus       536 ~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~  615 (694)
                      ..       +..-|..|+++....|++..|.+.+.++.       -|..|+..+-..|+.+.-..+...+.+...+|   
T Consensus       663 ~~-------s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~-------d~~~LlLl~t~~g~~~~l~~la~~~~~~g~~N---  725 (794)
T KOG0276|consen  663 AN-------SEVKWRQLGDAALSAGELPLASECFLRAR-------DLGSLLLLYTSSGNAEGLAVLASLAKKQGKNN---  725 (794)
T ss_pred             hc-------chHHHHHHHHHHhhcccchhHHHHHHhhc-------chhhhhhhhhhcCChhHHHHHHHHHHhhcccc---
Confidence            43       34457788888888888888888887765       23445555555666665444444444443333   


Q ss_pred             HHHHHHHHhhcCChHHHHHHHHH
Q 005487          616 YIVLSNMYASVKKWDEVRKIRLK  638 (694)
Q Consensus       616 ~~~l~~~~~~~g~~~~A~~~~~~  638 (694)
                        ....+|...|++++.++++..
T Consensus       726 --~AF~~~~l~g~~~~C~~lLi~  746 (794)
T KOG0276|consen  726 --LAFLAYFLSGDYEECLELLIS  746 (794)
T ss_pred             --hHHHHHHHcCCHHHHHHHHHh
Confidence              233456677888887777653

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=85.00  E-value=4.1  Score=36.00  Aligned_cols=64  Identities=25%  Similarity=0.233  Sum_probs=48.3

Q ss_pred             HHHHHHhhhcCCHHHHHHHHHhCCCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCC
Q 005487          550 SCLIDLLGRAGRLQEAYGILQSTPEIRE-DAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDS  613 (694)
Q Consensus       550 ~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~  613 (694)
                      ..-+..+.+.+.+.+|+...+.-.+.+| +...-..++..++..|++++|..-++-+-++.|++.
T Consensus         5 ~~t~seLL~~~sL~dai~~a~~qVkakPtda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t   69 (273)
T COG4455           5 RDTISELLDDNSLQDAIGLARDQVKAKPTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDT   69 (273)
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHhcCCccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccc
Confidence            3345667788888888888877666566 455666777888888999999888888888888643

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=84.33  E-value=65  Score=34.81  Aligned_cols=74  Identities=15%  Similarity=0.199  Sum_probs=43.3

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHc
Q 005487          513 FLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLH  592 (694)
Q Consensus       513 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~  592 (694)
                      ....+..|.+.|-+++.+-++-+|-         .+..+|.-.--+.++.++|+++.+.    +.|...|..|+..+...
T Consensus       637 lekA~eiC~q~~~~~E~VYlLgrmG---------n~k~AL~lII~el~die~AIefvKe----q~D~eLWe~LI~~~ldk  703 (846)
T KOG2066|consen  637 LEKALEICSQKNFYEELVYLLGRMG---------NAKEALKLIINELRDIEKAIEFVKE----QDDSELWEDLINYSLDK  703 (846)
T ss_pred             HHHHHHHHHhhCcHHHHHHHHHhhc---------chHHHHHHHHHHhhCHHHHHHHHHh----cCCHHHHHHHHHHhhcC
Confidence            3445555666666666666666553         1233333344455677777776664    55788888888766554


Q ss_pred             CCHHHHH
Q 005487          593 RDIEMGE  599 (694)
Q Consensus       593 ~~~~~A~  599 (694)
                      =.+-.++
T Consensus       704 Pe~~~~l  710 (846)
T KOG2066|consen  704 PEFIKAL  710 (846)
T ss_pred             cHHHHHH
Confidence            4444443

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=84.33  E-value=71  Score=35.21  Aligned_cols=183  Identities=14%  Similarity=0.023  Sum_probs=84.4

Q ss_pred             HhcCChHHHHHHHHHHHHc----CCCCCHHHHHHHHHHHcccCChHHHHHHHHHHHHhCCCCChhHHH---HH--HHHHH
Q 005487          385 VTVGDYFKALAIYSDMKEV----GAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMG---AL--LDMYA  455 (694)
Q Consensus       385 ~~~~~~~~A~~~~~~m~~~----g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~---~l--~~~~~  455 (694)
                      ...|++++|.++.+.....    -..+....+..+..+..-.|++++|..+.....+..-..+...+.   .+  ...+.
T Consensus       469 l~~~~~e~a~~lar~al~~L~~~~~~~r~~~~sv~~~a~~~~G~~~~Al~~~~~a~~~a~~~~~~~l~~~~~~~~s~il~  548 (894)
T COG2909         469 LNRGDPEEAEDLARLALVQLPEAAYRSRIVALSVLGEAAHIRGELTQALALMQQAEQMARQHDVYHLALWSLLQQSEILE  548 (894)
T ss_pred             HhcCCHHHHHHHHHHHHHhcccccchhhhhhhhhhhHHHHHhchHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHH
Confidence            3456677777766665442    122334445555556666777777777766654432222222222   11  22344


Q ss_pred             hcCChHHH--HHHHhhCCC-----C-----ChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC--CCCCH--hhH--HHHH
Q 005487          456 KCGAVDEA--FKVFNELPE-----R-----DLVSWTSMIAAYGSHGRALEALKLFGEMQQSN--ARPDS--ITF--LALL  517 (694)
Q Consensus       456 ~~g~~~~A--~~~~~~~~~-----~-----~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~p~~--~~~--~~l~  517 (694)
                      .+|+...+  ...|.....     .     -...+..+..++.+   .+.+..-.....+-|  ..|..  ...  ..|+
T Consensus       549 ~qGq~~~a~~~~~~~~~~~q~l~q~~~~~f~~~~r~~ll~~~~r---~~~~~~ear~~~~~~~~~~~~~~~~~~~~~~LA  625 (894)
T COG2909         549 AQGQVARAEQEKAFNLIREQHLEQKPRHEFLVRIRAQLLRAWLR---LDLAEAEARLGIEVGSVYTPQPLLSRLALSMLA  625 (894)
T ss_pred             HhhHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHHHHHHHHHH---HhhhhHHhhhcchhhhhcccchhHHHHHHHHHH
Confidence            45532222  222222111     1     11233334444443   233222222222111  12222  222  2556


Q ss_pred             HHHHccCCHHHHHHHHHHhHHhcCCCCChHH------HHHHHHHhhhcCCHHHHHHHHHh
Q 005487          518 SACSHAGWVDEGGYYFNLMISEYNIQPRNEH------YSCLIDLLGRAGRLQEAYGILQS  571 (694)
Q Consensus       518 ~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~------~~~l~~~~~~~g~~~~A~~~~~~  571 (694)
                      ......|++++|...++++..- ...+....      +..-......+|+.+.|...+.+
T Consensus       626 ~l~~~~Gdl~~A~~~l~~~~~l-~~~~~~~~~~~a~~~~v~~~lwl~qg~~~~a~~~l~~  684 (894)
T COG2909         626 ELEFLRGDLDKALAQLDELERL-LLNGQYHVDYLAAAYKVKLILWLAQGDKELAAEWLLK  684 (894)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHH-hcCCCCCchHHHHHHHhhHHHhcccCCHHHHHHHHHh
Confidence            6677788888888888877632 22232111      11222344567788777777766

>KOG2063 consensus Vacuolar assembly/sorting proteins VPS39/VAM6/VPS3 [Intracellular trafficking, secretion, and vesicular transport]

Probab=84.30  E-value=19  Score=39.97  Aligned_cols=28  Identities=29%  Similarity=0.332  Sum_probs=22.8

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHHc
Q 005487          376 YWNVMISGYVTVGDYFKALAIYSDMKEV  403 (694)
Q Consensus       376 ~~~~l~~~~~~~~~~~~A~~~~~~m~~~  403 (694)
                      -|..|+..|...|+.++|+++|.+....
T Consensus       506 ~y~~Li~LY~~kg~h~~AL~ll~~l~d~  533 (877)
T KOG2063|consen  506 KYRELIELYATKGMHEKALQLLRDLVDE  533 (877)
T ss_pred             cHHHHHHHHHhccchHHHHHHHHHHhcc
Confidence            4777888888888888888888887763

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=83.81  E-value=32  Score=30.77  Aligned_cols=126  Identities=16%  Similarity=0.136  Sum_probs=76.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcCCCCC----hHHHHHHH
Q 005487          478 WTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPR----NEHYSCLI  553 (694)
Q Consensus       478 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~----~~~~~~l~  553 (694)
                      .+.-+..+.+.+...+++...++-++.+ +.|..+-..++..++-.|+|++|..-++...   .+.|+    ..+|..++
T Consensus         4 l~~t~seLL~~~sL~dai~~a~~qVkak-Ptda~~RhflfqLlcvaGdw~kAl~Ql~l~a---~l~p~~t~~a~lyr~li   79 (273)
T COG4455           4 LRDTISELLDDNSLQDAIGLARDQVKAK-PTDAGGRHFLFQLLCVAGDWEKALAQLNLAA---TLSPQDTVGASLYRHLI   79 (273)
T ss_pred             hHHHHHHHHHhccHHHHHHHHHHHHhcC-CccccchhHHHHHHhhcchHHHHHHHHHHHh---hcCcccchHHHHHHHHH
Confidence            3445566778888999999988888773 4466777788888999999999988888765   34444    34555544


Q ss_pred             HHhhhcCCHHHHH-HHHHh--CCC--CCCCHHHHHHHHHHHHH-c-CCHHHHHHHHHHHHhcCCCCCc
Q 005487          554 DLLGRAGRLQEAY-GILQS--TPE--IREDAGLLSTLFSACRL-H-RDIEMGEKIAKLLIEKDPDDSS  614 (694)
Q Consensus       554 ~~~~~~g~~~~A~-~~~~~--~~~--~~p~~~~~~~l~~~~~~-~-~~~~~A~~~~~~~~~~~p~~~~  614 (694)
                      ++-       .+. ++|..  .+.  ..|.+.....+..+..- + |.-+.+..+-+.+++..|..+.
T Consensus        80 r~e-------a~R~evfag~~~Pgflg~p~p~wva~L~aala~h~dg~gea~~alreqal~aa~~~iG  140 (273)
T COG4455          80 RCE-------AARNEVFAGGAVPGFLGGPSPEWVAALLAALALHSDGAGEARTALREQALKAAPVPIG  140 (273)
T ss_pred             HHH-------HHHHHHhccCCCCCCcCCCCHHHHHHHHHHHhcccCCcchHHHHHHHHHHhhCCCCCc
Confidence            432       222 22322  121  22444444444444333 3 3455566666788887776433

>PF07721 TPR_4: Tetratricopeptide repeat; InterPro: IPR011717 This entry includes tetratricopeptide-like repeats not detected by the IPR001440 from INTERPRO, IPR013105 from INTERPRO and IPR011716 from INTERPRO models

Probab=83.79  E-value=2.1  Score=23.27  Aligned_cols=21  Identities=29%  Similarity=0.230  Sum_probs=12.4

Q ss_pred             HHHHHHhhhcCCHHHHHHHHH
Q 005487          550 SCLIDLLGRAGRLQEAYGILQ  570 (694)
Q Consensus       550 ~~l~~~~~~~g~~~~A~~~~~  570 (694)
                      ..++.++...|++++|..+++
T Consensus         5 ~~la~~~~~~G~~~eA~~~l~   25 (26)
T PF07721_consen    5 LALARALLAQGDPDEAERLLR   25 (26)
T ss_pred             HHHHHHHHHcCCHHHHHHHHh
Confidence            345566666666666666554

The tetratricopeptide repeat (TPR) motif is a protein-protein interaction module found in multiple copies in a number of functionally different proteins that facilitates specific interactions with a partner protein(s) [].; GO: 0042802 identical protein binding

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=83.61  E-value=8.7  Score=36.09  Aligned_cols=102  Identities=13%  Similarity=0.075  Sum_probs=71.8

Q ss_pred             CCCCCchhhhHHHHHHhcCCChhHHHHHHhhCCCCCch-h----hHHHHHHHHHccCChhHHHHHHHHhhhCCCCCCCcc
Q 005487           33 GLQNNIALCKSLINLYFSCQNYDYAMLVFKTIDNPLDL-S----LWNGLMASYTKNYMYITALELFDMLLQNPYLKPDSY  107 (694)
Q Consensus        33 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  107 (694)
                      |.+.+..+-..++..-....++++++..+-++...... .    +-.+.++. +-.-++++++.++..=.+. |+-||..
T Consensus        59 g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~~irl-llky~pq~~i~~l~npIqY-GiF~dqf  136 (418)
T KOG4570|consen   59 GLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIHTWIRL-LLKYDPQKAIYTLVNPIQY-GIFPDQF  136 (418)
T ss_pred             CCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHHHHHHH-HHccChHHHHHHHhCcchh-ccccchh
Confidence            55666666777776666677888888888776542111 0    11122222 2334677888888888887 8889999


Q ss_pred             cHHHHHHHhhCCCCchhHHHHHHHHHHHc
Q 005487          108 TYPSVLKACGGLGSVGIGKMIHTHLIKTG  136 (694)
Q Consensus       108 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  136 (694)
                      +++.+++.+.+.+++..|.++...|+...
T Consensus       137 ~~c~l~D~flk~~n~~~aa~vvt~~~~qe  165 (418)
T KOG4570|consen  137 TFCLLMDSFLKKENYKDAASVVTEVMMQE  165 (418)
T ss_pred             hHHHHHHHHHhcccHHHHHHHHHHHHHHH
Confidence            99999999999999988888888887765

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=83.60  E-value=72  Score=34.73  Aligned_cols=48  Identities=17%  Similarity=0.226  Sum_probs=25.6

Q ss_pred             cCCHHHHHHHHHHHHhcC---CCCC-ccHH-----HHHHHHhhcCChHHHHHHHHHH
Q 005487          592 HRDIEMGEKIAKLLIEKD---PDDS-STYI-----VLSNMYASVKKWDEVRKIRLKM  639 (694)
Q Consensus       592 ~~~~~~A~~~~~~~~~~~---p~~~-~~~~-----~l~~~~~~~g~~~~A~~~~~~~  639 (694)
                      .|+..+.......+....   |+.. ..|.     .+...+...|+.++|.....+.
T Consensus       547 ~~~~~e~~~~s~~a~~~A~k~~d~~~~LW~~v~~~~l~~~~~~~G~~~ka~~~~~~~  603 (608)
T PF10345_consen  547 EGDVGEQAKKSARAFQLAKKSSDYSDQLWHLVASGMLADSYEVQGDRDKAEEARQQL  603 (608)
T ss_pred             cCCHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHH
Confidence            566666555555444332   2212 2332     2344466678888887776654

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 [].

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=83.56  E-value=1.3  Score=37.23  Aligned_cols=84  Identities=14%  Similarity=0.144  Sum_probs=60.6

Q ss_pred             HHHHhhCCCCchhHHHHHHHHHHHcCCCchhHHHHHHHhhhcCCChHHHHHHhccCCCCCcccHHHHHHHHHhCCChhHH
Q 005487          112 VLKACGGLGSVGIGKMIHTHLIKTGFLLDVVIASSTAGMYAKCNSFECAVKMFDEMSERDVASWNTVISCYYQDGQAEKA  191 (694)
Q Consensus       112 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a  191 (694)
                      ++..+.+.+.+.....+++.+...+...+....+.++..|++.++.++..++++....   .....++..+.+.|.++.+
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~~~---yd~~~~~~~c~~~~l~~~a   89 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTSNN---YDLDKALRLCEKHGLYEEA   89 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSSSS---S-CTHHHHHHHTTTSHHHH
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccccc---cCHHHHHHHHHhcchHHHH
Confidence            5677777888888888888888777667788889999999998888888888884433   3334566666667777776


Q ss_pred             HHHHHHH
Q 005487          192 LELFKKM  198 (694)
Q Consensus       192 ~~~~~~m  198 (694)
                      .-++..+
T Consensus        90 ~~Ly~~~   96 (143)
T PF00637_consen   90 VYLYSKL   96 (143)
T ss_dssp             HHHHHCC
T ss_pred             HHHHHHc
Confidence            6666654

These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. Clathrin is a trimer composed of three heavy chains and three light chains, each monomer projecting outwards like a leg; this three-legged structure is known as a triskelion [, ]. The heavy chains form the legs, their N-terminal beta-propeller regions extending outwards, while their C-terminal alpha-alpha-superhelical regions form the central hub of the triskelion. Peptide motifs can bind between the beta-propeller blades. The light chains appear to have a regulatory role, and may help orient the assembly and disassembly of clathrin coats as they interact with hsc70 uncoating ATPase []. Clathrin triskelia self-polymerise into a curved lattice by twisting individual legs together. The clathrin lattice forms around a vesicle as it buds from the TGN, plasma membrane or endosomes, acting to stabilise the vesicle and facilitate the budding process []. The multiple blades created when the triskelia polymerise are involved in multiple protein interactions, enabling the recruitment of different cargo adaptors and membrane attachment proteins []. This entry represents the 7-fold alpha-alpha-superhelical ARM-type repeat found at the C-terminal of clathrin heavy chains and in VPS (vacuolar protein sorting-associated) proteins. In clathrin heavy chains, the C-terminal 7-fold ARM-type repeats interact to form the central hub of the triskelion. VPS proteins are required for vacuolar assembly and vacuolar traffick, and contain one clathrin-type repeat []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport; PDB: 3LVH_A 3LVG_C 1B89_A 3QIL_L.

>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function

Probab=83.56  E-value=5.4  Score=36.13  Aligned_cols=65  Identities=15%  Similarity=0.150  Sum_probs=45.1

Q ss_pred             HHHHHHHHHHHHcCCHH-------HHHHHHHHHHhcC--CC----CCccHHHHHHHHhhcCChHHHHHHHHHHHhCCC
Q 005487          580 GLLSTLFSACRLHRDIE-------MGEKIAKLLIEKD--PD----DSSTYIVLSNMYASVKKWDEVRKIRLKMKELGL  644 (694)
Q Consensus       580 ~~~~~l~~~~~~~~~~~-------~A~~~~~~~~~~~--p~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  644 (694)
                      ..+..+++.|+..|+.+       .|...|+++.+..  |.    .......+|.+..+.|++++|.+.+.++...+-
T Consensus       119 ~l~LrlAWlyR~~~~~~~E~~fl~~Al~~y~~a~~~e~~~~~~~~~~~l~YLigeL~rrlg~~~eA~~~fs~vi~~~~  196 (214)
T PF09986_consen  119 GLCLRLAWLYRDLGDEENEKRFLRKALEFYEEAYENEDFPIEGMDEATLLYLIGELNRRLGNYDEAKRWFSRVIGSKK  196 (214)
T ss_pred             HHHHHHHHHhhccCCHHHHHHHHHHHHHHHHHHHHhCcCCCCCchHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCCC
Confidence            45566677777777744       4555555555443  22    234677789999999999999999999876554

>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed

Probab=82.91  E-value=33  Score=30.39  Aligned_cols=66  Identities=15%  Similarity=0.042  Sum_probs=29.6

Q ss_pred             HHHHHHHHHHHcCCCchhHHHHHHHhhhcCCChHHHHHHhccCC-------CCCcccHHHHHHHHHhCCChhHH
Q 005487          125 GKMIHTHLIKTGFLLDVVIASSTAGMYAKCNSFECAVKMFDEMS-------ERDVASWNTVISCYYQDGQAEKA  191 (694)
Q Consensus       125 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-------~~~~~~~~~li~~~~~~~~~~~a  191 (694)
                      |...|-.+...+.-.++.....|...|. ..+.++++.++-+..       ..|+..+.+|+..+.+.|+++.|
T Consensus       125 A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~A  197 (203)
T PF11207_consen  125 ALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQA  197 (203)
T ss_pred             HHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhh
Confidence            3333434443333334444444444443 344444444443332       13444555555555555555544

>smart00386 HAT HAT (Half-A-TPR) repeats

Probab=82.58  E-value=2.2  Score=24.38  Aligned_cols=30  Identities=27%  Similarity=0.376  Sum_probs=24.6

Q ss_pred             CCHHHHHHHHHHHHhcCCCCCccHHHHHHH
Q 005487          593 RDIEMGEKIAKLLIEKDPDDSSTYIVLSNM  622 (694)
Q Consensus       593 ~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~  622 (694)
                      |+.+.|..++++++...|.++..|...+..
T Consensus         1 ~~~~~~r~i~e~~l~~~~~~~~~W~~y~~~   30 (33)
T smart00386        1 GDIERARKIYERALEKFPKSVELWLKYAEF   30 (33)
T ss_pred             CcHHHHHHHHHHHHHHCCCChHHHHHHHHH
Confidence            567888999999999889888888877654

Present in several RNA-binding proteins. Structurally and sequentially thought to be similar to TPRs.

>KOG4507 consensus Uncharacterized conserved protein, contains TPR repeats [Function unknown]

Probab=82.47  E-value=6.2  Score=40.39  Aligned_cols=135  Identities=16%  Similarity=0.033  Sum_probs=93.4

Q ss_pred             CCHhhHHHHHHHHHcc--CCHHHHHHHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCCH--HHHH
Q 005487          508 PDSITFLALLSACSHA--GWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDA--GLLS  583 (694)
Q Consensus       508 p~~~~~~~l~~~~~~~--g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~--~~~~  583 (694)
                      |+..+...++.-....  ..-+-+-.++-.|.  ..+.|--.+++..+-.+--.|+...|.+.+..+.-..|..  ..+.
T Consensus       569 ~~~~~~k~~~~r~~~~~i~e~e~~~~~~~~~~--~~~~p~w~~ln~aglywr~~gn~~~a~~cl~~a~~~~p~~~~v~~v  646 (886)
T KOG4507|consen  569 PDDHARKILLSRINNYTIPEEEIGSFLFHAIN--KPNAPIWLILNEAGLYWRAVGNSTFAIACLQRALNLAPLQQDVPLV  646 (886)
T ss_pred             chHHHHHHHHHHHhcccCcHHHHHHHHHHHhc--CCCCCeEEEeecccceeeecCCcHHHHHHHHHHhccChhhhcccHH
Confidence            4555555444332221  12233444444443  2344443333333333445799999999999987767753  3456


Q ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHHHHhCCC
Q 005487          584 TLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELGL  644 (694)
Q Consensus       584 ~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  644 (694)
                      .++....+.|-.-.|-.++.+.+.++-..|-++..+|++|....+.+.|++.++.+.+...
T Consensus       647 ~la~~~~~~~~~~da~~~l~q~l~~~~sepl~~~~~g~~~l~l~~i~~a~~~~~~a~~~~~  707 (886)
T KOG4507|consen  647 NLANLLIHYGLHLDATKLLLQALAINSSEPLTFLSLGNAYLALKNISGALEAFRQALKLTT  707 (886)
T ss_pred             HHHHHHHHhhhhccHHHHHHHHHhhcccCchHHHhcchhHHHHhhhHHHHHHHHHHHhcCC
Confidence            7778888888888999999999999988888999999999999999999999998776553

>KOG2063 consensus Vacuolar assembly/sorting proteins VPS39/VAM6/VPS3 [Intracellular trafficking, secretion, and vesicular transport]

Probab=82.38  E-value=61  Score=36.18  Aligned_cols=112  Identities=15%  Similarity=0.088  Sum_probs=58.5

Q ss_pred             hhhHHHHHHhcCCChhHHHHHHhhCCCCC------chhhHHHHHHHHHccCCh--hHHHHHHHHhhhCCCCCCCcccHHH
Q 005487           40 LCKSLINLYFSCQNYDYAMLVFKTIDNPL------DLSLWNGLMASYTKNYMY--ITALELFDMLLQNPYLKPDSYTYPS  111 (694)
Q Consensus        40 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~------~~~~~~~l~~~~~~~~~~--~~a~~~~~~~~~~~~~~~~~~~~~~  111 (694)
                      -|..|+..|...|.+++|++++......+      ....+..++.-+.+.+..  +-.+++-++..+. ...-....+..
T Consensus       506 ~y~~Li~LY~~kg~h~~AL~ll~~l~d~~~~~d~~~~~~~e~ii~YL~~l~~~~~~Li~~y~~wvl~~-~p~~gi~Ift~  584 (877)
T KOG2063|consen  506 KYRELIELYATKGMHEKALQLLRDLVDEDSDTDSFQLDGLEKIIEYLKKLGAENLDLILEYADWVLNK-NPEAGIQIFTS  584 (877)
T ss_pred             cHHHHHHHHHhccchHHHHHHHHHHhccccccccchhhhHHHHHHHHHHhcccchhHHHHHhhhhhcc-Cchhheeeeec
Confidence            46677777777777777777776653311      111234444444444444  6666666666654 11111111111


Q ss_pred             ------------HHHHhhCCCCchhHHHHHHHHHHHcCCCchhHHHHHHHhhh
Q 005487          112 ------------VLKACGGLGSVGIGKMIHTHLIKTGFLLDVVIASSTAGMYA  152 (694)
Q Consensus       112 ------------ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  152 (694)
                                  .+-.+......+.+..+++.++...-.++....+.++..|.
T Consensus       585 ~~~~~~~sis~~~Vl~~l~~~~~~l~I~YLE~li~~~~~~~~~lht~ll~ly~  637 (877)
T KOG2063|consen  585 EDKQEAESISRDDVLNYLKSKEPKLLIPYLEHLISDNRLTSTLLHTVLLKLYL  637 (877)
T ss_pred             cChhhhccCCHHHHHHHhhhhCcchhHHHHHHHhHhccccchHHHHHHHHHHH
Confidence                        11122344455556666666666655556666666666554

>PF14853 Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repeat; PDB: 1IYG_A 1PC2_A 1NZN_A 3UUX_C 1Y8M_A 2PQR_A 2PQN_A 3O48_A

Probab=82.05  E-value=5  Score=26.56  Aligned_cols=30  Identities=10%  Similarity=0.072  Sum_probs=24.0

Q ss_pred             cHHHHHHHHhhcCChHHHHHHHHHHHhCCC
Q 005487          615 TYIVLSNMYASVKKWDEVRKIRLKMKELGL  644 (694)
Q Consensus       615 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  644 (694)
                      ..+.++-.+.+.|++++|.+..+.+.+..+
T Consensus         3 ~lY~lAig~ykl~~Y~~A~~~~~~lL~~eP   32 (53)
T PF14853_consen    3 CLYYLAIGHYKLGEYEKARRYCDALLEIEP   32 (53)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHTT
T ss_pred             hHHHHHHHHHHhhhHHHHHHHHHHHHhhCC
Confidence            356678889999999999999999887543

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=81.94  E-value=12  Score=37.24  Aligned_cols=132  Identities=13%  Similarity=0.076  Sum_probs=85.4

Q ss_pred             HHhcCChHHHHHH-HhhCCC--CChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHH
Q 005487          454 YAKCGAVDEAFKV-FNELPE--RDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGG  530 (694)
Q Consensus       454 ~~~~g~~~~A~~~-~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~  530 (694)
                      -...|++..|-+- +..+..  .++.........+...|+++.+...+...... +.....+...+++.....|++++|.
T Consensus       299 ~~~~gd~~aas~~~~~~lr~~~~~p~~i~l~~~i~~~lg~ye~~~~~~s~~~~~-~~s~~~~~~~~~r~~~~l~r~~~a~  377 (831)
T PRK15180        299 QLADGDIIAASQQLFAALRNQQQDPVLIQLRSVIFSHLGYYEQAYQDISDVEKI-IGTTDSTLRCRLRSLHGLARWREAL  377 (831)
T ss_pred             HhhccCHHHHHHHHHHHHHhCCCCchhhHHHHHHHHHhhhHHHHHHHhhchhhh-hcCCchHHHHHHHhhhchhhHHHHH
Confidence            3456777666543 333333  23333333445567889999999988777654 3455678888899999999999999


Q ss_pred             HHHHHhHHhcCCCCChHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCC-CHHHHHHHHHH
Q 005487          531 YYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIRE-DAGLLSTLFSA  588 (694)
Q Consensus       531 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~  588 (694)
                      ..-.-|... .+ -+++.....+...-..|-++++...+++...+.| ...-|..++..
T Consensus       378 s~a~~~l~~-ei-e~~ei~~iaa~sa~~l~~~d~~~~~wk~~~~~~~~~~~g~v~~~~~  434 (831)
T PRK15180        378 STAEMMLSN-EI-EDEEVLTVAAGSADALQLFDKSYHYWKRVLLLNPETQSGWVNFLSS  434 (831)
T ss_pred             HHHHHHhcc-cc-CChhheeeecccHHHHhHHHHHHHHHHHHhccCChhcccceeeecc
Confidence            999988832 22 2333433333444456788999999999776544 33445544443

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=81.77  E-value=3.6  Score=25.23  Aligned_cols=29  Identities=21%  Similarity=0.179  Sum_probs=19.8

Q ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Q 005487          580 GLLSTLFSACRLHRDIEMGEKIAKLLIEK  608 (694)
Q Consensus       580 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  608 (694)
                      .+++.++..+...|++++|+.+++++++.
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~al~~   31 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEALEI   31 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHHHHH
Confidence            35667777777777777777777777653

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=81.77  E-value=16  Score=28.04  Aligned_cols=49  Identities=12%  Similarity=0.078  Sum_probs=31.3

Q ss_pred             HHHHHHHHHHHcCCCCCHhhHHHHHHHHHccCCHHHHHHHHHHhHHhcC
Q 005487          493 EALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYN  541 (694)
Q Consensus       493 ~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  541 (694)
                      +..+-++.+....+.|++......+.+|.+.+++.-|+++++.+..+.+
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~~   76 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKCG   76 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHcc
Confidence            3445555566666677777777777888888888888888877765544

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 ....

>KOG3364 consensus Membrane protein involved in organellar division [Cell wall/membrane/envelope biogenesis]

Probab=81.67  E-value=6.2  Score=31.96  Aligned_cols=72  Identities=14%  Similarity=0.058  Sum_probs=46.9

Q ss_pred             CCCHhhHHHHHHHHHccC---CHHHHHHHHHHhHHhcCCCCC--hHHHHHHHHHhhhcCCHHHHHHHHHhCCCCCCCHH
Q 005487          507 RPDSITFLALLSACSHAG---WVDEGGYYFNLMISEYNIQPR--NEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAG  580 (694)
Q Consensus       507 ~p~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~  580 (694)
                      .++..+-..+..++.++.   +..+.+.+++.+.+  .-.|+  .+....|+-.+.+.|++++++++++...+.+|+..
T Consensus        29 ~~s~~s~f~lAwaLV~S~~~~dv~~GI~iLe~l~~--~~~~~~rRe~lyYLAvg~yRlkeY~~s~~yvd~ll~~e~~n~  105 (149)
T KOG3364|consen   29 DVSKQSQFNLAWALVRSRDTEDVQEGIVILEDLLK--SAHPERRRECLYYLAVGHYRLKEYSKSLRYVDALLETEPNNR  105 (149)
T ss_pred             cchHHHHHHHHHHHHcccchHHHHHhHHHHHHHhh--hcCcccchhhhhhhHHHHHHHhhHHHHHHHHHHHHhhCCCcH
Confidence            455566666666666654   45566777777774  12333  33455677778888888888888888776666554

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=81.50  E-value=44  Score=30.81  Aligned_cols=188  Identities=11%  Similarity=0.122  Sum_probs=120.6

Q ss_pred             hcCChHHHHHHHHHHHHcCCCCC---HHHHHHHHHHHcccCChHHHHHHHHHHHH---hC--CCCChhHHHHHHHHHHhc
Q 005487          386 TVGDYFKALAIYSDMKEVGAKPD---AVTFTSVLPACSQLAALEKGKEIHNHIIE---SK--LETNEIVMGALLDMYAKC  457 (694)
Q Consensus       386 ~~~~~~~A~~~~~~m~~~g~~p~---~~~~~~ll~~~~~~~~~~~a~~~~~~~~~---~~--~~~~~~~~~~l~~~~~~~  457 (694)
                      +..++++|+.-|.+..+....-.   -.....++....+.+++++..+.+.++..   ..  -..+....++++......
T Consensus        39 ~e~~p~~Al~sF~kVlelEgEKgeWGFKALKQmiKI~f~l~~~~eMm~~Y~qlLTYIkSAVTrNySEKsIN~IlDyiStS  118 (440)
T KOG1464|consen   39 KEDEPKEALSSFQKVLELEGEKGEWGFKALKQMIKINFRLGNYKEMMERYKQLLTYIKSAVTRNYSEKSINSILDYISTS  118 (440)
T ss_pred             cccCHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHhhh
Confidence            44578999999999887532222   23455677888999999999999988753   11  234566677777777666


Q ss_pred             CChHHHHHHHhhCCC-----CChH----HHHHHHHHHHhcCCHHHHHHHHHHHHHcCC----CCCH-------hhHHHHH
Q 005487          458 GAVDEAFKVFNELPE-----RDLV----SWTSMIAAYGSHGRALEALKLFGEMQQSNA----RPDS-------ITFLALL  517 (694)
Q Consensus       458 g~~~~A~~~~~~~~~-----~~~~----~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~----~p~~-------~~~~~l~  517 (694)
                      .+.+--..+++.-..     .+..    +-+.|...|...+.+.+-.++++++...--    ..|.       ..|..=+
T Consensus       119 ~~m~LLQ~FYeTTL~ALkdAKNeRLWFKTNtKLgkl~fd~~e~~kl~KIlkqLh~SCq~edGedD~kKGtQLLEiYAlEI  198 (440)
T KOG1464|consen  119 KNMDLLQEFYETTLDALKDAKNERLWFKTNTKLGKLYFDRGEYTKLQKILKQLHQSCQTEDGEDDQKKGTQLLEIYALEI  198 (440)
T ss_pred             hhhHHHHHHHHHHHHHHHhhhcceeeeeccchHhhhheeHHHHHHHHHHHHHHHHHhccccCchhhhccchhhhhHhhHh
Confidence            666665555554332     2322    335577888888888888888888876411    1121       3455556


Q ss_pred             HHHHccCCHHHHHHHHHHhHHhcCCCCChHHHHHH----HHHhhhcCCHHHHH-HHHHhCC
Q 005487          518 SACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCL----IDLLGRAGRLQEAY-GILQSTP  573 (694)
Q Consensus       518 ~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l----~~~~~~~g~~~~A~-~~~~~~~  573 (694)
                      ..|..+.+-.....++++...-...-|.+.....+    +....+.|++++|- .+|+...
T Consensus       199 QmYT~qKnNKkLK~lYeqalhiKSAIPHPlImGvIRECGGKMHlreg~fe~AhTDFFEAFK  259 (440)
T KOG1464|consen  199 QMYTEQKNNKKLKALYEQALHIKSAIPHPLIMGVIRECGGKMHLREGEFEKAHTDFFEAFK  259 (440)
T ss_pred             hhhhhhcccHHHHHHHHHHHHhhccCCchHHHhHHHHcCCccccccchHHHHHhHHHHHHh
Confidence            67777788888888888776433444555443322    34456778887765 3444433

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=81.14  E-value=1.1e+02  Score=35.08  Aligned_cols=52  Identities=12%  Similarity=0.045  Sum_probs=29.7

Q ss_pred             CChHHHHHHHhcCCCCChhHHHHHHHHHHcCCCchHHHHHHHHHHHCCCCCCHHHHHHHHHHh
Q 005487          256 GCLEMAREVFEQTVLKSVVAWNALIAGYSSRGDSKSCVKLFWRMNEEGIKPTLTTISSVLMSC  318 (694)
Q Consensus       256 g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~ll~~~  318 (694)
                      ++++.|+.-+.++.   ...|.-.++.--+.|.+.+|+.++        .|+...+..+..+|
T Consensus       894 ~ry~~AL~hLs~~~---~~~~~e~~n~I~kh~Ly~~aL~ly--------~~~~e~~k~i~~~y  945 (1265)
T KOG1920|consen  894 KRYEDALSHLSECG---ETYFPECKNYIKKHGLYDEALALY--------KPDSEKQKVIYEAY  945 (1265)
T ss_pred             HHHHHHHHHHHHcC---ccccHHHHHHHHhcccchhhhhee--------ccCHHHHHHHHHHH
Confidence            45666666555544   334444455555677777777764        56666655555443

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=81.09  E-value=43  Score=30.37  Aligned_cols=26  Identities=8%  Similarity=0.130  Sum_probs=16.7

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCC
Q 005487          482 IAAYGSHGRALEALKLFGEMQQSNAR  507 (694)
Q Consensus       482 ~~~~~~~~~~~~A~~~~~~~~~~~~~  507 (694)
                      ...-...+++.+|+.+|++.....+.
T Consensus       161 A~yaa~leqY~~Ai~iyeqva~~s~~  186 (288)
T KOG1586|consen  161 AQYAAQLEQYSKAIDIYEQVARSSLD  186 (288)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            33445567777788888777765443

>smart00028 TPR Tetratricopeptide repeats

Probab=80.64  E-value=2.8  Score=23.38  Aligned_cols=29  Identities=28%  Similarity=0.318  Sum_probs=25.3

Q ss_pred             ccHHHHHHHHhhcCChHHHHHHHHHHHhC
Q 005487          614 STYIVLSNMYASVKKWDEVRKIRLKMKEL  642 (694)
Q Consensus       614 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  642 (694)
                      .+|..++.++...|++++|...++...+.
T Consensus         2 ~~~~~~a~~~~~~~~~~~a~~~~~~~~~~   30 (34)
T smart00028        2 EALYNLGNAYLKLGDYDEALEYYEKALEL   30 (34)
T ss_pred             hHHHHHHHHHHHHhhHHHHHHHHHHHHcc
Confidence            46788999999999999999999987653

Repeats present in 4 or more copies in proteins. Contain a minimum of 34 amino acids each and self-associate via a "knobs and holes" mechanism.

>COG2912 Uncharacterized conserved protein [Function unknown]

Probab=80.41  E-value=14  Score=34.31  Aligned_cols=61  Identities=16%  Similarity=0.119  Sum_probs=53.4

Q ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCChHHHHHHHHHHHhCC
Q 005487          583 STLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELG  643 (694)
Q Consensus       583 ~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  643 (694)
                      ..+-..+...++++.|....++.+.++|+++.-+...|-+|.+.|.+.-|+.-++...+.-
T Consensus       185 ~~lk~~~~~e~~~~~al~~~~r~l~l~P~dp~eirDrGliY~ql~c~~vAl~dl~~~~~~~  245 (269)
T COG2912         185 RNLKAALLRELQWELALRVAERLLDLNPEDPYEIRDRGLIYAQLGCYHVALEDLSYFVEHC  245 (269)
T ss_pred             HHHHHHHHHhhchHHHHHHHHHHHhhCCCChhhccCcHHHHHhcCCchhhHHHHHHHHHhC
Confidence            4455668889999999999999999999999999999999999999999999988865544

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=80.38  E-value=48  Score=30.57  Aligned_cols=203  Identities=16%  Similarity=0.226  Sum_probs=111.3

Q ss_pred             CCHHHHHHHHhcCCC----C---ChhHHHHHHHHHHhcCChHHHHHHHHHHHH---cCC--CCCHHHHHHHHHHHcccCC
Q 005487          357 GRVSSAENVFEKMSK----T---DVVYWNVMISGYVTVGDYFKALAIYSDMKE---VGA--KPDAVTFTSVLPACSQLAA  424 (694)
Q Consensus       357 ~~~~~A~~~~~~~~~----~---~~~~~~~l~~~~~~~~~~~~A~~~~~~m~~---~g~--~p~~~~~~~ll~~~~~~~~  424 (694)
                      .++++|+.-|+++.+    .   ...+.-.++....+.+++++.+..|+++..   +.+  .-+..+.+.++.-.+.+.+
T Consensus        41 ~~p~~Al~sF~kVlelEgEKgeWGFKALKQmiKI~f~l~~~~eMm~~Y~qlLTYIkSAVTrNySEKsIN~IlDyiStS~~  120 (440)
T KOG1464|consen   41 DEPKEALSSFQKVLELEGEKGEWGFKALKQMIKINFRLGNYKEMMERYKQLLTYIKSAVTRNYSEKSINSILDYISTSKN  120 (440)
T ss_pred             cCHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHhhhhh
Confidence            355666666655432    1   122445567777777888777777777643   111  1234456666666666666


Q ss_pred             hHHHHHHHHHHHH-----hCCCCChhHHHHHHHHHHhcCChHHHHHHHhhCCC--------CC-------hHHHHHHHHH
Q 005487          425 LEKGKEIHNHIIE-----SKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPE--------RD-------LVSWTSMIAA  484 (694)
Q Consensus       425 ~~~a~~~~~~~~~-----~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--------~~-------~~~~~~l~~~  484 (694)
                      .+...++++.-.+     .+-..-..+-+.+...|...+++....+++.++..        .|       ...|..-++.
T Consensus       121 m~LLQ~FYeTTL~ALkdAKNeRLWFKTNtKLgkl~fd~~e~~kl~KIlkqLh~SCq~edGedD~kKGtQLLEiYAlEIQm  200 (440)
T KOG1464|consen  121 MDLLQEFYETTLDALKDAKNERLWFKTNTKLGKLYFDRGEYTKLQKILKQLHQSCQTEDGEDDQKKGTQLLEIYALEIQM  200 (440)
T ss_pred             hHHHHHHHHHHHHHHHhhhcceeeeeccchHhhhheeHHHHHHHHHHHHHHHHHhccccCchhhhccchhhhhHhhHhhh
Confidence            6666666554322     11122233445567777777777777777766543        11       1245566777


Q ss_pred             HHhcCCHHHHHHHHHHHHHcC-CCCCHhhHHHHHHH-----HHccCCHHHHHHHHHHhHHhcCC--CCChH---HHHHHH
Q 005487          485 YGSHGRALEALKLFGEMQQSN-ARPDSITFLALLSA-----CSHAGWVDEGGYYFNLMISEYNI--QPRNE---HYSCLI  553 (694)
Q Consensus       485 ~~~~~~~~~A~~~~~~~~~~~-~~p~~~~~~~l~~~-----~~~~g~~~~A~~~~~~~~~~~~~--~p~~~---~~~~l~  553 (694)
                      |....+-..-..++++..... --|-+... ..++-     +.+.|.+++|..-|-++.+.+.-  .|...   -|..|+
T Consensus       201 YT~qKnNKkLK~lYeqalhiKSAIPHPlIm-GvIRECGGKMHlreg~fe~AhTDFFEAFKNYDEsGspRRttCLKYLVLA  279 (440)
T KOG1464|consen  201 YTEQKNNKKLKALYEQALHIKSAIPHPLIM-GVIRECGGKMHLREGEFEKAHTDFFEAFKNYDESGSPRRTTCLKYLVLA  279 (440)
T ss_pred             hhhhcccHHHHHHHHHHHHhhccCCchHHH-hHHHHcCCccccccchHHHHHhHHHHHHhcccccCCcchhHHHHHHHHH
Confidence            777777777777787765421 12333333 33332     35668888776544444333322  23222   345566


Q ss_pred             HHhhhcC
Q 005487          554 DLLGRAG  560 (694)
Q Consensus       554 ~~~~~~g  560 (694)
                      +.+.+.|
T Consensus       280 NMLmkS~  286 (440)
T KOG1464|consen  280 NMLMKSG  286 (440)
T ss_pred             HHHHHcC
Confidence            7777666

>KOG2471 consensus TPR repeat-containing protein [General function prediction only]

Probab=80.04  E-value=73  Score=32.39  Aligned_cols=110  Identities=6%  Similarity=-0.106  Sum_probs=72.3

Q ss_pred             HHHccCCHHHHHHHHHHhH--HhcCCCCChH-----HHHHHHHHhhhcCCHHHHHHHHHhCCC---------CCC-----
Q 005487          519 ACSHAGWVDEGGYYFNLMI--SEYNIQPRNE-----HYSCLIDLLGRAGRLQEAYGILQSTPE---------IRE-----  577 (694)
Q Consensus       519 ~~~~~g~~~~A~~~~~~~~--~~~~~~p~~~-----~~~~l~~~~~~~g~~~~A~~~~~~~~~---------~~p-----  577 (694)
                      .+...|++.+|.+++...-  +..|...++.     .++.|+-+..+.|.+.-+..+|.++.+         +.|     
T Consensus       249 ~eY~~gn~~kA~KlL~~sni~~~~g~~~T~q~~~cif~NNlGcIh~~~~~y~~~~~~F~kAL~N~c~qL~~g~~~~~~~t  328 (696)
T KOG2471|consen  249 LEYAHGNHPKAMKLLLVSNIHKEAGGTITPQLSSCIFNNNLGCIHYQLGCYQASSVLFLKALRNSCSQLRNGLKPAKTFT  328 (696)
T ss_pred             HHHHhcchHHHHHHHHhcccccccCccccchhhhheeecCcceEeeehhhHHHHHHHHHHHHHHHHHHHhccCCCCccee
Confidence            3455678888877775431  1112111111     235566666677777776666665542         122     


Q ss_pred             -----CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCccHHHHHHHHhhcCC
Q 005487          578 -----DAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKK  628 (694)
Q Consensus       578 -----~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  628 (694)
                           ...+....+..+...|+.-.|.+.|.++......+|..|..|+.+|....+
T Consensus       329 ls~nks~eilYNcG~~~Lh~grPl~AfqCf~~av~vfh~nPrlWLRlAEcCima~~  384 (696)
T KOG2471|consen  329 LSQNKSMEILYNCGLLYLHSGRPLLAFQCFQKAVHVFHRNPRLWLRLAECCIMALQ  384 (696)
T ss_pred             hhcccchhhHHhhhHHHHhcCCcHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhh
Confidence                 224455666778889999999999999999999999999999999876543

---

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	694
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-13
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	5e-11
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	8e-11
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	7e-10
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-09
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	1e-04
4g1t_A	472	Interferon-induced protein with tetratricopeptide	3e-04
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	6e-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 = 73.3 bits (178), Expect = 2e-13
 Identities = 31/268 (11%), Positives = 76/268 (28%), Gaps = 8/268 (2%)

Query: 393 ALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLD 452
           A  +    ++    P       +L       +L+  +       +++L   +  + A   
Sbjct: 76  AGCLEDCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFK 135

Query: 453 MYAKCGAVDEAFKVFNELPER-------DLVSWTSMIAAYGSHGRALEALKLFGEMQQSN 505
                  +  A  +      +        L  + +++  +   G   E + +   ++ + 
Sbjct: 136 CCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAG 195

Query: 506 ARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEA 565
             PD +++ A L                   +S+  ++ +    + L+    RA  + +A
Sbjct: 196 LTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRAT-VLKA 254

Query: 566 YGILQSTPEIREDAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYAS 625
              ++ T  +              R     +      KL +            L    AS
Sbjct: 255 VHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPLKTLQCLFEKQLHMELAS 314

Query: 626 VKKWDEVRKIRLKMKELGLRKNPGCSWI 653
                 V K  L  KE+   +    +  
Sbjct: 315 RVCVVSVEKPTLPSKEVKHARKTLKTLR 342

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 65.2 bits (157), Expect = 5e-11
 Identities = 23/140 (16%), Positives = 49/140 (35%), Gaps = 7/140 (5%)

Query: 191 ALELFKKMRGSGFQPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVSDSYISSALVD 250
           A  L    R +   P    L  ++      + LD  +    +  +           A   
Sbjct: 76  AGCLEDCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFK 135

Query: 251 MYGKCGCLEMAREVFE-------QTVLKSVVAWNALIAGYSSRGDSKSCVKLFWRMNEEG 303
                  L +A  +         +  L ++  +NA++ G++ +G  K  V + + + + G
Sbjct: 136 CCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAG 195

Query: 304 IKPTLTTISSVLMSCSRSGQ 323
           + P L + ++ L    R  Q
Sbjct: 196 LTPDLLSYAAALQCMGRQDQ 215

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 64.5 bits (155), Expect = 8e-11
 Identities = 19/179 (10%), Positives = 55/179 (30%), Gaps = 8/179 (4%)

Query: 299 MNEEGIKPTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGR 358
             +    P    ++ +L        L   +   G   + ++ G      +         +
Sbjct: 83  TRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQ 142

Query: 359 VSSAENVFEKMSK-------TDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVT 411
           +  A ++               +  +N ++ G+   G + + + +   +K+ G  PD ++
Sbjct: 143 LPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLS 202

Query: 412 FTSVLPACSQL-AALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNE 469
           + + L    +        +     + +  L+   +    LL    +   +    KV   
Sbjct: 203 YAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPT 261

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 61.8 bits (148), Expect = 7e-10
 Identities = 22/211 (10%), Positives = 65/211 (30%), Gaps = 12/211 (5%)

Query: 103 KPDSYTYPSVLKACGGLGSVGIGKMIHTHLIKTGFLLDVVIASSTAGMYAKCNSFECAVK 162
            P       +L+   G  S+ + +       +           +        +    A  
Sbjct: 89  SPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHH 148

Query: 163 MFDEMSER-------DVASWNTVISCYYQDGQAEKALELFKKMRGSGFQPNSVTLTTVIS 215
           +      +        +  +N V+  + + G  ++ + +   ++ +G  P+ ++    + 
Sbjct: 149 LLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQ 208

Query: 216 SCARL-MDLDRGKEIHKEFIKDGFVSDSYISSALVDMYGKCGCLEMAREVFEQT----VL 270
              R   D    +   ++  ++G    +  ++ L+    +   L+   +V         L
Sbjct: 209 CMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQL 268

Query: 271 KSVVAWNALIAGYSSRGDSKSCVKLFWRMNE 301
              V  + L+    ++    S  KL   +  
Sbjct: 269 PPPVNTSKLLRDVYAKDGRVSYPKLHLPLKT 299

>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 = 60.6 bits (146), Expect = 1e-09
 Identities = 75/592 (12%), Positives = 177/592 (29%), Gaps = 171/592 (28%)

Query: 166 EMSERDVASWNTVISCYYQ----DGQAEKALELFKKMRGSGFQPNSVTLTTVISSCARLM 221
           E  E     +  ++S +      +   +   ++ K +       + +     +S   RL 
Sbjct: 10  ETGEHQY-QYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLF 68

Query: 222 D--LDRGKEIHKEFIKDGFVSD-SYISSALVDMYGKCGCLEMAREVFEQTVLKSVVAWNA 278
              L + +E+ ++F+++    +  ++ S +     +     M   ++ +   +    +N 
Sbjct: 69  WTLLSKQEEMVQKFVEEVLRINYKFLMSPIKT---EQRQPSMMTRMYIEQRDR---LYN- 121

Query: 279 LIAGYSSRGDSKSCVKLF-WRMNEEGIKPTLTTISSVLMSCSRSGQLKHGK--VMHGYII 335
                    D++   K    R            +   L+      +L+  K  ++ G   
Sbjct: 122 ---------DNQVFAKYNVSR------LQPYLKLRQALL------ELRPAKNVLIDG--- 157

Query: 336 RNKIQGDVFINSSLIDLYFKCGR------VSSAENVFEKMSKTDVVYWNVMISGYVTVGD 389
              + G               G+      V  +  V  KM     ++W       + + +
Sbjct: 158 ---VLG--------------SGKTWVALDVCLSYKVQCKMD--FKIFW-------LNLKN 191

Query: 390 YFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGA 449
                 +   ++++  + D    +    + +    +   +     +++SK   N      
Sbjct: 192 CNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYEN-----C 246

Query: 450 LL---DMYAKCGAVDEAFKVFNE-----LPERDLVSWTSMIAAYGSH------GRAL--- 492
           LL   ++        +A+  FN      L  R       + AA  +H         L   
Sbjct: 247 LLVLLNVQNA-----KAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPD 301

Query: 493 EALKLFG------------EMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISE- 539
           E   L              E+  +N  P  ++ +A       A W      + ++   + 
Sbjct: 302 EVKSLLLKYLDCRPQDLPREVLTTN--PRRLSIIAESIRDGLATW----DNWKHVNCDKL 355

Query: 540 -------YNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDA----GLLSTLFSA 588
                   N+    E+      L            +          A     LLS ++  
Sbjct: 356 TTIIESSLNVLEPAEYRKMFDRL-----------SVF------PPSAHIPTILLSLIWFD 398

Query: 589 CRLHRDIE--MGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELG-LR 645
             +  D+   + +     L+EK P +S+  I                ++++K++    L 
Sbjct: 399 -VIKSDVMVVVNKLHKYSLVEKQPKESTISI-----------PSIYLELKVKLENEYALH 446

Query: 646 KNPGCSWIEIGDRIQPFFAEDKFYPQADM-VYECLA---ILAGHMEKDELLP 693
           +    S ++  +  + F ++D   P  D   Y  +        H E+  L  
Sbjct: 447 R----SIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFR 494

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus} Length = 291

 Score = 43.6 bits (102), Expect = 1e-04
 Identities = 24/223 (10%), Positives = 61/223 (27%), Gaps = 13/223 (5%)

Query: 423 AALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPERDLVSWTSMI 482
             + + + +     E  +E +  +  A L                      +L +     
Sbjct: 17  QCINEAQRVKPSSPERDVERDVFLYRAYLAQ----RKYGVVLDEIKPSSAPELQAVRMFA 72

Query: 483 AAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNI 542
               SH R    +         +    + TFL + ++     +  +      L       
Sbjct: 73  EYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASI----YFYDQNPDAALRTLHQGD 128

Query: 543 QPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIRED---AGLLSTLFSACRLHRDIEMGE 599
                  +  + +L +  RL  A   L+   +  ED     L +   S       ++   
Sbjct: 129 SLE--CMAMTVQILLKLDRLDLARKELKKMQDQDEDATLTQLATAWVSLAAGGEKLQDAY 186

Query: 600 KIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKEL 642
            I + + +K           +  + +  +W+    +  +  + 
Sbjct: 187 YIFQEMADKCSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDK 229

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens} Length = 472

 Score = 43.0 bits (101), Expect = 3e-04
 Identities = 41/263 (15%), Positives = 77/263 (29%), Gaps = 34/263 (12%)

Query: 458 GAVDEAFKVFNELPE------------RDLVSWTSMIAAYGSHGRALEALKLFGEMQQSN 505
           G  + A +   +  E            R LV+W +    Y   GR  +      +++   
Sbjct: 65  GQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVC 124

Query: 506 ARPDSITFLALLSACSHAGW--VDEGGYYFNLMISEYN----IQPRN-EHYSCLIDL--- 555
            +  S   +         GW  +  GG         +      +P+N E  S L      
Sbjct: 125 EKFSSPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPKNPEFTSGLAIASYR 184

Query: 556 LGRAGRLQEAYGILQSTPEIRED-----AGLLSTLFSACRLHRDIEMGEKIAKLLIEKDP 610
           L      Q A   L+    +  D       L   L        +   GEK+ +  +EK P
Sbjct: 185 LDNWPPSQNAIDPLRQAIRLNPDNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKAP 244

Query: 611 DDSSTYIVLSNMYASVKKWDEVRK-----IRLKMKELGLRKNPGCSWIEIGDRIQPFFAE 665
             +      +  Y    + D+  +     +        L    GC +     ++      
Sbjct: 245 GVTDVLRSAAKFYRRKDEPDKAIELLKKALEYIPNNAYLHCQIGCCYRAKVFQVMNLREN 304

Query: 666 DKFYPQADMVYECLAILAGHMEK 688
             +  +  +     A+   H++K
Sbjct: 305 GMYGKRKLLELIGHAV--AHLKK 325

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe} Length = 597

 Score = 42.1 bits (99), Expect = 6e-04
 Identities = 40/299 (13%), Positives = 91/299 (30%), Gaps = 40/299 (13%)

Query: 349 LIDLYFKCGRVSSAENVFE--KMSKTDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAK 406
           L  +Y   G  + A+ +     +         +     V + D+  AL +  +       
Sbjct: 123 LAQVYCCTGDYARAKCLLTKEDLYNRSSACRYLAAFCLVKLYDWQGALNLLGETNPFRKD 182

Query: 407 PDAVTFTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKV 466
                        +    L +   I    +E+ +       G +   Y      D A + 
Sbjct: 183 EK-----------NANKLLMQDGGIK---LEASMCYL---RGQV---YTNLSNFDRAKEC 222

Query: 467 FN---ELPERDLVSWTSMIAAY---GSHGRALEALKLFGEMQQSNARPDSITFLALLSAC 520
           +     +  +   ++  +++ +         L     +    + +A      ++  L+  
Sbjct: 223 YKEALMVDAKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKT 282

Query: 521 SHAGWVDEGGYYFNLMISEYNIQPRN-EHYSCLIDLLGRAGRLQEAYG----ILQSTPEI 575
           SH   +     Y     S  N   ++ +   C  D L    R  +       IL+  P  
Sbjct: 283 SHEDELRRAEDYL----SSINGLEKSSDLLLCKADTLFVRSRFIDVLAITTKILEIDPYN 338

Query: 576 REDAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRK 634
            +   L              ++   I+  L+++ P+ + T++ +   Y  V K  E R+
Sbjct: 339 LDVYPLHLASLHE--SGEKNKL-YLISNDLVDRHPEKAVTWLAVGIYYLCVNKISEARR 394

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

No hit with probability above 80.00

---

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	694
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	3e-05
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	4e-04
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	0.003
d2onda1	308	a.118.8.7 (A:242-549) Cleavage stimulation factor	0.003

>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 = 44.7 bits (104), Expect = 3e-05
 Identities = 37/225 (16%), Positives = 74/225 (32%), Gaps = 14/225 (6%)

Query: 443 NEIVMGALLDMYAKCGAVDEAFKVFN---ELPERDLVSWTSMIAAYGSHGRALEALKLFG 499
             +    L  ++   G +  A   F     L    L ++ ++            A+  + 
Sbjct: 168 FAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAY- 226

Query: 500 EMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRN-EHYSCLIDLLGR 558
               S +   ++    L       G +D     +   I    +QP   + Y  L + L  
Sbjct: 227 LRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIE---LQPHFPDAYCNLANALKE 283

Query: 559 AGRLQEAYGIL-QSTPEIREDAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYI 617
            G + EA      +       A  L+ L +  R   +IE   ++ +  +E  P+ ++ + 
Sbjct: 284 KGSVAEAEDCYNTALRLCPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHS 343

Query: 618 VLSNMYASVKKWDEVRK-----IRLKMKELGLRKNPGCSWIEIGD 657
            L+++     K  E        IR+         N G +  E+ D
Sbjct: 344 NLASVLQQQGKLQEALMHYKEAIRISPTFADAYSNMGNTLKEMQD 388

>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 = 40.8 bits (94), Expect = 4e-04
 Identities = 32/298 (10%), Positives = 77/298 (25%), Gaps = 12/298 (4%)

Query: 349 LIDLYFKCGRVSSAENVFEKMSK---TDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGA 405
           L    ++ G   +AE    ++ +    +     ++ S +       ++    +    +  
Sbjct: 5   LAHREYQAGDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFST--LAIKQ 62

Query: 406 KPDAVTFTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFK 465
            P      S L    +     +    H                 L       G ++ A +
Sbjct: 63  NPLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQ 122

Query: 466 VFNELPERDLVSWTSMIAAYGSHGRALEALKLFGEMQQS-NARPDSITFLALLSAC-SHA 523
            +    + +   +                 +      ++   +P+     + L    +  
Sbjct: 123 AYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPNFAVAWSNLGCVFNAQ 182

Query: 524 GWVDEGGYYFNLMISEYNIQPRN-EHYSCLIDLLGRAGRLQEAYGILQSTPEIR-EDAGL 581
           G +    ++F   ++   + P   + Y  L ++L  A     A         +    A +
Sbjct: 183 GEIWLAIHHFEKAVT---LDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVV 239

Query: 582 LSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKM 639
              L         I++     +  IE  P     Y  L+N         E        
Sbjct: 240 HGNLACVYYEQGLIDLAIDTYRRAIELQPHFPDAYCNLANALKEKGSVAEAEDCYNTA 297

>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 = 38.1 bits (87), Expect = 0.003
 Identities = 36/361 (9%), Positives = 106/361 (29%), Gaps = 14/361 (3%)

Query: 148 AGMYAKCNSFECAVKMFDEMSERD---VASWNTVISCYYQDGQAEKALELFKKMRGSGFQ 204
           A    +   FE A +   ++  ++         + S ++Q  + +++             
Sbjct: 6   AHREYQAGDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAI--KQN 63

Query: 205 PNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVSDSYISSALVDMYGKCGCLEMAREV 264
           P      + + +  +     +    H                 L       G +E A + 
Sbjct: 64  PLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQA 123

Query: 265 FEQTVLKSVVAW-NALIAGYSSRGDSKSCVKLFWRMNEEGIKPTLTTISSVLMSCSRSGQ 323
           +   +  +   +      G   +   +        +     +P      S L     +  
Sbjct: 124 YVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPNFAVAWSNLGCVFNAQG 183

Query: 324 LKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAENVFEKMSKTDVVY---WNVM 380
                + H           +    +L ++  +      A   + +       +      +
Sbjct: 184 EIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNL 243

Query: 381 ISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIESKL 440
              Y   G    A+  Y    E+        + ++  A  +  ++ + ++ +N  +    
Sbjct: 244 ACVYYEQGLIDLAIDTYRRAIELQPH-FPDAYCNLANALKEKGSVAEAEDCYNTALRLC- 301

Query: 441 ETNEIVMGALLDMYAKCGAVDEAFKVFN---ELPERDLVSWTSMIAAYGSHGRALEALKL 497
            T+   +  L ++  + G ++EA +++    E+      + +++ +     G+  EAL  
Sbjct: 302 PTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMH 361

Query: 498 F 498
           +
Sbjct: 362 Y 362

>d2onda1 a.118.8.7 (A:242-549) Cleavage stimulation factor 77 kDa subunit CSTF3 {Mouse (Mus musculus) [TaxId: 10090]} Length = 308

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]

 Score = 37.7 bits (86), Expect = 0.003
 Identities = 27/165 (16%), Positives = 52/165 (31%), Gaps = 12/165 (7%)

Query: 148 AGMYAKCNSFECAVKMFDEMSERDVASWNTV----ISCYYQDGQAEKALELFKKMRGSGF 203
           A        +E    +++ +   +      V    +    +    +    +FKK R    
Sbjct: 106 ADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDAR 165

Query: 204 QPNSVTLTTVISSCARLMDLDRGKEIHKEFIKDGFVSDSYISSALVDMYGKCGCLEMARE 263
             + V +T  +       D     +I +  +K  +        A +D           R 
Sbjct: 166 TRHHVYVTAALMEYYCSKDKSVAFKIFELGLKK-YGDIPEYVLAYIDYLSHLNEDNNTRV 224

Query: 264 VFEQTV-------LKSVVAWNALIAGYSSRGDSKSCVKLFWRMNE 301
           +FE+ +        KS   W   +A  S+ GD  S +K+  R   
Sbjct: 225 LFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFT 269

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	694
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.97
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.96
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.81
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.78
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.56
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.5
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.44
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.43
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.43
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.42
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.38
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.37
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.33
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.26
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	99.03
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	99.03
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.99
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.97
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.89
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.84
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.83
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.78
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.78
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.73
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.72
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.7
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.66
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.6
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.59
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.56
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.54
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.52
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.49
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.41
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.37
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.35
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.34
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.33
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.28
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	98.18
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.12
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.07
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.07
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	98.02
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.02
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.97
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.88
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.7
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.69
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.69
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.4
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.24
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	96.28
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	95.69
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	95.67
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	94.66
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	93.35

>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=99.97  E-value=2.8e-25  Score=167.33  Aligned_cols=243  Identities=14%  Similarity=0.095  Sum_probs=188.5

Q ss_pred             HHHHHHCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCCH
Q ss_conf             99997259958999999998886999887999999999815478699999999999919998714999999998825993
Q 005487          381 ISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAV  460 (694)
Q Consensus       381 ~~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  460 (694)
                      .......+....+...+....... +.+...+..+...+...++.+.|...++...... +.+...+..++.++...|++
T Consensus       142 ~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~  219 (388)
T d1w3ba_         142 GNLLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLKEARIF  219 (388)
T ss_dssp             HHHHHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCT
T ss_pred             CCCCCCCCHHHHHHHHHHHHHCCC-CCHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHCCCCH
T ss_conf             222211000135678888740258-6106899863630102471999999999999849-46499999971552200529


Q ss_pred             HHHHHHHHHCCC---CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHH
Q ss_conf             899999810999---99588999999999649979999999998876999897669999999980098899999999968
Q 005487          461 DEAFKVFNELPE---RDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMI  537 (694)
Q Consensus       461 ~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  537 (694)
                      ++|...++....   .+...+..++..+...|++++|...++++.+.. +.+...+..+...+...|++++|...++...
T Consensus       220 ~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  298 (388)
T d1w3ba_         220 DRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTAL  298 (388)
T ss_dssp             THHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
T ss_conf             999999998577755479999999999998789999999999999849-9989999999999997487999999998654


Q ss_pred             HHCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHCCCCCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCH
Q ss_conf             83099987579999999863139989999999849999989-89899999999980998999999999972199998557
Q 005487          538 SEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIRED-AGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTY  616 (694)
Q Consensus       538 ~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~  616 (694)
                      ..  .+.+...+..++.++...|++++|+..++++.+..|+ ...+..++.++...|++++|...++++++++|+++.+|
T Consensus       299 ~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~P~~~~a~  376 (388)
T d1w3ba_         299 RL--CPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFADAY  376 (388)
T ss_dssp             HH--CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCTTCHHHH
T ss_pred             CC--CCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHH
T ss_conf             04--8730010157999999878999999999999986889899999999999985999999999999997099989999


Q ss_pred             HHHHHHHHHCCC
Q ss_conf             899999862499
Q 005487          617 IVLSNMYASVKK  628 (694)
Q Consensus       617 ~~l~~~~~~~g~  628 (694)
                      ..++.+|.+.|+
T Consensus       377 ~~lg~~~~~~~D  388 (388)
T d1w3ba_         377 SNMGNTLKEMQD  388 (388)
T ss_dssp             HHHHHHHHHTCC
T ss_pred             HHHHHHHHHCCC
T ss_conf             999999998589

>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=99.96  E-value=6.8e-24  Score=158.79  Aligned_cols=250  Identities=16%  Similarity=0.121  Sum_probs=167.3

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCCHHHHHHH
Q ss_conf             59958999999998886999887999999999815478699999999999919998714999999998825993899999
Q 005487          387 VGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKV  466 (694)
Q Consensus       387 ~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  466 (694)
                      .+....+........... .................+....+...+....... +.....+..++..+...|+++.|...
T Consensus       114 ~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~  191 (388)
T d1w3ba_         114 AGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHH  191 (388)
T ss_dssp             HSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHH
T ss_pred             CCCCCCCCCCCCCCCCCC-CCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHCCC-CCHHHHHHHHCCCCCCCCCHHHHHHH
T ss_conf             222222222211122222-2222222222222211000135678888740258-61068998636301024719999999


Q ss_pred             HHHCCC---CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCC
Q ss_conf             810999---99588999999999649979999999998876999897669999999980098899999999968830999
Q 005487          467 FNELPE---RDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQ  543 (694)
Q Consensus       467 ~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  543 (694)
                      ++....   .+...+..++..+...|++++|...+++....+ +.+...+..+...+...|++++|...++++.+   ..
T Consensus       192 ~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~---~~  267 (388)
T d1w3ba_         192 FEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIE---LQ  267 (388)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH---TC
T ss_pred             HHHHHHHCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH---HC
T ss_conf             999998494649999997155220052999999999857775-54799999999999987899999999999998---49


Q ss_pred             CC-HHHHHHHHHHHHHCCCHHHHHHHHHHCCCCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCHHHHHH
Q ss_conf             87-57999999986313998999999984999998-98989999999998099899999999997219999855789999
Q 005487          544 PR-NEHYSCLIDLLGRAGRLQEAYGILQSTPEIRE-DAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSN  621 (694)
Q Consensus       544 p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~  621 (694)
                      |+ ...+..++.++...|++++|...++.+....| +...+..++..+...|++++|+..++++++.+|+++.++..++.
T Consensus       268 p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~  347 (388)
T d1w3ba_         268 PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLAS  347 (388)
T ss_dssp             SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHH
T ss_conf             99899999999999974879999999986540487300101579999998789999999999999868898999999999


Q ss_pred             HHHHCCCHHHHHHHHHHHHHC
Q ss_conf             986249958999999999837
Q 005487          622 MYASVKKWDEVRKIRLKMKEL  642 (694)
Q Consensus       622 ~~~~~g~~~~A~~~~~~~~~~  642 (694)
                      +|...|++++|.+.++++.+.
T Consensus       348 ~~~~~g~~~~A~~~~~~al~l  368 (388)
T d1w3ba_         348 VLQQQGKLQEALMHYKEAIRI  368 (388)
T ss_dssp             HHHTTTCCHHHHHHHHHHHTT
T ss_pred             HHHHCCCHHHHHHHHHHHHHH
T ss_conf             999859999999999999970

>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=99.81  E-value=1.4e-17  Score=120.13  Aligned_cols=240  Identities=11%  Similarity=0.002  Sum_probs=102.2

Q ss_pred             HHHHHHCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCCH
Q ss_conf             99997259958999999998886999887999999999815478699999999999919998714999999998825993
Q 005487          381 ISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAV  460 (694)
Q Consensus       381 ~~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  460 (694)
                      ...+.+.|++++|+..|+++.+.. +-+...+..+..++...|+++.|...+..+.+.. +.+...+..++.++...|++
T Consensus        26 g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~  103 (323)
T d1fcha_          26 GLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESLQ  103 (323)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCC-CCCCCCCCCCCCCCCCCCCC
T ss_conf             999998599999999999999868-9989999999999998377588999998510022-22222222222222222211


Q ss_pred             HHHHHHHHHCCC--CCHHH-HHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHH
Q ss_conf             899999810999--99588-999999999649979999999998876999897669999999980098899999999968
Q 005487          461 DEAFKVFNELPE--RDLVS-WTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMI  537 (694)
Q Consensus       461 ~~A~~~~~~~~~--~~~~~-~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  537 (694)
                      ++|.+.++....  |+... +.......                    ...+.......+..+...+.+.++...+..+.
T Consensus       104 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~--------------------~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al  163 (323)
T d1fcha_         104 RQACEILRDWLRYTPAYAHLVTPAEEGA--------------------GGAGLGPSKRILGSLLSDSLFLEVKELFLAAV  163 (323)
T ss_dssp             HHHHHHHHHHHHTSTTTGGGCC-----------------------------------CTTHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHCCCHHHHHHHHHHHH--------------------HHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             2111000267773610678887664000--------------------00001000014788887657999999999999


Q ss_pred             HHCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHCCCCCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCH
Q ss_conf             83099987579999999863139989999999849999989-89899999999980998999999999972199998557
Q 005487          538 SEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIRED-AGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTY  616 (694)
Q Consensus       538 ~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~  616 (694)
                      ......++...+..++..+...|++++|+..++++....|+ ...|..++..+...|++++|...++++++.+|+++.++
T Consensus       164 ~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~  243 (323)
T d1fcha_         164 RLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRSR  243 (323)
T ss_dssp             HHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             HHHHCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHCCCCCCCCHHHHHHHHHHHHHHHCCHHHH
T ss_conf             97130122211103688888888775500211122222222211101333012211110137888778998843249999


Q ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHC
Q ss_conf             89999986249958999999999837
Q 005487          617 IVLSNMYASVKKWDEVRKIRLKMKEL  642 (694)
Q Consensus       617 ~~l~~~~~~~g~~~~A~~~~~~~~~~  642 (694)
                      ..++.+|...|++++|++.+++..+.
T Consensus       244 ~~lg~~~~~~g~~~~A~~~~~~al~l  269 (323)
T d1fcha_         244 YNLGISCINLGAHREAVEHFLEALNM  269 (323)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHH
T ss_conf             99999999878999999999999970

>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=99.78  E-value=1.4e-16  Score=113.97  Aligned_cols=264  Identities=12%  Similarity=0.034  Sum_probs=152.2

Q ss_pred             HHHHHHCCCHHHHHHHHHCCCC---CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHCCCCCHH
Q ss_conf             9998832997889999840799---8850799999999725995899999999888699988799999999981547869
Q 005487          350 IDLYFKCGRVSSAENVFEKMSK---TDVVYWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALE  426 (694)
Q Consensus       350 ~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~  426 (694)
                      ...+.+.|++++|...|+.+.+   .+..+|..+..++...|++++|...+.+..+.. +-+...+..+...+...|+++
T Consensus        26 g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~  104 (323)
T d1fcha_          26 GLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESLQR  104 (323)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCC-CCCCCCCCCCCCCCCCCCCCC
T ss_conf             9999985999999999999998689989999999999998377588999998510022-222222222222222222112


Q ss_pred             HHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCC
Q ss_conf             99999999999199987149999999988259938999998109999958899999999964997999999999887699
Q 005487          427 KGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPERDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNA  506 (694)
Q Consensus       427 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~  506 (694)
                      .|.+.++.+....... ............ .               .+.......+..+...+.+.++...+.+......
T Consensus       105 ~A~~~~~~~~~~~~~~-~~~~~~~~~~~~-~---------------~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p  167 (323)
T d1fcha_         105 QACEILRDWLRYTPAY-AHLVTPAEEGAG-G---------------AGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDP  167 (323)
T ss_dssp             HHHHHHHHHHHTSTTT-GGGCC-------------------------------CTTHHHHHHHHHHHHHHHHHHHHHHST
T ss_pred             CCCCCHHHHHHHCCCH-HHHHHHHHHHHH-H---------------CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             1110002677736106-788876640000-0---------------0010000147888876579999999999999713


Q ss_pred             -CCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHCCCCCCC-HHHHH
Q ss_conf             -989766999999998009889999999996883099987-579999999863139989999999849999989-89899
Q 005487          507 -RPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPR-NEHYSCLIDLLGRAGRLQEAYGILQSTPEIRED-AGLLS  583 (694)
Q Consensus       507 -~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~  583 (694)
                       .++...+..+...+...|++++|+..++.....   .|+ ...+..++.++...|++++|...++++.+..|+ ...+.
T Consensus       168 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~---~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~  244 (323)
T d1fcha_         168 TSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV---RPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRSRY  244 (323)
T ss_dssp             TSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             CCCCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCC---CCCCCCCHHHHHHCCCCCCCCHHHHHHHHHHHHHHHCCHHHHH
T ss_conf             0122211103688888888775500211122222---2222111013330122111101378887789988432499999


Q ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCH-----------HHHHHHHHHCCCHHHHHH
Q ss_conf             999999980998999999999972199998557-----------899999862499589999
Q 005487          584 TLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTY-----------IVLSNMYASVKKWDEVRK  634 (694)
Q Consensus       584 ~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~-----------~~l~~~~~~~g~~~~A~~  634 (694)
                      .++.++...|++++|+..++++++++|++...+           ..+..++...|+.+.+..
T Consensus       245 ~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~l~~al~~~~~~d~~~~  306 (323)
T d1fcha_         245 NLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGA  306 (323)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHH
T ss_conf             99999998789999999999999709757001124599999999999999998298899999

>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=99.56  E-value=1.5e-11  Score=83.21  Aligned_cols=25  Identities=4%  Similarity=-0.140  Sum_probs=9.4

Q ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHH
Q ss_conf             9999999980998999999999972
Q 005487          583 STLFSACRLHRDIEMGEKIAKLLIE  607 (694)
Q Consensus       583 ~~l~~~~~~~~~~~~A~~~~~~~~~  607 (694)
                      ..++..+...|++++|...++++++
T Consensus       295 ~~la~~~~~~g~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         295 LLLNQLYWQAGRKSDAQRVLLDALK  319 (366)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHH
T ss_conf             9999999987899999999999999

>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=99.50  E-value=1.8e-12  Score=88.92  Aligned_cols=212  Identities=12%  Similarity=0.123  Sum_probs=113.9

Q ss_pred             CCCCHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCC-CHHHHHHHHHHCCC---CCHHHHHHHHHHHHHCCCHHHHHH
Q ss_conf             54786999999999999199987149999999988259-93899999810999---995889999999996499799999
Q 005487          421 QLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCG-AVDEAFKVFNELPE---RDLVSWTSMIAAYGSHGRALEALK  496 (694)
Q Consensus       421 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~  496 (694)
                      +.+..++|...++.+++.+ |.+...|+....++...| ++++|+..++.+..   .+..+|..+...+...|++++|+.
T Consensus        55 ~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~~~~a~~~~~~~~~~l~~~~eAl~  133 (315)
T d2h6fa1          55 RDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLVEWLRDPSQELE  133 (315)
T ss_dssp             HTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHH
T ss_pred             HCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHH
T ss_conf             5886699999999999879-887699999999999837679999999999998877422689887588885053788998


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHHCCC------HHHHHHHH
Q ss_conf             9999887699989766999999998009889999999996883099987-5799999998631399------89999999
Q 005487          497 LFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPR-NEHYSCLIDLLGRAGR------LQEAYGIL  569 (694)
Q Consensus       497 ~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~------~~~A~~~~  569 (694)
                      .++++++.. +.+...|..+...+...|++++|+..++.++.   +.|+ ...|..++.++.+.+.      +++|+..+
T Consensus       134 ~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~---~~p~n~~a~~~r~~~l~~~~~~~~~~~~~~ai~~~  209 (315)
T d2h6fa1         134 FIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLK---EDVRNNSVWNQRYFVISNTTGYNDRAVLEREVQYT  209 (315)
T ss_dssp             HHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHH---HCTTCHHHHHHHHHHHHHTTCSCSHHHHHHHHHHH
T ss_pred             HHHHHHHHH-HCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HCCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHH
T ss_conf             875554321-00468899887788888866789999999998---79744999988999998745631023547767999


Q ss_pred             HHCCCCCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCC--HHHHHHHHHHC--CCHHHHHHHHHH
Q ss_conf             849999989-8989999999998099899999999997219999855--78999998624--995899999999
Q 005487          570 QSTPEIRED-AGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSST--YIVLSNMYASV--KKWDEVRKIRLK  638 (694)
Q Consensus       570 ~~~~~~~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~--~~~l~~~~~~~--g~~~~A~~~~~~  638 (694)
                      .++.+..|+ ...|..+...+. .....++...+++++++.|+....  +..++.+|...  +..+.+...+++
T Consensus       210 ~~al~~~P~~~~~~~~l~~ll~-~~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~~~~k  282 (315)
T d2h6fa1         210 LEMIKLVPHNESAWNYLKGILQ-DRGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNKEDILNK  282 (315)
T ss_dssp             HHHHHHSTTCHHHHHHHHHHHT-TTCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCSSHHHHHHH
T ss_pred             HHHHHHCCCCHHHHHHHHHHHH-HCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHCCHHHHHHHHHH
T ss_conf             9999849885699999877988-627188999999999728775789999999999999983587879999999

>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=99.44  E-value=6e-12  Score=85.70  Aligned_cols=191  Identities=12%  Similarity=0.086  Sum_probs=93.1

Q ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHCCCC-CHHHHHHHHHHHHHHCCCCCHHHHHHHHHHH
Q ss_conf             799999999725995899999999888699988799999999981547-8699999999999919998714999999998
Q 005487          376 YWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLA-ALEKGKEIHNHIIESKLETNEIVMGALLDMY  454 (694)
Q Consensus       376 ~~~~l~~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  454 (694)
                      .++.+...+.+.+.+++|+..++++.+.. +-+...|.....++...+ +++.+...++.+.... +-+..+|..+..++
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
T ss_conf             99999999995886699999999999879-88769999999999983767999999999999887-74226898875888


Q ss_pred             HHCCCHHHHHHHHHHCCC---CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCC------
Q ss_conf             825993899999810999---99588999999999649979999999998876999897669999999980098------
Q 005487          455 AKCGAVDEAFKVFNELPE---RDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGW------  525 (694)
Q Consensus       455 ~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~------  525 (694)
                      .+.|++++|+..++.+.+   .+...|..++..+...|++++|+..++++++.+ +.+...|..+...+...+.      
T Consensus       123 ~~l~~~~eAl~~~~kal~~dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~-p~n~~a~~~r~~~l~~~~~~~~~~~  201 (315)
T d2h6fa1         123 EWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYNDRAV  201 (315)
T ss_dssp             HHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSCSHHH
T ss_pred             HHHCCHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCCCHHHH
T ss_conf             850537889988755543210046889988778888886678999999999879-7449999889999987456310235


Q ss_pred             HHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHCC
Q ss_conf             89999999996883099987-5799999998631399899999998499
Q 005487          526 VDEGGYYFNLMISEYNIQPR-NEHYSCLIDLLGRAGRLQEAYGILQSTP  573 (694)
Q Consensus       526 ~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~  573 (694)
                      +++|+..+..++..   .|+ ...|..++.++...| .+++...++...
T Consensus       202 ~~~ai~~~~~al~~---~P~~~~~~~~l~~ll~~~~-~~~~~~~~~~~~  246 (315)
T d2h6fa1         202 LEREVQYTLEMIKL---VPHNESAWNYLKGILQDRG-LSKYPNLLNQLL  246 (315)
T ss_dssp             HHHHHHHHHHHHHH---STTCHHHHHHHHHHHTTTC-GGGCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH---CCCCHHHHHHHHHHHHHCC-HHHHHHHHHHHH
T ss_conf             47767999999984---9885699999877988627-188999999999

>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=99.43  E-value=8.4e-11  Score=78.69  Aligned_cols=89  Identities=17%  Similarity=0.164  Sum_probs=37.3

Q ss_pred             HHHHHHHHCCCHHHHHHHHHHCCCCCCC-----HHHHHHHHHHHHHCCCHHHHHHHHHHHHHC------CCCCCCCHHHH
Q ss_conf             9999863139989999999849999989-----898999999999809989999999999721------99998557899
Q 005487          551 CLIDLLGRAGRLQEAYGILQSTPEIRED-----AGLLSTLFSACRLHRDIEMGEKIAKLLIEK------DPDDSSTYIVL  619 (694)
Q Consensus       551 ~l~~~~~~~g~~~~A~~~~~~~~~~~p~-----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~------~p~~~~~~~~l  619 (694)
                      .++..+...|+.++|...+++.....+.     ...+..++.++...|+++.|...+++++..      .|.....+..+
T Consensus       218 ~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l  297 (366)
T d1hz4a_         218 VRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLL  297 (366)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHH
T ss_conf             99999986044898999999999762246667778899999999875879999999999998876426674799999999


Q ss_pred             HHHHHHCCCHHHHHHHHHHH
Q ss_conf             99986249958999999999
Q 005487          620 SNMYASVKKWDEVRKIRLKM  639 (694)
Q Consensus       620 ~~~~~~~g~~~~A~~~~~~~  639 (694)
                      +.+|...|++++|.+.+++.
T Consensus       298 a~~~~~~g~~~~A~~~l~~A  317 (366)
T d1hz4a_         298 NQLYWQAGRKSDAQRVLLDA  317 (366)
T ss_dssp             HHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHH
T ss_conf             99999878999999999999

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.43  E-value=2e-12  Score=88.62  Aligned_cols=233  Identities=10%  Similarity=-0.054  Sum_probs=160.3

Q ss_pred             HCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHCCC--CCHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCCHHHH
Q ss_conf             2599589999999988869998879999999998154--78699999999999919998714999999998825993899
Q 005487          386 TVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQL--AALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEA  463 (694)
Q Consensus       386 ~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~--~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  463 (694)
                      ..+.+++|+..++...... +-+...+..+..++...  ++.+.+...+..+.....+.....+......+...+.++.|
T Consensus        85 ~~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A  163 (334)
T d1dcea1          85 SAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEE  163 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCCHHH
T ss_conf             8778999999999999868-886798988648998843042899999999998559212111105789998744552899


Q ss_pred             HHHHHHCCC---CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHC
Q ss_conf             999810999---99588999999999649979999999998876999897669999999980098899999999968830
Q 005487          464 FKVFNELPE---RDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEY  540 (694)
Q Consensus       464 ~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  540 (694)
                      +..++.+..   .+..+|..+..++...|++++|...++.....  .|+.   ......+...+..+++...+...... 
T Consensus       164 l~~~~~~i~~~p~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~---~~~~~~~~~l~~~~~a~~~~~~~l~~-  237 (334)
T d1dcea1         164 LAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENV--LLKE---LELVQNAFFTDPNDQSAWFYHRWLLG-  237 (334)
T ss_dssp             HHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHH--HHHH---HHHHHHHHHHCSSCSHHHHHHHHHHS-
T ss_pred             HHHHHHHHHCCCCCHHHHHHHHHHHHHHCCHHHHHHHHHHHHHH--HHHH---HHHHHHHHHHCCHHHHHHHHHHHHHH-
T ss_conf             99999988718987999999999999826889899988776776--8999---99999998824414889999988771-


Q ss_pred             CCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHCCCCCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCHHHH
Q ss_conf             99987579999999863139989999999849999989-89899999999980998999999999972199998557899
Q 005487          541 NIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIRED-AGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVL  619 (694)
Q Consensus       541 ~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l  619 (694)
                       .++....+..++..+...|+.++|...+.+.....|+ ...+..++..+...|+.++|...++++++++|.+...|..|
T Consensus       238 -~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ldP~~~~y~~~L  316 (334)
T d1dcea1         238 -RAEPLFRCELSVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDDL  316 (334)
T ss_dssp             -CCCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGGGHHHHHHH
T ss_pred             -CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHH
T ss_conf             -8660567887999999986699999999988762913799999999999878999999999999998796639999999


Q ss_pred             HHHHHHC
Q ss_conf             9998624
Q 005487          620 SNMYASV  626 (694)
Q Consensus       620 ~~~~~~~  626 (694)
                      ...+.-.
T Consensus       317 ~~~~~~e  323 (334)
T d1dcea1         317 RSKFLLE  323 (334)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
T ss_conf             9998676

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=99.42  E-value=1.4e-11  Score=83.46  Aligned_cols=200  Identities=12%  Similarity=0.007  Sum_probs=96.1

Q ss_pred             HHHHHHHHHCCCCCHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHCCC---CCHHHHHHHHHHHHH
Q ss_conf             99999999815478699999999999919998714999999998825993899999810999---995889999999996
Q 005487          411 TFTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPE---RDLVSWTSMIAAYGS  487 (694)
Q Consensus       411 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~  487 (694)
                      .+..+..++...|+++.|...|+..+... |.+..++..++.++...|++++|+..|+.+..   .+..++..++.++..
T Consensus        39 ~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~  117 (259)
T d1xnfa_          39 LLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALYY  117 (259)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHCCC-CCCHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             99999999998799999999999854349-99889996004278887778875234468999876111158889999998


Q ss_pred             CCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCHHHHHH
Q ss_conf             49979999999998876999897669999999980098899999999968830999875799999998631399899999
Q 005487          488 HGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYG  567 (694)
Q Consensus       488 ~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~  567 (694)
                      .|+++.|...+++..+.. +.+......+..++...+..+....+......   ..+....+. ++..+...........
T Consensus       118 ~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~-~~~~~~~~~~~~~~~~  192 (259)
T d1xnfa_         118 GGRDKLAQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEK---SDKEQWGWN-IVEFYLGNISEQTLME  192 (259)
T ss_dssp             TTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHH---SCCCSTHHH-HHHHHTTSSCHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHC---CCHHHHHHH-HHHHHHHHHHHHHHHH
T ss_conf             766799999999998653-00078889999999885358789999987640---314443455-7788888877777899


Q ss_pred             HHHH-CC---CCCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCH
Q ss_conf             9984-99---99989-89899999999980998999999999972199998557
Q 005487          568 ILQS-TP---EIRED-AGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTY  616 (694)
Q Consensus       568 ~~~~-~~---~~~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~  616 (694)
                      .... ..   ...|+ ...+..++..+...|++++|...+++++..+|++...|
T Consensus       193 ~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~  246 (259)
T d1xnfa_         193 RLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNFVEH  246 (259)
T ss_dssp             HHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTCHHH
T ss_pred             HHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCHHHH
T ss_conf             999999986640845099999999999987899999999999998399779999

>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=99.38  E-value=3.6e-10  Score=74.78  Aligned_cols=188  Identities=11%  Similarity=0.080  Sum_probs=121.8

Q ss_pred             HHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHCCC--C-C-HHHHHHHHHHHHHCCCHHHHHHHHHH
Q ss_conf             699999999999919998714999999998825993899999810999--9-9-58899999999964997999999999
Q 005487          425 LEKGKEIHNHIIESKLETNEIVMGALLDMYAKCGAVDEAFKVFNELPE--R-D-LVSWTSMIAAYGSHGRALEALKLFGE  500 (694)
Q Consensus       425 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~-~~~~~~l~~~~~~~~~~~~A~~~~~~  500 (694)
                      .+.+..+++..+....+.+...+...+..+...|+++.|..+|+.+..  | + ...|...+....+.++.+.|..+|++
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
T ss_conf             59999999999987499879999999999986133899999999999871578699999999999982786889999999


Q ss_pred             HHHCCCCCCHHHHHHHHHH-HHCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHCCCC---C
Q ss_conf             8876999897669999999-98009889999999996883099987579999999863139989999999849999---9
Q 005487          501 MQQSNARPDSITFLALLSA-CSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEI---R  576 (694)
Q Consensus       501 ~~~~~~~p~~~~~~~l~~~-~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~  576 (694)
                      +.+.+ +.+...+...+.. +...|+.+.|..+|+.+....  +.+...+...++.+...|+.+.|..+|+++...   .
T Consensus       160 al~~~-~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~--p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~  236 (308)
T d2onda1         160 AREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLP  236 (308)
T ss_dssp             HHTST-TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH--TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSC
T ss_pred             HHHHC-CCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCC
T ss_conf             99808-88679999999999876557789999999999861--0038899999999998698689999999999827898


Q ss_pred             CC--HHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCC
Q ss_conf             89--8989999999998099899999999997219999855
Q 005487          577 ED--AGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSST  615 (694)
Q Consensus       577 p~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~  615 (694)
                      |.  ..+|...+.....+|+.+.+..+.+++.+..|.....
T Consensus       237 ~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~~~~~~~~  277 (308)
T d2onda1         237 PEKSGEIWARFLAFESNIGDLASILKVEKRRFTAFREEYEG  277 (308)
T ss_dssp             GGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHTTTTTSS
T ss_pred             HHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCCCC
T ss_conf             68999999999999998499999999999999877110220

>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=99.37  E-value=5.4e-10  Score=73.75  Aligned_cols=184  Identities=7%  Similarity=0.029  Sum_probs=125.7

Q ss_pred             CCHHHHHHHHHHCCC----CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCCHHHHHHHH
Q ss_conf             993899999810999----9958899999999964997999999999887699989766999999998009889999999
Q 005487          458 GAVDEAFKVFNELPE----RDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYF  533 (694)
Q Consensus       458 g~~~~A~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~  533 (694)
                      +..++|..+|+....    .+...|...+..+...|+.+.|..+++++...........+...+..+.+.|+.+.|..+|
T Consensus        78 ~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~  157 (308)
T d2onda1          78 LFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIF  157 (308)
T ss_dssp             HHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCHHHHHHHH
T ss_conf             24599999999999874998799999999999861338999999999998715786999999999999827868899999


Q ss_pred             HHHHHHCCCCC-CHHHHHHHHHH-HHHCCCHHHHHHHHHHCCCCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCC
Q ss_conf             99688309998-75799999998-6313998999999984999998-989899999999980998999999999972199
Q 005487          534 NLMISEYNIQP-RNEHYSCLIDL-LGRAGRLQEAYGILQSTPEIRE-DAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDP  610 (694)
Q Consensus       534 ~~~~~~~~~~p-~~~~~~~l~~~-~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p  610 (694)
                      +.+++   ..| +...|...+.. +...|+.+.|..+++.+....| +...|..++......|+.+.|..++++++...|
T Consensus       158 ~~al~---~~~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~  234 (308)
T d2onda1         158 KKARE---DARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGS  234 (308)
T ss_dssp             HHHHT---STTCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSS
T ss_pred             HHHHH---HCCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCC
T ss_conf             99998---088867999999999987655778999999999986100388999999999986986899999999998278


Q ss_pred             CCCC----CHHHHHHHHHHCCCHHHHHHHHHHHHHCCC
Q ss_conf             9985----578999998624995899999999983799
Q 005487          611 DDSS----TYIVLSNMYASVKKWDEVRKIRLKMKELGL  644 (694)
Q Consensus       611 ~~~~----~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  644 (694)
                      .++.    .|...+..-...|+.+.+.++.+++.+.-.
T Consensus       235 ~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~~~  272 (308)
T d2onda1         235 LPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAFR  272 (308)
T ss_dssp             SCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHTT
T ss_pred             CCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCC
T ss_conf             98689999999999999984999999999999998771

>d1xnfa_ a.118.8.1 (A:) Lipoprotein NlpI {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Lipoprotein NlpI
species: Escherichia coli [TaxId: 562]

Probab=99.33  E-value=1.2e-11  Score=83.95  Aligned_cols=196  Identities=11%  Similarity=-0.056  Sum_probs=124.3

Q ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHCCC---CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q ss_conf             14999999998825993899999810999---995889999999996499799999999988769998976699999999
Q 005487          444 EIVMGALLDMYAKCGAVDEAFKVFNELPE---RDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSAC  520 (694)
Q Consensus       444 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~  520 (694)
                      ..++..++.+|.+.|++++|...|+....   .++.+|..++.++...|++++|+..|+++.... +.+...+..+..++
T Consensus        37 a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~  115 (259)
T d1xnfa_          37 AQLLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAHLNRGIAL  115 (259)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCCHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHH
T ss_conf             99999999999987999999999998543499988999600427888777887523446899987-61111588899999


Q ss_pred             HCCCCHHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHCCCCCCCHHHHHHHHHHH----HHCCCH
Q ss_conf             8009889999999996883099987-57999999986313998999999984999998989899999999----980998
Q 005487          521 SHAGWVDEGGYYFNLMISEYNIQPR-NEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSAC----RLHRDI  595 (694)
Q Consensus       521 ~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~----~~~~~~  595 (694)
                      ...|++++|...++...+.   .|+ ......+...+.+.+..+.+..+........+....+. +...+    ...+..
T Consensus       116 ~~~g~~~~A~~~~~~al~~---~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~  191 (259)
T d1xnfa_         116 YYGGRDKLAQDDLLAFYQD---DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDKEQWGWN-IVEFYLGNISEQTLM  191 (259)
T ss_dssp             HHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSCCCSTHHH-HHHHHTTSSCHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHH---CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHH-HHHHHHHHHHHHHHH
T ss_conf             9876679999999999865---300078889999999885358789999987640314443455-778888887777789


Q ss_pred             HHHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCCHHHHHHHHHHHHHCCC
Q ss_conf             9999999999721999985578999998624995899999999983799
Q 005487          596 EMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELGL  644 (694)
Q Consensus       596 ~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  644 (694)
                      +.+...+.......|....+|..++.+|...|++++|.+.+++.....+
T Consensus       192 ~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p  240 (259)
T d1xnfa_         192 ERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNV  240 (259)
T ss_dssp             HHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCC
T ss_pred             HHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCC
T ss_conf             9999999986640845099999999999987899999999999998399

>d1dcea1 a.118.6.1 (A:1-241,A:351-443) Rab geranylgeranyltransferase alpha-subunit, N-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Rab geranylgeranyltransferase alpha-subunit, N-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.26  E-value=7.1e-12  Score=85.24  Aligned_cols=212  Identities=9%  Similarity=-0.069  Sum_probs=100.5

Q ss_pred             CCHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCC--CHHHHHHHHHHCCC---CCHHHHH-HHHHHHHHCCCHHHHHH
Q ss_conf             786999999999999199987149999999988259--93899999810999---9958899-99999996499799999
Q 005487          423 AALEKGKEIHNHIIESKLETNEIVMGALLDMYAKCG--AVDEAFKVFNELPE---RDLVSWT-SMIAAYGSHGRALEALK  496 (694)
Q Consensus       423 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~~~A~~~~~~~~~---~~~~~~~-~l~~~~~~~~~~~~A~~  496 (694)
                      +..+.+..+++.+.... +.+...+..+..++...+  ++++|...++.+..   ++...+. .....+...+.++.|+.
T Consensus        87 ~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Al~  165 (334)
T d1dcea1          87 ALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELA  165 (334)
T ss_dssp             HHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCCHHHHH
T ss_conf             78999999999999868-88679898864899884304289999999999855921211110578999874455289999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHCCCCC
Q ss_conf             99998876999897669999999980098899999999968830999875799999998631399899999998499999
Q 005487          497 LFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIR  576 (694)
Q Consensus       497 ~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  576 (694)
                      .++.++..+ +-+...+..+...+...|++++|...+......   .|..   ......+...+..+++...+.+.....
T Consensus       166 ~~~~~i~~~-p~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~---~~~~---~~~~~~~~~l~~~~~a~~~~~~~l~~~  238 (334)
T d1dcea1         166 FTDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENV---LLKE---LELVQNAFFTDPNDQSAWFYHRWLLGR  238 (334)
T ss_dssp             HHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHH---HHHH---HHHHHHHHHHCSSCSHHHHHHHHHHSC
T ss_pred             HHHHHHHCC-CCCHHHHHHHHHHHHHHCCHHHHHHHHHHHHHH---HHHH---HHHHHHHHHHCCHHHHHHHHHHHHHHC
T ss_conf             999988718-987999999999999826889899988776776---8999---999999988244148899999887718


Q ss_pred             CC-HHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCCHHHHHHHHHHHHHC
Q ss_conf             89-8989999999998099899999999997219999855789999986249958999999999837
Q 005487          577 ED-AGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKEL  642 (694)
Q Consensus       577 p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  642 (694)
                      |+ ...+..++..+...++...|...+.++++.+|.+..++..++.++...|++++|.+.++++.+.
T Consensus       239 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~l  305 (334)
T d1dcea1         239 AEPLFRCELSVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAV  305 (334)
T ss_dssp             CCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
T ss_conf             6605678879999999866999999999887629137999999999998789999999999999987

>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=99.03  E-value=6.3e-09  Score=67.19  Aligned_cols=19  Identities=16%  Similarity=0.139  Sum_probs=6.6

Q ss_pred             CCCHHHHHHHHHHHHHCCC
Q ss_conf             0998999999999972199
Q 005487          592 HRDIEMGEKIAKLLIEKDP  610 (694)
Q Consensus       592 ~~~~~~A~~~~~~~~~~~p  610 (694)
                      .++.+.|...++++.+.+|
T Consensus       212 ~~d~~~A~~~~~~~~~~~~  230 (290)
T d1qqea_         212 ATDAVAAARTLQEGQSEDP  230 (290)
T ss_dssp             TTCHHHHHHHHHGGGCC--
T ss_pred             HCCHHHHHHHHHHHHHHCC
T ss_conf             4659999999999997597

>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=99.03  E-value=3.1e-08  Score=62.93  Aligned_cols=141  Identities=9%  Similarity=-0.020  Sum_probs=97.3

Q ss_pred             HHHHHHCCCHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCCHHHHH
Q ss_conf             99988259938999998109999958899999999964997999999999887699989766999999998009889999
Q 005487          451 LDMYAKCGAVDEAFKVFNELPERDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGG  530 (694)
Q Consensus       451 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~  530 (694)
                      +..+...|+++.|++.|..+..++...|..++.++...|++++|...|++.++.+ +.+...|..+..++.+.|++++|.
T Consensus        12 g~~~~~~~d~~~Al~~~~~i~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~~~~g~~~~A~   90 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKYDLAI   90 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHCCHHHHH
T ss_conf             9999987799999999986489889999999999998589146787899999985-523466788999998542499999


Q ss_pred             HHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHCCCCCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC
Q ss_conf             999996883099987579999999863139989999999849999989-8989999999998099899999999997219
Q 005487          531 YYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIRED-AGLLSTLFSACRLHRDIEMGEKIAKLLIEKD  609 (694)
Q Consensus       531 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  609 (694)
                      ..|++.+...  .++...      .+...|            ...... ..++..++.++...|++++|.+.++++++..
T Consensus        91 ~~~~kAl~~~--~~n~~~------~~~~~~------------~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~  150 (192)
T d1hh8a_          91 KDLKEALIQL--RGNQLI------DYKILG------------LQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMK  150 (192)
T ss_dssp             HHHHHHHHTT--TTCSEE------ECGGGT------------BCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHC--CCCCHH------HHHHHH------------HHCCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC
T ss_conf             9999999867--267367------899866------------54363058899999999999789999999999998369


Q ss_pred             CCC
Q ss_conf             999
Q 005487          610 PDD  612 (694)
Q Consensus       610 p~~  612 (694)
                      |..
T Consensus       151 ~~~  153 (192)
T d1hh8a_         151 SEP  153 (192)
T ss_dssp             CSG
T ss_pred             CCC
T ss_conf             980

>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=98.99  E-value=1.3e-08  Score=65.30  Aligned_cols=120  Identities=9%  Similarity=-0.012  Sum_probs=65.3

Q ss_pred             HHHCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHCCCCCCC-HHHHHHHHHHHHHCCCHHH
Q ss_conf             998009889999999996883099987579999999863139989999999849999989-8989999999998099899
Q 005487          519 ACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIRED-AGLLSTLFSACRLHRDIEM  597 (694)
Q Consensus       519 ~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~  597 (694)
                      .+...|+++.|+..|..+.     +|++..+..++.++...|++++|.+.++++.+..|+ ...|..++.++...|++++
T Consensus        14 ~~~~~~d~~~Al~~~~~i~-----~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~~~~a~~~~g~~~~~~g~~~~   88 (192)
T d1hh8a_          14 LAADKKDWKGALDAFSAVQ-----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYYQTEKYDL   88 (192)
T ss_dssp             HHHHTTCHHHHHHHHHTSS-----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHCCCHHHHHHHHHHCC-----CCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHH
T ss_conf             9998779999999998648-----98899999999999985891467878999999855234667889999985424999


Q ss_pred             HHHHHHHHHHCCCCCC----------------CCHHHHHHHHHHCCCHHHHHHHHHHHHHCC
Q ss_conf             9999999972199998----------------557899999862499589999999998379
Q 005487          598 GEKIAKLLIEKDPDDS----------------STYIVLSNMYASVKKWDEVRKIRLKMKELG  643 (694)
Q Consensus       598 A~~~~~~~~~~~p~~~----------------~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  643 (694)
                      |...+++++...|.+.                .++..++.++...|++++|.+.+++.....
T Consensus        89 A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~  150 (192)
T d1hh8a_          89 AIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMK  150 (192)
T ss_dssp             HHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC
T ss_conf             99999999986726736789986654363058899999999999789999999999998369

>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=98.97  E-value=3.6e-09  Score=68.70  Aligned_cols=128  Identities=8%  Similarity=-0.101  Sum_probs=0.0

Q ss_pred             CCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHCCCCCCC-HHHHHH
Q ss_conf             989766999999998009889999999996883099987-579999999863139989999999849999989-898999
Q 005487          507 RPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPR-NEHYSCLIDLLGRAGRLQEAYGILQSTPEIRED-AGLLST  584 (694)
Q Consensus       507 ~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~  584 (694)
                      .|+...+...+..+...|++++|+..|++++   .+.|+ +..|..++.+|.+.|++++|+..++++.+..|+ ...|..
T Consensus         1 ~~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal---~~~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~~~a~~~   77 (201)
T d2c2la1           1 SPSAQELKEQGNRLFVGRKYPEAAACYGRAI---TRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFF   77 (201)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH---HHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHCCCHHHHHHHHHHHH---HHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHH
T ss_conf             9649999999999998699999999999999---8599989999817898741000001247888888718873899999


Q ss_pred             HHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCCHHHHHHHHH
Q ss_conf             99999980998999999999972199998557899999862499589999999
Q 005487          585 LFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRL  637 (694)
Q Consensus       585 l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~  637 (694)
                      ++.++...|++++|...+++++++.|++...+...+..+...++...+.....
T Consensus        78 lg~~~~~l~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~l~~~~~~~~~~~~~  130 (201)
T d2c2la1          78 LGQCQLEMESYDEAIANLQRAYSLAKEQRLNFGDDIPSALRIAKKKRWNSIEE  130 (201)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCCCSHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             99999987999999999999987495567989999999999988868999999

>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=98.89  E-value=6.2e-08  Score=61.14  Aligned_cols=26  Identities=12%  Similarity=0.279  Sum_probs=12.1

Q ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHH
Q ss_conf             99999999964997999999999887
Q 005487          478 WTSMIAAYGSHGRALEALKLFGEMQQ  503 (694)
Q Consensus       478 ~~~l~~~~~~~~~~~~A~~~~~~~~~  503 (694)
                      +..++..+...|++++|...++++..
T Consensus       161 ~~~la~~~~~~g~y~~A~~~~~~~~~  186 (290)
T d1qqea_         161 FIKCADLKALDGQYIEASDIYSKLIK  186 (290)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCHHHHHHHHHHHHHH
T ss_conf             89999999981739999999999998

>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=98.84  E-value=2.3e-08  Score=63.80  Aligned_cols=120  Identities=9%  Similarity=-0.007  Sum_probs=84.5

Q ss_pred             HHHHHHHHHCCCCHHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHCCCCCCC-HHHHHHHHHHHH
Q ss_conf             999999998009889999999996883099987-579999999863139989999999849999989-898999999999
Q 005487          513 FLALLSACSHAGWVDEGGYYFNLMISEYNIQPR-NEHYSCLIDLLGRAGRLQEAYGILQSTPEIRED-AGLLSTLFSACR  590 (694)
Q Consensus       513 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~~~  590 (694)
                      +......+.+.|++++|+..|++++..   .|+ ...|..++.++...|++++|+..++++.+..|+ ...|..++.++.
T Consensus        13 l~~~gn~~~~~~~y~~A~~~~~~al~~---~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~   89 (159)
T d1a17a_          13 LKTQANDYFKAKDYENAIKFYSQAIEL---NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNM   89 (159)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH---STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHCCCC---CHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHH
T ss_conf             999999999958999999986602110---00113332456788874054212888899999875446687799999999


Q ss_pred             HCCCHHHHHHHHHHHHHCCCCCCCCHHHHHHHH--HHCCCHHHHHHH
Q ss_conf             809989999999999721999985578999998--624995899999
Q 005487          591 LHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMY--ASVKKWDEVRKI  635 (694)
Q Consensus       591 ~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~--~~~g~~~~A~~~  635 (694)
                      ..|++++|...+++++.++|+++.++..+..+.  ...+.+++|...
T Consensus        90 ~~g~~~eA~~~~~~a~~~~p~~~~~~~~l~~~~~~~~~~~~~~a~~~  136 (159)
T d1a17a_          90 ALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAG  136 (159)
T ss_dssp             HTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_conf             94999999998999987299979999999999999998989999757

>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=98.83  E-value=2.5e-08  Score=63.58  Aligned_cols=89  Identities=12%  Similarity=-0.043  Sum_probs=36.3

Q ss_pred             HHHHHHCCCHHHHHHHHHHCCCCCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCCHHH
Q ss_conf             99863139989999999849999989-89899999999980998999999999972199998557899999862499589
Q 005487          553 IDLLGRAGRLQEAYGILQSTPEIRED-AGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDE  631 (694)
Q Consensus       553 ~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  631 (694)
                      +..|.+.|++++|+..|+++.+..|+ ...|..++.++...|++++|...++++++.+|++..+|..++.++...|++++
T Consensus        17 gn~~~~~~~y~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~g~~~e   96 (159)
T d1a17a_          17 ANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKFRA   96 (159)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHH
T ss_conf             99999958999999986602110001133324567888740542128888999998754466877999999999499999


Q ss_pred             HHHHHHHHHH
Q ss_conf             9999999983
Q 005487          632 VRKIRLKMKE  641 (694)
Q Consensus       632 A~~~~~~~~~  641 (694)
                      |...+++...
T Consensus        97 A~~~~~~a~~  106 (159)
T d1a17a_          97 ALRDYETVVK  106 (159)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
T ss_conf             9998999987

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.78  E-value=6.9e-10  Score=73.07  Aligned_cols=74  Identities=7%  Similarity=-0.100  Sum_probs=39.0

Q ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHCC--CCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHH
Q ss_conf             4675888999983989870233389999741899557999870178--99814229999999980699148999999966
Q 005487           20 KEGKIIHQKVVTLGLQNNIALCKSLINLYFSCQNYDYAMLVFKTID--NPLDLSLWNGLMASYTKNYMYITALELFDMLL   97 (694)
Q Consensus        20 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~   97 (694)
                      -+|...++..++.. +.....+..+..++...|++++|   |+++.  .|+....++....  .-+..+..+++.++...
T Consensus         3 ~eA~q~~~qA~~l~-p~~a~a~~~la~~~~~~~~l~ea---ye~~i~~dp~~a~~~~~e~~--Lw~~~y~~~ie~~r~~~   76 (497)
T d1ya0a1           3 LQSAQYLRQAEVLK-ADMTDSKLGPAEVWTSRQALQDL---YQKMLVTDLEYALDKKVEQD--LWNHAFKNQITTLQGQA   76 (497)
T ss_dssp             HHHHHHHHHHHHHH-GGGTCSSSCSSSSHHHHHHHHHH---HHHHHHHCHHHHHHHTHHHH--HHHHHTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCC-CCCHHHHHHHHHHHHHHCHHHHH---HHHHHHCCHHHHHHHHHHHH--HHHHHHHHHHHHHHHHC
T ss_conf             89999999998719-99799995199999997629999---99998749301999857999--99999999999999856


Q ss_pred             HC
Q ss_conf             19
Q 005487           98 QN   99 (694)
Q Consensus        98 ~~   99 (694)
                      +.
T Consensus        77 k~   78 (497)
T d1ya0a1          77 KN   78 (497)
T ss_dssp             SC
T ss_pred             CC
T ss_conf             16

>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=98.78  E-value=3.1e-08  Score=62.93  Aligned_cols=93  Identities=11%  Similarity=0.043  Sum_probs=58.5

Q ss_pred             HHHHHHHHCCCHHHHHHHHHHCCCCCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCCH
Q ss_conf             9999863139989999999849999989-898999999999809989999999999721999985578999998624995
Q 005487          551 CLIDLLGRAGRLQEAYGILQSTPEIRED-AGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKW  629 (694)
Q Consensus       551 ~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  629 (694)
                      .-+..+...|++++|+..++++.+..|+ +..|..++.++...|++++|+..++++++.+|+++.+|..++.++...|++
T Consensus         8 ~~g~~~~~~g~~~eAi~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~~   87 (117)
T d1elwa_           8 EKGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRF   87 (117)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHCCCCCHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHHCCCH
T ss_conf             99999999699999999999988619960134300011011000011210013467774022026778899999981279


Q ss_pred             HHHHHHHHHHHHCC
Q ss_conf             89999999998379
Q 005487          630 DEVRKIRLKMKELG  643 (694)
Q Consensus       630 ~~A~~~~~~~~~~~  643 (694)
                      ++|+..+++..+..
T Consensus        88 ~~A~~~~~~a~~~~  101 (117)
T d1elwa_          88 EEAKRTYEEGLKHE  101 (117)
T ss_dssp             HHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHC
T ss_conf             99999999999849

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.73  E-value=1.9e-07  Score=58.21  Aligned_cols=134  Identities=11%  Similarity=0.002  Sum_probs=86.7

Q ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH
Q ss_conf             99999999964997999999999887699989766999999998009889999999996883099987579999999863
Q 005487          478 WTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLG  557 (694)
Q Consensus       478 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~  557 (694)
                      +...+..+...|+++.|+..|++.+...  |....            ..+........+.        ..+|..++.+|.
T Consensus        16 l~~~G~~~~~~~~~~~Ai~~y~~al~~~--~~~~~------------~~~~~~~~~~~~~--------~~~~~nla~~y~   73 (170)
T d1p5qa1          16 VKERGTVYFKEGKYKQALLQYKKIVSWL--EYESS------------FSNEEAQKAQALR--------LASHLNLAMCHL   73 (170)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHT--TTCCC------------CCSHHHHHHHHHH--------HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHH--HHCCC------------CCHHHHHHHCHHH--------HHHHHHHHHHHH
T ss_conf             9999999999699999999999998875--10100------------0357776406467--------999999999988


Q ss_pred             HCCCHHHHHHHHHHCCCCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCCHHHHH
Q ss_conf             13998999999984999998-98989999999998099899999999997219999855789999986249958999
Q 005487          558 RAGRLQEAYGILQSTPEIRE-DAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVR  633 (694)
Q Consensus       558 ~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~  633 (694)
                      +.|++++|+..++++....| +...+..++.++...|++++|...++++++++|+++.+...+..+....+...+..
T Consensus        74 k~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~~~~~~~~e  150 (170)
T d1p5qa1          74 KLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRIRRQLARE  150 (170)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHCCCCCCHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHH
T ss_conf             64211011000000010022310346777999987222999999999999729898999999999999999999999

>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=98.72  E-value=5.8e-08  Score=61.30  Aligned_cols=106  Identities=16%  Similarity=0.109  Sum_probs=78.2

Q ss_pred             HHHHHHHCCCCHHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHCCCCCC-CHHHHHHHHHHHHHC
Q ss_conf             9999998009889999999996883099987-57999999986313998999999984999998-989899999999980
Q 005487          515 ALLSACSHAGWVDEGGYYFNLMISEYNIQPR-NEHYSCLIDLLGRAGRLQEAYGILQSTPEIRE-DAGLLSTLFSACRLH  592 (694)
Q Consensus       515 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~~~~~l~~~~~~~  592 (694)
                      .-...+...|++++|+..|+.+++.   .|+ ...|..++.++...|++++|+..++++.+..| ++..|..++.++...
T Consensus         8 ~~g~~~~~~g~~~eAi~~~~~al~~---~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~   84 (117)
T d1elwa_           8 EKGNKALSVGNIDDALQCYSEAIKL---DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFL   84 (117)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHC---CCCCHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHHC
T ss_conf             9999999969999999999998861---9960134300011011000011210013467774022026778899999981


Q ss_pred             CCHHHHHHHHHHHHHCCCCCCCCHHHHHHHH
Q ss_conf             9989999999999721999985578999998
Q 005487          593 RDIEMGEKIAKLLIEKDPDDSSTYIVLSNMY  623 (694)
Q Consensus       593 ~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~  623 (694)
                      |++++|+..++++++.+|+++.++..+..+-
T Consensus        85 ~~~~~A~~~~~~a~~~~p~~~~~~~~l~~l~  115 (117)
T d1elwa_          85 NRFEEAKRTYEEGLKHEANNPQLKEGLQNME  115 (117)
T ss_dssp             TCHHHHHHHHHHHHTTCTTCHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHCCCCHHHHHHHHHHH
T ss_conf             2799999999999984989899999999783

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=98.70  E-value=2.5e-08  Score=63.57  Aligned_cols=92  Identities=9%  Similarity=-0.135  Sum_probs=83.0

Q ss_pred             HHHHHHHHHHCCCHHHHHHHHHHCCCCCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHCC
Q ss_conf             999999863139989999999849999989-8989999999998099899999999997219999855789999986249
Q 005487          549 YSCLIDLLGRAGRLQEAYGILQSTPEIRED-AGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVK  627 (694)
Q Consensus       549 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  627 (694)
                      ...++..+.+.|++++|...++++....|+ ...|..++.++...+++++|+..++++++.+|+++.++..++.+|...|
T Consensus        19 ~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~la~~y~~~g   98 (112)
T d1hxia_          19 PMEEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEH   98 (112)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHCC
T ss_conf             99999999987605899998861011211110012335456410125877410000011111100000378999999978


Q ss_pred             CHHHHHHHHHHHH
Q ss_conf             9589999999998
Q 005487          628 KWDEVRKIRLKMK  640 (694)
Q Consensus       628 ~~~~A~~~~~~~~  640 (694)
                      ++++|++.+++..
T Consensus        99 ~~~~A~~~l~~~l  111 (112)
T d1hxia_          99 NANAALASLRAWL  111 (112)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHH
T ss_conf             9999999999981

>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=98.66  E-value=7.3e-06  Score=48.45  Aligned_cols=146  Identities=11%  Similarity=-0.009  Sum_probs=78.0

Q ss_pred             CCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH----CCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHH----CC
Q ss_conf             997999999999887699989766999999998----0098899999999968830999875799999998631----39
Q 005487          489 GRALEALKLFGEMQQSNARPDSITFLALLSACS----HAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGR----AG  560 (694)
Q Consensus       489 ~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~----~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~g  560 (694)
                      .+.+.|...++.....|. +  .....+...+.    .......+...+.....    ..+...+..++..+..    ..
T Consensus        88 ~~~~~a~~~~~~a~~~g~-~--~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~~L~~~~~~~~~~~~  160 (265)
T d1ouva_          88 QNTNKALQYYSKACDLKY-A--EGCASLGGIYHDGKVVTRDFKKAVEYFTKACD----LNDGDGCTILGSLYDAGRGTPK  160 (265)
T ss_dssp             CCHHHHHHHHHHHHHTTC-H--HHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHH----TTCHHHHHHHHHHHHHTSSSCC
T ss_pred             HHHHHHHHHHHHHHHHHH-H--HHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHC----CCCCCHHHHHHHHHCCCCCCCC
T ss_conf             236779888765543214-6--68876343323787331015778887555200----1110104455556406887433


Q ss_pred             CHHHHHHHHHHCCCCCCCHHHHHHHHHHHHH----CCCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHH----CCCHHHH
Q ss_conf             9899999998499999898989999999998----0998999999999972199998557899999862----4995899
Q 005487          561 RLQEAYGILQSTPEIREDAGLLSTLFSACRL----HRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYAS----VKKWDEV  632 (694)
Q Consensus       561 ~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~A  632 (694)
                      +...+...++... ...+......++..+..    .++.+.|...++++.+.+  ++..+..|+.+|..    ..+.++|
T Consensus       161 ~~~~~~~~~~~a~-~~g~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g--~~~a~~~LG~~y~~G~g~~~n~~~A  237 (265)
T d1ouva_         161 DLKKALASYDKAC-DLKDSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE--NGGGCFNLGAMQYNGEGVTRNEKQA  237 (265)
T ss_dssp             CHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHTTSSSSCCSTTH
T ss_pred             CCCCCHHHHHCCC-CCCCCCCCCCHHHHCCCCCCCCCCHHHHHHHHHHHHCCC--CHHHHHHHHHHHHCCCCCCCCHHHH
T ss_conf             4220001221132-322223322113121267654310344454676653036--8999999999998399976189999


Q ss_pred             HHHHHHHHHCCC
Q ss_conf             999999983799
Q 005487          633 RKIRLKMKELGL  644 (694)
Q Consensus       633 ~~~~~~~~~~~~  644 (694)
                      .+++++..+.|.
T Consensus       238 ~~~~~kAa~~g~  249 (265)
T d1ouva_         238 IENFKKGCKLGA  249 (265)
T ss_dssp             HHHHHHHHHHTC
T ss_pred             HHHHHHHHHCCC
T ss_conf             999999998769

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.60  E-value=2.6e-07  Score=57.30  Aligned_cols=63  Identities=11%  Similarity=-0.006  Sum_probs=42.9

Q ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCCHHHHHHHHHHHHHCC
Q ss_conf             899999999980998999999999972199998557899999862499589999999998379
Q 005487          581 LLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELG  643 (694)
Q Consensus       581 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  643 (694)
                      ++..++.++...|++++|+..++++++.+|+++.++..++.+|...|++++|+..++++.+..
T Consensus        64 ~~~nla~~y~k~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~  126 (170)
T d1p5qa1          64 SHLNLAMCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY  126 (170)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHCCCCCCHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_conf             999999998864211011000000010022310346777999987222999999999999729

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.59  E-value=7.1e-09  Score=66.87  Aligned_cols=54  Identities=6%  Similarity=-0.159  Sum_probs=19.7

Q ss_pred             HHHHHHHCCCCHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCCHHHHHHHHH
Q ss_conf             8999983359906899999999992898853588799896570699479999995
Q 005487          212 TVISSCARLMDLDRGKEIHKEFIKDGFVSDSYISSALVDMYGKCGCLEMAREVFE  266 (694)
Q Consensus       212 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  266 (694)
                      .+...+...++++.|...+.+..+.. |.+...++.+..++...|+..+|...|.
T Consensus       157 ~LG~l~~~~~~~~~A~~~y~~A~~l~-P~~~~~~~~Lg~~~~~~~~~~~A~~~y~  210 (497)
T d1ya0a1         157 HLGDIARYRNQTSQAESYYRHAAQLV-PSNGQPYNQLAILASSKGDHLTTIFYYC  210 (497)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-TTBSHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHH
T ss_conf             99999998024789999999999878-9965999999999998699999999999

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=98.56  E-value=1.3e-06  Score=53.02  Aligned_cols=93  Identities=13%  Similarity=0.049  Sum_probs=63.7

Q ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHCCCCCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHC
Q ss_conf             9999999863139989999999849999989-898999999999809989999999999721999985578999998624
Q 005487          548 HYSCLIDLLGRAGRLQEAYGILQSTPEIRED-AGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASV  626 (694)
Q Consensus       548 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~  626 (694)
                      .|..++.+|.+.|++++|+..++++....|+ ...+...+.++...|++++|...++++++++|+++.+...+..+....
T Consensus        66 ~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~~  145 (168)
T d1kt1a1          66 AFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQIFMCQKKA  145 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCCHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHH
T ss_conf             99849999877622011000223222013104889998899998827899999999999985989899999999999999


Q ss_pred             CCHHH-HHHHHHHHH
Q ss_conf             99589-999999998
Q 005487          627 KKWDE-VRKIRLKMK  640 (694)
Q Consensus       627 g~~~~-A~~~~~~~~  640 (694)
                      +...+ ..+.+.+|-
T Consensus       146 ~~~~e~~kk~~~~~f  160 (168)
T d1kt1a1         146 KEHNERDRRTYANMF  160 (168)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH
T ss_conf             869999999999998

>d1nzna_ a.118.8.1 (A:) Mitochondria fission protein Fis1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.54  E-value=3.5e-07  Score=56.54  Aligned_cols=109  Identities=10%  Similarity=-0.058  Sum_probs=81.9

Q ss_pred             HHHHHHHHCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCH---HHHHHHHHHCCCCCCCH---HHHHHHHH
Q ss_conf             9999999800988999999999688309998757999999986313998---99999998499999898---98999999
Q 005487          514 LALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRL---QEAYGILQSTPEIREDA---GLLSTLFS  587 (694)
Q Consensus       514 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~---~~A~~~~~~~~~~~p~~---~~~~~l~~  587 (694)
                      ..++..+...+++++|.+.|++.+..  -+.++.++..++.++.+.++.   ++|+.+++++....|++   .++..++.
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~--~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~   80 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAA--GSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAV   80 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHH--SCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCHHHHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHH
T ss_conf             77988736999999999999998832--9998999999999999851267899999999999860699319999999999


Q ss_pred             HHHHCCCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHH
Q ss_conf             9998099899999999997219999855789999986
Q 005487          588 ACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYA  624 (694)
Q Consensus       588 ~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  624 (694)
                      +|...|++++|+..++++++.+|++..+...+..+..
T Consensus        81 ~y~~~g~~~~A~~~~~~aL~~~P~~~~A~~l~~~I~~  117 (122)
T d1nzna_          81 GNYRLKEYEKALKYVRGLLQTEPQNNQAKELERLIDK  117 (122)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH
T ss_conf             9999731699999999999769098999999999999

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.52  E-value=7.5e-07  Score=54.48  Aligned_cols=85  Identities=13%  Similarity=-0.006  Sum_probs=55.1

Q ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHCCCCCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHH
Q ss_conf             79999999863139989999999849999989-89899999999980998999999999972199998557899999862
Q 005487          547 EHYSCLIDLLGRAGRLQEAYGILQSTPEIRED-AGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYAS  625 (694)
Q Consensus       547 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~  625 (694)
                      ..+..++.++.+.|++++|+..++++.+..|+ ...|..++.++...|+++.|+..++++++++|++..++..+..+...
T Consensus        78 ~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p~n~~~~~~l~~~~~~  157 (169)
T d1ihga1          78 SCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVKQK  157 (169)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHH
T ss_conf             99998999998640210136665544310002236777699999980479999999999998598999999999999999


Q ss_pred             CCCHHH
Q ss_conf             499589
Q 005487          626 VKKWDE  631 (694)
Q Consensus       626 ~g~~~~  631 (694)
                      .....+
T Consensus       158 l~~~~~  163 (169)
T d1ihga1         158 IKAQKD  163 (169)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
T ss_conf             998999

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=98.49  E-value=8.2e-07  Score=54.26  Aligned_cols=62  Identities=13%  Similarity=0.064  Sum_probs=32.0

Q ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCCHHHHHHHHHHHHHC
Q ss_conf             89999999998099899999999997219999855789999986249958999999999837
Q 005487          581 LLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKEL  642 (694)
Q Consensus       581 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  642 (694)
                      ++..++.++...|+++.|+..++++++.+|.+..+|..++.++...|++++|+..+++..+.
T Consensus        69 ~~~Nla~~~~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l  130 (153)
T d2fbna1          69 CNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASL  130 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCCHHHHHHHCCCCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
T ss_conf             99619999998465301110100010000000124677689999968999999999999982

>d2fbna1 a.118.8.1 (A:22-174) Putative 70 kda peptidylprolyl isomerase PFL2275c {Plasmodium falciparum [TaxId: 5833]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Putative 70 kda peptidylprolyl isomerase PFL2275c
species: Plasmodium falciparum [TaxId: 5833]

Probab=98.41  E-value=1.5e-06  Score=52.72  Aligned_cols=129  Identities=9%  Similarity=-0.138  Sum_probs=86.1

Q ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q ss_conf             89999999996499799999999988769998976699999999800988999999999688309998757999999986
Q 005487          477 SWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLL  556 (694)
Q Consensus       477 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~  556 (694)
                      .+...+..+.+.|++..|+..|++++..-  +....           ............        ....++..++.+|
T Consensus        19 ~~~~~G~~~f~~~~y~~A~~~Y~~al~~~--~~~~~-----------~~~~~~~~~~~~--------~~~~~~~Nla~~~   77 (153)
T d2fbna1          19 DIKEEGNEFFKKNEINEAIVKYKEALDFF--IHTEE-----------WDDQILLDKKKN--------IEISCNLNLATCY   77 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTT--TTCTT-----------CCCHHHHHHHHH--------HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHC--CCHHH-----------HHHHHHHHHHHH--------HHHHHHHHHHHHH
T ss_conf             99999999999599999999999877607--30011-----------105778876310--------7889996199999


Q ss_pred             HHCCCHHHHHHHHHHCCCCCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHC
Q ss_conf             3139989999999849999989-898999999999809989999999999721999985578999998624
Q 005487          557 GRAGRLQEAYGILQSTPEIRED-AGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASV  626 (694)
Q Consensus       557 ~~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~  626 (694)
                      .+.|++++|+..++++.+..|+ ...|..++.++...|+++.|...++++++++|+++.+...+..+..+.
T Consensus        78 ~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~kl  148 (153)
T d2fbna1          78 NKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSYELCVNKL  148 (153)
T ss_dssp             HHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHH
T ss_pred             HHHCCCCHHHHHHHCCCCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHH
T ss_conf             98465301110100010000000124677689999968999999999999982989899999999999999

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.37  E-value=7.6e-07  Score=54.46  Aligned_cols=93  Identities=12%  Similarity=0.083  Sum_probs=59.5

Q ss_pred             HHHHHHHHHHCCCHHHHHHHHHHCCCCCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCHH-------HHH
Q ss_conf             999999863139989999999849999989-898999999999809989999999999721999985578-------999
Q 005487          549 YSCLIDLLGRAGRLQEAYGILQSTPEIRED-AGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYI-------VLS  620 (694)
Q Consensus       549 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~-------~l~  620 (694)
                      +..++..+.+.|++++|+..|+++.+..|+ ...+..++.++...|+++.|+..++++++++|+++..+.       .++
T Consensus         7 ~k~~G~~~~~~~~y~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg   86 (128)
T d1elra_           7 EKELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIG   86 (128)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHH
T ss_conf             99999999985999999999999988496458999868899988186077899999999868012788988999999999


Q ss_pred             HHHHHCCCHHHHHHHHHHHHH
Q ss_conf             998624995899999999983
Q 005487          621 NMYASVKKWDEVRKIRLKMKE  641 (694)
Q Consensus       621 ~~~~~~g~~~~A~~~~~~~~~  641 (694)
                      ..+...+++++|++.+++...
T Consensus        87 ~~~~~~~~~~~A~~~~~kal~  107 (128)
T d1elra_          87 NSYFKEEKYKDAIHFYNKSLA  107 (128)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHCCHHHHHHHHHHHHH
T ss_conf             999993889999999999984

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=98.35  E-value=7.1e-06  Score=48.54  Aligned_cols=63  Identities=8%  Similarity=0.014  Sum_probs=44.7

Q ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCCHHHHHHHHHHHHHCC
Q ss_conf             899999999980998999999999972199998557899999862499589999999998379
Q 005487          581 LLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELG  643 (694)
Q Consensus       581 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  643 (694)
                      ++..++.++...|++++|+..++++++++|++..+|..++.++...|++++|...++++.+..
T Consensus        66 ~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~  128 (168)
T d1kt1a1          66 AFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN  128 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC
T ss_pred             HHHHHHHHHHHHHHCCCCHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC
T ss_conf             998499998776220110002232220131048899988999988278999999999999859

>d1nzna_ a.118.8.1 (A:) Mitochondria fission protein Fis1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.34  E-value=5.3e-07  Score=55.41  Aligned_cols=90  Identities=14%  Similarity=0.062  Sum_probs=39.7

Q ss_pred             HHHHHHHCCCHHHHHHHHHHCCCCCCC-HHHHHHHHHHHHHCC---CHHHHHHHHHHHHHCCCCC--CCCHHHHHHHHHH
Q ss_conf             999863139989999999849999989-898999999999809---9899999999997219999--8557899999862
Q 005487          552 LIDLLGRAGRLQEAYGILQSTPEIRED-AGLLSTLFSACRLHR---DIEMGEKIAKLLIEKDPDD--SSTYIVLSNMYAS  625 (694)
Q Consensus       552 l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~~---~~~~A~~~~~~~~~~~p~~--~~~~~~l~~~~~~  625 (694)
                      ++..+...+++++|.+.|+++....|+ +.++..++.++...+   +.++|+..+++++..+|.+  ..++..+|.+|..
T Consensus         5 l~n~~~~~~~l~~Ae~~Y~~aL~~~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y~~   84 (122)
T d1nzna_           5 VLNELVSVEDLLKFEKKFQSEKAAGSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYR   84 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHH
T ss_conf             98873699999999999999883299989999999999998512678999999999998606993199999999999999


Q ss_pred             CCCHHHHHHHHHHHHH
Q ss_conf             4995899999999983
Q 005487          626 VKKWDEVRKIRLKMKE  641 (694)
Q Consensus       626 ~g~~~~A~~~~~~~~~  641 (694)
                      .|++++|++.++++.+
T Consensus        85 ~g~~~~A~~~~~~aL~  100 (122)
T d1nzna_          85 LKEYEKALKYVRGLLQ  100 (122)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHH
T ss_conf             7316999999999997

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.33  E-value=2.1e-06  Score=51.74  Aligned_cols=66  Identities=12%  Similarity=0.079  Sum_probs=56.5

Q ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCCHHHHHHHHHHHHHCCC
Q ss_conf             898999999999809989999999999721999985578999998624995899999999983799
Q 005487          579 AGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELGL  644 (694)
Q Consensus       579 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  644 (694)
                      ...+..++.++...|++++|+..++++++++|+++.+|..+|.+|...|++++|+..++++.+..+
T Consensus        77 ~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p  142 (169)
T d1ihga1          77 LSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAP  142 (169)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCC
T ss_conf             999998999998640210136665544310002236777699999980479999999999998598

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=98.28  E-value=4.6e-06  Score=49.65  Aligned_cols=70  Identities=13%  Similarity=0.099  Sum_probs=31.8

Q ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHH----HCCCCCCHH
Q ss_conf             89999999996499799999999988769998976699999999800988999999999688----309998757
Q 005487          477 SWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMIS----EYNIQPRNE  547 (694)
Q Consensus       477 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~~~p~~~  547 (694)
                      .+..++..+...|++++|+..++++.... +-+...+..++.++...|+..+|++.|+.+..    +.|+.|+..
T Consensus        69 a~~~la~~~~~~g~~~~Al~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~  142 (179)
T d2ff4a2          69 AHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPT  142 (179)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHH
T ss_pred             HHHHHHHHHHHCCCCHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCHH
T ss_conf             99999999988799057899999999849-851999999999999855799999999999999899848996899

>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=98.18  E-value=6.4e-06  Score=48.80  Aligned_cols=133  Identities=15%  Similarity=0.034  Sum_probs=93.3

Q ss_pred             HHHHCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHHHCCCH
Q ss_conf             999649979999999998876999897669999999980098899999999968830999875-7999999986313998
Q 005487          484 AYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPRN-EHYSCLIDLLGRAGRL  562 (694)
Q Consensus       484 ~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~g~~  562 (694)
                      -....|++++|+..+++.++.. +.+...+..++..++..|++++|...++...+   ..|+. ..+..+..++...+..
T Consensus         5 ~aL~~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~---l~P~~~~~~~~l~~ll~a~~~~   80 (264)
T d1zbpa1           5 NALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIK---LFPEYLPGASQLRHLVKAAQAR   80 (264)
T ss_dssp             HHTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH---HCGGGHHHHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH---HCCCCHHHHHHHHHHHHHCCCC
T ss_conf             9988889999999999999978-99999999999999987999999999999998---6997389999999999834663


Q ss_pred             HHHHHHHHHCCC-CCCCH-HHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCHHHHH
Q ss_conf             999999984999-99898-98999999999809989999999999721999985578999
Q 005487          563 QEAYGILQSTPE-IREDA-GLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLS  620 (694)
Q Consensus       563 ~~A~~~~~~~~~-~~p~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~  620 (694)
                      +++..-...... .+|+. ..+...+..+...|+.++|.+.++++.+..|..+..+....
T Consensus        81 ~~a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~p~~~~~~~~~~  140 (264)
T d1zbpa1          81 KDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQEKGFLANDTS  140 (264)
T ss_dssp             HHHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCCCEEETTEE
T ss_pred             HHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCCCCCC
T ss_conf             789987544420358647999999999999679989999999999833999981001557

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.12  E-value=2.7e-05  Score=45.00  Aligned_cols=95  Identities=7%  Similarity=-0.030  Sum_probs=50.3

Q ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCCCC-----HHHHHHH
Q ss_conf             99999999964997999999999887699989766999999998009889999999996883099987-----5799999
Q 005487          478 WTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFNLMISEYNIQPR-----NEHYSCL  552 (694)
Q Consensus       478 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~p~-----~~~~~~l  552 (694)
                      +..++..+...|++++|+..|++.+..+ +.+...+..+..++...|++++|+..++.++.-..-.+.     ..+|..+
T Consensus         7 ~k~~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~l   85 (128)
T d1elra_           7 EKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARI   85 (128)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHH
T ss_conf             9999999998599999999999998849-645899986889998818607789999999986801278898899999999


Q ss_pred             HHHHHHCCCHHHHHHHHHHCC
Q ss_conf             998631399899999998499
Q 005487          553 IDLLGRAGRLQEAYGILQSTP  573 (694)
Q Consensus       553 ~~~~~~~g~~~~A~~~~~~~~  573 (694)
                      +..+...+++++|+..+++..
T Consensus        86 g~~~~~~~~~~~A~~~~~kal  106 (128)
T d1elra_          86 GNSYFKEEKYKDAIHFYNKSL  106 (128)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHCCHHHHHHHHHHHH
T ss_conf             999999388999999999998

>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=98.07  E-value=0.00019  Score=39.82  Aligned_cols=16  Identities=6%  Similarity=-0.238  Sum_probs=6.6

Q ss_pred             CHHHHHHHHHHHHHCC
Q ss_conf             9899999999997219
Q 005487          594 DIEMGEKIAKLLIEKD  609 (694)
Q Consensus       594 ~~~~A~~~~~~~~~~~  609 (694)
                      +.++|...++++...+
T Consensus       233 n~~~A~~~~~kAa~~g  248 (265)
T d1ouva_         233 NEKQAIENFKKGCKLG  248 (265)
T ss_dssp             CSTTHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHCC
T ss_conf             8999999999999876

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=98.07  E-value=1.4e-06  Score=52.81  Aligned_cols=126  Identities=13%  Similarity=0.107  Sum_probs=65.9

Q ss_pred             HHCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCC----------CCHHHHHHHHHHHHHHCCCCCC-HHHHHHHHH
Q ss_conf             96499799999999988769998976699999999800----------9889999999996883099987-579999999
Q 005487          486 GSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHA----------GWVDEGGYYFNLMISEYNIQPR-NEHYSCLID  554 (694)
Q Consensus       486 ~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~----------g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~  554 (694)
                      -+.+.+++|...++...+.. +.+...+..+..++...          +.+++|+..++++++   +.|+ ...|..++.
T Consensus         8 ~r~~~fe~A~~~~e~al~~~-P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~---l~P~~~~a~~~lG~   83 (145)
T d1zu2a1           8 DRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALL---IDPKKDEAVWCIGN   83 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHH---HCTTCHHHHHHHHH
T ss_pred             HHHCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HCCHHHHHHHHHHH
T ss_conf             98736999999999998618-831089999999998762133336778878889999999887---30120587766899


Q ss_pred             HHHHCCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCCHHHHHH
Q ss_conf             86313998999999984999998989899999999980998999999999972199998557899999862499589999
Q 005487          555 LLGRAGRLQEAYGILQSTPEIREDAGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRK  634 (694)
Q Consensus       555 ~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~  634 (694)
                      +|...|++             .++...         ..++++.|...++++++++|++...+..|+....       |.+
T Consensus        84 ~y~~~g~~-------------~~~~~~---------~~~~~~~A~~~~~kal~l~P~~~~~~~~L~~~~k-------a~~  134 (145)
T d1zu2a1          84 AYTSFAFL-------------TPDETE---------AKHNFDLATQFFQQAVDEQPDNTHYLKSLEMTAK-------APQ  134 (145)
T ss_dssp             HHHHHHHH-------------CCCHHH---------HHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHT-------HHH
T ss_pred             HHHHCCCC-------------HHHHHH---------HHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHH-------HHH
T ss_conf             99870101-------------135788---------9886787631211000259888999999999999-------797


Q ss_pred             HHHHHHHCCC
Q ss_conf             9999983799
Q 005487          635 IRLKMKELGL  644 (694)
Q Consensus       635 ~~~~~~~~~~  644 (694)
                      +.....++|+
T Consensus       135 ~~~e~~k~~~  144 (145)
T d1zu2a1         135 LHAEAYKQGL  144 (145)
T ss_dssp             HHHHHHHSSS
T ss_pred             HHHHHHHHHC
T ss_conf             8999998735

>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=98.02  E-value=1.9e-06  Score=52.05  Aligned_cols=124  Identities=15%  Similarity=0.093  Sum_probs=86.2

Q ss_pred             HHHCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHCCCCCCCH-HHHHHHHHHHHHCCCHHH
Q ss_conf             9980098899999999968830999875799999998631399899999998499999898-989999999998099899
Q 005487          519 ACSHAGWVDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPEIREDA-GLLSTLFSACRLHRDIEM  597 (694)
Q Consensus       519 ~~~~~g~~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~-~~~~~l~~~~~~~~~~~~  597 (694)
                      -....|++++|+..+++.++.  .+.+...+..++.+|+..|++++|...++.+.+..|+. ..+..+...+...+..+.
T Consensus         5 ~aL~~G~l~eAl~~l~~al~~--~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~P~~~~~~~~l~~ll~a~~~~~~   82 (264)
T d1zbpa1           5 NALSEGQLQQALELLIEAIKA--SPKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKAAQARKD   82 (264)
T ss_dssp             HHTTTTCHHHHHHHHHHHHHT--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCHH
T ss_conf             998888999999999999997--899999999999999987999999999999998699738999999999983466378


Q ss_pred             HHHHHHHHHHC-CCCCCCCHHHHHHHHHHCCCHHHHHHHHHHHHHCCC
Q ss_conf             99999999721-999985578999998624995899999999983799
Q 005487          598 GEKIAKLLIEK-DPDDSSTYIVLSNMYASVKKWDEVRKIRLKMKELGL  644 (694)
Q Consensus       598 A~~~~~~~~~~-~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  644 (694)
                      +.......... .|++...+...+..+...|+.++|...++++.+...
T Consensus        83 a~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~p  130 (264)
T d1zbpa1          83 FAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQ  130 (264)
T ss_dssp             HTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHCCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCC
T ss_conf             998754442035864799999999999967998999999999983399

>d1hxia_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Trypanosoma brucei [TaxId: 5691]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Trypanosoma brucei [TaxId: 5691]

Probab=98.02  E-value=8.9e-06  Score=47.91  Aligned_cols=86  Identities=9%  Similarity=0.012  Sum_probs=36.9

Q ss_pred             HHHHHCCCCHHHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHCCCCCCC-HHHHHHHHHHHHHCCC
Q ss_conf             99998009889999999996883099987-579999999863139989999999849999989-8989999999998099
Q 005487          517 LSACSHAGWVDEGGYYFNLMISEYNIQPR-NEHYSCLIDLLGRAGRLQEAYGILQSTPEIRED-AGLLSTLFSACRLHRD  594 (694)
Q Consensus       517 ~~~~~~~g~~~~A~~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~  594 (694)
                      ...+.+.|++++|+..+++++..   .|+ ...|..++.++.+.|++++|+..++++.+..|+ ...|..++..+...|+
T Consensus        23 g~~~~~~g~~~~A~~~~~~al~~---~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~la~~y~~~g~   99 (112)
T d1hxia_          23 GLSMLKLANLAEAALAFEAVCQK---EPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEHN   99 (112)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH---STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHCCC---CCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHCCC
T ss_conf             99999876058999988610112---111100123354564101258774100000111111000003789999999789


Q ss_pred             HHHHHHHHHHH
Q ss_conf             89999999999
Q 005487          595 IEMGEKIAKLL  605 (694)
Q Consensus       595 ~~~A~~~~~~~  605 (694)
                      .++|.+.+++.
T Consensus       100 ~~~A~~~l~~~  110 (112)
T d1hxia_         100 ANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
T ss_conf             99999999998

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=97.97  E-value=1e-05  Score=47.56  Aligned_cols=25  Identities=8%  Similarity=-0.156  Sum_probs=11.8

Q ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHH
Q ss_conf             7899999862499589999999998
Q 005487          616 YIVLSNMYASVKKWDEVRKIRLKMK  640 (694)
Q Consensus       616 ~~~l~~~~~~~g~~~~A~~~~~~~~  640 (694)
                      +..++.+|...|++++|+..+++..
T Consensus       103 ~~~~g~~~~~lg~~eeA~~~~~~Al  127 (156)
T d2hr2a1         103 VYSRALALDGLGRGAEAMPEFKKVV  127 (156)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             7526999998888888899999999

>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=97.88  E-value=3.6e-06  Score=50.34  Aligned_cols=52  Identities=13%  Similarity=0.096  Sum_probs=37.3

Q ss_pred             CCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCC-----------HHHHHHHHHHHHHCCC
Q ss_conf             998999999999972199998557899999862499-----------5899999999983799
Q 005487          593 RDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKK-----------WDEVRKIRLKMKELGL  644 (694)
Q Consensus       593 ~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~-----------~~~A~~~~~~~~~~~~  644 (694)
                      +.+++|+..++++++++|+++.+|..+|.+|...|+           +++|.+.+++..+..+
T Consensus        55 ~~~~~Ai~~~~kAl~l~P~~~~a~~~lG~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~l~P  117 (145)
T d1zu2a1          55 QMIQEAITKFEEALLIDPKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVDEQP  117 (145)
T ss_dssp             HHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCCCC
T ss_conf             878889999999887301205877668999987010113578898867876312110002598

>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=97.70  E-value=0.00082  Score=35.91  Aligned_cols=60  Identities=8%  Similarity=-0.089  Sum_probs=41.6

Q ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCCHHHHHHHHHHH
Q ss_conf             989999999998099899999999997219999855789999986249958999999999
Q 005487          580 GLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYASVKKWDEVRKIRLKM  639 (694)
Q Consensus       580 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  639 (694)
                      ..+..++..+...|++++|...++++++.+|.+...|..++.+|...|++++|++.|+++
T Consensus        68 ~a~~~la~~~~~~g~~~~Al~~~~~al~~~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~  127 (179)
T d2ff4a2          68 LAHTAKAEAEIACGRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRV  127 (179)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCHHHHHHHHHHH
T ss_conf             999999999988799057899999999849851999999999999855799999999999

>d2hr2a1 a.118.8.8 (A:2-157) Hypothetical protein CT2138 {Chlorobium tepidum [TaxId: 1097]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: CT2138-like
domain: Hypothetical protein CT2138
species: Chlorobium tepidum [TaxId: 1097]

Probab=97.69  E-value=0.00026  Score=39.00  Aligned_cols=67  Identities=12%  Similarity=-0.025  Sum_probs=35.1

Q ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHCCC-------CCCC-----HHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCC
Q ss_conf             999999986313998999999984999-------9989-----898999999999809989999999999721999985
Q 005487          548 HYSCLIDLLGRAGRLQEAYGILQSTPE-------IRED-----AGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSS  614 (694)
Q Consensus       548 ~~~~l~~~~~~~g~~~~A~~~~~~~~~-------~~p~-----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~  614 (694)
                      .|..++.+|...|++++|+..++++..       ..++     ...+..++.++...|++++|...+++++++.|....
T Consensus        57 ~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l~~~~~~  135 (156)
T d2hr2a1          57 CHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKG  135 (156)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCCS
T ss_pred             HHHHHHHHHHHCCCCCHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_conf             9999999999828630015766435530431002455443112787752699999888888889999999986687423

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.69  E-value=3.1e-05  Score=44.63  Aligned_cols=78  Identities=17%  Similarity=0.073  Sum_probs=53.3

Q ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHCCC-------CCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCHH
Q ss_conf             57999999986313998999999984999-------9989-898999999999809989999999999721999985578
Q 005487          546 NEHYSCLIDLLGRAGRLQEAYGILQSTPE-------IRED-AGLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDSSTYI  617 (694)
Q Consensus       546 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-------~~p~-~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~  617 (694)
                      ...+..++..+.+.|++++|+..++++.+       ..++ ..++..++.++...|++++|...++++++++|+++.++.
T Consensus         5 addc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P~~~~a~~   84 (95)
T d1tjca_           5 AEDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRANG   84 (95)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHH
T ss_conf             99999999999997799999999999999886530147647899998726888657739888788779886929799999


Q ss_pred             HHHHHH
Q ss_conf             999998
Q 005487          618 VLSNMY  623 (694)
Q Consensus       618 ~l~~~~  623 (694)
                      ++....
T Consensus        85 Nl~~~~   90 (95)
T d1tjca_          85 NLKYFE   90 (95)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
T ss_conf             999999

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.40  E-value=0.00048  Score=37.30  Aligned_cols=60  Identities=17%  Similarity=0.013  Sum_probs=27.4

Q ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHCCCCCC-------CCHHHHHHHHHHCCCHHHHHHHHHHHHHC
Q ss_conf             9999999980998999999999972199998-------55789999986249958999999999837
Q 005487          583 STLFSACRLHRDIEMGEKIAKLLIEKDPDDS-------STYIVLSNMYASVKKWDEVRKIRLKMKEL  642 (694)
Q Consensus       583 ~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~-------~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  642 (694)
                      ..++..+...|+++.|+..++++++..|.+.       .++..|+.++.+.|++++|++.++++.+.
T Consensus         9 ~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l   75 (95)
T d1tjca_           9 FELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (95)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
T ss_conf             9999999997799999999999999886530147647899998726888657739888788779886

>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=97.24  E-value=0.0032  Score=32.30  Aligned_cols=282  Identities=11%  Similarity=0.030  Sum_probs=0.0

Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHCCCCCCHH
Q ss_conf             99988879998888899999995223870246799999999347896248999999988329978899998407998850
Q 005487          296 FWRMNEEGIKPTLTTISSVLMSCSRSGQLKHGKVMHGYIIRNKIQGDVFINSSLIDLYFKCGRVSSAENVFEKMSKTDVV  375 (694)
Q Consensus       296 ~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~  375 (694)
                      +.++.+-=-.|+..-...+...|.+.|.++.|..++.         +..-+..++..+.+.+++..|...+.+..  +..
T Consensus         2 ~~~~e~fl~~~n~~d~~~i~~~c~~~~lye~A~~lY~---------~~~d~~rl~~~~v~l~~~~~avd~~~k~~--~~~   70 (336)
T d1b89a_           2 LAELEEFINGPNNAHIQQVGDRCYDEKMYDAAKLLYN---------NVSNFGRLASTLVHLGEYQAAVDGARKAN--STR   70 (336)
T ss_dssp             HHHHTTTTTCC----------------CTTTHHHHHH---------HTTCHHHHHHHHHTTTCHHHHHHHHHHHT--CHH
T ss_pred             CHHHHHHHCCCCCCCHHHHHHHHHHCCCHHHHHHHHH---------HCCCHHHHHHHHHHHCCHHHHHHHHHHCC--CHH
T ss_conf             4569998758985789999999987877999999998---------67899999999970315999999998808--899


Q ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHH
Q ss_conf             79999999972599589999999988869998879999999998154786999999999999199987149999999988
Q 005487          376 YWNVMISGYVTVGDYFKALAIYSDMKEVGAKPDAVTFTSVLPACSQLAALEKGKEIHNHIIESKLETNEIVMGALLDMYA  455 (694)
Q Consensus       376 ~~~~l~~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  455 (694)
                      +|..+...+........+     .+.......++.....++..+...|.++....+++...... +.+...++.++.+|+
T Consensus        71 ~~k~~~~~l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~-~~~~~~~~~L~~lya  144 (336)
T d1b89a_          71 TWKEVCFACVDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYS  144 (336)
T ss_dssp             HHHHHHHHHHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCHHHHH-----HHHHHHHHCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCC-CCCHHHHHHHHHHHH
T ss_conf             999999999727287899-----99998753578878999999987698599999999997577-444679999999999


Q ss_pred             HCCCHHHHHHHHHHCCC----------CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCC
Q ss_conf             25993899999810999----------99588999999999649979999999998876999897669999999980098
Q 005487          456 KCGAVDEAFKVFNELPE----------RDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGW  525 (694)
Q Consensus       456 ~~g~~~~A~~~~~~~~~----------~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~  525 (694)
                      +.+.......+-..-..          .....|..++-.|.+.|+++.|..+.-.     ..++.......+..+.+..+
T Consensus       145 k~~~~kl~e~l~~~s~~y~~~k~~~~c~~~~l~~elv~Ly~~~~~~~~A~~~~i~-----~~~~~~~~~~f~e~~~k~~N  219 (336)
T d1b89a_         145 KFKPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMN-----HPTDAWKEGQFKDIITKVAN  219 (336)
T ss_dssp             TTCHHHHHHHHHHHSTTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHHHHH-----STTTTCCHHHHHHHHHHCSS
T ss_pred             HHCHHHHHHHHHHCCCCCCHHHHHHHHHHCCCHHHHHHHHHHCCCHHHHHHHHHH-----CCHHHHHHHHHHHHHHCCCC
T ss_conf             8694999999986023599999999988748749999999855879999999997-----65445669999999972478


Q ss_pred             HHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHCCC------------CCCCHHHHHHHHHHHHHCC
Q ss_conf             8999999999688309998757999999986313998999999984999------------9989898999999999809
Q 005487          526 VDEGGYYFNLMISEYNIQPRNEHYSCLIDLLGRAGRLQEAYGILQSTPE------------IREDAGLLSTLFSACRLHR  593 (694)
Q Consensus       526 ~~~A~~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~------------~~p~~~~~~~l~~~~~~~~  593 (694)
                      .+...++.....     .-.+.....++......-+..+..+.+++...            ...+..+...+...+...+
T Consensus       220 ~e~~~~~i~~yL-----~~~p~~i~~lL~~v~~~~d~~r~V~~~~k~~~l~li~p~Le~v~~~n~~~vn~al~~lyie~~  294 (336)
T d1b89a_         220 VELYYRAIQFYL-----EFKPLLLNDLLMVLSPRLDHTRAVNYFSKVKQLPLVKPYLRSVQNHNNKSVNESLNNLFITEE  294 (336)
T ss_dssp             THHHHHHHHHHH-----HHCGGGHHHHHHHHGGGCCHHHHHHHHHHTTCTTTTHHHHHHHHTTCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHH-----HCCHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHCCHHHHHHHHHHHHHCCC
T ss_conf             699999999999-----759999999999856579989999999853880779999999998180999999999986712


Q ss_pred             CHHHHHHHHHH
Q ss_conf             98999999999
Q 005487          594 DIEMGEKIAKL  604 (694)
Q Consensus       594 ~~~~A~~~~~~  604 (694)
                      |++.-+...+.
T Consensus       295 d~~~l~~~i~~  305 (336)
T d1b89a_         295 DYQALRTSIDA  305 (336)
T ss_dssp             CHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
T ss_conf             46789999987

>d2pqrb1 a.118.8.1 (B:5-128) Mitochondria fission protein Fis1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondria fission protein Fis1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.28  E-value=0.014  Score=28.43  Aligned_cols=50  Identities=18%  Similarity=0.201  Sum_probs=20.5

Q ss_pred             HHHHHHHHCCCCCCC-H-HHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCC
Q ss_conf             999999849999989-8-9899999999980998999999999972199998
Q 005487          564 EAYGILQSTPEIRED-A-GLLSTLFSACRLHRDIEMGEKIAKLLIEKDPDDS  613 (694)
Q Consensus       564 ~A~~~~~~~~~~~p~-~-~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~  613 (694)
                      +++.+++++.+..|. . ..+..++.+|...|++++|...++++++.+|++.
T Consensus        56 ~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ieP~n~  107 (124)
T d2pqrb1          56 LGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNK  107 (124)
T ss_dssp             HHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCH
T ss_conf             9999999998549505999999999999987329999999999982399849

>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=95.69  E-value=0.032  Score=26.17  Aligned_cols=68  Identities=9%  Similarity=-0.037  Sum_probs=41.3

Q ss_pred             CCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHHCCCCCC-CCHHHHHHHHHHCCCHHHHHHHHHHHHHCCC
Q ss_conf             89898999999999809---98999999999972199998-5578999998624995899999999983799
Q 005487          577 EDAGLLSTLFSACRLHR---DIEMGEKIAKLLIEKDPDDS-STYIVLSNMYASVKKWDEVRKIRLKMKELGL  644 (694)
Q Consensus       577 p~~~~~~~l~~~~~~~~---~~~~A~~~~~~~~~~~p~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  644 (694)
                      +...+.-.+++++.++.   +.++++.+++.+++.+|.+. ..+..|+-.|.+.|++++|.+.++++.+..+
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ieP  104 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHER  104 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT
T ss_pred             CCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC
T ss_conf             881019999999982796889999999999998549505999999999999987329999999999982399

>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=95.67  E-value=0.033  Score=26.10  Aligned_cols=53  Identities=13%  Similarity=0.102  Sum_probs=23.6

Q ss_pred             HHHHHCCCCHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCCHHHHHHHHHHHHHC
Q ss_conf             885441799478999860379999332999999999479934999999998849
Q 005487          148 AGMYAKCNSFECAVKMFDEMSERDVASWNTVISCYYQDGQAEKALELFKKMRGS  201 (694)
Q Consensus       148 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  201 (694)
                      +..+.+.+++......+...+ .+...-.....+....|+...+...+...-..
T Consensus        79 l~~L~~~~~w~~~~~~~~~~p-~~~~~~c~~~~A~~~~g~~~~a~~~~~~lW~~  131 (450)
T d1qsaa1          79 VNELARREDWRGLLAFSPEKP-GTTEAQCNYYYAKWNTGQSEEAWQGAKELWLT  131 (450)
T ss_dssp             HHHHHHTTCHHHHHHHCCSCC-SSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSC
T ss_pred             HHHHHHCCCHHHHHHHCCCCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHC
T ss_conf             999876568899997666899-99999999999998759848899999999854

>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=94.66  E-value=0.066  Score=24.24  Aligned_cols=50  Identities=18%  Similarity=0.138  Sum_probs=26.5

Q ss_pred             CCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHH----CCCHHHHHHHHHHHHHCCC
Q ss_conf             998999999999972199998557899999862----4995899999999983799
Q 005487          593 RDIEMGEKIAKLLIEKDPDDSSTYIVLSNMYAS----VKKWDEVRKIRLKMKELGL  644 (694)
Q Consensus       593 ~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~  644 (694)
                      .|.++|...++++.+.+  ++.....|+.+|..    ..+.++|.+++++..+.|.
T Consensus        73 ~d~~~A~~~~~~aa~~g--~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G~  126 (133)
T d1klxa_          73 KDLRKAAQYYSKACGLN--DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  126 (133)
T ss_dssp             CCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHCCC--CCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCC
T ss_conf             03578888875000257--4067789999998298467789999999999998788

>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=93.35  E-value=0.12  Score=22.68  Aligned_cols=168  Identities=10%  Similarity=-0.002  Sum_probs=71.3

Q ss_pred             CCCHHHHHHHHHHCCC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHH
Q ss_conf             5993899999810999--99588999999999649979999999998876999897669999999980098899999999
Q 005487          457 CGAVDEAFKVFNELPE--RDLVSWTSMIAAYGSHGRALEALKLFGEMQQSNARPDSITFLALLSACSHAGWVDEGGYYFN  534 (694)
Q Consensus       457 ~g~~~~A~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~  534 (694)
                      .+..+.+...+.....  .+.......+......+++..+...+..+... ..........+..++...|+.+.|...|.
T Consensus       265 ~~~~~~a~~~~~~~~~~~~~~~~~~w~~~~al~~~~~~~~~~~~~~l~~~-~~~~~r~~YW~gRa~~~~G~~~~A~~~~~  343 (450)
T d1qsaa1         265 NDVTDEQAKWRDDAIMRSQSTSLIERRVRMALGTGDRRGLNTWLARLPME-AKEKDEWRYWQADLLLERGREAEAKEILH  343 (450)
T ss_dssp             TTCCHHHHHHHHHHHHTCCCHHHHHHHHHHHHHHTCHHHHHHHHHHSCTT-GGGSHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHCCCC-CCCHHHHHHHHHHHHHHCCCHHHHHHHHH
T ss_conf             68639999999860123466699999999998829869999999865846-24289999999999998398156899999


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHHHCC-CHHHHHHHHHHCCCCCCCHH-H---HHHHHHHHHHCCCHHHHHHHHHHHHHCC
Q ss_conf             96883099987579999999863139-98999999984999998989-8---9999999998099899999999997219
Q 005487          535 LMISEYNIQPRNEHYSCLIDLLGRAG-RLQEAYGILQSTPEIREDAG-L---LSTLFSACRLHRDIEMGEKIAKLLIEKD  609 (694)
Q Consensus       535 ~~~~~~~~~p~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~~p~~~-~---~~~l~~~~~~~~~~~~A~~~~~~~~~~~  609 (694)
                      .+. .   .++  -|..|...-.... .+.     ..... ..+... .   -..-+..+...|....|...+..+....
T Consensus       344 ~~a-~---~~~--fYG~LAa~~Lg~~~~~~-----~~~~~-~~~~~~~~~~~~~~ra~~L~~~g~~~~A~~e~~~l~~~~  411 (450)
T d1qsaa1         344 QLM-Q---QRG--FYPMVAAQRIGEEYELK-----IDKAP-QNVDSALTQGPEMARVRELMYWNLDNTARSEWANLVKSK  411 (450)
T ss_dssp             HHH-T---SCS--HHHHHHHHHTTCCCCCC-----CCCCC-SCCCCHHHHSHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHH-C---CCC--HHHHHHHHHCCCCCCCC-----CCCCC-CCHHHHHHCCHHHHHHHHHHHCCCCHHHHHHHHHHHHCC
T ss_conf             984-5---787--39999999829998998-----67799-567776313859899999998699469999999998679


Q ss_pred             CCCCCCHHHHHHHHHHCCCHHHHHHHHHHH
Q ss_conf             999855789999986249958999999999
Q 005487          610 PDDSSTYIVLSNMYASVKKWDEVRKIRLKM  639 (694)
Q Consensus       610 p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  639 (694)
                        ++.-...++.+..+.|.++.|+....+.
T Consensus       412 --~~~~~~~la~lA~~~g~~~~aI~a~~~~  439 (450)
T d1qsaa1         412 --SKTEQAQLARYAFNNQWWDLSVQATIAG  439 (450)
T ss_dssp             --CHHHHHHHHHHHHHTTCHHHHHHHHHHT
T ss_pred             --CHHHHHHHHHHHHHCCCHHHHHHHHHHH
T ss_conf             --9999999999999879846999999998